Avoid generating a container if only a single port is passed

README.md

@@ -3,226 +3,43 @@
 Masque is a Python module for designing lithography masks.
 
 The general idea is to implement something resembling the GDSII file-format, but
-with some vectorized element types (eg. circles, not just polygons) and the ability
-to output to multiple formats.
+with some vectorized element types (eg. circles, not just polygons), better support for
+E-beam doses, and the ability to output to multiple formats.
 
 - [Source repository](https://mpxd.net/code/jan/masque)
 - [PyPI](https://pypi.org/project/masque)
-- [Github mirror](https://github.com/anewusername/masque)
 
 
 ## Installation
 
 Requirements:
-* python >= 3.11
+* python >= 3.8
 * numpy
-* klamath (used for GDSII i/o)
-
-Optional requirements:
-* `ezdxf` (DXF i/o): ezdxf
-* `oasis` (OASIS i/o): fatamorgana
-* `svg` (SVG output): svgwrite
-* `visualization` (shape plotting): matplotlib
-* `text` (`Text` shape): matplotlib, freetype
+* klamath (used for `gdsii` i/o and library management)
+* matplotlib (optional, used for `visualization` functions and `text`)
+* ezdxf (optional, used for `dxf` i/o)
+* fatamorgana (optional, used for `oasis` i/o)
+* svgwrite (optional, used for `svg` output)
+* freetype (optional, used for `text`)
 
 
 Install with pip:
 ```bash
-pip install 'masque[oasis,dxf,svg,visualization,text]'
+pip3 install 'masque[visualization,oasis,dxf,svg,text]'
 ```
 
-## Overview
-
-A layout consists of a hierarchy of `Pattern`s stored in a single `Library`.
-Each `Pattern` can contain `Ref`s pointing at other patterns, `Shape`s, `Label`s, and `Port`s.
-
-
-`masque` departs from several "classic" GDSII paradigms:
-- A `Pattern` object does not store its own name. A name is only assigned when the pattern is placed
-    into a `Library`, which is effectively a name->`Pattern` mapping.
-- Layer info for `Shape`ss and `Label`s is not stored in the individual shape and label objects.
-    Instead, the layer is determined by the key for the container dict (e.g. `pattern.shapes[layer]`).
-    * This simplifies many common tasks: filtering `Shape`s by layer, remapping layers, and checking if
-        a layer is empty.
-    * Technically, this allows reusing the same shape or label object across multiple layers. This isn't
-        part of the standard workflow since a mixture of single-use and multi-use shapes could be confusing.
-    * This is similar to the approach used in [KLayout](https://www.klayout.de)
-- `Ref` target names are also determined in the key of the container dict (e.g. `pattern.refs[target_name]`).
-    * This similarly simplifies filtering `Ref`s by target name, updating to a new target, and checking
-        if a given `Pattern` is referenced.
-- `Pattern` names are set by their containing `Library` and are not stored in the `Pattern` objects.
-    * This guarantees that there are no duplicate pattern names within any given `Library`.
-    * Likewise, enumerating all the names (and all the `Pattern`s) in a `Library` is straightforward.
-- Each `Ref`, `Shape`, or `Label` can be repeated multiple times by attaching a `repetition` object to it.
-    * This is similar to how OASIS reptitions are handled, and provides extra flexibility over the GDSII
-        approach of only allowing arrays through AREF (`Ref` + `repetition`).
-- `Label`s do not have an orientation or presentation
-    * This is in line with how they are used in practice, and how they are represented in OASIS.
-- Non-polygonal `Shape`s are allowed. For example, elliptical arcs are a basic shape type.
-    * This enables compatibility with OASIS (e.g. circles) and other formats.
-    * `Shape`s provide a `.to_polygons()` method for GDSII compatibility.
-- Most coordinate values are stored as 64-bit floats internally.
-    * 1 earth radii in nanometers (6e15) is still represented without approximation (53 bit mantissa -> 2^53 > 9e15)
-    * Operations that would otherwise clip/round on are still represented approximately.
-    * Memory usage is usually dominated by other Python overhead.
-- `Pattern` objects also contain `Port` information, which can be used to "snap" together
-    multiple sub-components by matching up the requested port offsets and rotations.
-    * Port rotations are defined as counter-clockwise angles from the +x axis.
-    * Ports point into the interior of their associated device.
-    * Port rotations may be `None` in the case of non-oriented ports.
-    * Ports have a `ptype` string which is compared in order to catch mismatched connections at build time.
-    * Ports can be exported into/imported from `Label`s stored directly in the layout,
-        editable from standard tools (e.g. KLayout). A default format is provided.
-
-In one important way, `masque` stays very orthodox:
-References are accomplished by listing the target's name, not its `Pattern` object.
-
-- The main downside of this is that any operations that traverse the hierarchy require
-    both the `Pattern` and the `Library` which is contains its reference targets.
-- This guarantees that names within a `Library` remain unique at all times.
-    * Since this can be tedious in cases where you don't actually care about the name of a
-        pattern, patterns whose names start with `SINGLE_USE_PREFIX` (default: an underscore)
-        may be silently renamed in order to maintain uniqueness.
-        See `masque.library.SINGLE_USE_PREFIX`, `masque.library._rename_patterns()`,
-        and `ILibrary.add()` for more details.
-- Having all patterns accessible through the `Library` avoids having to perform a
-    tree traversal for every operation which needs to touch all `Pattern` objects
-    (e.g. deleting a layer everywhere or scaling all patterns).
-- Since `Pattern` doesn't know its own name, you can't create a reference by passing in
-    a `Pattern` object -- you need to know its name.
-- You *can* reference a `Pattern` before it is created, so long as you have already decided
-    on its name.
-- Functions like `Pattern.place()` and `Pattern.plug()` need to receive a pattern's name
-    in order to create a reference, but they also need to access the pattern's ports.
-    * One way to provide this data is through an `Abstract`, generated via
-        `Library.abstract()` or through a `Library.abstract_view()`.
-    * Another way is use `Builder.place()` or `Builder.plug()`, which automatically creates
-        an `Abstract` from its internally-referenced `Library`.
-
-
-## Glossary
-- `Library`: A collection of named cells. OASIS or GDS "library" or file.
-- `Tree`: Any `{name: pattern}` mapping which has only one topcell.
-- `Pattern`: A collection of geometry, text labels, and reference to other patterns.
-        OASIS or GDS "Cell", DXF "Block".
-- `Ref`: A reference to another pattern. GDS "AREF/SREF", OASIS "Placement".
-- `Shape`: Individual geometric entity. OASIS or GDS "Geometry element", DXF "LWPolyline" or "Polyline".
-- `repetition`: Repetition operation. OASIS "repetition".
-        GDS "AREF" is a `Ref` combined with a `Grid` repetition.
-- `Label`: Text label. Not rendered into geometry. OASIS, GDS, DXF "Text".
-- `annotation`: Additional metadata. OASIS or GDS "property".
-
-
-## Syntax, shorthand, and design patterns
-Most syntax and behavior should follow normal python conventions.
-There are a few exceptions, either meant to catch common mistakes or to provide a shorthand for common operations:
-
-### `Library` objects don't allow overwriting already-existing patterns
-```python3
-library['mycell'] = pattern0
-library['mycell'] = pattern1   # Error! 'mycell' already exists and can't be overwritten
-del library['mycell']          # We can explicitly delete it
-library['mycell'] = pattern1   # And now it's ok to assign a new value
-library.delete('mycell')       # This also deletes all refs pointing to 'mycell' by default
+Alternatively, install from git
+```bash
+pip3 install git+https://mpxd.net/code/jan/masque.git@release
 ```
 
-### Insert a newly-made hierarchical pattern (with children) into a layout
-```python3
-# Let's say we have a function which returns a new library containing one topcell (and possibly children)
-tree = make_tree(...)
-
-# To reference this cell in our layout, we have to add all its children to our `library` first:
-top_name = tree.top()              # get the name of the topcell
-name_mapping = library.add(tree)   # add all patterns from `tree`, renaming elgible conflicting patterns
-new_name = name_mapping.get(top_name, top_name)    # get the new name for the cell (in case it was auto-renamed)
-my_pattern.ref(new_name, ...)       # instantiate the cell
-
-# This can be accomplished as follows
-new_name = library << tree       # Add `tree` into `library` and return the top cell's new name
-my_pattern.ref(new_name, ...)       # instantiate the cell
-
-# In practice, you may do lots of
-my_pattern.ref(lib << make_tree(...), ...)
-
-# With a `Builder` and `place()`/`plug()` the `lib <<` portion can be implicit:
-my_builder = Builder(library=lib, ...)
-...
-my_builder.place(make_tree(...))
-```
-
-We can also use this shorthand to quickly add and reference a single flat (as yet un-named) pattern:
-```python3
-anonymous_pattern = Pattern(...)
-my_pattern.ref(lib << {'_tentative_name': anonymous_pattern}, ...)
-```
-
-### Place a hierarchical pattern into a layout, preserving its port info
-```python3
-# As above, we have a function that makes a new library containing one topcell (and possibly children)
-tree = make_tree(...)
-
-# We need to go get its port info to `place()` it into our existing layout,
-new_name = library << tree          # Add the tree to the library and return its name (see `<<` above)
-abstract = library.abstract(tree)   # An `Abstract` stores a pattern's name and its ports (but no geometry)
-my_pattern.place(abstract, ...)
-
-# With shorthand,
-abstract = library <= tree
-my_pattern.place(abstract, ...)
-
-# or
-my_pattern.place(library << make_tree(...), ...)
-
-
-### Quickly add geometry, labels, or refs:
-The long form for adding elements can be overly verbose:
-```python3
-my_pattern.shapes[layer].append(Polygon(vertices, ...))
-my_pattern.labels[layer] += [Label('my text')]
-my_pattern.refs[target_name].append(Ref(offset=..., ...))
-```
-
-There is shorthand for the most common elements:
-```python3
-my_pattern.polygon(layer=layer, vertices=vertices, ...)
-my_pattern.rect(layer=layer, xctr=..., xmin=..., ymax=..., ly=...)  # rectangle; pick 4 of 6 constraints
-my_pattern.rect(layer=layer, ymin=..., ymax=..., xctr=..., lx=...)
-my_pattern.path(...)
-my_pattern.label(layer, 'my_text')
-my_pattern.ref(target_name, offset=..., ...)
-```
-
-### Accessing ports
-```python3
-# Square brackets pull from the underlying `.ports` dict:
-assert pattern['input'] is pattern.ports['input']
-
-# And you can use them to read multiple ports at once:
-assert pattern[('input', 'output')] == {
-    'input': pattern.ports['input'],
-    'output': pattern.ports['output'],
-    }
-
-# But you shouldn't use them for anything except reading
-pattern['input'] = Port(...)   # Error!
-has_input = ('input' in pattern)   # Error!
-```
-
-### Building patterns
-```python3
-library = Library(...)
-my_pattern_name, my_pattern = library.mkpat(some_name_generator())
-...
-def _make_my_subpattern() -> str:
-    #   This function can draw from the outer scope (e.g. `library`) but will not pollute the outer scope
-    # (e.g. the variable `subpattern` will not be accessible from outside the function; you must load it
-    # from within `library`).
-    subpattern_name, subpattern = library.mkpat(...)
-    subpattern.rect(...)
-    ...
-    return subpattern_name
-my_pattern.ref(_make_my_subpattern(), offset=..., ...)
-```
+## Translation
+- `Pattern`: OASIS or GDS "Cell", DXF "Block"
+- `SubPattern`: GDS "AREF/SREF", OASIS "Placement"
+- `Shape`: OASIS or GDS "Geometry element", DXF "LWPolyline" or "Polyline"
+- `repetition`: OASIS "repetition". GDS "AREF" is a `SubPattern` combined with a `Grid` repetition.
+- `Label`: OASIS, GDS, DXF "Text".
+- `annotation`: OASIS or GDS "property"
 
 
 ## TODO
@@ -230,8 +47,5 @@ my_pattern.ref(_make_my_subpattern(), offset=..., ...)
 * Better interface for polygon operations (e.g. with `pyclipper`)
     - de-embedding
     - boolean ops
-* Tests tests tests
-* check renderpather
-* pather and renderpather examples
-* context manager for retool
-* allow a specific mismatch when connecting ports
+* Construct polygons from bitmap using `skimage.find_contours`
+* Deal with shape repetitions for dxf, svg

examples/ellip_grating.py

@@ -2,33 +2,29 @@
 
 import numpy
 
-from masque.file import gdsii
-from masque import Arc, Pattern
+import masque
+import masque.file.klamath
+from masque import shapes
 
 
 def main():
-    pat = Pattern()
-    layer = (0, 0)
-    pat.shapes[layer].extend([
-        Arc(
+    pat = masque.Pattern(name='ellip_grating')
+    for rmin in numpy.arange(10, 15, 0.5):
+        pat.shapes.append(shapes.Arc(
             radii=(rmin, rmin),
             width=0.1,
             angles=(-numpy.pi/4, numpy.pi/4),
-            )
-        for rmin in numpy.arange(10, 15, 0.5)]
-        )
+            layer=(0, 0),
+        ))
 
-    pat.label(string='grating centerline', offset=(1, 0), layer=(1, 2))
+    pat.labels.append(masque.Label(string='grating centerline', offset=(1, 0), layer=(1, 2)))
 
     pat.scale_by(1000)
     pat.visualize()
+    pat2 = pat.copy()
+    pat2.name = 'grating2'
 
-    lib = {
-        'ellip_grating': pat,
-        'grating2': pat.copy(),
-        }
-
-    gdsii.writefile(lib, 'out.gds.gz', meters_per_unit=1e-9, logical_units_per_unit=1e-3)
+    masque.file.klamath.writefile((pat, pat2), 'out.gds.gz', 1e-9, 1e-3)
 
 
 if __name__ == '__main__':

examples/nested_poly_test.py

@@ -1,29 +0,0 @@
-import numpy
-from pyclipper import (
-    Pyclipper, PT_CLIP, PT_SUBJECT, CT_UNION, CT_INTERSECTION, PFT_NONZERO,
-    scale_to_clipper, scale_from_clipper,
-    )
-p = Pyclipper()
-p.AddPaths([
-  [(-10, -10), (-10, 10), (-9, 10), (-9, -10)],
-  [(-10, 10), (10, 10), (10, 9), (-10, 9)],
-  [(10, 10), (10, -10), (9, -10), (9, 10)],
-  [(10, -10), (-10, -10), (-10, -9), (10, -9)],
-  ], PT_SUBJECT, closed=True)
-#p.Execute2?
-#p.Execute?
-p.Execute(PT_UNION, PT_NONZERO, PT_NONZERO)
-p.Execute(CT_UNION, PT_NONZERO, PT_NONZERO)
-p.Execute(CT_UNION, PFT_NONZERO, PFT_NONZERO)
-
-p = Pyclipper()
-p.AddPaths([
-  [(-10, -10), (-10, 10), (-9, 10), (-9, -10)],
-  [(-10, 10), (10, 10), (10, 9), (-10, 9)],
-  [(10, 10), (10, -10), (9, -10), (9, 10)],
-  [(10, -10), (-10, -10), (-10, -9), (10, -9)],
-  ], PT_SUBJECT, closed=True)
-r = p.Execute2(CT_UNION, PFT_NONZERO, PFT_NONZERO)
-
-#r.Childs
-

examples/pic2mask.py

@@ -1,43 +0,0 @@
-# pip install pillow scikit-image
-# or
-# sudo apt install python3-pil python3-skimage
-
-from PIL import Image
-from skimage.measure import find_contours
-from matplotlib import pyplot
-import numpy
-
-from masque import Pattern, Polygon
-from masque.file.gdsii import writefile
-
-#
-# Read the image into a numpy array
-#
-im = Image.open('./Desktop/Camera/IMG_20220626_091101.jpg')
-
-aa = numpy.array(im.convert(mode='L').getdata()).reshape(im.height, im.width)
-
-threshold = (aa.max() - aa.min()) / 2
-
-#
-# Find edge contours and plot them
-#
-contours = find_contours(aa, threshold)
-
-pyplot.imshow(aa)
-for contour in contours:
-    pyplot.plot(contour[:, 1], contour[:, 0], linewidth=2)
-pyplot.show(block=False)
-
-#
-# Create the layout from the contours
-#
-pat = Pattern()
-pat.shapes[(0, 0)].extend([
-    Polygon(vertices=vv) for vv in contours if len(vv) < 1_000
-    ])
-
-lib = {}
-lib['my_mask_name'] = pat
-
-writefile(lib, 'test_contours.gds', meters_per_unit=1e-9)

examples/test_rep.py

@@ -1,138 +1,103 @@
-from pprint import pprint
-from pathlib import Path
-
 import numpy
 from numpy import pi
 
 import masque
-from masque import Pattern, Ref, Arc, Library
+import masque.file.gdsii
+import masque.file.klamath
+import masque.file.dxf
+import masque.file.oasis
+from masque import shapes, Pattern, SubPattern
 from masque.repetition import Grid
-from masque.file import gdsii, dxf, oasis
 
+from pprint import pprint
 
 
 def main():
-    lib = Library()
-
-    cell_name = 'ellip_grating'
-    pat = masque.Pattern()
-
-    layer = (0, 0)
+    pat = masque.Pattern(name='ellip_grating')
     for rmin in numpy.arange(10, 15, 0.5):
-        pat.shapes[layer].append(Arc(
+        pat.shapes.append(shapes.Arc(
             radii=(rmin, rmin),
             width=0.1,
-            angles=(0 * -pi/4, pi/4),
+            angles=(0*-numpy.pi/4, numpy.pi/4),
             annotations={'1': ['blah']},
-            ))
+        ))
 
     pat.scale_by(1000)
 #    pat.visualize()
-    lib[cell_name] = pat
-    print(f'\nAdded {cell_name}:')
+    pat2 = pat.copy()
+    pat2.name = 'grating2'
+
+    pat3 = Pattern('sref_test')
+    pat3.subpatterns = [
+        SubPattern(pat, offset=(1e5, 3e5), annotations={'4': ['Hello I am the base subpattern']}),
+        SubPattern(pat, offset=(2e5, 3e5), rotation=pi/3),
+        SubPattern(pat, offset=(3e5, 3e5), rotation=pi/2),
+        SubPattern(pat, offset=(4e5, 3e5), rotation=pi),
+        SubPattern(pat, offset=(5e5, 3e5), rotation=3*pi/2),
+        SubPattern(pat, mirrored=(True, False), offset=(1e5, 4e5)),
+        SubPattern(pat, mirrored=(True, False), offset=(2e5, 4e5), rotation=pi/3),
+        SubPattern(pat, mirrored=(True, False), offset=(3e5, 4e5), rotation=pi/2),
+        SubPattern(pat, mirrored=(True, False), offset=(4e5, 4e5), rotation=pi),
+        SubPattern(pat, mirrored=(True, False), offset=(5e5, 4e5), rotation=3*pi/2),
+        SubPattern(pat, mirrored=(False, True), offset=(1e5, 5e5)),
+        SubPattern(pat, mirrored=(False, True), offset=(2e5, 5e5), rotation=pi/3),
+        SubPattern(pat, mirrored=(False, True), offset=(3e5, 5e5), rotation=pi/2),
+        SubPattern(pat, mirrored=(False, True), offset=(4e5, 5e5), rotation=pi),
+        SubPattern(pat, mirrored=(False, True), offset=(5e5, 5e5), rotation=3*pi/2),
+        SubPattern(pat, mirrored=(True, True), offset=(1e5, 6e5)),
+        SubPattern(pat, mirrored=(True, True), offset=(2e5, 6e5), rotation=pi/3),
+        SubPattern(pat, mirrored=(True, True), offset=(3e5, 6e5), rotation=pi/2),
+        SubPattern(pat, mirrored=(True, True), offset=(4e5, 6e5), rotation=pi),
+        SubPattern(pat, mirrored=(True, True), offset=(5e5, 6e5), rotation=3*pi/2),
+        ]
+
+    pprint(pat3)
+    pprint(pat3.subpatterns)
     pprint(pat.shapes)
 
-    new_name = lib.get_name(cell_name)
-    lib[new_name] = pat.copy()
-    print(f'\nAdded a copy of {cell_name} as {new_name}')
-
-    pat3 = Pattern()
-    pat3.refs[cell_name] = [
-        Ref(offset=(1e5, 3e5), annotations={'4': ['Hello I am the base Ref']}),
-        Ref(offset=(2e5, 3e5), rotation=pi/3),
-        Ref(offset=(3e5, 3e5), rotation=pi/2),
-        Ref(offset=(4e5, 3e5), rotation=pi),
-        Ref(offset=(5e5, 3e5), rotation=3*pi/2),
-        Ref(mirrored=True, offset=(1e5, 4e5)),
-        Ref(mirrored=True, offset=(2e5, 4e5), rotation=pi/3),
-        Ref(mirrored=True, offset=(3e5, 4e5), rotation=pi/2),
-        Ref(mirrored=True, offset=(4e5, 4e5), rotation=pi),
-        Ref(mirrored=True, offset=(5e5, 4e5), rotation=3*pi/2),
-        Ref(offset=(1e5, 5e5)).mirror_target(1),
-        Ref(offset=(2e5, 5e5), rotation=pi/3).mirror_target(1),
-        Ref(offset=(3e5, 5e5), rotation=pi/2).mirror_target(1),
-        Ref(offset=(4e5, 5e5), rotation=pi).mirror_target(1),
-        Ref(offset=(5e5, 5e5), rotation=3*pi/2).mirror_target(1),
-        Ref(offset=(1e5, 6e5)).mirror2d_target(True, True),
-        Ref(offset=(2e5, 6e5), rotation=pi/3).mirror2d_target(True, True),
-        Ref(offset=(3e5, 6e5), rotation=pi/2).mirror2d_target(True, True),
-        Ref(offset=(4e5, 6e5), rotation=pi).mirror2d_target(True, True),
-        Ref(offset=(5e5, 6e5), rotation=3*pi/2).mirror2d_target(True, True),
+    rep = Grid(a_vector=[1e4, 0],
+               b_vector=[0, 1.5e4],
+               a_count=3,
+               b_count=2,)
+    pat4 = Pattern('aref_test')
+    pat4.subpatterns = [
+        SubPattern(pat, repetition=rep, offset=(1e5, 3e5)),
+        SubPattern(pat, repetition=rep, offset=(2e5, 3e5), rotation=pi/3),
+        SubPattern(pat, repetition=rep, offset=(3e5, 3e5), rotation=pi/2),
+        SubPattern(pat, repetition=rep, offset=(4e5, 3e5), rotation=pi),
+        SubPattern(pat, repetition=rep, offset=(5e5, 3e5), rotation=3*pi/2),
+        SubPattern(pat, repetition=rep, mirrored=(True, False), offset=(1e5, 4e5)),
+        SubPattern(pat, repetition=rep, mirrored=(True, False), offset=(2e5, 4e5), rotation=pi/3),
+        SubPattern(pat, repetition=rep, mirrored=(True, False), offset=(3e5, 4e5), rotation=pi/2),
+        SubPattern(pat, repetition=rep, mirrored=(True, False), offset=(4e5, 4e5), rotation=pi),
+        SubPattern(pat, repetition=rep, mirrored=(True, False), offset=(5e5, 4e5), rotation=3*pi/2),
+        SubPattern(pat, repetition=rep, mirrored=(False, True), offset=(1e5, 5e5)),
+        SubPattern(pat, repetition=rep, mirrored=(False, True), offset=(2e5, 5e5), rotation=pi/3),
+        SubPattern(pat, repetition=rep, mirrored=(False, True), offset=(3e5, 5e5), rotation=pi/2),
+        SubPattern(pat, repetition=rep, mirrored=(False, True), offset=(4e5, 5e5), rotation=pi),
+        SubPattern(pat, repetition=rep, mirrored=(False, True), offset=(5e5, 5e5), rotation=3*pi/2),
+        SubPattern(pat, repetition=rep, mirrored=(True, True), offset=(1e5, 6e5)),
+        SubPattern(pat, repetition=rep, mirrored=(True, True), offset=(2e5, 6e5), rotation=pi/3),
+        SubPattern(pat, repetition=rep, mirrored=(True, True), offset=(3e5, 6e5), rotation=pi/2),
+        SubPattern(pat, repetition=rep, mirrored=(True, True), offset=(4e5, 6e5), rotation=pi),
+        SubPattern(pat, repetition=rep, mirrored=(True, True), offset=(5e5, 6e5), rotation=3*pi/2),
         ]
 
-    lib['sref_test'] = pat3
-    print('\nAdded sref_test:')
-    pprint(pat3)
-    pprint(pat3.refs)
+    folder = 'layouts/'
+    masque.file.klamath.writefile((pat, pat2, pat3, pat4), folder + 'rep.gds.gz', 1e-9, 1e-3)
 
-    rep = Grid(
-        a_vector=[1e4, 0],
-        b_vector=[0, 1.5e4],
-        a_count=3,
-        b_count=2,
-        )
-    pat4 = Pattern()
-    pat4.refs[cell_name] = [
-        Ref(repetition=rep, offset=(1e5, 3e5)),
-        Ref(repetition=rep, offset=(2e5, 3e5), rotation=pi/3),
-        Ref(repetition=rep, offset=(3e5, 3e5), rotation=pi/2),
-        Ref(repetition=rep, offset=(4e5, 3e5), rotation=pi),
-        Ref(repetition=rep, offset=(5e5, 3e5), rotation=3*pi/2),
-        Ref(repetition=rep, mirrored=True, offset=(1e5, 4e5)),
-        Ref(repetition=rep, mirrored=True, offset=(2e5, 4e5), rotation=pi/3),
-        Ref(repetition=rep, mirrored=True, offset=(3e5, 4e5), rotation=pi/2),
-        Ref(repetition=rep, mirrored=True, offset=(4e5, 4e5), rotation=pi),
-        Ref(repetition=rep, mirrored=True, offset=(5e5, 4e5), rotation=3*pi/2),
-        Ref(repetition=rep, offset=(1e5, 5e5)).mirror_target(1),
-        Ref(repetition=rep, offset=(2e5, 5e5), rotation=pi/3).mirror_target(1),
-        Ref(repetition=rep, offset=(3e5, 5e5), rotation=pi/2).mirror_target(1),
-        Ref(repetition=rep, offset=(4e5, 5e5), rotation=pi).mirror_target(1),
-        Ref(repetition=rep, offset=(5e5, 5e5), rotation=3*pi/2).mirror_target(1),
-        Ref(repetition=rep, offset=(1e5, 6e5)).mirror2d_target(True, True),
-        Ref(repetition=rep, offset=(2e5, 6e5), rotation=pi/3).mirror2d_target(True, True),
-        Ref(repetition=rep, offset=(3e5, 6e5), rotation=pi/2).mirror2d_target(True, True),
-        Ref(repetition=rep, offset=(4e5, 6e5), rotation=pi).mirror2d_target(True, True),
-        Ref(repetition=rep, offset=(5e5, 6e5), rotation=3*pi/2).mirror2d_target(True, True),
-        ]
+    cells = list(masque.file.klamath.readfile(folder + 'rep.gds.gz')[0].values())
+    masque.file.klamath.writefile(cells, folder + 'rerep.gds.gz', 1e-9, 1e-3)
 
-    lib['aref_test'] = pat4
-    print('\nAdded aref_test')
-
-    folder = Path('./layouts/')
-    folder.mkdir(exist_ok=True)
-    print(f'...writing files to {folder}...')
-
-    gds1 = folder / 'rep.gds.gz'
-    gds2 = folder / 'rerep.gds.gz'
-    print(f'Initial write to {gds1}')
-    gdsii.writefile(lib, gds1, 1e-9, 1e-3)
-
-    print(f'Read back and rewrite to {gds2}')
-    readback_lib, _info = gdsii.readfile(gds1)
-    gdsii.writefile(readback_lib, gds2, 1e-9, 1e-3)
-
-    dxf1 = folder / 'rep.dxf.gz'
-    dxf2 = folder / 'rerep.dxf.gz'
-    print(f'Write aref_test to {dxf1}')
-    dxf.writefile(lib, 'aref_test', dxf1)
-
-    print(f'Read back and rewrite to {dxf2}')
-    dxf_lib, _info = dxf.readfile(dxf1)
-    print(Library(dxf_lib))
-    dxf.writefile(dxf_lib, 'Model', dxf2)
+    masque.file.dxf.writefile(pat4, folder + 'rep.dxf.gz')
+    dxf, info = masque.file.dxf.readfile(folder + 'rep.dxf.gz')
+    masque.file.dxf.writefile(dxf, folder + 'rerep.dxf.gz')
 
     layer_map = {'base': (0,0), 'mylabel': (1,2)}
-    oas1 = folder / 'rep.oas'
-    oas2 = folder / 'rerep.oas'
-    print(f'Write lib to {oas1}')
-    oasis.writefile(lib, oas1, 1000, layer_map=layer_map)
-
-    print(f'Read back and rewrite to {oas2}')
-    oas_lib, oas_info = oasis.readfile(oas1)
-    oasis.writefile(oas_lib, oas2, 1000, layer_map=layer_map)
-
-    print('OASIS info:')
-    pprint(oas_info)
+    masque.file.oasis.writefile((pat, pat2, pat3, pat4), folder + 'rep.oas.gz', 1000, layer_map=layer_map)
+    oas, info = masque.file.oasis.readfile(folder + 'rep.oas.gz')
+    masque.file.oasis.writefile(list(oas.values()), folder + 'rerep.oas.gz', 1000, layer_map=layer_map)
+    print(info)
 
 
 if __name__ == '__main__':

examples/tutorial/README.md

@@ -1,39 +0,0 @@
-masque Tutorial
-===============
-
-Contents
---------
-
-- [basic_shapes](basic_shapes.py):
-    * Draw basic geometry
-    * Export to GDS
-- [devices](devices.py)
-    * Reference other patterns
-    * Add ports to a pattern
-    * Snap ports together to build a circuit
-    * Check for dangling references
-- [library](library.py)
-    * Create a `LazyLibrary`, which loads / generates patterns only when they are first used
-    * Explore alternate ways of specifying a pattern for `.plug()` and `.place()`
-    * Design a pattern which is meant to plug into an existing pattern (via `.interface()`)
-- [pather](pather.py)
-    * Use `Pather` to route individual wires and wire bundles
-    * Use `BasicTool` to generate paths
-    * Use `BasicTool` to automatically transition between path types
-- [renderpather](rendpather.py)
-    * Use `RenderPather` and `PathTool` to build a layout similar to the one in [pather](pather.py),
-        but using `Path` shapes instead of `Polygon`s.
-
-
-Additionaly, [pcgen](pcgen.py) is a utility module for generating photonic crystal lattices.
-
-
-Running
--------
-
-Run from inside the examples directory:
-```bash
-cd examples/tutorial
-python3 basic_shapes.py
-klayout -e basic_shapes.gds
-```

examples/tutorial/basic_shapes.py

@@ -1,21 +1,21 @@
-from collections.abc import Sequence
+from typing import Tuple, Sequence
 
 import numpy
 from numpy import pi
 
-from masque import (
-    layer_t, Pattern, Label, Port,
-    Circle, Arc, Polygon,
-    )
+from masque import layer_t, Pattern, SubPattern, Label
+from masque.shapes import Circle, Arc, Polygon
+from masque.builder import Device, Port
+from masque.library import Library, DeviceLibrary
 import masque.file.gdsii
 
 
 # Note that masque units are arbitrary, and are only given
 # physical significance when writing to a file.
-GDS_OPTS = dict(
-    meters_per_unit = 1e-9,         # GDS database unit, 1 nanometer
-    logical_units_per_unit = 1e-3,  # GDS display unit, 1 micron
-    )
+GDS_OPTS = {
+    'meters_per_unit': 1e-9,         # GDS database unit, 1 nanometer
+    'logical_units_per_unit': 1e-3,  # GDS display unit, 1 micron
+}
 
 
 def hole(
@@ -30,12 +30,11 @@ def hole(
         layer: Layer to draw the circle on.
 
     Returns:
-        Pattern containing a circle.
+        Pattern, named `'hole'`
     """
-    pat = Pattern()
-    pat.shapes[layer].append(
-        Circle(radius=radius, offset=(0, 0))
-        )
+    pat = Pattern('hole', shapes=[
+        Circle(radius=radius, offset=(0, 0), layer=layer)
+        ])
     return pat
 
 
@@ -51,17 +50,16 @@ def triangle(
         layer: Layer to draw the circle on.
 
     Returns:
-        Pattern containing a triangle
+        Pattern, named `'triangle'`
     """
     vertices = numpy.array([
         (numpy.cos(     pi / 2), numpy.sin(     pi / 2)),
         (numpy.cos(pi + pi / 6), numpy.sin(pi + pi / 6)),
         (numpy.cos(   - pi / 6), numpy.sin(   - pi / 6)),
-        ]) * radius
+    ]) * radius
 
-    pat = Pattern()
-    pat.shapes[layer].extend([
-        Polygon(offset=(0, 0), vertices=vertices),
+    pat = Pattern('triangle', shapes=[
+        Polygon(offset=(0, 0), layer=layer, vertices=vertices),
         ])
     return pat
 
@@ -80,40 +78,37 @@ def smile(
         secondary_layer: Layer to draw eyes and smile on.
 
     Returns:
-        Pattern containing a smiley face
+        Pattern, named `'smile'`
     """
     # Make an empty pattern
-    pat = Pattern()
+    pat = Pattern('smile')
 
     # Add all the shapes we want
-    pat.shapes[layer] += [
-        Circle(radius=radius, offset=(0, 0)),   # Outer circle
-        ]
-
-    pat.shapes[secondary_layer] += [
-        Circle(radius=radius / 10, offset=(radius / 3, radius / 3)),
-        Circle(radius=radius / 10, offset=(-radius / 3, radius / 3)),
-        Arc(
-            radii=(radius * 2 / 3, radius * 2 / 3), # Underlying ellipse radii
+    pat.shapes += [
+        Circle(radius=radius, offset=(0, 0), layer=layer),   # Outer circle
+        Circle(radius=radius / 10, offset=(radius / 3, radius / 3), layer=secondary_layer),
+        Circle(radius=radius / 10, offset=(-radius / 3, radius / 3), layer=secondary_layer),
+        Arc(radii=(radius * 2 / 3, radius * 2 / 3), # Underlying ellipse radii
             angles=(7 / 6 * pi, 11 / 6 * pi),        # Angles limiting the arc
             width=radius / 10,
             offset=(0, 0),
-            ),
+            layer=secondary_layer),
         ]
 
     return pat
 
 
 def main() -> None:
-    lib = {}
+    hole_pat = hole(1000)
+    smile_pat = smile(1000)
+    tri_pat = triangle(1000)
 
-    lib['hole'] = hole(1000)
-    lib['smile'] = smile(1000)
-    lib['triangle'] = triangle(1000)
+    units_per_meter = 1e-9
+    units_per_display_unit = 1e-3
 
-    masque.file.gdsii.writefile(lib, 'basic_shapes.gds', **GDS_OPTS)
+    masque.file.gdsii.writefile([hole_pat, tri_pat, smile_pat], 'basic_shapes.gds', **GDS_OPTS)
 
-    lib['triangle'].visualize()
+    smile_pat.visualize()
 
 
 if __name__ == '__main__':

examples/tutorial/devices.py

@@ -1,14 +1,12 @@
-from collections.abc import Sequence, Mapping
+from typing import Tuple, Sequence, Dict
 
 import numpy
 from numpy import pi
 
-from masque import (
-    layer_t, Pattern, Ref, Label, Builder, Port, Polygon,
-    Library, ILibraryView,
-    )
-from masque.utils import ports2data
-from masque.file.gdsii import writefile, check_valid_names
+from masque import layer_t, Pattern, SubPattern, Label
+from masque.shapes import Polygon
+from masque.builder import Device, Port, port_utils
+from masque.file.gdsii import writefile
 
 import pcgen
 import basic_shapes
@@ -19,41 +17,40 @@ LATTICE_CONSTANT = 512
 RADIUS = LATTICE_CONSTANT / 2 * 0.75
 
 
-def ports_to_data(pat: Pattern) -> Pattern:
+def dev2pat(dev: Device) -> Pattern:
     """
-    Bake port information into the pattern.
+    Bake port information into the device.
     This places a label at each port location on layer (3, 0) with text content
       'name:ptype angle_deg'
     """
-    return ports2data.ports_to_data(pat, layer=(3, 0))
+    return port_utils.dev2pat(dev, layer=(3, 0))
 
 
-def data_to_ports(lib: Mapping[str, Pattern], name: str, pat: Pattern) -> Pattern:
+def pat2dev(pat: Pattern) -> Device:
     """
-    Scan the Pattern to determine port locations. Same port format as `ports_to_data`
+    Scans the Pattern to determine port locations. Same format as `dev2pat`
     """
-    return ports2data.data_to_ports(layers=[(3, 0)], library=lib, pattern=pat, name=name)
+    return port_utils.pat2dev(pat, layers=[(3, 0)])
 
 
 def perturbed_l3(
         lattice_constant: float,
-        hole: str,
-        hole_lib: Mapping[str, Pattern],
+        hole: Pattern,
+        trench_dose: float = 1.0,
         trench_layer: layer_t = (1, 0),
         shifts_a: Sequence[float] = (0.15, 0, 0.075),
         shifts_r: Sequence[float] = (1.0, 1.0, 1.0),
-        xy_size: tuple[int, int] = (10, 10),
+        xy_size: Tuple[int, int] = (10, 10),
         perturbed_radius: float = 1.1,
         trench_width: float = 1200,
-        ) -> Pattern:
+        ) -> Device:
     """
-    Generate a `Pattern` representing a perturbed L3 cavity.
+    Generate a `Device` representing a perturbed L3 cavity.
 
     Args:
         lattice_constant: Distance between nearest neighbor holes
-        hole: name of a `Pattern` containing a single hole
-        hole_lib: Library which contains the `Pattern` object for hole.
-            Necessary because we need to know how big it is...
+        hole: `Pattern` object containing a single hole
+        trench_dose: Dose for the trenches. Default 1.0. (Hole dose is 1.0.)
         trench_layer: Layer for the trenches, default `(1, 0)`.
         shifts_a: passed to `pcgen.l3_shift`; specifies lattice constant
             (1 - multiplicative factor) for shifting holes adjacent to
@@ -69,10 +66,8 @@ def perturbed_l3(
         trench width: Width of the undercut trenches. Default 1200.
 
     Returns:
-        `Pattern` object representing the L3 design.
+        `Device` object representing the L3 design.
     """
-    print('Generating perturbed L3...')
-
     # Get hole positions and radii
     xyr = pcgen.l3_shift_perturbed_defect(mirror_dims=xy_size,
                                           perturbed_radius=perturbed_radius,
@@ -80,206 +75,188 @@ def perturbed_l3(
                                           shifts_r=shifts_r)
 
     # Build L3 cavity, using references to the provided hole pattern
-    pat = Pattern()
-    pat.refs[hole] += [
-        Ref(scale=r, offset=(lattice_constant * x,
-                             lattice_constant * y))
+    pat = Pattern(f'L3p-a{lattice_constant:g}rp{perturbed_radius:g}')
+    pat.subpatterns += [
+        SubPattern(hole, scale=r,
+                   offset=(lattice_constant * x,
+                           lattice_constant * y))
         for x, y, r in xyr]
 
     # Add rectangular undercut aids
-    min_xy, max_xy = pat.get_bounds_nonempty(hole_lib)
+    min_xy, max_xy = pat.get_bounds_nonempty()
     trench_dx = max_xy[0] - min_xy[0]
 
-    pat.shapes[trench_layer] += [
-        Polygon.rect(ymin=max_xy[1], xmin=min_xy[0], lx=trench_dx, ly=trench_width),
-        Polygon.rect(ymax=min_xy[1], xmin=min_xy[0], lx=trench_dx, ly=trench_width),
+    pat.shapes += [
+        Polygon.rect(ymin=max_xy[1], xmin=min_xy[0], lx=trench_dx, ly=trench_width,
+                     layer=trench_layer, dose=trench_dose),
+        Polygon.rect(ymax=min_xy[1], xmin=min_xy[0], lx=trench_dx, ly=trench_width,
+                     layer=trench_layer, dose=trench_dose),
         ]
 
     # Ports are at outer extents of the device (with y=0)
     extent = lattice_constant * xy_size[0]
-    pat.ports = dict(
-        input=Port((-extent, 0), rotation=0, ptype='pcwg'),
-        output=Port((extent, 0), rotation=pi, ptype='pcwg'),
-        )
+    ports = {
+        'input': Port((-extent, 0), rotation=0, ptype='pcwg'),
+        'output': Port((extent, 0), rotation=pi, ptype='pcwg'),
+        }
 
-    ports_to_data(pat)
-    return pat
+    return Device(pat, ports)
 
 
 def waveguide(
         lattice_constant: float,
-        hole: str,
+        hole: Pattern,
         length: int,
         mirror_periods: int,
-        ) -> Pattern:
+        ) -> Device:
     """
-    Generate a `Pattern` representing a photonic crystal line-defect waveguide.
+    Generate a `Device` representing a photonic crystal line-defect waveguide.
 
     Args:
         lattice_constant: Distance between nearest neighbor holes
-        hole: name of a `Pattern` containing a single hole
+        hole: `Pattern` object containing a single hole
         length: Distance (number of mirror periods) between the input and output ports.
             Ports are placed at lattice sites.
         mirror_periods: Number of hole rows on each side of the line defect
 
     Returns:
-        `Pattern` object representing the waveguide.
+        `Device` object representing the waveguide.
     """
     # Generate hole locations
     xy = pcgen.waveguide(length=length, num_mirror=mirror_periods)
 
     # Build the pattern
-    pat = Pattern()
-    pat.refs[hole] += [
-        Ref(offset=(lattice_constant * x,
-                    lattice_constant * y))
-        for x, y in xy]
+    pat = Pattern(f'_wg-a{lattice_constant:g}l{length}')
+    pat.subpatterns += [SubPattern(hole, offset=(lattice_constant * x,
+                                                 lattice_constant * y))
+                        for x, y in xy]
 
     # Ports are at outer edges, with y=0
     extent = lattice_constant * length / 2
-    pat.ports = dict(
-        left=Port((-extent, 0), rotation=0, ptype='pcwg'),
-        right=Port((extent, 0), rotation=pi, ptype='pcwg'),
-        )
-
-    ports_to_data(pat)
-    return pat
+    ports = {
+        'left': Port((-extent, 0), rotation=0, ptype='pcwg'),
+        'right': Port((extent, 0), rotation=pi, ptype='pcwg'),
+        }
+    return Device(pat, ports)
 
 
 def bend(
         lattice_constant: float,
-        hole: str,
+        hole: Pattern,
         mirror_periods: int,
-        ) -> Pattern:
+        ) -> Device:
     """
-    Generate a `Pattern` representing a 60-degree counterclockwise bend in a photonic crystal
+    Generate a `Device` representing a 60-degree counterclockwise bend in a photonic crystal
     line-defect waveguide.
 
     Args:
         lattice_constant: Distance between nearest neighbor holes
-        hole: name of a `Pattern` containing a single hole
+        hole: `Pattern` object containing a single hole
         mirror_periods: Minimum number of mirror periods on each side of the line defect.
 
     Returns:
-        `Pattern` object representing the waveguide bend.
+        `Device` object representing the waveguide bend.
         Ports are named 'left' (input) and 'right' (output).
     """
     # Generate hole locations
     xy = pcgen.wgbend(num_mirror=mirror_periods)
 
     # Build the pattern
-    pat= Pattern()
-    pat.refs[hole] += [
-        Ref(offset=(lattice_constant * x,
-                    lattice_constant * y))
+    pat= Pattern(f'_wgbend-a{lattice_constant:g}l{mirror_periods}')
+    pat.subpatterns += [
+        SubPattern(hole, offset=(lattice_constant * x,
+                                 lattice_constant * y))
         for x, y in xy]
 
     # Figure out port locations.
     extent = lattice_constant * mirror_periods
-    pat.ports = dict(
-        left=Port((-extent, 0), rotation=0, ptype='pcwg'),
-        right=Port((extent / 2,
-                    extent * numpy.sqrt(3) / 2),
-                   rotation=pi * 4 / 3, ptype='pcwg'),
-        )
-    ports_to_data(pat)
-    return pat
+    ports = {
+        'left': Port((-extent, 0), rotation=0, ptype='pcwg'),
+        'right': Port((extent / 2,
+                       extent * numpy.sqrt(3) / 2),
+                      rotation=pi * 4 / 3, ptype='pcwg'),
+        }
+    return Device(pat, ports)
 
 
 def y_splitter(
         lattice_constant: float,
-        hole: str,
+        hole: Pattern,
         mirror_periods: int,
-        ) -> Pattern:
+        ) -> Device:
     """
-    Generate a `Pattern` representing a photonic crystal line-defect waveguide y-splitter.
+    Generate a `Device` representing a photonic crystal line-defect waveguide y-splitter.
 
     Args:
         lattice_constant: Distance between nearest neighbor holes
-        hole: name of a `Pattern` containing a single hole
+        hole: `Pattern` object containing a single hole
         mirror_periods: Minimum number of mirror periods on each side of the line defect.
 
     Returns:
-        `Pattern` object representing the y-splitter.
+        `Device` object representing the y-splitter.
         Ports are named 'in', 'top', and 'bottom'.
     """
     # Generate hole locations
     xy = pcgen.y_splitter(num_mirror=mirror_periods)
 
     # Build pattern
-    pat = Pattern()
-    pat.refs[hole] += [
-        Ref(offset=(lattice_constant * x,
-                    lattice_constant * y))
+    pat = Pattern(f'_wgsplit_half-a{lattice_constant:g}l{mirror_periods}')
+    pat.subpatterns += [
+        SubPattern(hole, offset=(lattice_constant * x,
+                                 lattice_constant * y))
         for x, y in xy]
 
     # Determine port locations
     extent = lattice_constant * mirror_periods
-    pat.ports = {
+    ports = {
         'in': Port((-extent, 0), rotation=0, ptype='pcwg'),
         'top': Port((extent / 2,  extent * numpy.sqrt(3) / 2), rotation=pi * 4 / 3, ptype='pcwg'),
         'bot': Port((extent / 2, -extent * numpy.sqrt(3) / 2), rotation=pi * 2 / 3, ptype='pcwg'),
         }
-
-    ports_to_data(pat)
-    return pat
+    return Device(pat, ports)
 
 
 
-def main(interactive: bool = True) -> None:
+def main(interactive: bool = True):
     # Generate some basic hole patterns
-    shape_lib = {
-        'smile': basic_shapes.smile(RADIUS),
-        'hole': basic_shapes.hole(RADIUS),
-        }
+    smile = basic_shapes.smile(RADIUS)
+    hole = basic_shapes.hole(RADIUS)
 
     # Build some devices
     a = LATTICE_CONSTANT
+    wg10 = waveguide(lattice_constant=a, hole=hole, length=10, mirror_periods=5).rename('wg10')
+    wg05 = waveguide(lattice_constant=a, hole=hole, length=5, mirror_periods=5).rename('wg05')
+    wg28 = waveguide(lattice_constant=a, hole=hole, length=28, mirror_periods=5).rename('wg28')
+    bend0 = bend(lattice_constant=a, hole=hole, mirror_periods=5).rename('bend0')
+    ysplit = y_splitter(lattice_constant=a, hole=hole, mirror_periods=5).rename('ysplit')
+    l3cav = perturbed_l3(lattice_constant=a, hole=smile, xy_size=(4, 10)).rename('l3cav')   # uses smile :)
 
-    devices = {}
-    devices['wg05'] = waveguide(lattice_constant=a, hole='hole', length=5, mirror_periods=5)
-    devices['wg10'] = waveguide(lattice_constant=a, hole='hole', length=10, mirror_periods=5)
-    devices['wg28'] = waveguide(lattice_constant=a, hole='hole', length=28, mirror_periods=5)
-    devices['wg90'] = waveguide(lattice_constant=a, hole='hole', length=90, mirror_periods=5)
-    devices['bend0'] = bend(lattice_constant=a, hole='hole', mirror_periods=5)
-    devices['ysplit'] = y_splitter(lattice_constant=a, hole='hole', mirror_periods=5)
-    devices['l3cav'] = perturbed_l3(lattice_constant=a, hole='smile', hole_lib=shape_lib, xy_size=(4, 10))   # uses smile :)
-
-    # Turn our dict of devices into a Library.
-    # This provides some convenience functions in the future!
-    lib = Library(devices)
+    # Autogenerate port labels so that GDS will also contain port data
+    for device in [wg10, wg05, wg28, l3cav, ysplit, bend0]:
+        dev2pat(device)
 
     #
     # Build a circuit
     #
-    # Create a `Builder`, and add the circuit to our library as "my_circuit".
-    circ = Builder(library=lib, name='my_circuit')
+    circ = Device(name='my_circuit', ports={})
 
     # Start by placing a waveguide. Call its ports "in" and "signal".
-    circ.place('wg10', offset=(0, 0), port_map={'left': 'in', 'right': 'signal'})
+    circ.place(wg10, offset=(0, 0), port_map={'left': 'in', 'right': 'signal'})
 
     # Extend the signal path by attaching the "left" port of a waveguide.
     #   Since there is only one other port ("right") on the waveguide we
     # are attaching (wg10), it automatically inherits the name "signal".
-    circ.plug('wg10', {'signal': 'left'})
-
-    # We could have done the following instead:
-    #   circ_pat = Pattern()
-    #   lib['my_circuit'] = circ_pat
-    #   circ_pat.place(lib.abstract('wg10'), ...)
-    #   circ_pat.plug(lib.abstract('wg10'), ...)
-    # but `Builder` lets us omit some of the repetition of `lib.abstract(...)`, and uses similar
-    # syntax to `Pather` and `RenderPather`, which add wire/waveguide routing functionality.
+    circ.plug(wg10, {'signal': 'left'})
 
     # Attach a y-splitter to the signal path.
     #   Since the y-splitter has 3 ports total, we can't auto-inherit the
     # port name, so we have to specify what we want to name the unattached
     # ports. We can call them "signal1" and "signal2".
-    circ.plug('ysplit', {'signal': 'in'}, {'top': 'signal1', 'bot': 'signal2'})
+    circ.plug(ysplit, {'signal': 'in'}, {'top': 'signal1', 'bot': 'signal2'})
 
     # Add a waveguide to both signal ports, inheriting their names.
-    circ.plug('wg05', {'signal1': 'left'})
-    circ.plug('wg05', {'signal2': 'left'})
+    circ.plug(wg05, {'signal1': 'left'})
+    circ.plug(wg05, {'signal2': 'left'})
 
     # Add a bend to both ports.
     #   Our bend's ports "left" and "right" refer to the original counterclockwise
@@ -288,22 +265,22 @@ def main(interactive: bool = True) -> None:
     # to "signal2" to bend counterclockwise.
     #   We could also use `mirrored=(True, False)` to mirror one of the devices
     # and then use same device port on both paths.
-    circ.plug('bend0', {'signal1': 'right'})
-    circ.plug('bend0', {'signal2': 'left'})
+    circ.plug(bend0, {'signal1': 'right'})
+    circ.plug(bend0, {'signal2': 'left'})
 
     # We add some waveguides and a cavity to "signal1".
-    circ.plug('wg10', {'signal1': 'left'})
-    circ.plug('l3cav', {'signal1': 'input'})
-    circ.plug('wg10', {'signal1': 'left'})
+    circ.plug(wg10, {'signal1': 'left'})
+    circ.plug(l3cav, {'signal1': 'input'})
+    circ.plug(wg10, {'signal1': 'left'})
 
     # "signal2" just gets a single of equivalent length
-    circ.plug('wg28', {'signal2': 'left'})
+    circ.plug(wg28, {'signal2': 'left'})
 
     # Now we bend both waveguides back towards each other
-    circ.plug('bend0', {'signal1': 'right'})
-    circ.plug('bend0', {'signal2': 'left'})
-    circ.plug('wg05', {'signal1': 'left'})
-    circ.plug('wg05', {'signal2': 'left'})
+    circ.plug(bend0, {'signal1': 'right'})
+    circ.plug(bend0, {'signal2': 'left'})
+    circ.plug(wg05, {'signal1': 'left'})
+    circ.plug(wg05, {'signal2': 'left'})
 
     # To join the waveguides, we attach a second y-junction.
     #   We plug "signal1" into the "bot" port, and "signal2" into the "top" port.
@@ -311,34 +288,23 @@ def main(interactive: bool = True) -> None:
     #   This operation would raise an exception if the ports did not line up
     # correctly (i.e. they required different rotations or translations of the
     # y-junction device).
-    circ.plug('ysplit', {'signal1': 'bot', 'signal2': 'top'}, {'in': 'signal_out'})
+    circ.plug(ysplit, {'signal1': 'bot', 'signal2': 'top'}, {'in': 'signal_out'})
 
     # Finally, add some more waveguide to "signal_out".
-    circ.plug('wg10', {'signal_out': 'left'})
-
-    # We can also add text labels for our circuit's ports.
-    #   They will appear at the uppermost hierarchy level, while the individual
-    # device ports will appear further down, in their respective cells.
-    ports_to_data(circ.pattern)
-
-    # Check if we forgot to include any patterns... ooops!
-    if dangling := lib.dangling_refs():
-        print('Warning: The following patterns are referenced, but not present in the'
-              f' library! {dangling}')
-        print('We\'ll solve this by merging in shape_lib, which contains those shapes...')
-
-        lib.add(shape_lib)
-        assert not lib.dangling_refs()
+    circ.plug(wg10, {'signal_out': 'left'})
 
     # We can visualize the design. Usually it's easier to just view the GDS.
     if interactive:
         print('Visualizing... this step may be slow')
-        circ.pattern.visualize(lib)
+        circ.pattern.visualize()
 
-    #Write out to GDS, only keeping patterns referenced by our circuit (including itself)
-    subtree = lib.subtree('my_circuit')     # don't include wg90, which we don't use
-    check_valid_names(subtree.keys())
-    writefile(subtree, 'circuit.gds', **GDS_OPTS)
+    # We can also add text labels for our circuit's ports.
+    #   They will appear at the uppermost hierarchy level, while the individual
+    # device ports will appear further down, in their respective cells.
+    dev2pat(circ)
+
+    # Write out to GDS
+    writefile(circ.pattern, 'circuit.gds', **GDS_OPTS)
 
 
 if __name__ == '__main__':

examples/tutorial/library.py

@@ -1,83 +1,81 @@
-from typing import Any
-from collections.abc import Sequence, Callable
+from typing import Tuple, Sequence, Callable
 from pprint import pformat
 
 import numpy
 from numpy import pi
 
-from masque import Pattern, Builder, LazyLibrary
+from masque.builder import Device
+from masque.library import Library, LibDeviceLibrary
 from masque.file.gdsii import writefile, load_libraryfile
 
 import pcgen
 import basic_shapes
 import devices
-from devices import ports_to_data, data_to_ports
+from devices import pat2dev, dev2pat
 from basic_shapes import GDS_OPTS
 
 
 def main() -> None:
-    # Define a `LazyLibrary`, which provides lazy evaluation for generating
-    #   patterns and lazy-loading of GDS contents.
-    lib = LazyLibrary()
+    # Define a `Library`-backed `DeviceLibrary`, which provides lazy evaluation
+    #   for device generation code and lazy-loading of GDS contents.
+    device_lib = LibDeviceLibrary()
 
     #
     # Load some devices from a GDS file
     #
 
     # Scan circuit.gds and prepare to lazy-load its contents
-    gds_lib, _properties = load_libraryfile('circuit.gds', postprocess=data_to_ports)
+    pattern_lib, _properties = load_libraryfile('circuit.gds', tag='mycirc01')
 
     # Add it into the device library by providing a way to read port info
     #   This maintains the lazy evaluation from above, so no patterns
     # are actually read yet.
-    lib.add(gds_lib)
+    device_lib.add_library(pattern_lib, pat2dev=pat2dev)
+
+    print('Devices loaded from GDS into library:\n' + pformat(list(device_lib.keys())))
 
-    print('Patterns loaded from GDS into library:\n' + pformat(list(lib.keys())))
 
     #
     # Add some new devices to the library, this time from python code rather than GDS
     #
 
-    lib['triangle'] = lambda: basic_shapes.triangle(devices.RADIUS)
-    opts: dict[str, Any] = dict(
-        lattice_constant = devices.LATTICE_CONSTANT,
-        hole = 'triangle',
-        )
+    a = devices.LATTICE_CONSTANT
+    tri = basic_shapes.triangle(devices.RADIUS)
+
+    # Convenience function for adding devices
+    #  This is roughly equivalent to
+    #       `device_lib[name] = lambda: dev2pat(fn())`
+    #  but it also guarantees that the resulting pattern is named `name`.
+    def add(name: str, fn: Callable[[], Device]) -> None:
+        device_lib.add_device(name=name, fn=fn, dev2pat=dev2pat)
 
     # Triangle-based variants. These are defined here, but they won't run until they're
     #   retrieved from the library.
-    lib['tri_wg10'] = lambda: devices.waveguide(length=10, mirror_periods=5, **opts)
-    lib['tri_wg05'] = lambda: devices.waveguide(length=5, mirror_periods=5, **opts)
-    lib['tri_wg28'] = lambda: devices.waveguide(length=28, mirror_periods=5, **opts)
-    lib['tri_bend0'] = lambda: devices.bend(mirror_periods=5, **opts)
-    lib['tri_ysplit'] = lambda: devices.y_splitter(mirror_periods=5, **opts)
-    lib['tri_l3cav'] = lambda: devices.perturbed_l3(xy_size=(4, 10), **opts, hole_lib=lib)
+    add('tri_wg10', lambda: devices.waveguide(lattice_constant=a, hole=tri, length=10, mirror_periods=5))
+    add('tri_wg05', lambda: devices.waveguide(lattice_constant=a, hole=tri, length=5, mirror_periods=5))
+    add('tri_wg28', lambda: devices.waveguide(lattice_constant=a, hole=tri, length=28, mirror_periods=5))
+    add('tri_bend0', lambda: devices.bend(lattice_constant=a, hole=tri, mirror_periods=5))
+    add('tri_ysplit', lambda: devices.y_splitter(lattice_constant=a, hole=tri, mirror_periods=5))
+    add('tri_l3cav', lambda: devices.perturbed_l3(lattice_constant=a, hole=tri, xy_size=(4, 10)))
+
 
     #
     # Build a mixed waveguide with an L3 cavity in the middle
     #
 
     # Immediately start building from an instance of the L3 cavity
-    circ2 = Builder(library=lib, ports='tri_l3cav')
+    circ2 = device_lib['tri_l3cav'].build('mixed_wg_cav')
 
-    #   First way to get abstracts is `lib.abstract(name)`
-    # We can use this syntax directly with `Pattern.plug()` and `Pattern.place()` as well as through `Builder`.
-    circ2.plug(lib.abstract('wg10'), {'input': 'right'})
-
-    #   Second way to get abstracts is to use an AbstractView
-    # This also works directly with `Pattern.plug()` / `Pattern.place()`.
-    abstracts = lib.abstract_view()
-    circ2.plug(abstracts['wg10'], {'output': 'left'})
-
-    # Third way to specify an abstract works by automatically getting
-    # it from the library already within the Builder object.
-    # This wouldn't work if we only had a `Pattern` (not a `Builder`).
-    # Just pass the pattern name!
-    circ2.plug('tri_wg10', {'input': 'right'})
-    circ2.plug('tri_wg10', {'output': 'left'})
+    print(device_lib['wg10'].ports)
+    circ2.plug(device_lib['wg10'], {'input': 'right'})
+    circ2.plug(device_lib['wg10'], {'output': 'left'})
+    circ2.plug(device_lib['tri_wg10'], {'input': 'right'})
+    circ2.plug(device_lib['tri_wg10'], {'output': 'left'})
 
     # Add the circuit to the device library.
-    lib['mixed_wg_cav'] = circ2.pattern
+    #  It has already been generated, so we can use `set_const` as a shorthand for
+    #       `device_lib['mixed_wg_cav'] = lambda: circ2`
+    device_lib.set_const(circ2)
 
 
     #
@@ -85,26 +83,29 @@ def main() -> None:
     #
 
     # We'll be designing against an existing device's interface...
-    circ3 = Builder.interface(source=circ2)
-
+    circ3 = circ2.as_interface('loop_segment')
     # ... that lets us continue from where we left off.
-    circ3.plug('tri_bend0', {'input': 'right'})
-    circ3.plug('tri_bend0', {'input': 'left'}, mirrored=True) # mirror since no tri y-symmetry
-    circ3.plug('tri_bend0', {'input': 'right'})
-    circ3.plug('bend0', {'output': 'left'})
-    circ3.plug('bend0', {'output': 'left'})
-    circ3.plug('bend0', {'output': 'left'})
-    circ3.plug('tri_wg10', {'input': 'right'})
-    circ3.plug('tri_wg28', {'input': 'right'})
-    circ3.plug('tri_wg10', {'input': 'right', 'output': 'left'})
+    circ3.plug(device_lib['tri_bend0'], {'input': 'right'})
+    circ3.plug(device_lib['tri_bend0'], {'input': 'left'}, mirrored=(True, False)) # mirror since no tri y-symmetry
+    circ3.plug(device_lib['tri_bend0'], {'input': 'right'})
+    circ3.plug(device_lib['bend0'], {'output': 'left'})
+    circ3.plug(device_lib['bend0'], {'output': 'left'})
+    circ3.plug(device_lib['bend0'], {'output': 'left'})
+    circ3.plug(device_lib['tri_wg10'], {'input': 'right'})
+    circ3.plug(device_lib['tri_wg28'], {'input': 'right'})
+    circ3.plug(device_lib['tri_wg10'], {'input': 'right', 'output': 'left'})
 
-    lib['loop_segment'] = circ3.pattern
+    device_lib.set_const(circ3)
 
     #
     # Write all devices into a GDS file
     #
-    print('Writing library to file...')
-    writefile(lib, 'library.gds', **GDS_OPTS)
+
+    # This line could be slow, since it generates or loads many of the devices
+    #  since they were not all accessed above.
+    all_device_pats = [dev.pattern for dev in device_lib.values()]
+
+    writefile(all_device_pats, 'library.gds', **GDS_OPTS)
 
 
 if __name__ == '__main__':
@@ -115,21 +116,22 @@ if __name__ == '__main__':
 #class prout:
 #    def place(
 #            self,
-#            other: Pattern,
+#            other: Device,
 #            label_layer: layer_t = 'WATLAYER',
 #            *,
-#            port_map: Dict[str, str | None] | None = None,
+#            port_map: Optional[Dict[str, Optional[str]]] = None,
 #            **kwargs,
 #            ) -> 'prout':
 #
-#        Pattern.place(self, other, port_map=port_map, **kwargs)
-#        name: str | None
+#        Device.place(self, other, port_map=port_map, **kwargs)
+#        name: Optional[str]
 #        for name in other.ports:
 #            if port_map:
 #                assert(name is not None)
 #                name = port_map.get(name, name)
 #            if name is None:
 #                continue
-#            self.pattern.label(string=name, offset=self.ports[name].offset, layer=label_layer)
+#            self.pattern.labels += [
+#                Label(string=name, offset=self.ports[name].offset, layer=layer)]
 #        return self
 #

examples/tutorial/pather.py

@@ -1,277 +0,0 @@
-"""
-Manual wire routing tutorial: Pather and BasicTool
-"""
-from collections.abc import Callable
-from numpy import pi
-from masque import Pather, RenderPather, Library, Pattern, Port, layer_t, map_layers
-from masque.builder.tools import BasicTool, PathTool
-from masque.file.gdsii import writefile
-
-from basic_shapes import GDS_OPTS
-
-#
-# Define some basic wire widths, in nanometers
-# M2 is the top metal; M1 is below it and connected with vias on V1
-#
-M1_WIDTH = 1000
-V1_WIDTH = 500
-M2_WIDTH = 4000
-
-#
-# First, we can define some functions for generating our wire geometry
-#
-
-def make_pad() -> Pattern:
-    """
-    Create a pattern with a single rectangle of M2, with a single port on the bottom
-
-    Every pad will be an instance of the same pattern, so we will only call this function once.
-    """
-    pat = Pattern()
-    pat.rect(layer='M2', xctr=0, yctr=0, lx=3 * M2_WIDTH, ly=4 * M2_WIDTH)
-    pat.ports['wire_port'] = Port((0, -2 * M2_WIDTH), rotation=pi / 2, ptype='m2wire')
-    return pat
-
-
-def make_via(
-        layer_top: layer_t,
-        layer_via: layer_t,
-        layer_bot: layer_t,
-        width_top: float,
-        width_via: float,
-        width_bot: float,
-        ptype_top: str,
-        ptype_bot: str,
-        ) -> Pattern:
-    """
-      Generate three concentric squares, on the provided layers
-    (`layer_top`, `layer_via`, `layer_bot`) and with the provided widths
-    (`width_top`, `width_via`, `width_bot`).
-
-      Two ports are added, with the provided ptypes (`ptype_top`, `ptype_bot`).
-    They are placed at the left edge of the top layer and right edge of the
-    bottom layer, respectively.
-
-    We only have one via type, so we will only call this function once.
-    """
-    pat = Pattern()
-    pat.rect(layer=layer_via, xctr=0, yctr=0, lx=width_via, ly=width_via)
-    pat.rect(layer=layer_bot, xctr=0, yctr=0, lx=width_bot, ly=width_bot)
-    pat.rect(layer=layer_top, xctr=0, yctr=0, lx=width_top, ly=width_top)
-    pat.ports = {
-        'top': Port(offset=(-width_top / 2, 0), rotation=0, ptype=ptype_top),
-        'bottom': Port(offset=(width_bot / 2, 0), rotation=pi, ptype=ptype_bot),
-        }
-    return pat
-
-
-def make_bend(layer: layer_t, width: float, ptype: str) -> Pattern:
-    """
-      Generate a triangular wire, with ports at the left (input) and bottom (output) edges.
-    This is effectively a clockwise wire bend.
-
-      Every bend will be the same, so we only need to call this twice (once each for M1 and M2).
-    We could call it additional times for different wire widths or bend types (e.g. squares).
-    """
-    pat = Pattern()
-    pat.polygon(layer=layer, vertices=[(0, -width / 2), (0, width / 2), (width, -width / 2)])
-    pat.ports = {
-        'input': Port(offset=(0, 0), rotation=0, ptype=ptype),
-        'output': Port(offset=(width / 2, -width / 2), rotation=pi / 2, ptype=ptype),
-        }
-    return pat
-
-
-def make_straight_wire(layer: layer_t, width: float, ptype: str, length: float) -> Pattern:
-    """
-    Generate a straight wire with ports along either end (x=0 and x=length).
-
-      Every waveguide will be single-use, so we'll need to create lots of (mostly unique)
-    `Pattern`s, and this function will get called very often.
-    """
-    pat = Pattern()
-    pat.rect(layer=layer, xmin=0, xmax=length, yctr=0, ly=width)
-    pat.ports = {
-        'input': Port(offset=(0, 0), rotation=0, ptype=ptype),
-        'output': Port(offset=(length, 0), rotation=pi, ptype=ptype),
-        }
-    return pat
-
-
-def map_layer(layer: layer_t) -> layer_t:
-    """
-    Map from a strings to GDS layer numbers
-    """
-    layer_mapping = {
-        'M1': (10, 0),
-        'M2': (20, 0),
-        'V1': (30, 0),
-        }
-    return layer_mapping.get(layer, layer)
-
-
-#
-# Now we can start building up our library (collection of static cells) and pathing tools.
-#
-#   If any of the operations below are confusing, you can cross-reference against the `RenderPather`
-# tutorial, which handles some things more explicitly (e.g. via placement) and simplifies others
-# (e.g. geometry definition).
-#
-def main() -> None:
-    # Build some patterns (static cells) using the above functions and store them in a library
-    library = Library()
-    library['pad'] = make_pad()
-    library['m1_bend'] = make_bend(layer='M1', ptype='m1wire', width=M1_WIDTH)
-    library['m2_bend'] = make_bend(layer='M2', ptype='m2wire', width=M2_WIDTH)
-    library['v1_via'] = make_via(
-        layer_top='M2',
-        layer_via='V1',
-        layer_bot='M1',
-        width_top=M2_WIDTH,
-        width_via=V1_WIDTH,
-        width_bot=M1_WIDTH,
-        ptype_bot='m1wire',
-        ptype_top='m2wire',
-        )
-
-    #
-    # Now, define two tools.
-    # M1_tool will route on M1, using wires with M1_WIDTH
-    # M2_tool will route on M2, using wires with M2_WIDTH
-    # Both tools are able to automatically transition from the other wire type (with a via)
-    #
-    #   Note that while we use BasicTool for this tutorial, you can define your own `Tool`
-    # with arbitrary logic inside -- e.g. with single-use bends, complex transition rules,
-    # transmission line geometry, or other features.
-    #
-    M1_tool = BasicTool(
-        straight = (
-            # First, we need a function which takes in a length and spits out an M1 wire
-            lambda length: make_straight_wire(layer='M1', ptype='m1wire', width=M1_WIDTH, length=length),
-            'input',    # When we get a pattern from make_straight_wire, use the port named 'input' as the input
-            'output',   # and use the port named 'output' as the output
-            ),
-        bend = (
-            library.abstract('m1_bend'),    # When we need a bend, we'll reference the pattern we generated earlier
-            'input',    # To orient it clockwise, use the port named 'input' as the input
-            'output',   # and 'output' as the output
-            ),
-        transitions = {  # We can automate transitions for different (normally incompatible) port types
-            'm2wire': (  # For example, when we're attaching to a port with type 'm2wire'
-                library.abstract('v1_via'),   # we can place a V1 via
-                'top',     # using the port named 'top' as the input (i.e. the M2 side of the via)
-                'bottom',  # and using the port named 'bottom' as the output
-                ),
-            },
-        default_out_ptype = 'm1wire',   # Unless otherwise requested, we'll default to trying to stay on M1
-        )
-
-    M2_tool = BasicTool(
-        straight = (
-            # Again, we use make_straight_wire, but this time we set parameters for M2
-            lambda length: make_straight_wire(layer='M2', ptype='m2wire', width=M2_WIDTH, length=length),
-            'input',
-            'output',
-            ),
-        bend = (
-            library.abstract('m2_bend'),    # and we use an M2 bend
-            'input',
-            'output',
-            ),
-        transitions = {
-            'm1wire': (
-                library.abstract('v1_via'),     # We still use the same via,
-                'bottom',                       # but the input port is now 'bottom'
-                'top',                          # and the output port is now 'top'
-                ),
-            },
-        default_out_ptype = 'm2wire',       # We default to trying to stay on M2
-        )
-
-    #
-    # Create a new pather which writes to `library` and uses `M2_tool` as its default tool.
-    # Then, place some pads and start routing wires!
-    #
-    pather = Pather(library, tools=M2_tool)
-
-    # Place two pads, and define their ports as 'VCC' and 'GND'
-    pather.place('pad', offset=(18_000, 30_000), port_map={'wire_port': 'VCC'})
-    pather.place('pad', offset=(18_000, 60_000), port_map={'wire_port': 'GND'})
-    # Add some labels to make the pads easier to distinguish
-    pather.pattern.label(layer='M2', string='VCC', offset=(18e3, 30e3))
-    pather.pattern.label(layer='M2', string='GND', offset=(18e3, 60e3))
-
-    # Path VCC forward (in this case south) and turn clockwise 90 degrees (ccw=False)
-    # The total distance forward (including the bend's forward component) must be 6um
-    pather.path('VCC', ccw=False, length=6_000)
-
-    # Now path VCC to x=0. This time, don't include any bend (ccw=None).
-    # Note that if we tried y=0 here, we would get an error since the VCC port is facing in the x-direction.
-    pather.path_to('VCC', ccw=None, x=0)
-
-    # Path GND forward by 5um, turning clockwise 90 degrees.
-    # This time we use shorthand (bool(0) == False) and omit the parameter labels
-    # Note that although ccw=0 is equivalent to ccw=False, ccw=None is not!
-    pather.path('GND', 0, 5_000)
-
-    # This time, path GND until it matches the current x-coordinate of VCC. Don't place a bend.
-    pather.path_to('GND', None, x=pather['VCC'].offset[0])
-
-    # Now, start using M1_tool for GND.
-    # Since we have defined an M2-to-M1 transition for BasicPather, we don't need to place one ourselves.
-    #   If we wanted to place our via manually, we could add `pather.plug('m1_via', {'GND': 'top'})` here
-    # and achieve the same result without having to define any transitions in M1_tool.
-    #   Note that even though we have changed the tool used for GND, the via doesn't get placed until
-    # the next time we draw a path on GND (the pather.mpath() statement below).
-    pather.retool(M1_tool, keys=['GND'])
-
-    # Bundle together GND and VCC, and path the bundle forward and counterclockwise.
-    #   Pick the distance so that the leading/outermost wire (in this case GND) ends up at x=-10_000.
-    # Other wires in the bundle (in this case VCC) should be spaced at 5_000 pitch (so VCC ends up at x=-5_000)
-    #
-    #  Since we recently retooled GND, its path starts with a via down to M1 (included in the distance
-    # calculation), and its straight segment and bend will be drawn using M1 while VCC's are drawn with M2.
-    pather.mpath(['GND', 'VCC'], ccw=True, xmax=-10_000, spacing=5_000)
-
-    # Now use M1_tool as the default tool for all ports/signals.
-    # Since VCC does not have an explicitly assigned tool, it will now transition down to M1.
-    pather.retool(M1_tool)
-
-    # Path the GND + VCC bundle forward and counterclockwise by 90 degrees.
-    #   The total extension (travel distance along the forward direction) for the longest segment (in
-    # this case the segment being added to GND) should be exactly 50um.
-    # After turning, the wire pitch should be reduced only 1.2um.
-    pather.mpath(['GND', 'VCC'], ccw=True, emax=50_000, spacing=1_200)
-
-    # Make a U-turn with the bundle and expand back out to 4.5um wire pitch.
-    #   Here, emin specifies the travel distance for the shortest segment. For the first mpath() call
-    # that applies to VCC, and for teh second call, that applies to GND; the relative lengths of the
-    # segments depend on their starting positions and their ordering within the bundle.
-    pather.mpath(['GND', 'VCC'], ccw=False, emin=1_000, spacing=1_200)
-    pather.mpath(['GND', 'VCC'], ccw=False, emin=2_000, spacing=4_500)
-
-    # Now, set the default tool back to M2_tool. Note that GND remains on M1 since it has been
-    # explicitly assigned a tool. We could `del pather.tools['GND']` to force it to use the default.
-    pather.retool(M2_tool)
-
-    # Now path both ports to x=-28_000.
-    #   When ccw is not None, xmin constrains the trailing/innermost port to stop at the target x coordinate,
-    # However, with ccw=None, all ports stop at the same coordinate, and so specifying xmin= or xmax= is
-    # equivalent.
-    pather.mpath(['GND', 'VCC'], None, xmin=-28_000)
-
-    # Further extend VCC out to x=-50_000, and specify that we would like to get an output on M1.
-    #  This results in a via at the end of the wire (instead of having one at the start like we got
-    # when using pather.retool().
-    pather.path_to('VCC', None, -50_000, out_ptype='m1wire')
-
-    # Save the pather's pattern into our library
-    library['Pather_and_BasicTool'] = pather.pattern
-
-    # Convert from text-based layers to numeric layers for GDS, and output the file
-    library.map_layers(map_layer)
-    writefile(library, 'pather.gds', **GDS_OPTS)
-
-
-if __name__ == '__main__':
-    main()

examples/tutorial/pcgen.py

@@ -2,7 +2,7 @@
 Routines for creating normalized 2D lattices and common photonic crystal
  cavity designs.
 """
-from collection.abc import Sequence
+from typing import Sequence, Tuple
 
 import numpy
 from numpy.typing import ArrayLike, NDArray
@@ -29,11 +29,8 @@ def triangular_lattice(
     Returns:
         `[[x0, y0], [x1, 1], ...]` denoting lattice sites.
     """
-    sx, sy = numpy.meshgrid(
-        numpy.arange(dims[0], dtype=float),
-        numpy.arange(dims[1], dtype=float),
-        indexing='ij',
-        )
+    sx, sy = numpy.meshgrid(numpy.arange(dims[0], dtype=float),
+                            numpy.arange(dims[1], dtype=float), indexing='ij')
 
     sx[sy % 2 == 1] += 0.5
     sy *= numpy.sqrt(3) / 2
@@ -233,8 +230,8 @@ def ln_shift_defect(
 
     # Shift holes
     # Expand shifts as necessary
-    tmp_a = numpy.asarray(shifts_a)
-    tmp_r = numpy.asarray(shifts_r)
+    tmp_a = numpy.array(shifts_a)
+    tmp_r = numpy.array(shifts_r)
     n_shifted = max(tmp_a.size, tmp_r.size)
 
     shifts_a = numpy.ones(n_shifted)

examples/tutorial/renderpather.py

@@ -1,96 +0,0 @@
-"""
-Manual wire routing tutorial: RenderPather an PathTool
-"""
-from collections.abc import Callable
-from masque import RenderPather, Library, Pattern, Port, layer_t, map_layers
-from masque.builder.tools import PathTool
-from masque.file.gdsii import writefile
-
-from basic_shapes import GDS_OPTS
-from pather import M1_WIDTH, V1_WIDTH, M2_WIDTH, map_layer, make_pad, make_via
-
-
-def main() -> None:
-    #
-    #   To illustrate the advantages of using `RenderPather`, we use `PathTool` instead
-    # of `BasicTool`. `PathTool` lacks some sophistication (e.g. no automatic transitions)
-    # but when used with `RenderPather`, it can consolidate multiple routing steps into
-    # a single `Path` shape.
-    #
-    #   We'll try to nearly replicate the layout from the `Pather` tutorial; see `pather.py`
-    # for more detailed descriptions of the individual pathing steps.
-    #
-
-    # First, we make a library and generate some of the same patterns as in the pather tutorial
-    library = Library()
-    library['pad'] = make_pad()
-    library['v1_via'] = make_via(
-        layer_top='M2',
-        layer_via='V1',
-        layer_bot='M1',
-        width_top=M2_WIDTH,
-        width_via=V1_WIDTH,
-        width_bot=M1_WIDTH,
-        ptype_bot='m1wire',
-        ptype_top='m2wire',
-        )
-
-    #   `PathTool` is more limited than `BasicTool`. It only generates one type of shape
-    # (`Path`), so it only needs to know what layer to draw on, what width to draw with,
-    # and what port type to present.
-    M1_ptool = PathTool(layer='M1', width=M1_WIDTH, ptype='m1wire')
-    M2_ptool = PathTool(layer='M2', width=M2_WIDTH, ptype='m2wire')
-    rpather = RenderPather(tools=M2_ptool, library=library)
-
-    # As in the pather tutorial, we make soem pads and labels...
-    rpather.place('pad', offset=(18_000, 30_000), port_map={'wire_port': 'VCC'})
-    rpather.place('pad', offset=(18_000, 60_000), port_map={'wire_port': 'GND'})
-    rpather.pattern.label(layer='M2', string='VCC', offset=(18e3, 30e3))
-    rpather.pattern.label(layer='M2', string='GND', offset=(18e3, 60e3))
-
-    # ...and start routing the signals.
-    rpather.path('VCC', ccw=False, length=6_000)
-    rpather.path_to('VCC', ccw=None, x=0)
-    rpather.path('GND', 0, 5_000)
-    rpather.path_to('GND', None, x=rpather['VCC'].offset[0])
-
-    # `PathTool` doesn't know how to transition betwen metal layers, so we have to
-    # `plug` the via into the GND wire ourselves.
-    rpather.plug('v1_via', {'GND': 'top'})
-    rpather.retool(M1_ptool, keys=['GND'])
-    rpather.mpath(['GND', 'VCC'], ccw=True, xmax=-10_000, spacing=5_000)
-
-    # Same thing on the VCC wire when it goes down to M1.
-    rpather.plug('v1_via', {'VCC': 'top'})
-    rpather.retool(M1_ptool)
-    rpather.mpath(['GND', 'VCC'], ccw=True, emax=50_000, spacing=1_200)
-    rpather.mpath(['GND', 'VCC'], ccw=False, emin=1_000, spacing=1_200)
-    rpather.mpath(['GND', 'VCC'], ccw=False, emin=2_000, spacing=4_500)
-
-    # And again when VCC goes back up to M2.
-    rpather.plug('v1_via', {'VCC': 'bottom'})
-    rpather.retool(M2_ptool)
-    rpather.mpath(['GND', 'VCC'], None, xmin=-28_000)
-
-    #   Finally, since PathTool has no conception of transitions, we can't
-    # just ask it to transition to an 'm1wire' port at the end of the final VCC segment.
-    # Instead, we have to calculate the via size ourselves, and adjust the final position
-    # to account for it.
-    via_size = abs(
-          library['v1_via'].ports['top'].offset[0]
-        - library['v1_via'].ports['bottom'].offset[0]
-        )
-    rpather.path_to('VCC', None, -50_000 + via_size)
-    rpather.plug('v1_via', {'VCC': 'top'})
-
-    rpather.render()
-    library['RenderPather_and_PathTool'] = rpather.pattern
-
-
-    # Convert from text-based layers to numeric layers for GDS, and output the file
-    library.map_layers(map_layer)
-    writefile(library, 'render_pather.gds', **GDS_OPTS)
-
-
-if __name__ == '__main__':
-    main()

masque/__init__.py

@@ -1,16 +1,16 @@
 """
  masque 2D CAD library
 
- masque is an attempt to make a relatively compact library for designing lithography
+ masque is an attempt to make a relatively small library for designing lithography
   masks. The general idea is to implement something resembling the GDSII and OASIS file-formats,
-  but with some additional vectorized element types (eg. ellipses, not just polygons), and the
-  ability to interface with multiple file formats.
+  but with some additional vectorized element types (eg. ellipses, not just polygons), better
+  support for E-beam doses, and the ability to interface with multiple file formats.
 
  `Pattern` is a basic object containing a 2D lithography mask, composed of a list of `Shape`
   objects, a list of `Label` objects, and a list of references to other `Patterns` (using
-  `Ref`).
+  `SubPattern`).
 
- `Ref` provides basic support for nesting `Pattern` objects within each other, by adding
+ `SubPattern` provides basic support for nesting `Pattern` objects within each other, by adding
   offset, rotation, scaling, repetition, and other such properties to a Pattern reference.
 
  Note that the methods for these classes try to avoid copying wherever possible, so unless
@@ -20,73 +20,24 @@
  NOTES ON INTERNALS
  ==========================
  - Many of `masque`'s classes make use of `__slots__` to make them faster / smaller.
-    Since `__slots__` doesn't play well with multiple inheritance, often they are left
-    empty for superclasses and it is the subclass's responsibility to set them correctly.
- - File I/O submodules are not imported by `masque.file` to avoid creating hard dependencies
-    on external file-format reader/writers
-- Try to accept the broadest-possible inputs: e.g., don't demand an `ILibraryView` if you
-    can accept a `Mapping[str, Pattern]` and wrap it in a `LibraryView` internally.
+    Since `__slots__` doesn't play well with multiple inheritance, the `masque.utils.AutoSlots`
+    metaclass is used to auto-generate slots based on superclass type annotations.
+ - File I/O submodules are imported by `masque.file` to avoid creating hard dependencies on
+    external file-format reader/writers
+ - Pattern locking/unlocking is quite slow for large hierarchies.
+
 """
 
-from .utils import (
-    layer_t as layer_t,
-    annotations_t as annotations_t,
-    SupportsBool as SupportsBool,
-    )
-from .error import (
-    MasqueError as MasqueError,
-    PatternError as PatternError,
-    LibraryError as LibraryError,
-    BuildError as BuildError,
-    )
-from .shapes import (
-    Shape as Shape,
-    Polygon as Polygon,
-    Path as Path,
-    Circle as Circle,
-    Arc as Arc,
-    Ellipse as Ellipse,
-    )
-from .label import Label as Label
-from .ref import Ref as Ref
-from .pattern import (
-    Pattern as Pattern,
-    map_layers as map_layers,
-    map_targets as map_targets,
-    chain_elements as chain_elements,
-    )
-
-from .library import (
-    ILibraryView as ILibraryView,
-    ILibrary as ILibrary,
-    LibraryView as LibraryView,
-    Library as Library,
-    LazyLibrary as LazyLibrary,
-    AbstractView as AbstractView,
-    TreeView as TreeView,
-    Tree as Tree,
-    )
-from .ports import (
-    Port as Port,
-    PortList as PortList,
-    )
-from .abstract import Abstract as Abstract
-from .builder import (
-    Builder as Builder,
-    Tool as Tool,
-    Pather as Pather,
-    RenderPather as RenderPather,
-    RenderStep as RenderStep,
-    BasicTool as BasicTool,
-    PathTool as PathTool,
-    )
-from .utils import (
-    ports2data as ports2data,
-    oneshot as oneshot,
-    )
+from .error import PatternError, PatternLockedError
+from .shapes import Shape
+from .label import Label
+from .subpattern import SubPattern
+from .pattern import Pattern
+from .utils import layer_t, annotations_t
+from .library import Library, DeviceLibrary
 
 
 __author__ = 'Jan Petykiewicz'
 
-__version__ = '3.2'
+__version__ = '2.7'
 version = __version__       # legacy

masque/abstract.py

@@ -1,217 +0,0 @@
-from typing import Self
-import copy
-import logging
-
-import numpy
-from numpy.typing import ArrayLike
-
-from .ref import Ref
-from .ports import PortList, Port
-from .utils import rotation_matrix_2d
-
-#if TYPE_CHECKING:
-#    from .builder import Builder, Tool
-#    from .library import ILibrary
-
-
-logger = logging.getLogger(__name__)
-
-
-class Abstract(PortList):
-    """
-    An `Abstract` is a container for a name and associated ports.
-
-    When snapping a sub-component to an existing pattern, only the name (not contained
-    in a `Pattern` object) and port info is needed, and not the geometry itself.
-    """
-    __slots__ = ('name', '_ports')
-
-    name: str
-    """ Name of the pattern this device references """
-
-    _ports: dict[str, Port]
-    """ Uniquely-named ports which can be used to instances together"""
-
-    @property
-    def ports(self) -> dict[str, Port]:
-        return self._ports
-
-    @ports.setter
-    def ports(self, value: dict[str, Port]) -> None:
-        self._ports = value
-
-    def __init__(
-            self,
-            name: str,
-            ports: dict[str, Port],
-            ) -> None:
-        self.name = name
-        self.ports = copy.deepcopy(ports)
-
-    # TODO do we want to store a Ref instead of just a name? then we can translate/rotate/mirror...
-
-    def __repr__(self) -> str:
-        s = f'<Abstract {self.name} ['
-        for name, port in self.ports.items():
-            s += f'\n\t{name}: {port}'
-        s += ']>'
-        return s
-
-    def translate_ports(self, offset: ArrayLike) -> Self:
-        """
-        Translates all ports by the given offset.
-
-        Args:
-            offset: (x, y) to translate by
-
-        Returns:
-            self
-        """
-        for port in self.ports.values():
-            port.translate(offset)
-        return self
-
-    def scale_by(self, c: float) -> Self:
-        """
-        Scale this Abstract by the given value
-         (all port offsets are scaled)
-
-        Args:
-            c: factor to scale by
-
-        Returns:
-            self
-        """
-        for port in self.ports.values():
-            port.offset *= c
-        return self
-
-    def rotate_around(self, pivot: ArrayLike, rotation: float) -> Self:
-        """
-        Rotate the Abstract around the a location.
-
-        Args:
-            pivot: (x, y) location to rotate around
-            rotation: Angle to rotate by (counter-clockwise, radians)
-
-        Returns:
-            self
-        """
-        pivot = numpy.asarray(pivot, dtype=float)
-        self.translate_ports(-pivot)
-        self.rotate_ports(rotation)
-        self.rotate_port_offsets(rotation)
-        self.translate_ports(+pivot)
-        return self
-
-    def rotate_port_offsets(self, rotation: float) -> Self:
-        """
-        Rotate the offsets of all ports around (0, 0)
-
-        Args:
-            rotation: Angle to rotate by (counter-clockwise, radians)
-
-        Returns:
-            self
-        """
-        for port in self.ports.values():
-            port.offset = rotation_matrix_2d(rotation) @ port.offset
-        return self
-
-    def rotate_ports(self, rotation: float) -> Self:
-        """
-        Rotate each port around its offset (i.e. in place)
-
-        Args:
-            rotation: Angle to rotate by (counter-clockwise, radians)
-
-        Returns:
-            self
-        """
-        for port in self.ports.values():
-            port.rotate(rotation)
-        return self
-
-    def mirror_port_offsets(self, across_axis: int = 0) -> Self:
-        """
-        Mirror the offsets of all shapes, labels, and refs across an axis
-
-        Args:
-            across_axis: Axis to mirror across
-                (0: mirror across x axis, 1: mirror across y axis)
-
-        Returns:
-            self
-        """
-        for port in self.ports.values():
-            port.offset[across_axis - 1] *= -1
-        return self
-
-    def mirror_ports(self, across_axis: int = 0) -> Self:
-        """
-        Mirror each port's rotation across an axis, relative to its
-          offset
-
-        Args:
-            across_axis: Axis to mirror across
-                (0: mirror across x axis, 1: mirror across y axis)
-
-        Returns:
-            self
-        """
-        for port in self.ports.values():
-            port.mirror(across_axis)
-        return self
-
-    def mirror(self, across_axis: int = 0) -> Self:
-        """
-        Mirror the Pattern across an axis
-
-        Args:
-            axis: Axis to mirror across
-                (0: mirror across x axis, 1: mirror across y axis)
-
-        Returns:
-            self
-        """
-        self.mirror_ports(across_axis)
-        self.mirror_port_offsets(across_axis)
-        return self
-
-    def apply_ref_transform(self, ref: Ref) -> Self:
-        """
-        Apply the transform from a `Ref` to the ports of this `Abstract`.
-        This changes the port locations to where they would be in the Ref's parent pattern.
-
-        Args:
-            ref: The ref whose transform should be applied.
-
-        Returns:
-            self
-        """
-        if ref.mirrored:
-            self.mirror()
-        self.rotate_ports(ref.rotation)
-        self.rotate_port_offsets(ref.rotation)
-        self.translate_ports(ref.offset)
-        return self
-
-    def undo_ref_transform(self, ref: Ref) -> Self:
-        """
-        Apply the inverse transform from a `Ref` to the ports of this `Abstract`.
-        This changes the port locations to where they would be in the Ref's target (from the parent).
-
-        Args:
-            ref: The ref whose (inverse) transform should be applied.
-
-        Returns:
-            self
-
-        # TODO test undo_ref_transform
-        """
-        self.translate_ports(-ref.offset)
-        self.rotate_port_offsets(-ref.rotation)
-        self.rotate_ports(-ref.rotation)
-        if ref.mirrored:
-            self.mirror(0)
-        return self

masque/builder/__init__.py

@@ -1,10 +1,3 @@
-from .builder import Builder as Builder
-from .pather import Pather as Pather
-from .renderpather import RenderPather as RenderPather
-from .utils import ell as ell
-from .tools import (
-    Tool as Tool,
-    RenderStep as RenderStep,
-    BasicTool as BasicTool,
-    PathTool as PathTool,
-    )
+from .devices import Port, Device
+from .utils import ell
+from .tools import Tool

masque/builder/builder.py

@@ -1,436 +0,0 @@
-"""
-Simplified Pattern assembly (`Builder`)
-"""
-from typing import Self
-from collections.abc import Sequence, Mapping
-import copy
-import logging
-from functools import wraps
-
-from numpy.typing import ArrayLike
-
-from ..pattern import Pattern
-from ..library import ILibrary, TreeView
-from ..error import BuildError
-from ..ports import PortList, Port
-from ..abstract import Abstract
-
-
-logger = logging.getLogger(__name__)
-
-
-class Builder(PortList):
-    """
-      A `Builder` is a helper object used for snapping together multiple
-    lower-level patterns at their `Port`s.
-
-      The `Builder` mostly just holds context, in the form of a `Library`,
-    in addition to its underlying pattern. This simplifies some calls
-    to `plug` and `place`, by making the library implicit.
-
-    `Builder` can also be `set_dead()`, at which point further calls to `plug()`
-    and `place()` are ignored (intended for debugging).
-
-
-    Examples: Creating a Builder
-    ===========================
-    - `Builder(library, ports={'A': port_a, 'C': port_c}, name='mypat')` makes
-        an empty pattern, adds the given ports, and places it into `library`
-        under the name `'mypat'`.
-
-    - `Builder(library)` makes an empty pattern with no ports. The pattern
-        is not added into `library` and must later be added with e.g.
-        `library['mypat'] = builder.pattern`
-
-    - `Builder(library, pattern=pattern, name='mypat')` uses an existing
-        pattern (including its ports) and sets `library['mypat'] = pattern`.
-
-    - `Builder.interface(other_pat, port_map=['A', 'B'], library=library)`
-        makes a new (empty) pattern, copies over ports 'A' and 'B' from
-        `other_pat`, and creates additional ports 'in_A' and 'in_B' facing
-        in the opposite directions. This can be used to build a device which
-        can plug into `other_pat` (using the 'in_*' ports) but which does not
-        itself include `other_pat` as a subcomponent.
-
-    - `Builder.interface(other_builder, ...)` does the same thing as
-        `Builder.interface(other_builder.pattern, ...)` but also uses
-        `other_builder.library` as its library by default.
-
-
-    Examples: Adding to a pattern
-    =============================
-    - `my_device.plug(subdevice, {'A': 'C', 'B': 'B'}, map_out={'D': 'myport'})`
-        instantiates `subdevice` into `my_device`, plugging ports 'A' and 'B'
-        of `my_device` into ports 'C' and 'B' of `subdevice`. The connected ports
-        are removed and any unconnected ports from `subdevice` are added to
-        `my_device`. Port 'D' of `subdevice` (unconnected) is renamed to 'myport'.
-
-    - `my_device.plug(wire, {'myport': 'A'})` places port 'A' of `wire` at 'myport'
-        of `my_device`. If `wire` has only two ports (e.g. 'A' and 'B'), no `map_out`,
-        argument is provided, and the `inherit_name` argument is not explicitly
-        set to `False`, the unconnected port of `wire` is automatically renamed to
-        'myport'. This allows easy extension of existing ports without changing
-        their names or having to provide `map_out` each time `plug` is called.
-
-    - `my_device.place(pad, offset=(10, 10), rotation=pi / 2, port_map={'A': 'gnd'})`
-        instantiates `pad` at the specified (x, y) offset and with the specified
-        rotation, adding its ports to those of `my_device`. Port 'A' of `pad` is
-        renamed to 'gnd' so that further routing can use this signal or net name
-        rather than the port name on the original `pad` device.
-    """
-    __slots__ = ('pattern', 'library', '_dead')
-
-    pattern: Pattern
-    """ Layout of this device """
-
-    library: ILibrary
-    """
-    Library from which patterns should be referenced
-    """
-
-    _dead: bool
-    """ If True, plug()/place() are skipped (for debugging)"""
-
-    @property
-    def ports(self) -> dict[str, Port]:
-        return self.pattern.ports
-
-    @ports.setter
-    def ports(self, value: dict[str, Port]) -> None:
-        self.pattern.ports = value
-
-    def __init__(
-            self,
-            library: ILibrary,
-            *,
-            pattern: Pattern | None = None,
-            ports: str | Mapping[str, Port] | None = None,
-            name: str | None = None,
-            ) -> None:
-        """
-        Args:
-            library: The library from which referenced patterns will be taken
-            pattern: The pattern which will be modified by subsequent operations.
-                If `None` (default), a new pattern is created.
-            ports: Allows specifying the initial set of ports, if `pattern` does
-                not already have any ports (or is not provided). May be a string,
-                in which case it is interpreted as a name in `library`.
-                Default `None` (no ports).
-            name: If specified, `library[name]` is set to `self.pattern`.
-        """
-        self._dead = False
-        self.library = library
-        if pattern is not None:
-            self.pattern = pattern
-        else:
-            self.pattern = Pattern()
-
-        if ports is not None:
-            if self.pattern.ports:
-                raise BuildError('Ports supplied for pattern with pre-existing ports!')
-            if isinstance(ports, str):
-                ports = library.abstract(ports).ports
-
-            self.pattern.ports.update(copy.deepcopy(dict(ports)))
-
-        if name is not None:
-            library[name] = self.pattern
-
-    @classmethod
-    def interface(
-            cls: type['Builder'],
-            source: PortList | Mapping[str, Port] | str,
-            *,
-            library: ILibrary | None = None,
-            in_prefix: str = 'in_',
-            out_prefix: str = '',
-            port_map: dict[str, str] | Sequence[str] | None = None,
-            name: str | None = None,
-            ) -> 'Builder':
-        """
-        Wrapper for `Pattern.interface()`, which returns a Builder instead.
-
-        Args:
-            source: A collection of ports (e.g. Pattern, Builder, or dict)
-                from which to create the interface. May be a pattern name if
-                `library` is provided.
-            library: Library from which existing patterns should be referenced,
-                and to which the new one should be added (if named). If not provided,
-                `source.library` must exist and will be used.
-            in_prefix: Prepended to port names for newly-created ports with
-                reversed directions compared to the current device.
-            out_prefix: Prepended to port names for ports which are directly
-                copied from the current device.
-            port_map: Specification for ports to copy into the new device:
-                - If `None`, all ports are copied.
-                - If a sequence, only the listed ports are copied
-                - If a mapping, the listed ports (keys) are copied and
-                    renamed (to the values).
-
-        Returns:
-            The new builder, with an empty pattern and 2x as many ports as
-              listed in port_map.
-
-        Raises:
-            `PortError` if `port_map` contains port names not present in the
-                current device.
-            `PortError` if applying the prefixes results in duplicate port
-                names.
-        """
-        if library is None:
-            if hasattr(source, 'library') and isinstance(source.library, ILibrary):
-                library = source.library
-            else:
-                raise BuildError('No library was given, and `source.library` does not have one either.')
-
-        if isinstance(source, str):
-            source = library.abstract(source).ports
-
-        pat = Pattern.interface(source, in_prefix=in_prefix, out_prefix=out_prefix, port_map=port_map)
-        new = Builder(library=library, pattern=pat, name=name)
-        return new
-
-    @wraps(Pattern.label)
-    def label(self, *args, **kwargs) -> Self:
-        self.pattern.label(*args, **kwargs)
-        return self
-
-    @wraps(Pattern.ref)
-    def ref(self, *args, **kwargs) -> Self:
-        self.pattern.ref(*args, **kwargs)
-        return self
-
-    @wraps(Pattern.polygon)
-    def polygon(self, *args, **kwargs) -> Self:
-        self.pattern.polygon(*args, **kwargs)
-        return self
-
-    @wraps(Pattern.rect)
-    def rect(self, *args, **kwargs) -> Self:
-        self.pattern.rect(*args, **kwargs)
-        return self
-
-    # Note: We're a superclass of `Pather`, where path() means something different...
-    #@wraps(Pattern.path)
-    #def path(self, *args, **kwargs) -> Self:
-    #    self.pattern.path(*args, **kwargs)
-    #    return self
-
-    def plug(
-            self,
-            other: Abstract | str | Pattern | TreeView,
-            map_in: dict[str, str],
-            map_out: dict[str, str | None] | None = None,
-            *,
-            mirrored: bool = False,
-            inherit_name: bool = True,
-            set_rotation: bool | None = None,
-            append: bool = False,
-            ) -> Self:
-        """
-        Wrapper around `Pattern.plug` which allows a string for `other`.
-
-        The `Builder`'s library is used to dereference the string (or `Abstract`, if
-        one is passed with `append=True`). If a `TreeView` is passed, it is first
-        added into `self.library`.
-
-        Args:
-            other: An `Abstract`, string, `Pattern`, or `TreeView` describing the
-                device to be instatiated. If it is a `TreeView`, it is first
-                added into `self.library`, after which the topcell is plugged;
-                an equivalent statement is `self.plug(self.library << other, ...)`.
-            map_in: dict of `{'self_port': 'other_port'}` mappings, specifying
-                port connections between the two devices.
-            map_out: dict of `{'old_name': 'new_name'}` mappings, specifying
-                new names for ports in `other`.
-            mirrored: Enables mirroring `other` across the x axis prior to
-                connecting any ports.
-            inherit_name: If `True`, and `map_in` specifies only a single port,
-                and `map_out` is `None`, and `other` has only two ports total,
-                then automatically renames the output port of `other` to the
-                name of the port from `self` that appears in `map_in`. This
-                makes it easy to extend a device with simple 2-port devices
-                (e.g. wires) without providing `map_out` each time `plug` is
-                called. See "Examples" above for more info. Default `True`.
-            set_rotation: If the necessary rotation cannot be determined from
-                the ports being connected (i.e. all pairs have at least one
-                port with `rotation=None`), `set_rotation` must be provided
-                to indicate how much `other` should be rotated. Otherwise,
-                `set_rotation` must remain `None`.
-            append: If `True`, `other` is appended instead of being referenced.
-                Note that this does not flatten  `other`, so its refs will still
-                be refs (now inside `self`).
-
-        Returns:
-            self
-
-        Raises:
-            `PortError` if any ports specified in `map_in` or `map_out` do not
-                exist in `self.ports` or `other_names`.
-            `PortError` if there are any duplicate names after `map_in` and `map_out`
-                are applied.
-            `PortError` if the specified port mapping is not achieveable (the ports
-                do not line up)
-        """
-        if self._dead:
-            logger.error('Skipping plug() since device is dead')
-            return self
-
-        if not isinstance(other, str | Abstract | Pattern):
-            # We got a Tree; add it into self.library and grab an Abstract for it
-            other = self.library << other
-
-        if isinstance(other, str):
-            other = self.library.abstract(other)
-        if append and isinstance(other, Abstract):
-            other = self.library[other.name]
-
-        self.pattern.plug(
-            other=other,
-            map_in=map_in,
-            map_out=map_out,
-            mirrored=mirrored,
-            inherit_name=inherit_name,
-            set_rotation=set_rotation,
-            append=append,
-            )
-        return self
-
-    def place(
-            self,
-            other: Abstract | str | Pattern | TreeView,
-            *,
-            offset: ArrayLike = (0, 0),
-            rotation: float = 0,
-            pivot: ArrayLike = (0, 0),
-            mirrored: bool = False,
-            port_map: dict[str, str | None] | None = None,
-            skip_port_check: bool = False,
-            append: bool = False,
-            ) -> Self:
-        """
-        Wrapper around `Pattern.place` which allows a string or `TreeView` for `other`.
-
-        The `Builder`'s library is used to dereference the string (or `Abstract`, if
-        one is passed with `append=True`). If a `TreeView` is passed, it is first
-        added into `self.library`.
-
-        Args:
-            other: An `Abstract`, string, `Pattern`, or `TreeView` describing the
-                device to be instatiated. If it is a `TreeView`, it is first
-                added into `self.library`, after which the topcell is plugged;
-                an equivalent statement is `self.plug(self.library << other, ...)`.
-            offset: Offset at which to place the instance. Default (0, 0).
-            rotation: Rotation applied to the instance before placement. Default 0.
-            pivot: Rotation is applied around this pivot point (default (0, 0)).
-                Rotation is applied prior to translation (`offset`).
-            mirrored: Whether theinstance should be mirrored across the x axis.
-                Mirroring is applied before translation and rotation.
-            port_map: dict of `{'old_name': 'new_name'}` mappings, specifying
-                new names for ports in the instantiated device. New names can be
-                `None`, which will delete those ports.
-            skip_port_check: Can be used to skip the internal call to `check_ports`,
-                in case it has already been performed elsewhere.
-            append: If `True`, `other` is appended instead of being referenced.
-                Note that this does not flatten  `other`, so its refs will still
-                be refs (now inside `self`).
-
-        Returns:
-            self
-
-        Raises:
-            `PortError` if any ports specified in `map_in` or `map_out` do not
-                exist in `self.ports` or `other.ports`.
-            `PortError` if there are any duplicate names after `map_in` and `map_out`
-                are applied.
-        """
-        if self._dead:
-            logger.error('Skipping place() since device is dead')
-            return self
-
-        if not isinstance(other, str | Abstract | Pattern):
-            # We got a Tree; add it into self.library and grab an Abstract for it
-            other = self.library << other
-
-        if isinstance(other, str):
-            other = self.library.abstract(other)
-        if append and isinstance(other, Abstract):
-            other = self.library[other.name]
-
-        self.pattern.place(
-            other=other,
-            offset=offset,
-            rotation=rotation,
-            pivot=pivot,
-            mirrored=mirrored,
-            port_map=port_map,
-            skip_port_check=skip_port_check,
-            append=append,
-            )
-        return self
-
-    def translate(self, offset: ArrayLike) -> Self:
-        """
-        Translate the pattern and all ports.
-
-        Args:
-            offset: (x, y) distance to translate by
-
-        Returns:
-            self
-        """
-        self.pattern.translate_elements(offset)
-        return self
-
-    def rotate_around(self, pivot: ArrayLike, angle: float) -> Self:
-        """
-        Rotate the pattern and all ports.
-
-        Args:
-            angle: angle (radians, counterclockwise) to rotate by
-            pivot: location to rotate around
-
-        Returns:
-            self
-        """
-        self.pattern.rotate_around(pivot, angle)
-        for port in self.ports.values():
-            port.rotate_around(pivot, angle)
-        return self
-
-    def mirror(self, axis: int = 0) -> Self:
-        """
-        Mirror the pattern and all ports across the specified axis.
-
-        Args:
-            axis: Axis to mirror across (x=0, y=1)
-
-        Returns:
-            self
-        """
-        self.pattern.mirror(axis)
-        return self
-
-    def set_dead(self) -> Self:
-        """
-        Disallows further changes through `plug()` or `place()`.
-        This is meant for debugging:
-        ```
-            dev.plug(a, ...)
-            dev.set_dead()      # added for debug purposes
-            dev.plug(b, ...)    # usually raises an error, but now skipped
-            dev.plug(c, ...)    # also skipped
-            dev.pattern.visualize()     # shows the device as of the set_dead() call
-        ```
-
-        Returns:
-            self
-        """
-        self._dead = True
-        return self
-
-    def __repr__(self) -> str:
-        s = f'<Builder {self.pattern} L({len(self.library)})>'
-        return s
-
-

masque/builder/devices.py

@@ -0,0 +1,892 @@
+from typing import Dict, Iterable, List, Tuple, Union, TypeVar, Any, Iterator, Optional, Sequence
+from typing import overload, KeysView, ValuesView
+import copy
+import warnings
+import traceback
+import logging
+from collections import Counter
+
+import numpy
+from numpy import pi
+from numpy.typing import ArrayLike, NDArray
+
+from ..pattern import Pattern
+from ..subpattern import SubPattern
+from ..traits import PositionableImpl, Rotatable, PivotableImpl, Copyable, Mirrorable
+from ..utils import AutoSlots, rotation_matrix_2d
+from ..error import DeviceError
+from .tools import Tool
+from .utils import ell
+
+
+logger = logging.getLogger(__name__)
+
+
+P = TypeVar('P', bound='Port')
+D = TypeVar('D', bound='Device')
+O = TypeVar('O', bound='Device')
+
+
+class Port(PositionableImpl, Rotatable, PivotableImpl, Copyable, Mirrorable, metaclass=AutoSlots):
+    """
+    A point at which a `Device` can be snapped to another `Device`.
+
+    Each port has an `offset` ((x, y) position) and may also have a
+      `rotation` (orientation) and a `ptype` (port type).
+
+    The `rotation` is an angle, in radians, measured counterclockwise
+      from the +x axis, pointing inwards into the device which owns the port.
+      The rotation may be set to `None`, indicating that any orientation is
+      allowed (e.g. for a DC electrical port). It is stored modulo 2pi.
+
+    The `ptype` is an arbitrary string, default of `unk` (unknown).
+    """
+    __slots__ = ('ptype', '_rotation')
+
+    _rotation: Optional[float]
+    """ radians counterclockwise from +x, pointing into device body.
+        Can be `None` to signify undirected port """
+
+    ptype: str
+    """ Port types must match to be plugged together if both are non-zero """
+
+    def __init__(
+            self,
+            offset: ArrayLike,
+            rotation: Optional[float],
+            ptype: str = 'unk',
+            ) -> None:
+        self.offset = offset
+        self.rotation = rotation
+        self.ptype = ptype
+
+    @property
+    def rotation(self) -> Optional[float]:
+        """ Rotation, radians counterclockwise, pointing into device body. Can be None. """
+        return self._rotation
+
+    @rotation.setter
+    def rotation(self, val: float) -> None:
+        if val is None:
+            self._rotation = None
+        else:
+            if not numpy.size(val) == 1:
+                raise DeviceError('Rotation must be a scalar')
+            self._rotation = val % (2 * pi)
+
+    def get_bounds(self):
+        return numpy.vstack((self.offset, self.offset))
+
+    def set_ptype(self: P, ptype: str) -> P:
+        """ Chainable setter for `ptype` """
+        self.ptype = ptype
+        return self
+
+    def mirror(self: P, axis: int) -> P:
+        self.offset[1 - axis] *= -1
+        if self.rotation is not None:
+            self.rotation *= -1
+            self.rotation += axis * pi
+        return self
+
+    def rotate(self: P, rotation: float) -> P:
+        if self.rotation is not None:
+            self.rotation += rotation
+        return self
+
+    def set_rotation(self: P, rotation: Optional[float]) -> P:
+        self.rotation = rotation
+        return self
+
+    def __repr__(self) -> str:
+        if self.rotation is None:
+            rot = 'any'
+        else:
+            rot = str(numpy.rad2deg(self.rotation))
+        return f'<{self.offset}, {rot}, [{self.ptype}]>'
+
+
+class Device(Copyable, Mirrorable):
+    """
+    A `Device` is a combination of a `Pattern` with a set of named `Port`s
+      which can be used to "snap" devices together to make complex layouts.
+
+    `Device`s can be as simple as one or two ports (e.g. an electrical pad
+    or wire), but can also be used to build and represent a large routed
+    layout (e.g. a logical block with multiple I/O connections or even a
+    full chip).
+
+    For convenience, ports can be read out using square brackets:
+    - `device['A'] == Port((0, 0), 0)`
+    - `device[['A', 'B']] == {'A': Port((0, 0), 0), 'B': Port((0, 0), pi)}`
+
+    Examples: Creating a Device
+    ===========================
+    - `Device(pattern, ports={'A': port_a, 'C': port_c})` uses an existing
+        pattern and defines some ports.
+
+    - `Device(name='my_dev_name', ports=None)` makes a new empty pattern with
+        default ports ('A' and 'B', in opposite directions, at (0, 0)).
+
+    - `my_device.build('my_layout')` makes a new pattern and instantiates
+        `my_device` in it with offset (0, 0) as a base for further building.
+
+    - `my_device.as_interface('my_component', port_map=['A', 'B'])` makes a new
+        (empty) pattern, copies over ports 'A' and 'B' from `my_device`, and
+        creates additional ports 'in_A' and 'in_B' facing in the opposite
+        directions. This can be used to build a device which can plug into
+        `my_device` (using the 'in_*' ports) but which does not itself include
+        `my_device` as a subcomponent.
+
+    Examples: Adding to a Device
+    ============================
+    - `my_device.plug(subdevice, {'A': 'C', 'B': 'B'}, map_out={'D': 'myport'})`
+        instantiates `subdevice` into `my_device`, plugging ports 'A' and 'B'
+        of `my_device` into ports 'C' and 'B' of `subdevice`. The connected ports
+        are removed and any unconnected ports from `subdevice` are added to
+        `my_device`. Port 'D' of `subdevice` (unconnected) is renamed to 'myport'.
+
+    - `my_device.plug(wire, {'myport': 'A'})` places port 'A' of `wire` at 'myport'
+        of `my_device`. If `wire` has only two ports (e.g. 'A' and 'B'), no `map_out`,
+        argument is provided, and the `inherit_name` argument is not explicitly
+        set to `False`, the unconnected port of `wire` is automatically renamed to
+        'myport'. This allows easy extension of existing ports without changing
+        their names or having to provide `map_out` each time `plug` is called.
+
+    - `my_device.place(pad, offset=(10, 10), rotation=pi / 2, port_map={'A': 'gnd'})`
+        instantiates `pad` at the specified (x, y) offset and with the specified
+        rotation, adding its ports to those of `my_device`. Port 'A' of `pad` is
+        renamed to 'gnd' so that further routing can use this signal or net name
+        rather than the port name on the original `pad` device.
+    """
+    __slots__ = ('pattern', 'ports', 'tools', '_dead')
+
+    pattern: Pattern
+    """ Layout of this device """
+
+    ports: Dict[str, Port]
+    """ Uniquely-named ports which can be used to snap to other Device instances"""
+
+    tools: Dict[Optional[str], Tool]
+    """
+    Tool objects are used to dynamically generate new single-use Devices
+    (e.g wires or waveguides) to be plugged into this device.
+    """
+
+    _dead: bool
+    """ If True, plug()/place() are skipped (for debugging)"""
+
+    def __init__(
+            self,
+            pattern: Optional[Pattern] = None,
+            ports: Optional[Dict[str, Port]] = None,
+            *,
+            tools: Union[None, Tool, Dict[Optional[str], Tool]] = None,
+            name: Optional[str] = None,
+            ) -> None:
+        """
+        If `ports` is `None`, two default ports ('A' and 'B') are created.
+        Both are placed at (0, 0) and have default `ptype`, but 'A' has rotation 0
+          (attached devices will be placed to the left) and 'B' has rotation
+          pi (attached devices will be placed to the right).
+        """
+        if pattern is not None:
+            if name is not None:
+                raise DeviceError('Only one of `pattern` and `name` may be specified')
+            self.pattern = pattern
+        else:
+            if name is None:
+                raise DeviceError('Must specify either `pattern` or `name`')
+            self.pattern = Pattern(name=name)
+
+        if ports is None:
+            self.ports = {
+                'A': Port([0, 0], rotation=0),
+                'B': Port([0, 0], rotation=pi),
+                }
+        else:
+            self.ports = copy.deepcopy(ports)
+
+        if tools is None:
+            self.tools = {}
+        elif isinstance(tools, Tool):
+            self.tools = {None: tools}
+        else:
+            self.tools = tools
+
+        self._dead = False
+
+    @overload
+    def __getitem__(self, key: str) -> Port:
+        pass
+
+    @overload
+    def __getitem__(self, key: Union[List[str], Tuple[str, ...], KeysView[str], ValuesView[str]]) -> Dict[str, Port]:
+        pass
+
+    def __getitem__(self, key: Union[str, Iterable[str]]) -> Union[Port, Dict[str, Port]]:
+        """
+        For convenience, ports can be read out using square brackets:
+        - `device['A'] == Port((0, 0), 0)`
+        - `device[['A', 'B']] == {'A': Port((0, 0), 0),
+                                  'B': Port((0, 0), pi)}`
+        """
+        if isinstance(key, str):
+            return self.ports[key]
+        else:
+            return {k: self.ports[k] for k in key}
+
+    def rename_ports(
+            self: D,
+            mapping: Dict[str, Optional[str]],
+            overwrite: bool = False,
+            ) -> D:
+        """
+        Renames ports as specified by `mapping`.
+        Ports can be explicitly deleted by mapping them to `None`.
+
+        Args:
+            mapping: Dict of `{'old_name': 'new_name'}` pairs. Names can be mapped
+                to `None` to perform an explicit deletion. `'new_name'` can also
+                overwrite an existing non-renamed port to implicitly delete it if
+                `overwrite` is set to `True`.
+            overwrite: Allows implicit deletion of ports if set to `True`; see `mapping`.
+
+        Returns:
+            self
+        """
+        if not overwrite:
+            duplicates = (set(self.ports.keys()) - set(mapping.keys())) & set(mapping.values())
+            if duplicates:
+                raise DeviceError(f'Unrenamed ports would be overwritten: {duplicates}')
+
+        renamed = {mapping[k]: self.ports.pop(k) for k in mapping.keys()}
+        if None in renamed:
+            del renamed[None]
+
+        self.ports.update(renamed)      # type: ignore
+        return self
+
+    def check_ports(
+            self: D,
+            other_names: Iterable[str],
+            map_in: Optional[Dict[str, str]] = None,
+            map_out: Optional[Dict[str, Optional[str]]] = None,
+            ) -> D:
+        """
+        Given the provided port mappings, check that:
+            - All of the ports specified in the mappings exist
+            - There are no duplicate port names after all the mappings are performed
+
+        Args:
+            other_names: List of port names being considered for inclusion into
+                `self.ports` (before mapping)
+            map_in: Dict of `{'self_port': 'other_port'}` mappings, specifying
+                port connections between the two devices.
+            map_out: Dict of `{'old_name': 'new_name'}` mappings, specifying
+                new names for unconnected `other_names` ports.
+
+        Returns:
+            self
+
+        Raises:
+            `DeviceError` if any ports specified in `map_in` or `map_out` do not
+                exist in `self.ports` or `other_names`.
+            `DeviceError` if there are any duplicate names after `map_in` and `map_out`
+                are applied.
+        """
+        if map_in is None:
+            map_in = {}
+
+        if map_out is None:
+            map_out = {}
+
+        other = set(other_names)
+
+        missing_inkeys = set(map_in.keys()) - set(self.ports.keys())
+        if missing_inkeys:
+            raise DeviceError(f'`map_in` keys not present in device: {missing_inkeys}')
+
+        missing_invals = set(map_in.values()) - other
+        if missing_invals:
+            raise DeviceError(f'`map_in` values not present in other device: {missing_invals}')
+
+        missing_outkeys = set(map_out.keys()) - other
+        if missing_outkeys:
+            raise DeviceError(f'`map_out` keys not present in other device: {missing_outkeys}')
+
+        orig_remaining = set(self.ports.keys()) - set(map_in.keys())
+        other_remaining = other - set(map_out.keys()) - set(map_in.values())
+        mapped_vals = set(map_out.values())
+        mapped_vals.discard(None)
+
+        conflicts_final = orig_remaining & (other_remaining | mapped_vals)
+        if conflicts_final:
+            raise DeviceError(f'Device ports conflict with existing ports: {conflicts_final}')
+
+        conflicts_partial = other_remaining & mapped_vals
+        if conflicts_partial:
+            raise DeviceError(f'`map_out` targets conflict with non-mapped outputs: {conflicts_partial}')
+
+        map_out_counts = Counter(map_out.values())
+        map_out_counts[None] = 0
+        conflicts_out = {k for k, v in map_out_counts.items() if v > 1}
+        if conflicts_out:
+            raise DeviceError(f'Duplicate targets in `map_out`: {conflicts_out}')
+
+        return self
+
+    def build(self, name: str) -> 'Device':
+        """
+        Begin building a new device around an instance of the current device
+          (rather than modifying the current device).
+
+        Args:
+            name: A name for the new device
+
+        Returns:
+            The new `Device` object.
+        """
+        pat = Pattern(name)
+        pat.addsp(self.pattern)
+        new = Device(pat, ports=self.ports, tools=self.tools)
+        return new
+
+    def as_interface(
+            self,
+            name: str,
+            in_prefix: str = 'in_',
+            out_prefix: str = '',
+            port_map: Optional[Union[Dict[str, str], Sequence[str]]] = None
+            ) -> 'Device':
+        """
+        Begin building a new device based on all or some of the ports in the
+          current device. Do not include the current device; instead use it
+          to define ports (the "interface") for the new device.
+
+        The ports specified by `port_map` (default: all ports) are copied to
+          new device, and additional (input) ports are created facing in the
+          opposite directions. The specified `in_prefix` and `out_prefix` are
+          prepended to the port names to differentiate them.
+
+        By default, the flipped ports are given an 'in_' prefix and unflipped
+          ports keep their original names, enabling intuitive construction of
+          a device that will "plug into" the current device; the 'in_*' ports
+          are used for plugging the devices together while the original port
+          names are used for building the new device.
+
+        Another use-case could be to build the new device using the 'in_'
+          ports, creating a new device which could be used in place of the
+          current device.
+
+        Args:
+            name: Name for the new device
+            in_prefix: Prepended to port names for newly-created ports with
+                reversed directions compared to the current device.
+            out_prefix: Prepended to port names for ports which are directly
+                copied from the current device.
+            port_map: Specification for ports to copy into the new device:
+                - If `None`, all ports are copied.
+                - If a sequence, only the listed ports are copied
+                - If a mapping, the listed ports (keys) are copied and
+                    renamed (to the values).
+
+        Returns:
+            The new device, with an empty pattern and 2x as many ports as
+              listed in port_map.
+
+        Raises:
+            `DeviceError` if `port_map` contains port names not present in the
+                current device.
+            `DeviceError` if applying the prefixes results in duplicate port
+                names.
+        """
+        if port_map:
+            if isinstance(port_map, dict):
+                missing_inkeys = set(port_map.keys()) - set(self.ports.keys())
+                orig_ports = {port_map[k]: v for k, v in self.ports.items() if k in port_map}
+            else:
+                port_set = set(port_map)
+                missing_inkeys = port_set - set(self.ports.keys())
+                orig_ports = {k: v for k, v in self.ports.items() if k in port_set}
+
+            if missing_inkeys:
+                raise DeviceError(f'`port_map` keys not present in device: {missing_inkeys}')
+        else:
+            orig_ports = self.ports
+
+        ports_in = {f'{in_prefix}{name}': port.deepcopy().rotate(pi)
+                    for name, port in orig_ports.items()}
+        ports_out = {f'{out_prefix}{name}': port.deepcopy()
+                    for name, port in orig_ports.items()}
+
+        duplicates = set(ports_out.keys()) & set(ports_in.keys())
+        if duplicates:
+            raise DeviceError(f'Duplicate keys after prefixing, try a different prefix: {duplicates}')
+
+        new = Device(name=name, ports={**ports_in, **ports_out}, tools=self.tools)
+        return new
+
+    def plug(
+            self: D,
+            other: O,
+            map_in: Dict[str, str],
+            map_out: Optional[Dict[str, Optional[str]]] = None,
+            *,
+            mirrored: Tuple[bool, bool] = (False, False),
+            inherit_name: bool = True,
+            set_rotation: Optional[bool] = None,
+            ) -> D:
+        """
+        Instantiate the device `other` into the current device, connecting
+          the ports specified by `map_in` and renaming the unconnected
+          ports specified by `map_out`.
+
+        Examples:
+        =========
+        - `my_device.plug(subdevice, {'A': 'C', 'B': 'B'}, map_out={'D': 'myport'})`
+            instantiates `subdevice` into `my_device`, plugging ports 'A' and 'B'
+            of `my_device` into ports 'C' and 'B' of `subdevice`. The connected ports
+            are removed and any unconnected ports from `subdevice` are added to
+            `my_device`. Port 'D' of `subdevice` (unconnected) is renamed to 'myport'.
+
+        - `my_device.plug(wire, {'myport': 'A'})` places port 'A' of `wire` at 'myport'
+            of `my_device`. If `wire` has only two ports (e.g. 'A' and 'B'), no `map_out`,
+            argument is provided, and the `inherit_name` argument is not explicitly
+            set to `False`, the unconnected port of `wire` is automatically renamed to
+            'myport'. This allows easy extension of existing ports without changing
+            their names or having to provide `map_out` each time `plug` is called.
+
+        Args:
+            other: A device to instantiate into the current device.
+            map_in: Dict of `{'self_port': 'other_port'}` mappings, specifying
+                port connections between the two devices.
+            map_out: Dict of `{'old_name': 'new_name'}` mappings, specifying
+                new names for ports in `other`.
+            mirrored: Enables mirroring `other` across the x or y axes prior
+                to connecting any ports.
+            inherit_name: If `True`, and `map_in` specifies only a single port,
+                and `map_out` is `None`, and `other` has only two ports total,
+                then automatically renames the output port of `other` to the
+                name of the port from `self` that appears in `map_in`. This
+                makes it easy to extend a device with simple 2-port devices
+                (e.g. wires) without providing `map_out` each time `plug` is
+                called. See "Examples" above for more info. Default `True`.
+            set_rotation: If the necessary rotation cannot be determined from
+                the ports being connected (i.e. all pairs have at least one
+                port with `rotation=None`), `set_rotation` must be provided
+                to indicate how much `other` should be rotated. Otherwise,
+                `set_rotation` must remain `None`.
+
+        Returns:
+            self
+
+        Raises:
+            `DeviceError` if any ports specified in `map_in` or `map_out` do not
+                exist in `self.ports` or `other_names`.
+            `DeviceError` if there are any duplicate names after `map_in` and `map_out`
+                are applied.
+            `DeviceError` if the specified port mapping is not achieveable (the ports
+                do not line up)
+        """
+        if self._dead:
+            logger.error('Skipping plug() since device is dead')
+            return self
+
+        if (inherit_name
+                and not map_out
+                and len(map_in) == 1
+                and len(other.ports) == 2):
+            out_port_name = next(iter(set(other.ports.keys()) - set(map_in.values())))
+            map_out = {out_port_name: next(iter(map_in.keys()))}
+
+        if map_out is None:
+            map_out = {}
+        map_out = copy.deepcopy(map_out)
+
+        self.check_ports(other.ports.keys(), map_in, map_out)
+        translation, rotation, pivot = self.find_transform(other, map_in, mirrored=mirrored,
+                                                           set_rotation=set_rotation)
+
+        # get rid of plugged ports
+        for ki, vi in map_in.items():
+            del self.ports[ki]
+            map_out[vi] = None
+
+        self.place(other, offset=translation, rotation=rotation, pivot=pivot,
+                   mirrored=mirrored, port_map=map_out, skip_port_check=True)
+        return self
+
+    def place(
+            self: D,
+            other: O,
+            *,
+            offset: ArrayLike = (0, 0),
+            rotation: float = 0,
+            pivot: ArrayLike = (0, 0),
+            mirrored: Tuple[bool, bool] = (False, False),
+            port_map: Optional[Dict[str, Optional[str]]] = None,
+            skip_port_check: bool = False,
+            ) -> D:
+        """
+        Instantiate the device `other` into the current device, adding its
+          ports to those of the current device (but not connecting any ports).
+
+        Mirroring is applied before rotation; translation (`offset`) is applied last.
+
+        Examples:
+        =========
+        - `my_device.place(pad, offset=(10, 10), rotation=pi / 2, port_map={'A': 'gnd'})`
+            instantiates `pad` at the specified (x, y) offset and with the specified
+            rotation, adding its ports to those of `my_device`. Port 'A' of `pad` is
+            renamed to 'gnd' so that further routing can use this signal or net name
+            rather than the port name on the original `pad` device.
+
+        Args:
+            other: A device to instantiate into the current device.
+            offset: Offset at which to place `other`. Default (0, 0).
+            rotation: Rotation applied to `other` before placement. Default 0.
+            pivot: Rotation is applied around this pivot point (default (0, 0)).
+                Rotation is applied prior to translation (`offset`).
+            mirrored: Whether `other` should be mirrored across the x and y axes.
+                Mirroring is applied before translation and rotation.
+            port_map: Dict of `{'old_name': 'new_name'}` mappings, specifying
+                new names for ports in `other`. New names can be `None`, which will
+                delete those ports.
+            skip_port_check: Can be used to skip the internal call to `check_ports`,
+                in case it has already been performed elsewhere.
+
+        Returns:
+            self
+
+        Raises:
+            `DeviceError` if any ports specified in `map_in` or `map_out` do not
+                exist in `self.ports` or `other_names`.
+            `DeviceError` if there are any duplicate names after `map_in` and `map_out`
+                are applied.
+        """
+        if self._dead:
+            logger.error('Skipping place() since device is dead')
+            return self
+
+        if port_map is None:
+            port_map = {}
+
+        if not skip_port_check:
+            self.check_ports(other.ports.keys(), map_in=None, map_out=port_map)
+
+        ports = {}
+        for name, port in other.ports.items():
+            new_name = port_map.get(name, name)
+            if new_name is None:
+                continue
+            ports[new_name] = port
+
+        for name, port in ports.items():
+            p = port.deepcopy()
+            p.mirror2d(mirrored)
+            p.rotate_around(pivot, rotation)
+            p.translate(offset)
+            self.ports[name] = p
+
+        sp = SubPattern(other.pattern, mirrored=mirrored)
+        sp.rotate_around(pivot, rotation)
+        sp.translate(offset)
+        self.pattern.subpatterns.append(sp)
+        return self
+
+    def find_transform(
+            self: D,
+            other: O,
+            map_in: Dict[str, str],
+            *,
+            mirrored: Tuple[bool, bool] = (False, False),
+            set_rotation: Optional[bool] = None,
+            ) -> Tuple[NDArray[numpy.float64], float, NDArray[numpy.float64]]:
+        """
+        Given a device `other` and a mapping `map_in` specifying port connections,
+          find the transform which will correctly align the specified ports.
+
+        Args:
+            other: a device
+            map_in: Dict of `{'self_port': 'other_port'}` mappings, specifying
+                port connections between the two devices.
+            mirrored: Mirrors `other` across the x or y axes prior to
+                connecting any ports.
+            set_rotation: If the necessary rotation cannot be determined from
+                the ports being connected (i.e. all pairs have at least one
+                port with `rotation=None`), `set_rotation` must be provided
+                to indicate how much `other` should be rotated. Otherwise,
+                `set_rotation` must remain `None`.
+
+        Returns:
+            - The (x, y) translation (performed last)
+            - The rotation (radians, counterclockwise)
+            - The (x, y) pivot point for the rotation
+
+            The rotation should be performed before the translation.
+        """
+        s_ports = self[map_in.keys()]
+        o_ports = other[map_in.values()]
+
+        s_offsets = numpy.array([p.offset for p in s_ports.values()])
+        o_offsets = numpy.array([p.offset for p in o_ports.values()])
+        s_types = [p.ptype for p in s_ports.values()]
+        o_types = [p.ptype for p in o_ports.values()]
+
+        s_rotations = numpy.array([p.rotation if p.rotation is not None else 0 for p in s_ports.values()])
+        o_rotations = numpy.array([p.rotation if p.rotation is not None else 0 for p in o_ports.values()])
+        s_has_rot = numpy.array([p.rotation is not None for p in s_ports.values()], dtype=bool)
+        o_has_rot = numpy.array([p.rotation is not None for p in o_ports.values()], dtype=bool)
+        has_rot = s_has_rot & o_has_rot
+
+        if mirrored[0]:
+            o_offsets[:, 1] *= -1
+            o_rotations *= -1
+        if mirrored[1]:
+            o_offsets[:, 0] *= -1
+            o_rotations *= -1
+            o_rotations += pi
+
+        type_conflicts = numpy.array([st != ot and st != 'unk' and ot != 'unk'
+                                      for st, ot in zip(s_types, o_types)])
+        if type_conflicts.any():
+            ports = numpy.where(type_conflicts)
+            msg = 'Ports have conflicting types:\n'
+            for nn, (k, v) in enumerate(map_in.items()):
+                if type_conflicts[nn]:
+                    msg += f'{k} | {s_types[nn]}:{o_types[nn]} | {v}\n'
+            msg = ''.join(traceback.format_stack()) + '\n' + msg
+            warnings.warn(msg, stacklevel=2)
+
+        rotations = numpy.mod(s_rotations - o_rotations - pi, 2 * pi)
+        if not has_rot.any():
+            if set_rotation is None:
+                DeviceError('Must provide set_rotation if rotation is indeterminate')
+            rotations[:] = set_rotation
+        else:
+            rotations[~has_rot] = rotations[has_rot][0]
+
+        if not numpy.allclose(rotations[:1], rotations):
+            rot_deg = numpy.rad2deg(rotations)
+            msg = f'Port orientations do not match:\n'
+            for nn, (k, v) in enumerate(map_in.items()):
+                msg += f'{k} | {rot_deg[nn]:g} | {v}\n'
+            raise DeviceError(msg)
+
+        pivot = o_offsets[0].copy()
+        rotate_offsets_around(o_offsets, pivot, rotations[0])
+        translations = s_offsets - o_offsets
+        if not numpy.allclose(translations[:1], translations):
+            msg = f'Port translations do not match:\n'
+            for nn, (k, v) in enumerate(map_in.items()):
+                msg += f'{k} | {translations[nn]} | {v}\n'
+            raise DeviceError(msg)
+
+        return translations[0], rotations[0], o_offsets[0]
+
+    def translate(self: D, offset: ArrayLike) -> D:
+        """
+        Translate the pattern and all ports.
+
+        Args:
+            offset: (x, y) distance to translate by
+
+        Returns:
+            self
+        """
+        self.pattern.translate_elements(offset)
+        for port in self.ports.values():
+            port.translate(offset)
+        return self
+
+    def rotate_around(self: D, pivot: ArrayLike, angle: float) -> D:
+        """
+        Translate the pattern and all ports.
+
+        Args:
+            offset: (x, y) distance to translate by
+
+        Returns:
+            self
+        """
+        self.pattern.rotate_around(pivot, angle)
+        for port in self.ports.values():
+            port.rotate_around(pivot, angle)
+        return self
+
+    def mirror(self: D, axis: int) -> D:
+        """
+        Translate the pattern and all ports across the specified axis.
+
+        Args:
+            axis: Axis to mirror across (x=0, y=1)
+
+        Returns:
+            self
+        """
+        self.pattern.mirror(axis)
+        for p in self.ports.values():
+            p.mirror(axis)
+        return self
+
+    def set_dead(self: D) -> D:
+        """
+        Disallows further changes through `plug()` or `place()`.
+        This is meant for debugging:
+        ```
+            dev.plug(a, ...)
+            dev.set_dead()      # added for debug purposes
+            dev.plug(b, ...)    # usually raises an error, but now skipped
+            dev.plug(c, ...)    # also skipped
+            dev.pattern.visualize()     # shows the device as of the set_dead() call
+        ```
+
+        Returns:
+            self
+        """
+        self._dead = True
+        return self
+
+    def rename(self: D, name: str) -> D:
+        """
+        Renames the pattern and returns the device
+
+        Args:
+            name: The new name
+
+        Returns:
+            self
+        """
+        self.pattern.name = name
+        return self
+
+    def __repr__(self) -> str:
+        s = f'<Device {self.pattern} ['
+        for name, port in self.ports.items():
+            s += f'\n\t{name}: {port}'
+        s += ']>'
+        return s
+
+    def retool(
+            self: D,
+            tool: Tool,
+            keys: Union[Optional[str], Sequence[Optional[str]]] = None,
+            ) -> D:
+        if keys is None or isinstance(keys, str):
+            self.tools[keys] = tool
+        else:
+            for key in keys:
+                self.tools[key] = tool
+        return self
+
+    def path(
+            self: D,
+            portspec: str,
+            ccw: Optional[bool],
+            length: float,
+            *,
+            tool_port_names: Sequence[str] = ('A', 'B'),
+            **kwargs,
+            ) -> D:
+        if self._dead:
+            logger.error('Skipping path() since device is dead')
+            return self
+
+        tool = self.tools.get(portspec, self.tools[None])
+        in_ptype = self.ports[portspec].ptype
+        dev = tool.path(ccw, length, in_ptype=in_ptype, port_names=tool_port_names, **kwargs)
+        return self.plug(dev, {portspec: tool_port_names[0]})
+
+    def path_to(
+            self: D,
+            portspec: str,
+            ccw: Optional[bool],
+            position: float,
+            *,
+            tool_port_names: Sequence[str] = ('A', 'B'),
+            **kwargs,
+            ) -> D:
+        if self._dead:
+            logger.error('Skipping path_to() since device is dead')
+            return self
+
+        port = self.ports[portspec]
+        x, y = port.offset
+        if port.rotation is None:
+            raise DeviceError(f'Port {portspec} has no rotation and cannot be used for path_to()')
+
+        if not numpy.isclose(port.rotation % (pi / 2), 0):
+            raise DeviceError('path_to was asked to route from non-manhattan port')
+
+        is_horizontal = numpy.isclose(port.rotation % pi, 0)
+        if is_horizontal:
+            if numpy.sign(numpy.cos(port.rotation)) == numpy.sign(position - x):
+                raise DeviceError(f'path_to routing to behind source port: x={x:g} to {position:g}')
+            length = numpy.abs(position - x)
+        else:
+            if numpy.sign(numpy.sin(port.rotation)) == numpy.sign(position - y):
+                raise DeviceError(f'path_to routing to behind source port: y={y:g} to {position:g}')
+            length = numpy.abs(position - y)
+
+        return self.path(portspec, ccw, length, tool_port_names=tool_port_names, **kwargs)
+
+    def busL(
+            self: D,
+            portspec: Union[str, Sequence[str]],
+            ccw: Optional[bool],
+            *,
+            spacing: Optional[Union[float, ArrayLike]] = None,
+            set_rotation: Optional[float] = None,
+            tool_port_names: Sequence[str] = ('A', 'B'),
+            container_name: str = '_busL',
+            force_container: bool = False,
+            **kwargs,
+            ) -> D:
+        if self._dead:
+            logger.error('Skipping busL() since device is dead')
+            return self
+
+        bound_types = set()
+        if 'bound_type' in kwargs:
+            bound_types.add(kwargs['bound_type'])
+            bound = kwargs['bound']
+        for bt in ('emin', 'emax', 'pmin', 'pmax', 'min_past_furthest'):
+            if bt in kwargs:
+                bound_types.add(bt)
+                bound = kwargs[bt]
+
+        if not bound_types:
+            raise DeviceError('No bound type specified for busL')
+        elif len(bound_types) > 1:
+            raise DeviceError(f'Too many bound types specified for busL: {bound_types}')
+        bound_type = tuple(bound_types)[0]
+
+        if isinstance(portspec, str):
+            portspec = [portspec]
+        ports = self[tuple(portspec)]
+
+        extensions = ell(ports, ccw, spacing=spacing, bound=bound, bound_type=bound_type, set_rotation=set_rotation)
+
+        if len(ports) == 1 and not force_container:
+            # Not a bus, so having a container just adds noise to the layout
+            port_name = tuple(portspec)[0]
+            return self.path(port_name, ccw, extensions[port_name], tool_port_names=tool_port_names)
+        else:
+            dev = Device(name='', ports=ports, tools=self.tools).as_interface(container_name)
+            for name, length in extensions.items():
+                dev.path(name, ccw, length, tool_port_names=tool_port_names)
+            return self.plug(dev, {sp: 'in_' + sp for sp in ports.keys()})       # TODO safe to use 'in_'?
+
+    # TODO def path_join() and def bus_join()?
+
+
+def rotate_offsets_around(
+        offsets: NDArray[numpy.float64],
+        pivot: NDArray[numpy.float64],
+        angle: float,
+        ) -> NDArray[numpy.float64]:
+    offsets -= pivot
+    offsets[:] = (rotation_matrix_2d(angle) @ offsets.T).T
+    offsets += pivot
+    return offsets

masque/builder/pather.py

@@ -1,694 +0,0 @@
-"""
-Manual wire/waveguide routing (`Pather`)
-"""
-from typing import Self
-from collections.abc import Sequence, MutableMapping, Mapping
-import copy
-import logging
-from pprint import pformat
-
-import numpy
-from numpy import pi
-from numpy.typing import ArrayLike
-
-from ..pattern import Pattern
-from ..library import ILibrary, SINGLE_USE_PREFIX
-from ..error import PortError, BuildError
-from ..ports import PortList, Port
-from ..abstract import Abstract
-from ..utils import SupportsBool, rotation_matrix_2d
-from .tools import Tool
-from .utils import ell
-from .builder import Builder
-
-
-logger = logging.getLogger(__name__)
-
-
-class Pather(Builder):
-    """
-      An extension of `Builder` which provides functionality for routing and attaching
-    single-use patterns (e.g. wires or waveguides) and bundles / buses of such patterns.
-
-      `Pather` is mostly concerned with calculating how long each wire should be. It calls
-    out to `Tool.path` functions provided by subclasses of `Tool` to build the actual patterns.
-    `Tool`s are assigned on a per-port basis and stored in `.tools`; a key of `None` represents
-    a "default" `Tool` used for all ports which do not have a port-specific `Tool` assigned.
-
-
-    Examples: Creating a Pather
-    ===========================
-    - `Pather(library, tools=my_tool)` makes an empty pattern with no ports. The pattern
-        is not added into `library` and must later be added with e.g.
-        `library['mypat'] = pather.pattern`.
-        The default wire/waveguide generating tool for all ports is set to `my_tool`.
-
-    - `Pather(library, ports={'in': Port(...), 'out': ...}, name='mypat', tools=my_tool)`
-        makes an empty pattern, adds the given ports, and places it into `library`
-        under the name `'mypat'`. The default wire/waveguide generating tool
-        for all ports is set to `my_tool`
-
-    - `Pather(..., tools={'in': top_metal_40um, 'out': bottom_metal_1um, None: my_tool})`
-        assigns specific tools to individual ports, and `my_tool` as a default for ports
-        which are not specified.
-
-    - `Pather.interface(other_pat, port_map=['A', 'B'], library=library, tools=my_tool)`
-        makes a new (empty) pattern, copies over ports 'A' and 'B' from
-        `other_pat`, and creates additional ports 'in_A' and 'in_B' facing
-        in the opposite directions. This can be used to build a device which
-        can plug into `other_pat` (using the 'in_*' ports) but which does not
-        itself include `other_pat` as a subcomponent.
-
-    - `Pather.interface(other_pather, ...)` does the same thing as
-        `Builder.interface(other_builder.pattern, ...)` but also uses
-        `other_builder.library` as its library by default.
-
-
-    Examples: Adding to a pattern
-    =============================
-    - `pather.path('my_port', ccw=True, distance)` creates a "wire" for which the output
-        port is `distance` units away along the axis of `'my_port'` and rotated 90 degrees
-        counterclockwise (since `ccw=True`) relative to `'my_port'`. The wire is `plug`ged
-        into the existing `'my_port'`, causing the port to move to the wire's output.
-
-        There is no formal guarantee about how far off-axis the output will be located;
-        there may be a significant width to the bend that is used to accomplish the 90 degree
-        turn. However, an error is raised if `distance` is too small to fit the bend.
-
-    - `pather.path('my_port', ccw=None, distance)` creates a straight wire with a length
-        of `distance` and `plug`s it into `'my_port'`.
-
-    - `pather.path_to('my_port', ccw=False, position)` creates a wire which starts at
-        `'my_port'` and has its output at the specified `position`, pointing 90 degrees
-        clockwise relative to the input. Again, the off-axis position or distance to the
-        output is not specified, so `position` takes the form of a single coordinate. To
-        ease debugging, position may be specified as `x=position` or `y=position` and an
-        error will be raised if the wrong coordinate is given.
-
-    - `pather.mpath(['A', 'B', 'C'], ..., spacing=spacing)` is a superset of `path`
-        and `path_to` which can act on multiple ports simultaneously. Each port's wire is
-        generated using its own `Tool` (or the default tool if left unspecified).
-        The output ports are spaced out by `spacing` along the input ports' axis, unless
-        `ccw=None` is specified (i.e. no bends) in which case they all end at the same
-        destination coordinate.
-
-    - `pather.plug(wire, {'myport': 'A'})` places port 'A' of `wire` at 'myport'
-        of `pather.pattern`. If `wire` has only two ports (e.g. 'A' and 'B'), no `map_out`,
-        argument is provided, and the `inherit_name` argument is not explicitly
-        set to `False`, the unconnected port of `wire` is automatically renamed to
-        'myport'. This allows easy extension of existing ports without changing
-        their names or having to provide `map_out` each time `plug` is called.
-
-    - `pather.place(pad, offset=(10, 10), rotation=pi / 2, port_map={'A': 'gnd'})`
-        instantiates `pad` at the specified (x, y) offset and with the specified
-        rotation, adding its ports to those of `pather.pattern`. Port 'A' of `pad` is
-        renamed to 'gnd' so that further routing can use this signal or net name
-        rather than the port name on the original `pad` device.
-
-    - `pather.retool(tool)` or `pather.retool(tool, ['in', 'out', None])` can change
-        which tool is used for the given ports (or as the default tool). Useful
-        when placing vias or using multiple waveguide types along a route.
-    """
-    __slots__ = ('tools',)
-
-    library: ILibrary
-    """
-    Library from which existing patterns should be referenced, and to which
-    new ones should be added
-    """
-
-    tools: dict[str | None, Tool]
-    """
-    Tool objects are used to dynamically generate new single-use `Pattern`s
-    (e.g wires or waveguides) to be plugged into this device. A key of `None`
-    indicates the default `Tool`.
-    """
-
-    def __init__(
-            self,
-            library: ILibrary,
-            *,
-            pattern: Pattern | None = None,
-            ports: str | Mapping[str, Port] | None = None,
-            tools: Tool | MutableMapping[str | None, Tool] | None = None,
-            name: str | None = None,
-            ) -> None:
-        """
-        Args:
-            library: The library from which referenced patterns will be taken,
-                and where new patterns (e.g. generated by the `tools`) will be placed.
-            pattern: The pattern which will be modified by subsequent operations.
-                If `None` (default), a new pattern is created.
-            ports: Allows specifying the initial set of ports, if `pattern` does
-                not already have any ports (or is not provided). May be a string,
-                in which case it is interpreted as a name in `library`.
-                Default `None` (no ports).
-            tools: A mapping of {port: tool} which specifies what `Tool` should be used
-                to generate waveguide or wire segments when `path`/`path_to`/`mpath`
-                are called. Relies on `Tool.path` implementations.
-            name: If specified, `library[name]` is set to `self.pattern`.
-        """
-        self._dead = False
-        self.library = library
-        if pattern is not None:
-            self.pattern = pattern
-        else:
-            self.pattern = Pattern()
-
-        if ports is not None:
-            if self.pattern.ports:
-                raise BuildError('Ports supplied for pattern with pre-existing ports!')
-            if isinstance(ports, str):
-                ports = library.abstract(ports).ports
-
-            self.pattern.ports.update(copy.deepcopy(dict(ports)))
-
-        if name is not None:
-            library[name] = self.pattern
-
-        if tools is None:
-            self.tools = {}
-        elif isinstance(tools, Tool):
-            self.tools = {None: tools}
-        else:
-            self.tools = dict(tools)
-
-    @classmethod
-    def from_builder(
-            cls: type['Pather'],
-            builder: Builder,
-            *,
-            tools: Tool | MutableMapping[str | None, Tool] | None = None,
-            ) -> 'Pather':
-        """
-        Construct a `Pather` by adding tools to a `Builder`.
-
-        Args:
-            builder: Builder to turn into a Pather
-            tools: Tools for the `Pather`
-
-        Returns:
-            A new Pather object, using `builder.library` and `builder.pattern`.
-        """
-        new = Pather(library=builder.library, tools=tools, pattern=builder.pattern)
-        return new
-
-    @classmethod
-    def interface(
-            cls: type['Pather'],
-            source: PortList | Mapping[str, Port] | str,
-            *,
-            library: ILibrary | None = None,
-            tools: Tool | MutableMapping[str | None, Tool] | None = None,
-            in_prefix: str = 'in_',
-            out_prefix: str = '',
-            port_map: dict[str, str] | Sequence[str] | None = None,
-            name: str | None = None,
-            ) -> 'Pather':
-        """
-        Wrapper for `Pattern.interface()`, which returns a Pather instead.
-
-        Args:
-            source: A collection of ports (e.g. Pattern, Builder, or dict)
-                from which to create the interface. May be a pattern name if
-                `library` is provided.
-            library: Library from which existing patterns should be referenced,
-                and to which the new one should be added (if named). If not provided,
-                `source.library` must exist and will be used.
-            tools: `Tool`s which will be used by the pather for generating new wires
-                or waveguides (via `path`/`path_to`/`mpath`).
-            in_prefix: Prepended to port names for newly-created ports with
-                reversed directions compared to the current device.
-            out_prefix: Prepended to port names for ports which are directly
-                copied from the current device.
-            port_map: Specification for ports to copy into the new device:
-                - If `None`, all ports are copied.
-                - If a sequence, only the listed ports are copied
-                - If a mapping, the listed ports (keys) are copied and
-                    renamed (to the values).
-
-        Returns:
-            The new pather, with an empty pattern and 2x as many ports as
-              listed in port_map.
-
-        Raises:
-            `PortError` if `port_map` contains port names not present in the
-                current device.
-            `PortError` if applying the prefixes results in duplicate port
-                names.
-        """
-        if library is None:
-            if hasattr(source, 'library') and isinstance(source.library, ILibrary):
-                library = source.library
-            else:
-                raise BuildError('No library provided (and not present in `source.library`')
-
-        if tools is None and hasattr(source, 'tools') and isinstance(source.tools, dict):
-            tools = source.tools
-
-        if isinstance(source, str):
-            source = library.abstract(source).ports
-
-        pat = Pattern.interface(source, in_prefix=in_prefix, out_prefix=out_prefix, port_map=port_map)
-        new = Pather(library=library, pattern=pat, name=name, tools=tools)
-        return new
-
-    def __repr__(self) -> str:
-        s = f'<Pather {self.pattern} L({len(self.library)}) {pformat(self.tools)}>'
-        return s
-
-    def retool(
-            self,
-            tool: Tool,
-            keys: str | Sequence[str | None] | None = None,
-            ) -> Self:
-        """
-        Update the `Tool` which will be used when generating `Pattern`s for the ports
-        given by `keys`.
-
-        Args:
-            tool: The new `Tool` to use for the given ports.
-            keys: Which ports the tool should apply to. `None` indicates the default tool,
-                used when there is no matching entry in `self.tools` for the port in question.
-
-        Returns:
-            self
-        """
-        if keys is None or isinstance(keys, str):
-            self.tools[keys] = tool
-        else:
-            for key in keys:
-                self.tools[key] = tool
-        return self
-
-    def path(
-            self,
-            portspec: str,
-            ccw: SupportsBool | None,
-            length: float,
-            *,
-            tool_port_names: tuple[str, str] = ('A', 'B'),
-            plug_into: str | None = None,
-            **kwargs,
-            ) -> Self:
-        """
-        Create a "wire"/"waveguide" and `plug` it into the port `portspec`, with the aim
-        of traveling exactly `length` distance.
-
-        The wire will travel `length` distance along the port's axis, an an unspecified
-        (tool-dependent) distance in the perpendicular direction. The output port will
-        be rotated (or not) based on the `ccw` parameter.
-
-        Args:
-            portspec: The name of the port into which the wire will be plugged.
-            ccw: If `None`, the output should be along the same axis as the input.
-                Otherwise, cast to bool and turn counterclockwise if True
-                and clockwise otherwise.
-            length: The total distance from input to output, along the input's axis only.
-                (There may be a tool-dependent offset along the other axis.)
-            tool_port_names: The names of the ports on the generated pattern. It is unlikely
-                that you will need to change these. The first port is the input (to be
-                connected to `portspec`).
-            plug_into: If not None, attempts to plug the wire's output port into the provided
-                port on `self`.
-
-        Returns:
-            self
-
-        Raises:
-            BuildError if `distance` is too small to fit the bend (if a bend is present).
-            LibraryError if no valid name could be picked for the pattern.
-        """
-        if self._dead:
-            logger.error('Skipping path() since device is dead')
-            return self
-
-        tool = self.tools.get(portspec, self.tools[None])
-        in_ptype = self.pattern[portspec].ptype
-        tree = tool.path(ccw, length, in_ptype=in_ptype, port_names=tool_port_names, **kwargs)
-        abstract = self.library << tree
-        if plug_into is not None:
-            output = {plug_into: tool_port_names[1]}
-        else:
-            output = {}
-        return self.plug(abstract, {portspec: tool_port_names[0], **output})
-
-    def path_to(
-            self,
-            portspec: str,
-            ccw: SupportsBool | None,
-            position: float | None = None,
-            *,
-            x: float | None = None,
-            y: float | None = None,
-            tool_port_names: tuple[str, str] = ('A', 'B'),
-            plug_into: str | None = None,
-            **kwargs,
-            ) -> Self:
-        """
-        Create a "wire"/"waveguide" and `plug` it into the port `portspec`, with the aim
-        of ending exactly at a target position.
-
-        The wire will travel so that the output port will be placed at exactly the target
-        position along the input port's axis. There can be an unspecified (tool-dependent)
-        offset in the perpendicular direction. The output port will be rotated (or not)
-        based on the `ccw` parameter.
-
-        Args:
-            portspec: The name of the port into which the wire will be plugged.
-            ccw: If `None`, the output should be along the same axis as the input.
-                Otherwise, cast to bool and turn counterclockwise if True
-                and clockwise otherwise.
-            position: The final port position, along the input's axis only.
-                (There may be a tool-dependent offset along the other axis.)
-                Only one of `position`, `x`, and `y` may be specified.
-            x: The final port position along the x axis.
-                `portspec` must refer to a horizontal port if `x` is passed, otherwise a
-                BuildError will be raised.
-            y: The final port position along the y axis.
-                `portspec` must refer to a vertical port if `y` is passed, otherwise a
-                BuildError will be raised.
-            tool_port_names: The names of the ports on the generated pattern. It is unlikely
-                that you will need to change these. The first port is the input (to be
-                connected to `portspec`).
-            plug_into: If not None, attempts to plug the wire's output port into the provided
-                port on `self`.
-
-        Returns:
-            self
-
-        Raises:
-            BuildError if `position`, `x`, or `y` is too close to fit the bend (if a bend
-                is present).
-            BuildError if `x` or `y` is specified but does not match the axis of `portspec`.
-            BuildError if more than one of `x`, `y`, and `position` is specified.
-        """
-        if self._dead:
-            logger.error('Skipping path_to() since device is dead')
-            return self
-
-        pos_count = sum(vv is not None for vv in (position, x, y))
-        if pos_count > 1:
-            raise BuildError('Only one of `position`, `x`, and `y` may be specified at once')
-        if pos_count < 1:
-            raise BuildError('One of `position`, `x`, and `y` must be specified')
-
-        port = self.pattern[portspec]
-        if port.rotation is None:
-            raise PortError(f'Port {portspec} has no rotation and cannot be used for path_to()')
-
-        if not numpy.isclose(port.rotation % (pi / 2), 0):
-            raise BuildError('path_to was asked to route from non-manhattan port')
-
-        is_horizontal = numpy.isclose(port.rotation % pi, 0)
-        if is_horizontal:
-            if y is not None:
-                raise BuildError('Asked to path to y-coordinate, but port is horizontal')
-            if position is None:
-                position = x
-        else:
-            if x is not None:
-                raise BuildError('Asked to path to x-coordinate, but port is vertical')
-            if position is None:
-                position = y
-
-        x0, y0 = port.offset
-        if is_horizontal:
-            if numpy.sign(numpy.cos(port.rotation)) == numpy.sign(position - x0):
-                raise BuildError(f'path_to routing to behind source port: x0={x0:g} to {position:g}')
-            length = numpy.abs(position - x0)
-        else:
-            if numpy.sign(numpy.sin(port.rotation)) == numpy.sign(position - y0):
-                raise BuildError(f'path_to routing to behind source port: y0={y0:g} to {position:g}')
-            length = numpy.abs(position - y0)
-
-        return self.path(
-            portspec,
-            ccw,
-            length,
-            tool_port_names=tool_port_names,
-            plug_into=plug_into,
-            **kwargs,
-            )
-
-    def path_into(
-            self,
-            portspec_src: str,
-            portspec_dst: str,
-            *,
-            tool_port_names: tuple[str, str] = ('A', 'B'),
-            out_ptype: str | None = None,
-            plug_destination: bool = True,
-            **kwargs,
-            ) -> Self:
-        """
-        Create a "wire"/"waveguide" and traveling between the ports `portspec_src` and
-        `portspec_dst`, and `plug` it into both (or just the source port).
-
-        Only unambiguous scenarios are allowed:
-            - Straight connector between facing ports
-            - Single 90 degree bend
-            - Jog between facing ports
-                (jog is done as late as possible, i.e. only 2 L-shaped segments are used)
-
-        By default, the destination's `pytpe` will be used as the `out_ptype` for the
-        wire, and the `portspec_dst` will be plugged (i.e. removed).
-
-        Args:
-            portspec_src: The name of the starting port into which the wire will be plugged.
-            portspec_dst: The name of the destination port.
-            tool_port_names: The names of the ports on the generated pattern. It is unlikely
-                that you will need to change these. The first port is the input (to be
-                connected to `portspec`).
-            out_ptype: Passed to the pathing tool in order to specify the desired port type
-                to be generated at the destination end. If `None` (default), the destination
-                port's `ptype` will be used.
-
-        Returns:
-            self
-
-        Raises:
-            PortError if either port does not have a specified rotation.
-            BuildError if and invalid port config is encountered:
-                - Non-manhattan ports
-                - U-bend
-                - Destination too close to (or behind) source
-        """
-        if self._dead:
-            logger.error('Skipping path_into() since device is dead')
-            return self
-
-        port_src = self.pattern[portspec_src]
-        port_dst = self.pattern[portspec_dst]
-
-        if out_ptype is None:
-            out_ptype = port_dst.ptype
-
-        if port_src.rotation is None:
-            raise PortError(f'Port {portspec_src} has no rotation and cannot be used for path_into()')
-        if port_dst.rotation is None:
-            raise PortError(f'Port {portspec_dst} has no rotation and cannot be used for path_into()')
-
-        if not numpy.isclose(port_src.rotation % (pi / 2), 0):
-            raise BuildError('path_into was asked to route from non-manhattan port')
-        if not numpy.isclose(port_dst.rotation % (pi / 2), 0):
-            raise BuildError('path_into was asked to route to non-manhattan port')
-
-        src_is_horizontal = numpy.isclose(port_src.rotation % pi, 0)
-        dst_is_horizontal = numpy.isclose(port_dst.rotation % pi, 0)
-        xs, ys = port_src.offset
-        xd, yd = port_dst.offset
-
-        angle = (port_dst.rotation - port_src.rotation) % (2 * pi)
-
-        src_ne = port_src.rotation % (2 * pi) > (3 * pi / 4)     # path from src will go north or east
-
-        def get_jog(ccw: SupportsBool, length: float) -> float:
-            tool = self.tools.get(portspec_src, self.tools[None])
-            in_ptype = 'unk'   # Could use port_src.ptype, but we're assuming this is after one bend already...
-            tree2 = tool.path(ccw, length, in_ptype=in_ptype, port_names=('A', 'B'), out_ptype=out_ptype, **kwargs)
-            top2 = tree2.top_pattern()
-            jog = rotation_matrix_2d(top2['A'].rotation) @ (top2['B'].offset - top2['A'].offset)
-            return jog[1]
-
-        dst_extra_args = {'out_ptype': out_ptype}
-        if plug_destination:
-            dst_extra_args['plug_into'] = portspec_dst
-
-        src_args = {**kwargs, 'tool_port_names': tool_port_names}
-        dst_args = {**src_args, **dst_extra_args}
-        if src_is_horizontal and not dst_is_horizontal:
-            # single bend should suffice
-            self.path_to(portspec_src, angle > pi, x=xd, **src_args)
-            self.path_to(portspec_src, None, y=yd, **dst_args)
-        elif dst_is_horizontal and not src_is_horizontal:
-            # single bend should suffice
-            self.path_to(portspec_src, angle > pi, y=yd, **src_args)
-            self.path_to(portspec_src, None, x=xd, **dst_args)
-        elif numpy.isclose(angle, pi):
-            if src_is_horizontal and ys == yd:
-                # straight connector
-                self.path_to(portspec_src, None, x=xd, **dst_args)
-            elif not src_is_horizontal and xs == xd:
-                # straight connector
-                self.path_to(portspec_src, None, y=yd, **dst_args)
-            elif src_is_horizontal:
-                # figure out how much x our y-segment (2nd) takes up, then path based on that
-                y_len = numpy.abs(yd - ys)
-                ccw2 = src_ne != (yd > ys)
-                jog = get_jog(ccw2, y_len) * numpy.sign(xd - xs)
-                self.path_to(portspec_src, not ccw2, x=xd - jog, **src_args)
-                self.path_to(portspec_src, ccw2, y=yd, **dst_args)
-            else:
-                # figure out how much y our x-segment (2nd) takes up, then path based on that
-                x_len = numpy.abs(xd - xs)
-                ccw2 = src_ne != (xd < xs)
-                jog = get_jog(ccw2, x_len) * numpy.sign(yd - ys)
-                self.path_to(portspec_src, not ccw2, y=yd - jog, **src_args)
-                self.path_to(portspec_src, ccw2, x=xd, **dst_args)
-        elif numpy.isclose(angle, 0):
-            raise BuildError('Don\'t know how to route a U-bend at this time!')
-        else:
-            raise BuildError(f'Don\'t know how to route ports with relative angle {angle}')
-
-        return self
-
-    def mpath(
-            self,
-            portspec: str | Sequence[str],
-            ccw: SupportsBool | None,
-            *,
-            spacing: float | ArrayLike | None = None,
-            set_rotation: float | None = None,
-            tool_port_names: tuple[str, str] = ('A', 'B'),
-            force_container: bool = False,
-            base_name: str = SINGLE_USE_PREFIX + 'mpath',
-            **kwargs,
-            ) -> Self:
-        """
-        `mpath` is a superset of `path` and `path_to` which can act on bundles or buses
-        of "wires or "waveguides".
-
-        The wires will travel so that the output ports will be placed at well-defined
-        locations along the axis of their input ports, but may have arbitrary (tool-
-        dependent) offsets in the perpendicular direction.
-
-        If `ccw` is not `None`, the wire bundle will turn 90 degres in either the
-        clockwise (`ccw=False`) or counter-clockwise (`ccw=True`) direction. Within the
-        bundle, the center-to-center wire spacings after the turn are set by `spacing`,
-        which is required when `ccw` is not `None`. The final position of bundle as a
-        whole can be set in a number of ways:
-
-             =A>---------------------------V     turn direction: `ccw=False`
-                       =B>-------------V   |
-         =C>-----------------------V   |
-           =D=>----------------V   |
-                               |
-
-                               x---x---x---x  `spacing` (can be scalar or array)
-
-                        <-------------->      `emin=`
-                        <------>              `bound_type='min_past_furthest', bound=`
-          <-------------------------------->  `emax=`
-                               x              `pmin=`
-                                           x  `pmax=`
-
-            - `emin=`, equivalent to `bound_type='min_extension', bound=`
-                The total extension value for the furthest-out port (B in the diagram).
-            - `emax=`, equivalent to `bound_type='max_extension', bound=`:
-                The total extension value for the closest-in port (C in the diagram).
-            - `pmin=`, equivalent to `xmin=`, `ymin=`, or `bound_type='min_position', bound=`:
-                The coordinate of the innermost bend (D's bend).
-                The x/y versions throw an error if they do not match the port axis (for debug)
-            - `pmax=`, `xmax=`, `ymax=`, or `bound_type='max_position', bound=`:
-                The coordinate of the outermost bend (A's bend).
-                The x/y versions throw an error if they do not match the port axis (for debug)
-            - `bound_type='min_past_furthest', bound=`:
-                The distance between furthest out-port (B) and the innermost bend (D's bend).
-
-        If `ccw=None`, final output positions (along the input axis) of all wires will be
-        identical (i.e. wires will all be cut off evenly). In this case, `spacing=None` is
-        required. In this case, `emin=` and `emax=` are equivalent to each other, and
-        `pmin=`, `pmax=`, `xmin=`, etc. are also equivalent to each other.
-
-
-        Args:
-            portspec: The names of the ports which are to be routed.
-            ccw: If `None`, the outputs should be along the same axis as the inputs.
-                Otherwise, cast to bool and turn 90 degrees counterclockwise if `True`
-                and clockwise otherwise.
-            spacing: Center-to-center distance between output ports along the input port's axis.
-                Must be provided if (and only if) `ccw` is not `None`.
-            set_rotation: If the provided ports have `rotation=None`, this can be used
-                to set a rotation for them.
-            tool_port_names: The names of the ports on the generated pattern. It is unlikely
-                that you will need to change these. The first port is the input (to be
-                connected to `portspec`).
-            force_container: If `False` (default), and only a single port is provided, the
-                generated wire for that port will be referenced directly, rather than being
-                wrapped in an additonal `Pattern`.
-            base_name: Name to use for the generated `Pattern`. This will be passed through
-                `self.library.get_name()` to get a unique name for each new `Pattern`.
-
-        Returns:
-            self
-
-        Raises:
-            BuildError if the implied length for any wire is too close to fit the bend
-                (if a bend is requested).
-            BuildError if `xmin`/`xmax` or `ymin`/`ymax` is specified but does not
-                match the axis of `portspec`.
-            BuildError if an incorrect bound type or spacing is specified.
-        """
-        if self._dead:
-            logger.error('Skipping mpath() since device is dead')
-            return self
-
-        bound_types = set()
-        if 'bound_type' in kwargs:
-            bound_types.add(kwargs['bound_type'])
-            bound = kwargs['bound']
-            del kwargs['bound_type']
-            del kwargs['bound']
-        for bt in ('emin', 'emax', 'pmin', 'pmax', 'xmin', 'xmax', 'ymin', 'ymax', 'min_past_furthest'):
-            if bt in kwargs:
-                bound_types.add(bt)
-                bound = kwargs[bt]
-                del kwargs[bt]
-
-        if not bound_types:
-            raise BuildError('No bound type specified for mpath')
-        if len(bound_types) > 1:
-            raise BuildError(f'Too many bound types specified for mpath: {bound_types}')
-        bound_type = tuple(bound_types)[0]
-
-        if isinstance(portspec, str):
-            portspec = [portspec]
-        ports = self.pattern[tuple(portspec)]
-
-        extensions = ell(ports, ccw, spacing=spacing, bound=bound, bound_type=bound_type, set_rotation=set_rotation)
-
-        if len(ports) == 1 and not force_container:
-            # Not a bus, so having a container just adds noise to the layout
-            port_name = tuple(portspec)[0]
-            return self.path(port_name, ccw, extensions[port_name], tool_port_names=tool_port_names, **kwargs)
-
-        bld = Pather.interface(source=ports, library=self.library, tools=self.tools)
-        for port_name, length in extensions.items():
-            bld.path(port_name, ccw, length, tool_port_names=tool_port_names, **kwargs)
-        name = self.library.get_name(base_name)
-        self.library[name] = bld.pattern
-        return self.plug(Abstract(name, bld.pattern.ports), {sp: 'in_' + sp for sp in ports})       # TODO safe to use 'in_'?
-
-    # TODO def bus_join()?
-
-    def flatten(self) -> Self:
-        """
-        Flatten the contained pattern, using the contained library to resolve references.
-
-        Returns:
-            self
-        """
-        self.pattern.flatten(self.library)
-        return self
-

masque/builder/port_utils.py

@@ -0,0 +1,112 @@
+"""
+Functions for writing port data into a Pattern (`dev2pat`) and retrieving it (`pat2dev`).
+
+  These use the format 'name:ptype angle_deg' written into labels, which are placed at
+the port locations. This particular approach is just a sensible default; feel free to
+to write equivalent functions for your own format or alternate storage methods.
+"""
+from typing import Sequence
+import logging
+
+import numpy
+
+from ..pattern import Pattern
+from ..label import Label
+from ..utils import rotation_matrix_2d, layer_t
+from .devices import Device, Port
+
+
+logger = logging.getLogger(__name__)
+
+
+def dev2pat(device: Device, layer: layer_t) -> Pattern:
+    """
+    Place a text label at each port location, specifying the port data in the format
+        'name:ptype angle_deg'
+
+    This can be used to debug port locations or to automatically generate ports
+      when reading in a GDS file.
+
+    NOTE that `device` is modified by this function, and `device.pattern` is returned.
+
+    Args:
+        device: The device which is to have its ports labeled. MODIFIED in-place.
+        layer: The layer on which the labels will be placed.
+
+    Returns:
+        `device.pattern`
+    """
+    for name, port in device.ports.items():
+        if port.rotation is None:
+            angle_deg = numpy.inf
+        else:
+            angle_deg = numpy.rad2deg(port.rotation)
+        device.pattern.labels += [
+            Label(string=f'{name}:{port.ptype} {angle_deg:g}', layer=layer, offset=port.offset)
+            ]
+    return device.pattern
+
+
+def pat2dev(
+        pattern: Pattern,
+        layers: Sequence[layer_t],
+        max_depth: int = 999_999,
+        skip_subcells: bool = True,
+        ) -> Device:
+    """
+    Examine `pattern` for labels specifying port info, and use that info
+      to build a `Device` object.
+
+    Labels are assumed to be placed at the port locations, and have the format
+      'name:ptype angle_deg'
+
+    Args:
+        pattern: Pattern object to scan for labels.
+        layers: Search for labels on all the given layers.
+        max_depth: Maximum hierarcy depth to search. Default 999_999.
+            Reduce this to 0 to avoid ever searching subcells.
+        skip_subcells: If port labels are found at a given hierarcy level,
+            do not continue searching at deeper levels. This allows subcells
+            to contain their own port info (and thus become their own Devices).
+            Default True.
+
+    Returns:
+        The constructed Device object. Port labels are not removed from the pattern.
+    """
+    ports = {}      # Note: could do a list here, if they're not unique
+    annotated_cells = set()
+    def find_ports_each(pat, hierarchy, transform, memo) -> Pattern:
+        if len(hierarchy) > max_depth - 1:
+            return pat
+
+        if skip_subcells and any(parent in annotated_cells for parent in hierarchy):
+            return pat
+
+        labels = [ll for ll in pat.labels if ll.layer in layers]
+
+        if len(labels) == 0:
+            return pat
+
+        if skip_subcells:
+            annotated_cells.add(pat)
+
+        mirr_factor = numpy.array((1, -1)) ** transform[3]
+        rot_matrix = rotation_matrix_2d(transform[2])
+        for label in labels:
+            name, property_string = label.string.split(':')
+            properties = property_string.split(' ')
+            ptype = properties[0]
+            angle_deg = float(properties[1]) if len(ptype) else 0
+
+            xy_global = transform[:2] + rot_matrix @ (label.offset * mirr_factor)
+            angle = numpy.deg2rad(angle_deg) * mirr_factor[0] * mirr_factor[1] + transform[2]
+
+            if name in ports:
+                logger.info(f'Duplicate port {name} in pattern {pattern.name}')
+
+            ports[name] = Port(offset=xy_global, rotation=angle, ptype=ptype)
+
+        return pat
+
+    pattern.dfs(visit_before=find_ports_each, transform=True)
+    return Device(pattern, ports)

masque/builder/renderpather.py

@@ -1,703 +0,0 @@
-"""
-Pather with batched (multi-step) rendering
-"""
-from typing import Self
-from collections.abc import Sequence, Mapping, MutableMapping
-import copy
-import logging
-from collections import defaultdict
-from pprint import pformat
-
-import numpy
-from numpy import pi
-from numpy.typing import ArrayLike
-
-from ..pattern import Pattern
-from ..library import ILibrary
-from ..error import PortError, BuildError
-from ..ports import PortList, Port
-from ..abstract import Abstract
-from ..utils import SupportsBool
-from .tools import Tool, RenderStep
-from .utils import ell
-
-
-logger = logging.getLogger(__name__)
-
-
-class RenderPather(PortList):
-    """
-      `RenderPather` is an alternative to `Pather` which uses the `path`/`path_to`/`mpath`
-    functions to plan out wire paths without incrementally generating the layout. Instead,
-    it waits until `render` is called, at which point it draws all the planned segments
-    simultaneously. This allows it to e.g. draw each wire using a single `Path` or
-    `Polygon` shape instead of multiple rectangles.
-
-      `RenderPather` calls out to `Tool.planL` and `Tool.render` to provide tool-specific
-    dimensions and build the final geometry for each wire. `Tool.planL` provides the
-    output port data (relative to the input) for each segment. The tool, input and output
-    ports are placed into a `RenderStep`, and a sequence of `RenderStep`s is stored for
-    each port. When `render` is called, it bundles `RenderStep`s into batches which use
-    the same `Tool`, and passes each batch to the relevant tool's `Tool.render` to build
-    the geometry.
-
-    See `Pather` for routing examples. After routing is complete, `render` must be called
-    to generate the final geometry.
-    """
-    __slots__ = ('pattern', 'library', 'paths', 'tools', '_dead', )
-
-    pattern: Pattern
-    """ Layout of this device """
-
-    library: ILibrary
-    """ Library from which patterns should be referenced """
-
-    _dead: bool
-    """ If True, plug()/place() are skipped (for debugging) """
-
-    paths: defaultdict[str, list[RenderStep]]
-    """ Per-port list of operations, to be used by `render` """
-
-    tools: dict[str | None, Tool]
-    """
-    Tool objects are used to dynamically generate new single-use Devices
-    (e.g wires or waveguides) to be plugged into this device.
-    """
-
-    @property
-    def ports(self) -> dict[str, Port]:
-        return self.pattern.ports
-
-    @ports.setter
-    def ports(self, value: dict[str, Port]) -> None:
-        self.pattern.ports = value
-
-    def __init__(
-            self,
-            library: ILibrary,
-            *,
-            pattern: Pattern | None = None,
-            ports: str | Mapping[str, Port] | None = None,
-            tools: Tool | MutableMapping[str | None, Tool] | None = None,
-            name: str | None = None,
-            ) -> None:
-        """
-        Args:
-            library: The library from which referenced patterns will be taken,
-                and where new patterns (e.g. generated by the `tools`) will be placed.
-            pattern: The pattern which will be modified by subsequent operations.
-                If `None` (default), a new pattern is created.
-            ports: Allows specifying the initial set of ports, if `pattern` does
-                not already have any ports (or is not provided). May be a string,
-                in which case it is interpreted as a name in `library`.
-                Default `None` (no ports).
-            tools: A mapping of {port: tool} which specifies what `Tool` should be used
-                to generate waveguide or wire segments when `path`/`path_to`/`mpath`
-                are called. Relies on `Tool.planL` and `Tool.render` implementations.
-            name: If specified, `library[name]` is set to `self.pattern`.
-        """
-        self._dead = False
-        self.paths = defaultdict(list)
-        self.library = library
-        if pattern is not None:
-            self.pattern = pattern
-        else:
-            self.pattern = Pattern()
-
-        if ports is not None:
-            if self.pattern.ports:
-                raise BuildError('Ports supplied for pattern with pre-existing ports!')
-            if isinstance(ports, str):
-                if library is None:
-                    raise BuildError('Ports given as a string, but `library` was `None`!')
-                ports = library.abstract(ports).ports
-
-            self.pattern.ports.update(copy.deepcopy(dict(ports)))
-
-        if name is not None:
-            if library is None:
-                raise BuildError('Name was supplied, but no library was given!')
-            library[name] = self.pattern
-
-        if tools is None:
-            self.tools = {}
-        elif isinstance(tools, Tool):
-            self.tools = {None: tools}
-        else:
-            self.tools = dict(tools)
-
-    @classmethod
-    def interface(
-            cls: type['RenderPather'],
-            source: PortList | Mapping[str, Port] | str,
-            *,
-            library: ILibrary | None = None,
-            tools: Tool | MutableMapping[str | None, Tool] | None = None,
-            in_prefix: str = 'in_',
-            out_prefix: str = '',
-            port_map: dict[str, str] | Sequence[str] | None = None,
-            name: str | None = None,
-            ) -> 'RenderPather':
-        """
-        Wrapper for `Pattern.interface()`, which returns a RenderPather instead.
-
-        Args:
-            source: A collection of ports (e.g. Pattern, Builder, or dict)
-                from which to create the interface. May be a pattern name if
-                `library` is provided.
-            library: Library from which existing patterns should be referenced,
-                and to which the new one should be added (if named). If not provided,
-                `source.library` must exist and will be used.
-            tools: `Tool`s which will be used by the pather for generating new wires
-                or waveguides (via `path`/`path_to`/`mpath`).
-            in_prefix: Prepended to port names for newly-created ports with
-                reversed directions compared to the current device.
-            out_prefix: Prepended to port names for ports which are directly
-                copied from the current device.
-            port_map: Specification for ports to copy into the new device:
-                - If `None`, all ports are copied.
-                - If a sequence, only the listed ports are copied
-                - If a mapping, the listed ports (keys) are copied and
-                    renamed (to the values).
-
-        Returns:
-            The new `RenderPather`, with an empty pattern and 2x as many ports as
-              listed in port_map.
-
-        Raises:
-            `PortError` if `port_map` contains port names not present in the
-                current device.
-            `PortError` if applying the prefixes results in duplicate port
-                names.
-        """
-        if library is None:
-            if hasattr(source, 'library') and isinstance(source.library, ILibrary):
-                library = source.library
-            else:
-                raise BuildError('No library provided (and not present in `source.library`')
-
-        if tools is None and hasattr(source, 'tools') and isinstance(source.tools, dict):
-            tools = source.tools
-
-        if isinstance(source, str):
-            source = library.abstract(source).ports
-
-        pat = Pattern.interface(source, in_prefix=in_prefix, out_prefix=out_prefix, port_map=port_map)
-        new = RenderPather(library=library, pattern=pat, name=name, tools=tools)
-        return new
-
-    def plug(
-            self,
-            other: Abstract | str,
-            map_in: dict[str, str],
-            map_out: dict[str, str | None] | None = None,
-            *,
-            mirrored: bool = False,
-            inherit_name: bool = True,
-            set_rotation: bool | None = None,
-            append: bool = False,
-            ) -> Self:
-        """
-          Wrapper for `Pattern.plug` which adds a `RenderStep` with opcode 'P'
-        for any affected ports. This separates any future `RenderStep`s on the
-        same port into a new batch, since the plugged device interferes with drawing.
-
-        Args:
-            other: An `Abstract`, string, or `Pattern` describing the device to be instatiated.
-            map_in: dict of `{'self_port': 'other_port'}` mappings, specifying
-                port connections between the two devices.
-            map_out: dict of `{'old_name': 'new_name'}` mappings, specifying
-                new names for ports in `other`.
-            mirrored: Enables mirroring `other` across the x axis prior to
-                connecting any ports.
-            inherit_name: If `True`, and `map_in` specifies only a single port,
-                and `map_out` is `None`, and `other` has only two ports total,
-                then automatically renames the output port of `other` to the
-                name of the port from `self` that appears in `map_in`. This
-                makes it easy to extend a device with simple 2-port devices
-                (e.g. wires) without providing `map_out` each time `plug` is
-                called. See "Examples" above for more info. Default `True`.
-            set_rotation: If the necessary rotation cannot be determined from
-                the ports being connected (i.e. all pairs have at least one
-                port with `rotation=None`), `set_rotation` must be provided
-                to indicate how much `other` should be rotated. Otherwise,
-                `set_rotation` must remain `None`.
-            append: If `True`, `other` is appended instead of being referenced.
-                Note that this does not flatten  `other`, so its refs will still
-                be refs (now inside `self`).
-
-        Returns:
-            self
-
-        Raises:
-            `PortError` if any ports specified in `map_in` or `map_out` do not
-                exist in `self.ports` or `other_names`.
-            `PortError` if there are any duplicate names after `map_in` and `map_out`
-                are applied.
-            `PortError` if the specified port mapping is not achieveable (the ports
-                do not line up)
-        """
-        if self._dead:
-            logger.error('Skipping plug() since device is dead')
-            return self
-
-        other_tgt: Pattern | Abstract
-        if isinstance(other, str):
-            other_tgt = self.library.abstract(other)
-        if append and isinstance(other, Abstract):
-            other_tgt = self.library[other.name]
-
-        # get rid of plugged ports
-        for kk in map_in:
-            if kk in self.paths:
-                self.paths[kk].append(RenderStep('P', None, self.ports[kk].copy(), self.ports[kk].copy(), None))
-
-        plugged = map_in.values()
-        for name, port in other_tgt.ports.items():
-            if name in plugged:
-                continue
-            new_name = map_out.get(name, name) if map_out is not None else name
-            if new_name is not None and new_name in self.paths:
-                self.paths[new_name].append(RenderStep('P', None, port.copy(), port.copy(), None))
-
-        self.pattern.plug(
-            other=other_tgt,
-            map_in=map_in,
-            map_out=map_out,
-            mirrored=mirrored,
-            inherit_name=inherit_name,
-            set_rotation=set_rotation,
-            append=append,
-            )
-
-        return self
-
-    def place(
-            self,
-            other: Abstract | str,
-            *,
-            offset: ArrayLike = (0, 0),
-            rotation: float = 0,
-            pivot: ArrayLike = (0, 0),
-            mirrored: bool = False,
-            port_map: dict[str, str | None] | None = None,
-            skip_port_check: bool = False,
-            append: bool = False,
-            ) -> Self:
-        """
-          Wrapper for `Pattern.place` which adds a `RenderStep` with opcode 'P'
-        for any affected ports. This separates any future `RenderStep`s on the
-        same port into a new batch, since the placed device interferes with drawing.
-
-        Note that mirroring is applied before rotation; translation (`offset`) is applied last.
-
-        Args:
-            other: An `Abstract` or `Pattern` describing the device to be instatiated.
-            offset: Offset at which to place the instance. Default (0, 0).
-            rotation: Rotation applied to the instance before placement. Default 0.
-            pivot: Rotation is applied around this pivot point (default (0, 0)).
-                Rotation is applied prior to translation (`offset`).
-            mirrored: Whether theinstance should be mirrored across the x axis.
-                Mirroring is applied before translation and rotation.
-            port_map: dict of `{'old_name': 'new_name'}` mappings, specifying
-                new names for ports in the instantiated pattern. New names can be
-                `None`, which will delete those ports.
-            skip_port_check: Can be used to skip the internal call to `check_ports`,
-                in case it has already been performed elsewhere.
-            append: If `True`, `other` is appended instead of being referenced.
-                Note that this does not flatten  `other`, so its refs will still
-                be refs (now inside `self`).
-
-        Returns:
-            self
-
-        Raises:
-            `PortError` if any ports specified in `map_in` or `map_out` do not
-                exist in `self.ports` or `other.ports`.
-            `PortError` if there are any duplicate names after `map_in` and `map_out`
-                are applied.
-        """
-        if self._dead:
-            logger.error('Skipping place() since device is dead')
-            return self
-
-        other_tgt: Pattern | Abstract
-        if isinstance(other, str):
-            other_tgt = self.library.abstract(other)
-        if append and isinstance(other, Abstract):
-            other_tgt = self.library[other.name]
-
-        for name, port in other_tgt.ports.items():
-            new_name = port_map.get(name, name) if port_map is not None else name
-            if new_name is not None and new_name in self.paths:
-                self.paths[new_name].append(RenderStep('P', None, port.copy(), port.copy(), None))
-
-        self.pattern.place(
-            other=other_tgt,
-            offset=offset,
-            rotation=rotation,
-            pivot=pivot,
-            mirrored=mirrored,
-            port_map=port_map,
-            skip_port_check=skip_port_check,
-            append=append,
-            )
-
-        return self
-
-    def retool(
-            self,
-            tool: Tool,
-            keys: str | Sequence[str | None] | None = None,
-            ) -> Self:
-        """
-        Update the `Tool` which will be used when generating `Pattern`s for the ports
-        given by `keys`.
-
-        Args:
-            tool: The new `Tool` to use for the given ports.
-            keys: Which ports the tool should apply to. `None` indicates the default tool,
-                used when there is no matching entry in `self.tools` for the port in question.
-
-        Returns:
-            self
-        """
-        if keys is None or isinstance(keys, str):
-            self.tools[keys] = tool
-        else:
-            for key in keys:
-                self.tools[key] = tool
-        return self
-
-    def path(
-            self,
-            portspec: str,
-            ccw: SupportsBool | None,
-            length: float,
-            **kwargs,
-            ) -> Self:
-        """
-        Plan a "wire"/"waveguide" extending from the port `portspec`, with the aim
-        of traveling exactly `length` distance.
-
-        The wire will travel `length` distance along the port's axis, an an unspecified
-        (tool-dependent) distance in the perpendicular direction. The output port will
-        be rotated (or not) based on the `ccw` parameter.
-
-        `RenderPather.render` must be called after all paths have been fully planned.
-
-        Args:
-            portspec: The name of the port into which the wire will be plugged.
-            ccw: If `None`, the output should be along the same axis as the input.
-                Otherwise, cast to bool and turn counterclockwise if True
-                and clockwise otherwise.
-            length: The total distance from input to output, along the input's axis only.
-                (There may be a tool-dependent offset along the other axis.)
-
-        Returns:
-            self
-
-        Raises:
-            BuildError if `distance` is too small to fit the bend (if a bend is present).
-            LibraryError if no valid name could be picked for the pattern.
-        """
-        if self._dead:
-            logger.error('Skipping path() since device is dead')
-            return self
-
-        port = self.pattern[portspec]
-        in_ptype = port.ptype
-        port_rot = port.rotation
-        assert port_rot is not None         # TODO allow manually setting rotation for RenderPather.path()?
-
-        tool = self.tools.get(portspec, self.tools[None])
-        # ask the tool for bend size (fill missing dx or dy), check feasibility, and get out_ptype
-        out_port, data = tool.planL(ccw, length, in_ptype=in_ptype, **kwargs)
-
-        # Update port
-        out_port.rotate_around((0, 0), pi + port_rot)
-        out_port.translate(port.offset)
-
-        step = RenderStep('L', tool, port.copy(), out_port.copy(), data)
-        self.paths[portspec].append(step)
-
-        self.pattern.ports[portspec] = out_port.copy()
-
-        return self
-
-    def path_to(
-            self,
-            portspec: str,
-            ccw: SupportsBool | None,
-            position: float | None = None,
-            *,
-            x: float | None = None,
-            y: float | None = None,
-            **kwargs,
-            ) -> Self:
-        """
-        Plan a "wire"/"waveguide" extending from the port `portspec`, with the aim
-        of ending exactly at a target position.
-
-        The wire will travel so that the output port will be placed at exactly the target
-        position along the input port's axis. There can be an unspecified (tool-dependent)
-        offset in the perpendicular direction. The output port will be rotated (or not)
-        based on the `ccw` parameter.
-
-        `RenderPather.render` must be called after all paths have been fully planned.
-
-        Args:
-            portspec: The name of the port into which the wire will be plugged.
-            ccw: If `None`, the output should be along the same axis as the input.
-                Otherwise, cast to bool and turn counterclockwise if True
-                and clockwise otherwise.
-            position: The final port position, along the input's axis only.
-                (There may be a tool-dependent offset along the other axis.)
-                Only one of `position`, `x`, and `y` may be specified.
-            x: The final port position along the x axis.
-                `portspec` must refer to a horizontal port if `x` is passed, otherwise a
-                BuildError will be raised.
-            y: The final port position along the y axis.
-                `portspec` must refer to a vertical port if `y` is passed, otherwise a
-                BuildError will be raised.
-
-        Returns:
-            self
-
-        Raises:
-            BuildError if `position`, `x`, or `y` is too close to fit the bend (if a bend
-                is present).
-            BuildError if `x` or `y` is specified but does not match the axis of `portspec`.
-            BuildError if more than one of `x`, `y`, and `position` is specified.
-        """
-        if self._dead:
-            logger.error('Skipping path_to() since device is dead')
-            return self
-
-        pos_count = sum(vv is not None for vv in (position, x, y))
-        if pos_count > 1:
-            raise BuildError('Only one of `position`, `x`, and `y` may be specified at once')
-        if pos_count < 1:
-            raise BuildError('One of `position`, `x`, and `y` must be specified')
-
-        port = self.pattern[portspec]
-        if port.rotation is None:
-            raise PortError(f'Port {portspec} has no rotation and cannot be used for path_to()')
-
-        if not numpy.isclose(port.rotation % (pi / 2), 0):
-            raise BuildError('path_to was asked to route from non-manhattan port')
-
-        is_horizontal = numpy.isclose(port.rotation % pi, 0)
-        if is_horizontal:
-            if y is not None:
-                raise BuildError('Asked to path to y-coordinate, but port is horizontal')
-            if position is None:
-                position = x
-        else:
-            if x is not None:
-                raise BuildError('Asked to path to x-coordinate, but port is vertical')
-            if position is None:
-                position = y
-
-        x0, y0 = port.offset
-        if is_horizontal:
-            if numpy.sign(numpy.cos(port.rotation)) == numpy.sign(position - x0):
-                raise BuildError(f'path_to routing to behind source port: x0={x0:g} to {position:g}')
-            length = numpy.abs(position - x0)
-        else:
-            if numpy.sign(numpy.sin(port.rotation)) == numpy.sign(position - y0):
-                raise BuildError(f'path_to routing to behind source port: y0={y0:g} to {position:g}')
-            length = numpy.abs(position - y0)
-
-        return self.path(portspec, ccw, length, **kwargs)
-
-    def mpath(
-            self,
-            portspec: str | Sequence[str],
-            ccw: SupportsBool | None,
-            *,
-            spacing: float | ArrayLike | None = None,
-            set_rotation: float | None = None,
-            **kwargs,
-            ) -> Self:
-        """
-        `mpath` is a superset of `path` and `path_to` which can act on bundles or buses
-        of "wires or "waveguides".
-
-        See `Pather.mpath` for details.
-
-        Args:
-            portspec: The names of the ports which are to be routed.
-            ccw: If `None`, the outputs should be along the same axis as the inputs.
-                Otherwise, cast to bool and turn 90 degrees counterclockwise if `True`
-                and clockwise otherwise.
-            spacing: Center-to-center distance between output ports along the input port's axis.
-                Must be provided if (and only if) `ccw` is not `None`.
-            set_rotation: If the provided ports have `rotation=None`, this can be used
-                to set a rotation for them.
-
-        Returns:
-            self
-
-        Raises:
-            BuildError if the implied length for any wire is too close to fit the bend
-                (if a bend is requested).
-            BuildError if `xmin`/`xmax` or `ymin`/`ymax` is specified but does not
-                match the axis of `portspec`.
-            BuildError if an incorrect bound type or spacing is specified.
-        """
-        if self._dead:
-            logger.error('Skipping mpath() since device is dead')
-            return self
-
-        bound_types = set()
-        if 'bound_type' in kwargs:
-            bound_types.add(kwargs['bound_type'])
-            bound = kwargs['bound']
-        for bt in ('emin', 'emax', 'pmin', 'pmax', 'xmin', 'xmax', 'ymin', 'ymax', 'min_past_furthest'):
-            if bt in kwargs:
-                bound_types.add(bt)
-                bound = kwargs[bt]
-
-        if not bound_types:
-            raise BuildError('No bound type specified for mpath')
-        if len(bound_types) > 1:
-            raise BuildError(f'Too many bound types specified for mpath: {bound_types}')
-        bound_type = tuple(bound_types)[0]
-
-        if isinstance(portspec, str):
-            portspec = [portspec]
-        ports = self.pattern[tuple(portspec)]
-
-        extensions = ell(ports, ccw, spacing=spacing, bound=bound, bound_type=bound_type, set_rotation=set_rotation)
-
-        if len(ports) == 1:
-            # Not a bus, so having a container just adds noise to the layout
-            port_name = tuple(portspec)[0]
-            self.path(port_name, ccw, extensions[port_name])
-        else:
-            for port_name, length in extensions.items():
-                self.path(port_name, ccw, length)
-        return self
-
-    def render(
-            self,
-            append: bool = True,
-            ) -> Self:
-        """
-        Generate the geometry which has been planned out with `path`/`path_to`/etc.
-
-        Args:
-            append: If `True`, the rendered geometry will be directly appended to
-                `self.pattern`. Note that it will not be flattened, so if only one
-                layer of hierarchy is eliminated.
-
-        Returns:
-            self
-        """
-        lib = self.library
-        tool_port_names = ('A', 'B')
-        pat = Pattern()
-
-        def render_batch(portspec: str, batch: list[RenderStep], append: bool) -> None:
-            assert batch[0].tool is not None
-            name = lib << batch[0].tool.render(batch, port_names=tool_port_names)
-            pat.ports[portspec] = batch[0].start_port.copy()
-            if append:
-                pat.plug(lib[name], {portspec: tool_port_names[0]}, append=append)
-                del lib[name]       # NOTE if the rendered pattern has refs, those are now in `pat` but not flattened
-            else:
-                pat.plug(lib.abstract(name), {portspec: tool_port_names[0]}, append=append)
-
-        for portspec, steps in self.paths.items():
-            batch: list[RenderStep] = []
-            for step in steps:
-                appendable_op = step.opcode in ('L', 'S', 'U')
-                same_tool = batch and step.tool == batch[0].tool
-
-                # If we can't continue a batch, render it
-                if batch and (not appendable_op or not same_tool):
-                    render_batch(portspec, batch, append)
-                    batch = []
-
-                # batch is emptied already if we couldn't continue it
-                if appendable_op:
-                    batch.append(step)
-
-                # Opcodes which break the batch go below this line
-                if not appendable_op and portspec in pat.ports:
-                    del pat.ports[portspec]
-
-            #If the last batch didn't end yet
-            if batch:
-                render_batch(portspec, batch, append)
-
-        self.paths.clear()
-        pat.ports.clear()
-        self.pattern.append(pat)
-
-        return self
-
-    def translate(self, offset: ArrayLike) -> Self:
-        """
-        Translate the pattern and all ports.
-
-        Args:
-            offset: (x, y) distance to translate by
-
-        Returns:
-            self
-        """
-        self.pattern.translate_elements(offset)
-        return self
-
-    def rotate_around(self, pivot: ArrayLike, angle: float) -> Self:
-        """
-        Rotate the pattern and all ports.
-
-        Args:
-            angle: angle (radians, counterclockwise) to rotate by
-            pivot: location to rotate around
-
-        Returns:
-            self
-        """
-        self.pattern.rotate_around(pivot, angle)
-        return self
-
-    def mirror(self, axis: int) -> Self:
-        """
-        Mirror the pattern and all ports across the specified axis.
-
-        Args:
-            axis: Axis to mirror across (x=0, y=1)
-
-        Returns:
-            self
-        """
-        self.pattern.mirror(axis)
-        return self
-
-    def set_dead(self) -> Self:
-        """
-        Disallows further changes through `plug()` or `place()`.
-        This is meant for debugging:
-        ```
-            dev.plug(a, ...)
-            dev.set_dead()      # added for debug purposes
-            dev.plug(b, ...)    # usually raises an error, but now skipped
-            dev.plug(c, ...)    # also skipped
-            dev.pattern.visualize()     # shows the device as of the set_dead() call
-        ```
-
-        Returns:
-            self
-        """
-        self._dead = True
-        return self
-
-    def __repr__(self) -> str:
-        s = f'<Pather {self.pattern} L({len(self.library)}) {pformat(self.tools)}>'
-        return s
-
-

masque/builder/tools.py

@@ -1,553 +1,22 @@
 """
 Tools are objects which dynamically generate simple single-use devices (e.g. wires or waveguides)
-
-# TODO document all tools
 """
-from typing import Literal, Any
-from collections.abc import Sequence, Callable
-from abc import ABCMeta  # , abstractmethod     # TODO any way to make Tool ok with implementing only one method?
-from dataclasses import dataclass
+from typing import TYPE_CHECKING, Optional, Sequence
 
-import numpy
-from numpy.typing import NDArray
-from numpy import pi
-
-from ..utils import SupportsBool, rotation_matrix_2d, layer_t
-from ..ports import Port
-from ..pattern import Pattern
-from ..abstract import Abstract
-from ..library import ILibrary, Library, SINGLE_USE_PREFIX
-from ..error import BuildError
-
-
-@dataclass(frozen=True, slots=True)
-class RenderStep:
-    """
-    Representation of a single saved operation, used by `RenderPather` and passed
-    to `Tool.render()` when `RenderPather.render()` is called.
-    """
-    opcode: Literal['L', 'S', 'U', 'P']
-    """ What operation is being performed.
-        L: planL   (straight, optionally with a single bend)
-        S: planS   (s-bend)
-        U: planU   (u-bend)
-        P: plug
-    """
-
-    tool: 'Tool | None'
-    """ The current tool. May be `None` if `opcode='P'` """
-
-    start_port: Port
-    end_port: Port
-
-    data: Any
-    """ Arbitrary tool-specific data"""
-
-    def __post_init__(self) -> None:
-        if self.opcode != 'P' and self.tool is None:
-            raise BuildError('Got tool=None but the opcode is not "P"')
+if TYPE_CHECKING:
+    from .devices import Device
 
 
 class Tool:
-    """
-    Interface for path (e.g. wire or waveguide) generation.
-
-    Note that subclasses may implement only a subset of the methods and leave others
-    unimplemented (e.g. in cases where they don't make sense or the required components
-    are impractical or unavailable).
-    """
     def path(
             self,
-            ccw: SupportsBool | None,
+            ccw: Optional[bool],
             length: float,
             *,
-            in_ptype: str | None = None,
-            out_ptype: str | None = None,
-            port_names: tuple[str, str] = ('A', 'B'),
+            in_ptype: Optional[str] = None,
+            out_ptype: Optional[str] = None,
+            port_names: Sequence[str] = ('A', 'B'),
             **kwargs,
-            ) -> Library:
-        """
-        Create a wire or waveguide that travels exactly `length` distance along the axis
-        of its input port.
-
-        Used by `Pather`.
-
-        The output port must be exactly `length` away along the input port's axis, but
-        may be placed an additional (unspecified) distance away along the perpendicular
-        direction. The output port should be rotated (or not) based on the value of
-        `ccw`.
-
-        The input and output ports should be compatible with `in_ptype` and
-        `out_ptype`, respectively. They should also be named `port_names[0]` and
-        `port_names[1]`, respectively.
-
-        Args:
-            ccw: If `None`, the output should be along the same axis as the input.
-                Otherwise, cast to bool and turn counterclockwise if True
-                and clockwise otherwise.
-            length: The total distance from input to output, along the input's axis only.
-                (There may be a tool-dependent offset along the other axis.)
-            in_ptype: The `ptype` of the port into which this wire's input will be `plug`ged.
-            out_ptype: The `ptype` of the port into which this wire's output will be `plug`ged.
-            port_names: The output pattern will have its input port named `port_names[0]` and
-                its output named `port_names[1]`.
-            kwargs: Custom tool-specific parameters.
-
-        Returns:
-            A pattern tree containing the requested L-shaped (or straight) wire or waveguide
-
-        Raises:
-            BuildError if an impossible or unsupported geometry is requested.
-        """
+            ) -> 'Device':
         raise NotImplementedError(f'path() not implemented for {type(self)}')
 
-    def planL(
-            self,
-            ccw: SupportsBool | None,
-            length: float,
-            *,
-            in_ptype: str | None = None,
-            out_ptype: str | None = None,
-            **kwargs,
-            ) -> tuple[Port, Any]:
-        """
-        Plan a wire or waveguide that travels exactly `length` distance along the axis
-        of its input port.
-
-        Used by `RenderPather`.
-
-        The output port must be exactly `length` away along the input port's axis, but
-        may be placed an additional (unspecified) distance away along the perpendicular
-        direction. The output port should be rotated (or not) based on the value of
-        `ccw`.
-
-        The input and output ports should be compatible with `in_ptype` and
-        `out_ptype`, respectively.
-
-        Args:
-            ccw: If `None`, the output should be along the same axis as the input.
-                Otherwise, cast to bool and turn counterclockwise if True
-                and clockwise otherwise.
-            length: The total distance from input to output, along the input's axis only.
-                (There may be a tool-dependent offset along the other axis.)
-            in_ptype: The `ptype` of the port into which this wire's input will be `plug`ged.
-            out_ptype: The `ptype` of the port into which this wire's output will be `plug`ged.
-            kwargs: Custom tool-specific parameters.
-
-        Returns:
-            The calculated output `Port` for the wire.
-            Any tool-specifc data, to be stored in `RenderStep.data`, for use during rendering.
-
-        Raises:
-            BuildError if an impossible or unsupported geometry is requested.
-        """
-        raise NotImplementedError(f'planL() not implemented for {type(self)}')
-
-    def planS(
-            self,
-            length: float,
-            jog: float,
-            *,
-            in_ptype: str | None = None,
-            out_ptype: str | None = None,
-            **kwargs,
-            ) -> tuple[Port, Any]:
-        """
-        Plan a wire or waveguide that travels exactly `length` distance along the axis
-        of its input port and `jog` distance along the perpendicular axis (i.e. an S-bend).
-
-        Used by `RenderPather`.
-
-        The output port must have an orientation rotated by pi from the input port.
-
-        The input and output ports should be compatible with `in_ptype` and
-        `out_ptype`, respectively.
-
-        Args:
-            length: The total distance from input to output, along the input's axis only.
-            jog: The total offset from the input to output, along the perpendicular axis.
-                A positive number implies a rightwards shift (i.e. clockwise bend followed
-                by a counterclockwise bend)
-            in_ptype: The `ptype` of the port into which this wire's input will be `plug`ged.
-            out_ptype: The `ptype` of the port into which this wire's output will be `plug`ged.
-            kwargs: Custom tool-specific parameters.
-
-        Returns:
-            The calculated output `Port` for the wire.
-            Any tool-specifc data, to be stored in `RenderStep.data`, for use during rendering.
-
-        Raises:
-            BuildError if an impossible or unsupported geometry is requested.
-        """
-        raise NotImplementedError(f'planS() not implemented for {type(self)}')
-
-    def planU(
-            self,
-            jog: float,
-            *,
-            in_ptype: str | None = None,
-            out_ptype: str | None = None,
-            **kwargs,
-            ) -> tuple[Port, Any]:
-        """
-        # NOTE: TODO: U-bend is WIP; this interface may change in the future.
-
-        Plan a wire or waveguide that travels exactly `jog` distance along the axis
-        perpendicular to its input port (i.e. a U-bend).
-
-        Used by `RenderPather`.
-
-        The output port must have an orientation identical to the input port.
-
-        The input and output ports should be compatible with `in_ptype` and
-        `out_ptype`, respectively.
-
-        Args:
-            jog: The total offset from the input to output, along the perpendicular axis.
-                A positive number implies a rightwards shift (i.e. clockwise bend followed
-                by a counterclockwise bend)
-            in_ptype: The `ptype` of the port into which this wire's input will be `plug`ged.
-            out_ptype: The `ptype` of the port into which this wire's output will be `plug`ged.
-            kwargs: Custom tool-specific parameters.
-
-        Returns:
-            The calculated output `Port` for the wire.
-            Any tool-specifc data, to be stored in `RenderStep.data`, for use during rendering.
-
-        Raises:
-            BuildError if an impossible or unsupported geometry is requested.
-        """
-        raise NotImplementedError(f'planU() not implemented for {type(self)}')
-
-    def render(
-            self,
-            batch: Sequence[RenderStep],
-            *,
-            port_names: Sequence[str] = ('A', 'B'),     # noqa: ARG002 (unused)
-            **kwargs,                                   # noqa: ARG002 (unused)
-            ) -> ILibrary:
-        """
-        Render the provided `batch` of `RenderStep`s into geometry, returning a tree
-        (a Library with a single topcell).
-
-        Args:
-            batch: A sequence of `RenderStep` objects containing the ports and data
-                provided by this tool's `planL`/`planS`/`planU` functions.
-            port_names: The topcell's input and output ports should be named
-                `port_names[0]` and `port_names[1]` respectively.
-            kwargs: Custom tool-specific parameters.
-        """
-        assert not batch or batch[0].tool == self
-        raise NotImplementedError(f'render() not implemented for {type(self)}')
-
-
-abstract_tuple_t = tuple[Abstract, str, str]
-
-
-@dataclass
-class BasicTool(Tool, metaclass=ABCMeta):
-    """
-      A simple tool which relies on a single pre-rendered `bend` pattern, a function
-    for generating straight paths, and a table of pre-rendered `transitions` for converting
-    from non-native ptypes.
-    """
-    straight: tuple[Callable[[float], Pattern], str, str]
-    """ `create_straight(length: float), in_port_name, out_port_name` """
-
-    bend: abstract_tuple_t             # Assumed to be clockwise
-    """ `clockwise_bend_abstract, in_port_name, out_port_name` """
-
-    transitions: dict[str, abstract_tuple_t]
-    """ `{ptype: (transition_abstract`, ptype_port_name, other_port_name), ...}` """
-
-    default_out_ptype: str
-    """ Default value for out_ptype """
-
-    @dataclass(frozen=True, slots=True)
-    class LData:
-        """ Data for planL """
-        straight_length: float
-        ccw: SupportsBool | None
-        in_transition: abstract_tuple_t | None
-        out_transition: abstract_tuple_t | None
-
-    def path(
-            self,
-            ccw: SupportsBool | None,
-            length: float,
-            *,
-            in_ptype: str | None = None,
-            out_ptype: str | None = None,
-            port_names: tuple[str, str] = ('A', 'B'),
-            **kwargs,
-            ) -> Library:
-        _out_port, data = self.planL(
-            ccw,
-            length,
-            in_ptype=in_ptype,
-            out_ptype=out_ptype,
-            )
-
-        gen_straight, sport_in, sport_out = self.straight
-        tree, pat = Library.mktree(SINGLE_USE_PREFIX + 'path')
-        pat.add_port_pair(names=port_names)
-        if data.in_transition:
-            ipat, iport_theirs, _iport_ours = data.in_transition
-            pat.plug(ipat, {port_names[1]: iport_theirs})
-        if not numpy.isclose(data.straight_length, 0):
-            straight = tree <= {SINGLE_USE_PREFIX + 'straight': gen_straight(data.straight_length, **kwargs)}
-            pat.plug(straight, {port_names[1]: sport_in})
-        if data.ccw is not None:
-            bend, bport_in, bport_out = self.bend
-            pat.plug(bend, {port_names[1]: bport_in}, mirrored=bool(ccw))
-        if data.out_transition:
-            opat, oport_theirs, oport_ours = data.out_transition
-            pat.plug(opat, {port_names[1]: oport_ours})
-
-        return tree
-
-    def planL(
-            self,
-            ccw: SupportsBool | None,
-            length: float,
-            *,
-            in_ptype: str | None = None,
-            out_ptype: str | None = None,
-            **kwargs,               # noqa: ARG002 (unused)
-            ) -> tuple[Port, LData]:
-        # TODO check all the math for L-shaped bends
-        if ccw is not None:
-            bend, bport_in, bport_out = self.bend
-
-            angle_in = bend.ports[bport_in].rotation
-            angle_out = bend.ports[bport_out].rotation
-            assert angle_in is not None
-            assert angle_out is not None
-
-            bend_dxy = rotation_matrix_2d(-angle_in) @ (
-                bend.ports[bport_out].offset
-                - bend.ports[bport_in].offset
-                )
-
-            bend_angle = angle_out - angle_in
-
-            if bool(ccw):
-                bend_dxy[1] *= -1
-                bend_angle *= -1
-        else:
-            bend_dxy = numpy.zeros(2)
-            bend_angle = 0
-
-        in_transition = self.transitions.get('unk' if in_ptype is None else in_ptype, None)
-        if in_transition is not None:
-            ipat, iport_theirs, iport_ours = in_transition
-            irot = ipat.ports[iport_theirs].rotation
-            assert irot is not None
-            itrans_dxy = rotation_matrix_2d(-irot) @ (
-                ipat.ports[iport_ours].offset
-                - ipat.ports[iport_theirs].offset
-                )
-        else:
-            itrans_dxy = numpy.zeros(2)
-
-        out_transition = self.transitions.get('unk' if out_ptype is None else out_ptype, None)
-        if out_transition is not None:
-            opat, oport_theirs, oport_ours = out_transition
-            orot = opat.ports[oport_ours].rotation
-            assert orot is not None
-
-            otrans_dxy = rotation_matrix_2d(-orot + bend_angle) @ (
-                opat.ports[oport_theirs].offset
-                - opat.ports[oport_ours].offset
-                )
-        else:
-            otrans_dxy = numpy.zeros(2)
-
-        if out_transition is not None:
-            out_ptype_actual = opat.ports[oport_theirs].ptype
-        elif ccw is not None:
-            out_ptype_actual = bend.ports[bport_out].ptype
-        else:
-            out_ptype_actual = self.default_out_ptype
-
-        straight_length = length - bend_dxy[0] - itrans_dxy[0] - otrans_dxy[0]
-        bend_run = bend_dxy[1] + itrans_dxy[1] + otrans_dxy[1]
-
-        if straight_length < 0:
-            raise BuildError(
-                f'Asked to draw path with total length {length:,g}, shorter than required bends and transitions:\n'
-                f'bend: {bend_dxy[0]:,g}  in_trans: {itrans_dxy[0]:,g}  out_trans: {otrans_dxy[0]:,g}'
-                )
-
-        data = self.LData(straight_length, ccw, in_transition, out_transition)
-        out_port = Port((length, bend_run), rotation=bend_angle, ptype=out_ptype_actual)
-        return out_port, data
-
-    def render(
-            self,
-            batch: Sequence[RenderStep],
-            *,
-            port_names: Sequence[str] = ('A', 'B'),
-            append: bool = True,
-            **kwargs,
-            ) -> ILibrary:
-
-        tree, pat = Library.mktree(SINGLE_USE_PREFIX + 'path')
-        pat.add_port_pair(names=(port_names[0], port_names[1]))
-
-        gen_straight, sport_in, _sport_out = self.straight
-        for step in batch:
-            straight_length, ccw, in_transition, out_transition = step.data
-            assert step.tool == self
-
-            if step.opcode == 'L':
-                if in_transition:
-                    ipat, iport_theirs, _iport_ours = in_transition
-                    pat.plug(ipat, {port_names[1]: iport_theirs})
-                if not numpy.isclose(straight_length, 0):
-                    straight_pat = gen_straight(straight_length, **kwargs)
-                    if append:
-                        pat.plug(straight_pat, {port_names[1]: sport_in}, append=True)
-                    else:
-                        straight = tree <= {SINGLE_USE_PREFIX + 'straight': straight_pat}
-                        pat.plug(straight, {port_names[1]: sport_in}, append=True)
-                if ccw is not None:
-                    bend, bport_in, bport_out = self.bend
-                    pat.plug(bend, {port_names[1]: bport_in}, mirrored=bool(ccw))
-                if out_transition:
-                    opat, oport_theirs, oport_ours = out_transition
-                    pat.plug(opat, {port_names[1]: oport_ours})
-        return tree
-
-
-@dataclass
-class PathTool(Tool, metaclass=ABCMeta):
-    """
-    A tool which draws `Path` geometry elements.
-
-    If `planL` / `render` are used, the `Path` elements can cover >2 vertices;
-    with `path` only individual rectangles will be drawn.
-    """
-    layer: layer_t
-    """ Layer to draw on """
-
-    width: float
-    """ `Path` width """
-
-    ptype: str = 'unk'
-    """ ptype for any ports in patterns generated by this tool """
-
-    #@dataclass(frozen=True, slots=True)
-    #class LData:
-    #    dxy: NDArray[numpy.float64]
-
-    #def __init__(self, layer: layer_t, width: float, ptype: str = 'unk') -> None:
-    #    Tool.__init__(self)
-    #    self.layer = layer
-    #    self.width = width
-    #    self.ptype: str
-
-    def path(
-            self,
-            ccw: SupportsBool | None,
-            length: float,
-            *,
-            in_ptype: str | None = None,
-            out_ptype: str | None = None,
-            port_names: tuple[str, str] = ('A', 'B'),
-            **kwargs,                           # noqa: ARG002 (unused)
-            ) -> Library:
-        out_port, dxy = self.planL(
-            ccw,
-            length,
-            in_ptype=in_ptype,
-            out_ptype=out_ptype,
-            )
-
-        tree, pat = Library.mktree(SINGLE_USE_PREFIX + 'path')
-        pat.path(layer=self.layer, width=self.width, vertices=[(0, 0), (length, 0)])
-
-        if ccw is None:
-            out_rot = pi
-        elif bool(ccw):
-            out_rot = -pi / 2
-        else:
-            out_rot = pi / 2
-
-        pat.ports = {
-            port_names[0]: Port((0, 0), rotation=0, ptype=self.ptype),
-            port_names[1]: Port(dxy, rotation=out_rot, ptype=self.ptype),
-            }
-
-        return tree
-
-    def planL(
-            self,
-            ccw: SupportsBool | None,
-            length: float,
-            *,
-            in_ptype: str | None = None,        # noqa: ARG002 (unused)
-            out_ptype: str | None = None,
-            **kwargs,                           # noqa: ARG002 (unused)
-            ) -> tuple[Port, NDArray[numpy.float64]]:
-        # TODO check all the math for L-shaped bends
-
-        if out_ptype and out_ptype != self.ptype:
-            raise BuildError(f'Requested {out_ptype=} does not match path ptype {self.ptype}')
-
-        if ccw is not None:
-            bend_dxy = numpy.array([1, -1]) * self.width / 2
-            bend_angle = pi / 2
-
-            if bool(ccw):
-                bend_dxy[1] *= -1
-                bend_angle *= -1
-        else:
-            bend_dxy = numpy.zeros(2)
-            bend_angle = pi
-
-        straight_length = length - bend_dxy[0]
-        bend_run = bend_dxy[1]
-
-        if straight_length < 0:
-            raise BuildError(
-                f'Asked to draw path with total length {length:,g}, shorter than required bend: {bend_dxy[0]:,g}'
-                )
-        data = numpy.array((length, bend_run))
-        out_port = Port(data, rotation=bend_angle, ptype=self.ptype)
-        return out_port, data
-
-    def render(
-            self,
-            batch: Sequence[RenderStep],
-            *,
-            port_names: Sequence[str] = ('A', 'B'),
-            **kwargs,                           # noqa: ARG002 (unused)
-            ) -> ILibrary:
-
-        path_vertices = [batch[0].start_port.offset]
-        for step in batch:
-            assert step.tool == self
-
-            port_rot = step.start_port.rotation
-            assert port_rot is not None
-
-            if step.opcode == 'L':
-                length, bend_run = step.data
-                dxy = rotation_matrix_2d(port_rot + pi) @ (length, 0)
-                #path_vertices.append(step.start_port.offset)
-                path_vertices.append(step.start_port.offset + dxy)
-            else:
-                raise BuildError(f'Unrecognized opcode "{step.opcode}"')
-
-        if (path_vertices[-1] != batch[-1].end_port.offset).any():
-            # If the path ends in a bend, we need to add the final vertex
-            path_vertices.append(batch[-1].end_port.offset)
-
-        tree, pat = Library.mktree(SINGLE_USE_PREFIX + 'path')
-        pat.path(layer=self.layer, width=self.width, vertices=path_vertices)
-        pat.ports = {
-            port_names[0]: batch[0].start_port.copy().rotate(pi),
-            port_names[1]: batch[-1].end_port.copy().rotate(pi),
-            }
-        return tree

masque/builder/utils.py

@@ -1,27 +1,26 @@
-from typing import SupportsFloat, cast, TYPE_CHECKING
-from collections.abc import Mapping, Sequence
+from typing import Dict, Tuple, List, Optional, Union, Any, cast, Sequence, TYPE_CHECKING
 from pprint import pformat
 
 import numpy
 from numpy import pi
-from numpy.typing import ArrayLike, NDArray
+from numpy.typing import ArrayLike
 
-from ..utils import rotation_matrix_2d, SupportsBool
+from ..utils import rotation_matrix_2d
 from ..error import BuildError
 
 if TYPE_CHECKING:
-    from ..ports import Port
+    from .devices import Port
 
 
 def ell(
-        ports: Mapping[str, 'Port'],
-        ccw: SupportsBool | None,
+        ports: Dict[str, 'Port'],
+        ccw: Optional[bool],
         bound_type: str,
-        bound: float | ArrayLike,
+        bound: Union[float, ArrayLike],
         *,
-        spacing: float | ArrayLike | None = None,
-        set_rotation: float | None = None,
-        ) -> dict[str, float]:
+        spacing: Optional[Union[float, ArrayLike]] = None,
+        set_rotation: Optional[float] = None,
+        ) -> Dict[str, float]:
     """
     Calculate extension for each port in order to build a 90-degree bend with the provided
     channel spacing:
@@ -54,9 +53,9 @@ def ell(
                 The distance between furthest out-port (B) and the innermost bend (D's bend).
             - 'max_extension' or 'emax':
                 The total extension value for the closest-in port (C in the diagram).
-            - 'min_position', 'pmin', 'xmin', 'ymin':
+            - 'min_position' or 'pmin':
                 The coordinate of the innermost bend (D's bend).
-            - 'max_position', 'pmax', 'xmax', 'ymax':
+            - 'max_position' or 'pmax':
                 The coordinate of the outermost bend (A's bend).
 
             `bound` can also be a vector. If specifying an extension (e.g. 'min_extension',
@@ -110,12 +109,6 @@ def ell(
             raise BuildError('set_rotation must be specified if no ports have rotations!')
         rotations = numpy.full_like(has_rotation, set_rotation, dtype=float)
 
-    is_horizontal = numpy.isclose(rotations[0] % pi, 0)
-    if bound_type in ('ymin', 'ymax') and is_horizontal:
-        raise BuildError(f'Asked for {bound_type} position but ports are pointing along the x-axis!')
-    if bound_type in ('xmin', 'xmax') and not is_horizontal:
-        raise BuildError(f'Asked for {bound_type} position but ports are pointing along the y-axis!')
-
     direction = rotations[0] + pi                        # direction we want to travel in (+pi relative to port)
     rot_matrix = rotation_matrix_2d(-direction)
 
@@ -123,8 +116,6 @@ def ell(
     orig_offsets = numpy.array([p.offset for p in ports.values()])
     rot_offsets = (rot_matrix @ orig_offsets.T).T
 
-#    ordering_base = rot_offsets.T * [[1], [-1 if ccw else 1]]      # could work, but this is actually a more complex routing problem
-#    y_order = numpy.lexsort(ordering_base)                         #  (need to make sure we don't collide with the next input port @ same y)
     y_order = ((-1 if ccw else 1) * rot_offsets[:, 1]).argsort(kind='stable')
     y_ind = numpy.empty_like(y_order, dtype=int)
     y_ind[y_order] = numpy.arange(y_ind.shape[0])
@@ -144,7 +135,6 @@ def ell(
     #   D-----------|  `d_to_align[3]`
     #
     d_to_align = x_start.max() - x_start    # distance to travel to align all
-    offsets: NDArray[numpy.float64]
     if bound_type == 'min_past_furthest':
         #     A------------------V  `d_to_exit[0]`
         #               B-----V     `d_to_exit[1]`
@@ -164,7 +154,6 @@ def ell(
         travel = d_to_align - (ch_offsets.max() - ch_offsets)
         offsets = travel - travel.min().clip(max=0)
 
-    rot_bound: SupportsFloat
     if bound_type in ('emin', 'min_extension',
                       'emax', 'max_extension',
                       'min_past_furthest',):
@@ -181,7 +170,7 @@ def ell(
 
         if bound_type in ('emin', 'min_extension', 'min_past_furthest'):
             offsets += rot_bound.max()
-        elif bound_type in ('emax', 'max_extension'):
+        elif bound_type in('emax', 'max_extension'):
             offsets += rot_bound.min() - offsets.max()
     else:
         if numpy.size(bound) == 2:
@@ -193,16 +182,15 @@ def ell(
             rot_bound = -bound if neg else bound
 
         min_possible = x_start + offsets
-        if bound_type in ('pmax', 'max_position', 'xmax', 'ymax'):
+        if bound_type in ('pmax', 'max_position'):
             extension = rot_bound - min_possible.max()
-        elif bound_type in ('pmin', 'min_position', 'xmin', 'ymin'):
+        elif bound_type in ('pmin', 'min_position'):
             extension = rot_bound - min_possible.min()
 
         offsets += extension
         if extension < 0:
-            ext_floor = -numpy.floor(extension)
-            raise BuildError(f'Position is too close by at least {ext_floor}. Total extensions would be\n\t'
-                             + '\n\t'.join(f'{key}: {off}' for key, off in zip(ports.keys(), offsets, strict=True)))
+            raise BuildError(f'Position is too close by at least {-numpy.floor(extension)}. Total extensions would be'
+                            + '\n\t'.join(f'{key}: {off}' for key, off in zip(ports.keys(), offsets)))
 
-    result = dict(zip(ports.keys(), offsets, strict=True))
+    result = dict(zip(ports.keys(), offsets))
     return result

masque/error.py

@@ -11,6 +11,13 @@ class PatternError(MasqueError):
     """
     pass
 
+class PatternLockedError(PatternError):
+    """
+    Exception raised when trying to modify a locked pattern
+    """
+    def __init__(self):
+        PatternError.__init__(self, 'Tried to modify a locked Pattern, subpattern, or shape')
+
 
 class LibraryError(MasqueError):
     """
@@ -19,21 +26,22 @@ class LibraryError(MasqueError):
     pass
 
 
+class DeviceLibraryError(MasqueError):
+    """
+    Exception raised by DeviceLibrary classes
+    """
+    pass
+
+
+class DeviceError(MasqueError):
+    """
+    Exception raised by Device and Port objects
+    """
+    pass
+
+
 class BuildError(MasqueError):
     """
     Exception raised by builder-related functions
     """
     pass
-
-class PortError(MasqueError):
-    """
-    Exception raised by builder-related functions
-    """
-    pass
-
-class OneShotError(MasqueError):
-    """
-    Exception raised when a function decorated with `@oneshot` is called more than once
-    """
-    def __init__(self, func_name: str) -> None:
-        Exception.__init__(self, f'Function "{func_name}" with @oneshot was called more than once')

masque/file/dxf.py

@@ -1,51 +1,45 @@
 """
 DXF file format readers and writers
-
-Notes:
- * Gzip modification time is set to 0 (start of current epoch, usually 1970-01-01)
- * ezdxf sets creation time, write time, $VERSIONGUID, and $FINGERPRINTGUID
-    to unique values, so byte-for-byte reproducibility is not achievable for now
 """
-from typing import Any, cast, TextIO, IO
-from collections.abc import Mapping, Callable
+from typing import List, Any, Dict, Tuple, Callable, Union, Sequence, Iterable
+import re
 import io
+import base64
+import struct
 import logging
 import pathlib
 import gzip
 
-import numpy
-import ezdxf
-from ezdxf.enums import TextEntityAlignment
-from ezdxf.entities import LWPolyline, Polyline, Text, Insert
+import numpy        # type: ignore
+import ezdxf        # type: ignore
 
-from .utils import is_gzipped, tmpfile
-from .. import Pattern, Ref, PatternError, Label
-from ..library import ILibraryView, LibraryView, Library
-from ..shapes import Shape, Polygon, Path
+from .. import Pattern, SubPattern, PatternError, Label, Shape
+from ..shapes import Polygon, Path
 from ..repetition import Grid
-from ..utils import rotation_matrix_2d, layer_t, normalize_mirror
+from ..utils import rotation_matrix_2d, layer_t
 
 
 logger = logging.getLogger(__name__)
 
 
-logger.warning('DXF support is experimental!')
+logger.warning('DXF support is experimental and only slightly tested!')
 
 
 DEFAULT_LAYER = 'DEFAULT'
 
 
 def write(
-        library: Mapping[str, Pattern],    # TODO could allow library=None for flat DXF
-        top_name: str,
-        stream: TextIO,
+        pattern: Pattern,
+        stream: io.TextIOBase,
         *,
-        dxf_version: str = 'AC1024',
+        modify_originals: bool = False,
+        dxf_version='AC1024',
+        disambiguate_func: Callable[[Iterable[Pattern]], None] = None,
         ) -> None:
     """
     Write a `Pattern` to a DXF file, by first calling `.polygonize()` to change the shapes
      into polygons, and then writing patterns as DXF `Block`s, polygons as `LWPolyline`s,
-     and refs as `Insert`s.
+     and subpatterns as `Insert`s.
 
     The top level pattern's name is not written to the DXF file. Nested patterns keep their
      names.
@@ -55,61 +49,60 @@ def write(
         tuple: (1, 2) -> '1.2'
         str: '1.2' -> '1.2' (no change)
 
-    DXF does not support shape repetition (only block repeptition). Please call
-    library.wrap_repeated_shapes() before writing to file.
+    It is often a good idea to run `pattern.subpatternize()` prior to calling this function,
+     especially if calling `.polygonize()` will result in very many vertices.
 
-    Other functions you may want to call:
-        - `masque.file.oasis.check_valid_names(library.keys())` to check for invalid names
-        - `library.dangling_refs()` to check for references to missing patterns
-        - `pattern.polygonize()` for any patterns with shapes other
-            than `masque.shapes.Polygon` or `masque.shapes.Path`
+    If you want pattern polygonized with non-default arguments, just call `pattern.polygonize()`
+     prior to calling this function.
 
     Only `Grid` repetition objects with manhattan basis vectors are preserved as arrays. Since DXF
      rotations apply to basis vectors while `masque`'s rotations do not, the basis vectors of an
      array with rotated instances must be manhattan _after_ having a compensating rotation applied.
 
     Args:
-        library: A {name: Pattern} mapping of patterns. Only `top_name` and patterns referenced
-            by it are written.
-        top_name: Name of the top-level pattern to write.
+        patterns: A Pattern or list of patterns to write to the stream.
         stream: Stream object to write to.
+        modify_original: If `True`, the original pattern is modified as part of the writing
+            process. Otherwise, a copy is made and `deepunlock()`-ed.
+            Default `False`.
+        disambiguate_func: Function which takes a list of patterns and alters them
+            to make their names valid and unique. Default is `disambiguate_pattern_names`.
+            WARNING: No additional error checking is performed on the results.
     """
     #TODO consider supporting DXF arcs?
-    if not isinstance(library, ILibraryView):
-        if isinstance(library, dict):
-            library = LibraryView(library)
-        else:
-            library = LibraryView(dict(library))
+    if disambiguate_func is None:
+        disambiguate_func = lambda pats: disambiguate_pattern_names(pats)
+    assert(disambiguate_func is not None)
 
-    pattern = library[top_name]
-    subtree = library.subtree(top_name)
+    if not modify_originals:
+        pattern = pattern.deepcopy().deepunlock()
+
+    # Get a dict of id(pattern) -> pattern
+    patterns_by_id = pattern.referenced_patterns_by_id()
+    disambiguate_func(patterns_by_id.values())
 
     # Create library
     lib = ezdxf.new(dxf_version, setup=True)
     msp = lib.modelspace()
     _shapes_to_elements(msp, pattern.shapes)
     _labels_to_texts(msp, pattern.labels)
-    _mrefs_to_drefs(msp, pattern.refs)
+    _subpatterns_to_refs(msp, pattern.subpatterns)
 
     # Now create a block for each referenced pattern, and add in any shapes
-    for name, pat in subtree.items():
-        assert pat is not None
-        if name == top_name:
-            continue
-
-        block = lib.blocks.new(name=name)
+    for pat in patterns_by_id.values():
+        assert(pat is not None)
+        block = lib.blocks.new(name=pat.name)
 
         _shapes_to_elements(block, pat.shapes)
         _labels_to_texts(block, pat.labels)
-        _mrefs_to_drefs(block, pat.refs)
+        _subpatterns_to_refs(block, pat.subpatterns)
 
     lib.write(stream)
 
 
 def writefile(
-        library: Mapping[str, Pattern],
-        top_name: str,
-        filename: str | pathlib.Path,
+        pattern: Pattern,
+        filename: Union[str, pathlib.Path],
         *args,
         **kwargs,
         ) -> None:
@@ -119,42 +112,30 @@ def writefile(
     Will automatically compress the file if it has a .gz suffix.
 
     Args:
-        library: A {name: Pattern} mapping of patterns. Only `top_name` and patterns referenced
-            by it are written.
-        top_name: Name of the top-level pattern to write.
+        pattern: `Pattern` to save
         filename: Filename to save to.
         *args: passed to `dxf.write`
         **kwargs: passed to `dxf.write`
     """
     path = pathlib.Path(filename)
+    if path.suffix == '.gz':
+        open_func: Callable = gzip.open
+    else:
+        open_func = open
 
-    gz_stream: IO[bytes]
-    with tmpfile(path) as base_stream:
-        streams: tuple[Any, ...] = (base_stream,)
-        if path.suffix == '.gz':
-            gz_stream = cast(IO[bytes], gzip.GzipFile(filename='', mtime=0, fileobj=base_stream, mode='wb'))
-            streams = (gz_stream,) + streams
-        else:
-            gz_stream = base_stream
-        stream = io.TextIOWrapper(gz_stream)        # type: ignore
-        streams = (stream,) + streams
-
-        try:
-            write(library, top_name, stream, *args, **kwargs)
-        finally:
-            for ss in streams:
-                ss.close()
+    with open_func(path, mode='wt') as stream:
+        write(pattern, stream, *args, **kwargs)
 
 
 def readfile(
-        filename: str | pathlib.Path,
+        filename: Union[str, pathlib.Path],
         *args,
         **kwargs,
-        ) -> tuple[Library, dict[str, Any]]:
+        ) -> Tuple[Pattern, Dict[str, Any]]:
     """
     Wrapper for `dxf.read()` that takes a filename or path instead of a stream.
 
-    Will automatically decompress gzipped files.
+    Will automatically decompress files with a .gz suffix.
 
     Args:
         filename: Filename to save to.
@@ -162,7 +143,7 @@ def readfile(
         **kwargs: passed to `dxf.read`
     """
     path = pathlib.Path(filename)
-    if is_gzipped(path):
+    if path.suffix == '.gz':
         open_func: Callable = gzip.open
     else:
         open_func = open
@@ -173,17 +154,21 @@ def readfile(
 
 
 def read(
-        stream: TextIO,
-        ) -> tuple[Library, dict[str, Any]]:
+        stream: io.TextIOBase,
+        clean_vertices: bool = True,
+        ) -> Tuple[Pattern, Dict[str, Any]]:
     """
     Read a dxf file and translate it into a dict of `Pattern` objects. DXF `Block`s are
      translated into `Pattern` objects; `LWPolyline`s are translated into polygons, and `Insert`s
-     are translated into `Ref` objects.
+     are translated into `SubPattern` objects.
 
     If an object has no layer it is set to this module's `DEFAULT_LAYER` ("DEFAULT").
 
     Args:
         stream: Stream to read from.
+        clean_vertices: If `True`, remove any redundant vertices when loading polygons.
+            The cleaning process removes any polygons with zero area or <3 vertices.
+            Default `True`.
 
     Returns:
         - Top level pattern
@@ -191,183 +176,177 @@ def read(
     lib = ezdxf.read(stream)
     msp = lib.modelspace()
 
-    top_name, top_pat = _read_block(msp)
-    mlib = Library({top_name: top_pat})
-    for bb in lib.blocks:
-        if bb.name == '*Model_Space':
-            continue
-        name, pat = _read_block(bb)
-        mlib[name] = pat
+    pat = _read_block(msp, clean_vertices)
+    patterns = [pat] + [_read_block(bb, clean_vertices) for bb in lib.blocks if bb.name != '*Model_Space']
 
-    library_info = dict(
-        layers=[ll.dxfattribs() for ll in lib.layers],
-        )
+    # Create a dict of {pattern.name: pattern, ...}, then fix up all subpattern.pattern entries
+    #  according to the subpattern.identifier (which is deleted after use).
+    patterns_dict = dict(((p.name, p) for p in patterns))
+    for p in patterns_dict.values():
+        for sp in p.subpatterns:
+            sp.pattern = patterns_dict[sp.identifier[0]]
+            del sp.identifier
 
-    return mlib, library_info
+    library_info = {
+        'layers': [ll.dxfattribs() for ll in lib.layers]
+        }
+
+    return pat, library_info
 
 
-def _read_block(block: ezdxf.layouts.BlockLayout | ezdxf.layouts.Modelspace) -> tuple[str, Pattern]:
-    name = block.name
-    pat = Pattern()
+def _read_block(block, clean_vertices: bool) -> Pattern:
+    pat = Pattern(block.name)
     for element in block:
-        if isinstance(element, LWPolyline | Polyline):
-            if isinstance(element, LWPolyline):
-                points = numpy.asarray(element.get_points())
-            elif isinstance(element, Polyline):
-                points = numpy.asarray(element.points())[:, :2]
+        eltype = element.dxftype()
+        if eltype in ('POLYLINE', 'LWPOLYLINE'):
+            if eltype == 'LWPOLYLINE':
+                points = numpy.array(tuple(element.lwpoints))
+            else:
+                points = numpy.array(tuple(element.points()))
             attr = element.dxfattribs()
             layer = attr.get('layer', DEFAULT_LAYER)
 
             if points.shape[1] == 2:
                 raise PatternError('Invalid or unimplemented polygon?')
-
-            if points.shape[1] > 2:
+                #shape = Polygon(layer=layer)
+            elif points.shape[1] > 2:
                 if (points[0, 2] != points[:, 2]).any():
                     raise PatternError('PolyLine has non-constant width (not yet representable in masque!)')
-                if points.shape[1] == 4 and (points[:, 3] != 0).any():
+                elif points.shape[1] == 4 and (points[:, 3] != 0).any():
                     raise PatternError('LWPolyLine has bulge (not yet representable in masque!)')
 
                 width = points[0, 2]
                 if width == 0:
                     width = attr.get('const_width', 0)
 
-                shape: Path | Polygon
+                shape: Union[Path, Polygon]
                 if width == 0 and len(points) > 2 and numpy.array_equal(points[0], points[-1]):
-                    shape = Polygon(vertices=points[:-1, :2])
+                    shape = Polygon(layer=layer, vertices=points[:-1, :2])
                 else:
-                    shape = Path(width=width, vertices=points[:, :2])
+                    shape = Path(layer=layer, width=width, vertices=points[:, :2])
 
-            pat.shapes[layer].append(shape)
+            if clean_vertices:
+                try:
+                    shape.clean_vertices()
+                except PatternError:
+                    continue
 
-        elif isinstance(element, Text):
-            args = dict(
-                offset=numpy.asarray(element.get_placement()[1])[:2],
-                layer=element.dxfattribs().get('layer', DEFAULT_LAYER),
-                )
+            pat.shapes.append(shape)
+
+        elif eltype in ('TEXT',):
+            args = {'offset': numpy.array(element.get_pos()[1])[:2],
+                    'layer': element.dxfattribs().get('layer', DEFAULT_LAYER),
+                   }
             string = element.dxfattribs().get('text', '')
 #            height = element.dxfattribs().get('height', 0)
 #            if height != 0:
 #                logger.warning('Interpreting DXF TEXT as a label despite nonzero height. '
 #                               'This could be changed in the future by setting a font path in the masque DXF code.')
-            pat.label(string=string, **args)
+            pat.labels.append(Label(string=string, **args))
 #            else:
-#                pat.shapes[args['layer']].append(Text(string=string, height=height, font_path=????))
-        elif isinstance(element, Insert):
+#                pat.shapes.append(Text(string=string, height=height, font_path=????))
+        elif eltype in ('INSERT',):
             attr = element.dxfattribs()
             xscale = attr.get('xscale', 1)
             yscale = attr.get('yscale', 1)
             if abs(xscale) != abs(yscale):
                 logger.warning('Masque does not support per-axis scaling; using x-scaling only!')
             scale = abs(xscale)
-            mirrored, extra_angle = normalize_mirror((yscale < 0, xscale < 0))
-            rotation = numpy.deg2rad(attr.get('rotation', 0)) + extra_angle
+            mirrored = (yscale < 0, xscale < 0)
+            rotation = numpy.deg2rad(attr.get('rotation', 0))
 
-            offset = numpy.asarray(attr.get('insert', (0, 0, 0)))[:2]
+            offset = numpy.array(attr.get('insert', (0, 0, 0)))[:2]
 
-            args = dict(
-                target=attr.get('name', None),
-                offset=offset,
-                scale=scale,
-                mirrored=mirrored,
-                rotation=rotation,
-                )
+            args = {
+                'offset': offset,
+                'scale': scale,
+                'mirrored': mirrored,
+                'rotation': rotation,
+                'pattern': None,
+                'identifier': (attr.get('name', None),),
+                }
 
             if 'column_count' in attr:
-                args['repetition'] = Grid(
-                    a_vector=(attr['column_spacing'], 0),
-                    b_vector=(0, attr['row_spacing']),
-                    a_count=attr['column_count'],
-                    b_count=attr['row_count'],
-                    )
-            pat.ref(**args)
+                args['repetition'] = Grid(a_vector=(attr['column_spacing'], 0),
+                                          b_vector=(0, attr['row_spacing']),
+                                          a_count=attr['column_count'],
+                                          b_count=attr['row_count'])
+            pat.subpatterns.append(SubPattern(**args))
         else:
             logger.warning(f'Ignoring DXF element {element.dxftype()} (not implemented).')
-    return name, pat
+    return pat
 
 
-def _mrefs_to_drefs(
-        block: ezdxf.layouts.BlockLayout | ezdxf.layouts.Modelspace,
-        refs: dict[str | None, list[Ref]],
+def _subpatterns_to_refs(
+        block: Union[ezdxf.layouts.BlockLayout, ezdxf.layouts.Modelspace],
+        subpatterns: List[SubPattern],
         ) -> None:
-    def mk_blockref(encoded_name: str, ref: Ref) -> None:
-        rotation = numpy.rad2deg(ref.rotation) % 360
-        attribs = dict(
-            xscale=ref.scale,
-            yscale=ref.scale * (-1 if ref.mirrored else 1),
-            rotation=rotation,
-            )
+    for subpat in subpatterns:
+        if subpat.pattern is None:
+            continue
+        encoded_name = subpat.pattern.name
 
-        rep = ref.repetition
+        rotation = (subpat.rotation * 180 / numpy.pi) % 360
+        attribs = {
+            'xscale': subpat.scale * (-1 if subpat.mirrored[1] else 1),
+            'yscale': subpat.scale * (-1 if subpat.mirrored[0] else 1),
+            'rotation': rotation,
+            }
+
+        rep = subpat.repetition
         if rep is None:
-            block.add_blockref(encoded_name, ref.offset, dxfattribs=attribs)
+            block.add_blockref(encoded_name, subpat.offset, dxfattribs=attribs)
         elif isinstance(rep, Grid):
             a = rep.a_vector
             b = rep.b_vector if rep.b_vector is not None else numpy.zeros(2)
-            rotated_a = rotation_matrix_2d(-ref.rotation) @ a
-            rotated_b = rotation_matrix_2d(-ref.rotation) @ b
+            rotated_a = rotation_matrix_2d(-subpat.rotation) @ a
+            rotated_b = rotation_matrix_2d(-subpat.rotation) @ b
             if rotated_a[1] == 0 and rotated_b[0] == 0:
                 attribs['column_count'] = rep.a_count
                 attribs['row_count'] = rep.b_count
                 attribs['column_spacing'] = rotated_a[0]
                 attribs['row_spacing'] = rotated_b[1]
-                block.add_blockref(encoded_name, ref.offset, dxfattribs=attribs)
+                block.add_blockref(encoded_name, subpat.offset, dxfattribs=attribs)
             elif rotated_a[0] == 0 and rotated_b[1] == 0:
                 attribs['column_count'] = rep.b_count
                 attribs['row_count'] = rep.a_count
                 attribs['column_spacing'] = rotated_b[0]
                 attribs['row_spacing'] = rotated_a[1]
-                block.add_blockref(encoded_name, ref.offset, dxfattribs=attribs)
+                block.add_blockref(encoded_name, subpat.offset, dxfattribs=attribs)
             else:
                 #NOTE: We could still do non-manhattan (but still orthogonal) grids by getting
                 #       creative with counter-rotated nested patterns, but probably not worth it.
                 # Instead, just break appart the grid into individual elements:
                 for dd in rep.displacements:
-                    block.add_blockref(encoded_name, ref.offset + dd, dxfattribs=attribs)
+                    block.add_blockref(encoded_name, subpat.offset + dd, dxfattribs=attribs)
         else:
             for dd in rep.displacements:
-                block.add_blockref(encoded_name, ref.offset + dd, dxfattribs=attribs)
-
-    for target, rseq in refs.items():
-        if target is None:
-            continue
-        for ref in rseq:
-            mk_blockref(target, ref)
+                block.add_blockref(encoded_name, subpat.offset + dd, dxfattribs=attribs)
 
 
 def _shapes_to_elements(
-        block: ezdxf.layouts.BlockLayout | ezdxf.layouts.Modelspace,
-        shapes: dict[layer_t, list[Shape]],
+        block: Union[ezdxf.layouts.BlockLayout, ezdxf.layouts.Modelspace],
+        shapes: List[Shape],
+        polygonize_paths: bool = False,
         ) -> None:
     # Add `LWPolyline`s for each shape.
     #   Could set do paths with width setting, but need to consider endcaps.
-    # TODO: can DXF do paths?
-    for layer, sseq in shapes.items():
-        attribs = dict(layer=_mlayer2dxf(layer))
-        for shape in sseq:
-            if shape.repetition is not None:
-                raise PatternError(
-                    'Shape repetitions are not supported by DXF.'
-                    ' Please call library.wrap_repeated_shapes() before writing to file.'
-                    )
-
-            for polygon in shape.to_polygons():
-                xy_open = polygon.vertices + polygon.offset
-                xy_closed = numpy.vstack((xy_open, xy_open[0, :]))
-                block.add_lwpolyline(xy_closed, dxfattribs=attribs)
+    for shape in shapes:
+        attribs = {'layer': _mlayer2dxf(shape.layer)}
+        for polygon in shape.to_polygons():
+            xy_open = polygon.vertices + polygon.offset
+            xy_closed = numpy.vstack((xy_open, xy_open[0, :]))
+            block.add_lwpolyline(xy_closed, dxfattribs=attribs)
 
 
 def _labels_to_texts(
-        block: ezdxf.layouts.BlockLayout | ezdxf.layouts.Modelspace,
-        labels: dict[layer_t, list[Label]],
+        block: Union[ezdxf.layouts.BlockLayout, ezdxf.layouts.Modelspace],
+        labels: List[Label],
         ) -> None:
-    for layer, lseq in labels.items():
-        attribs = dict(layer=_mlayer2dxf(layer))
-        for label in lseq:
-            xy = label.offset
-            block.add_text(
-                label.string,
-                dxfattribs=attribs
-                ).set_placement(xy, align=TextEntityAlignment.BOTTOM_LEFT)
+    for label in labels:
+        attribs = {'layer': _mlayer2dxf(label.layer)}
+        xy = label.offset
+        block.add_text(label.string, dxfattribs=attribs).set_pos(xy, align='BOTTOM_LEFT')
 
 
 def _mlayer2dxf(layer: layer_t) -> str:
@@ -378,3 +357,40 @@ def _mlayer2dxf(layer: layer_t) -> str:
     if isinstance(layer, tuple):
         return f'{layer[0]}.{layer[1]}'
     raise PatternError(f'Unknown layer type: {layer} ({type(layer)})')
+
+
+def disambiguate_pattern_names(
+        patterns: Iterable[Pattern],
+        max_name_length: int = 32,
+        suffix_length: int = 6,
+        dup_warn_filter: Callable[[str], bool] = None,      # If returns False, don't warn about this name
+        ) -> None:
+    used_names = []
+    for pat in patterns:
+        sanitized_name = re.compile(r'[^A-Za-z0-9_\?\$]').sub('_', pat.name)
+
+        i = 0
+        suffixed_name = sanitized_name
+        while suffixed_name in used_names or suffixed_name == '':
+            suffix = base64.b64encode(struct.pack('>Q', i), b'$?').decode('ASCII')
+
+            suffixed_name = sanitized_name + '$' + suffix[:-1].lstrip('A')
+            i += 1
+
+        if sanitized_name == '':
+            logger.warning(f'Empty pattern name saved as "{suffixed_name}"')
+        elif suffixed_name != sanitized_name:
+            if dup_warn_filter is None or dup_warn_filter(pat.name):
+                logger.warning(f'Pattern name "{pat.name}" ({sanitized_name}) appears multiple times;\n'
+                               + f' renaming to "{suffixed_name}"')
+
+        if len(suffixed_name) == 0:
+            # Should never happen since zero-length names are replaced
+            raise PatternError(f'Zero-length name after sanitize,\n originally "{pat.name}"')
+        if len(suffixed_name) > max_name_length:
+            raise PatternError(f'Pattern name "{suffixed_name!r}" length > {max_name_length} after encode,\n'
+                               + f' originally "{pat.name}"')
+
+        pat.name = suffixed_name
+        used_names.append(suffixed_name)
+

masque/file/gdsii.py

@@ -16,31 +16,31 @@ Notes:
  * PLEX is not supported
  * ELFLAGS are not supported
  * GDS does not support library- or structure-level annotations
- * GDS creation/modification/access times are set to 1900-01-01 for reproducibility.
- * Gzip modification time is set to 0 (start of current epoch, usually 1970-01-01)
+ * Creation/modification/access times are set to 1900-01-01 for reproducibility.
 """
-from typing import IO, cast, Any
-from collections.abc import Iterable, Mapping, Callable
+from typing import List, Any, Dict, Tuple, Callable, Union, Iterable, Optional
+from typing import Sequence, BinaryIO
+import re
 import io
 import mmap
+import copy
+import base64
+import struct
 import logging
 import pathlib
 import gzip
-import string
-from pprint import pformat
 
 import numpy
-from numpy.typing import ArrayLike, NDArray
+from numpy.typing import NDArray, ArrayLike
 import klamath
 from klamath import records
 
-from .utils import is_gzipped, tmpfile
-from .. import Pattern, Ref, PatternError, LibraryError, Label, Shape
+from .utils import is_gzipped
+from .. import Pattern, SubPattern, PatternError, Label, Shape
 from ..shapes import Polygon, Path
 from ..repetition import Grid
-from ..utils import layer_t, annotations_t
-from ..library import LazyLibrary, Library, ILibrary, ILibraryView
-
+from ..utils import layer_t, normalize_mirror, annotations_t
+from ..library import Library
 
 logger = logging.getLogger(__name__)
 
@@ -53,21 +53,20 @@ path_cap_map = {
     }
 
 
-def rint_cast(val: ArrayLike) -> NDArray[numpy.int32]:
-    return numpy.rint(val).astype(numpy.int32)
-
-
 def write(
-        library: Mapping[str, Pattern],
-        stream: IO[bytes],
+        patterns: Union[Pattern, Sequence[Pattern]],
+        stream: BinaryIO,
         meters_per_unit: float,
         logical_units_per_unit: float = 1,
         library_name: str = 'masque-klamath',
+        *,
+        modify_originals: bool = False,
+        disambiguate_func: Callable[[Iterable[Pattern]], None] = None,
         ) -> None:
     """
-    Convert a library to a GDSII stream, mapping data as follows:
+    Convert a `Pattern` or list of patterns to a GDSII stream,  and then mapping data as follows:
          Pattern -> GDSII structure
-         Ref -> GDSII SREF or AREF
+         SubPattern -> GDSII SREF or AREF
          Path -> GSDII path
          Shape (other than path) -> GDSII boundary/ies
          Label -> GDSII text
@@ -79,17 +78,14 @@ def write(
         datatype is chosen to be `shape.layer[1]` if available,
             otherwise `0`
 
-    GDS does not support shape repetition (only cell repeptition). Please call
-    `library.wrap_repeated_shapes()` before writing to file.
+    It is often a good idea to run `pattern.subpatternize()` prior to calling this function,
+     especially if calling `.polygonize()` will result in very many vertices.
 
-    Other functions you may want to call:
-        - `masque.file.gdsii.check_valid_names(library.keys())` to check for invalid names
-        - `library.dangling_refs()` to check for references to missing patterns
-        - `pattern.polygonize()` for any patterns with shapes other
-            than `masque.shapes.Polygon` or `masque.shapes.Path`
+    If you want pattern polygonized with non-default arguments, just call `pattern.polygonize()`
+     prior to calling this function.
 
     Args:
-        library: A {name: Pattern} mapping of patterns to write.
+        patterns: A Pattern or list of patterns to convert.
         meters_per_unit: Written into the GDSII file, meters per (database) length unit.
             All distances are assumed to be an integer multiple of this unit, and are stored as such.
         logical_units_per_unit: Written into the GDSII file. Allows the GDSII to specify a
@@ -97,35 +93,54 @@ def write(
             Default `1`.
         library_name: Library name written into the GDSII file.
             Default 'masque-klamath'.
+        modify_originals: If `True`, the original pattern is modified as part of the writing
+            process. Otherwise, a copy is made and `deepunlock()`-ed.
+            Default `False`.
+        disambiguate_func: Function which takes a list of patterns and alters them
+            to make their names valid and unique. Default is `disambiguate_pattern_names`, which
+            attempts to adhere to the GDSII standard as well as possible.
+            WARNING: No additional error checking is performed on the results.
     """
-    if not isinstance(library, ILibrary):
-        if isinstance(library, dict):
-            library = Library(library)
-        else:
-            library = Library(dict(library))
+    if isinstance(patterns, Pattern):
+        patterns = [patterns]
+
+    if disambiguate_func is None:
+        disambiguate_func = disambiguate_pattern_names          # type: ignore
+    assert(disambiguate_func is not None)       # placate mypy
+
+    if not modify_originals:
+        patterns = [p.deepunlock() for p in copy.deepcopy(patterns)]
+
+    patterns = [p.wrap_repeated_shapes() for p in patterns]
 
     # Create library
-    header = klamath.library.FileHeader(
-        name=library_name.encode('ASCII'),
-        user_units_per_db_unit=logical_units_per_unit,
-        meters_per_db_unit=meters_per_unit,
-        )
+    header = klamath.library.FileHeader(name=library_name.encode('ASCII'),
+                                        user_units_per_db_unit=logical_units_per_unit,
+                                        meters_per_db_unit=meters_per_unit)
     header.write(stream)
 
+    # Get a dict of id(pattern) -> pattern
+    patterns_by_id = {id(pattern): pattern for pattern in patterns}
+    for pattern in patterns:
+        for i, p in pattern.referenced_patterns_by_id().items():
+            patterns_by_id[i] = p
+
+    disambiguate_func(patterns_by_id.values())
+
     # Now create a structure for each pattern, and add in any Boundary and SREF elements
-    for name, pat in library.items():
-        elements: list[klamath.elements.Element] = []
+    for pat in patterns_by_id.values():
+        elements: List[klamath.elements.Element] = []
         elements += _shapes_to_elements(pat.shapes)
         elements += _labels_to_texts(pat.labels)
-        elements += _mrefs_to_grefs(pat.refs)
+        elements += _subpatterns_to_refs(pat.subpatterns)
 
-        klamath.library.write_struct(stream, name=name.encode('ASCII'), elements=elements)
+        klamath.library.write_struct(stream, name=pat.name.encode('ASCII'), elements=elements)
     records.ENDLIB.write(stream, None)
 
 
 def writefile(
-        library: Mapping[str, Pattern],
-        filename: str | pathlib.Path,
+        patterns: Union[Sequence[Pattern], Pattern],
+        filename: Union[str, pathlib.Path],
         *args,
         **kwargs,
         ) -> None:
@@ -135,33 +150,26 @@ def writefile(
     Will automatically compress the file if it has a .gz suffix.
 
     Args:
-        library: {name: Pattern} pairs to save.
+        patterns: `Pattern` or list of patterns to save
         filename: Filename to save to.
         *args: passed to `write()`
         **kwargs: passed to `write()`
     """
     path = pathlib.Path(filename)
+    if path.suffix == '.gz':
+        open_func: Callable = gzip.open
+    else:
+        open_func = open
 
-    with tmpfile(path) as base_stream:
-        streams: tuple[Any, ...] = (base_stream,)
-        if path.suffix == '.gz':
-            stream = cast(IO[bytes], gzip.GzipFile(filename='', mtime=0, fileobj=base_stream, mode='wb', compresslevel=6))
-            streams = (stream,) + streams
-        else:
-            stream = base_stream
-
-        try:
-            write(library, stream, *args, **kwargs)
-        finally:
-            for ss in streams:
-                ss.close()
+    with io.BufferedWriter(open_func(path, mode='wb')) as stream:
+        write(patterns, stream, *args, **kwargs)
 
 
 def readfile(
-        filename: str | pathlib.Path,
+        filename: Union[str, pathlib.Path],
         *args,
         **kwargs,
-        ) -> tuple[Library, dict[str, Any]]:
+        ) -> Tuple[Dict[str, Pattern], Dict[str, Any]]:
     """
     Wrapper for `read()` that takes a filename or path instead of a stream.
 
@@ -178,20 +186,19 @@ def readfile(
     else:
         open_func = open
 
-    with open_func(path, mode='rb') as stream:
+    with io.BufferedReader(open_func(path, mode='rb')) as stream:
         results = read(stream, *args, **kwargs)
     return results
 
 
 def read(
-        stream: IO[bytes],
+        stream: BinaryIO,
         raw_mode: bool = True,
-        ) -> tuple[Library, dict[str, Any]]:
+        ) -> Tuple[Dict[str, Pattern], Dict[str, Any]]:
     """
-    # TODO check GDSII file for cycles!
     Read a gdsii file and translate it into a dict of Pattern objects. GDSII structures are
      translated into Pattern objects; boundaries are translated into polygons, and srefs and arefs
-     are translated into Ref objects.
+     are translated into SubPattern objects.
 
     Additional library info is returned in a dict, containing:
       'name': name of the library
@@ -204,23 +211,31 @@ def read(
         raw_mode: If True, constructs shapes in raw mode, bypassing most data validation, Default True.
 
     Returns:
-        - dict of pattern_name:Patterns generated from GDSII structures
-        - dict of GDSII library info
+        - Dict of pattern_name:Patterns generated from GDSII structures
+        - Dict of GDSII library info
     """
     library_info = _read_header(stream)
 
-    mlib = Library()
+    patterns = []
     found_struct = records.BGNSTR.skip_past(stream)
     while found_struct:
         name = records.STRNAME.skip_and_read(stream)
-        pat = read_elements(stream, raw_mode=raw_mode)
-        mlib[name.decode('ASCII')] = pat
+        pat = read_elements(stream, name=name.decode('ASCII'), raw_mode=raw_mode)
+        patterns.append(pat)
         found_struct = records.BGNSTR.skip_past(stream)
 
-    return mlib, library_info
+    # Create a dict of {pattern.name: pattern, ...}, then fix up all subpattern.pattern entries
+    #  according to the subpattern.identifier (which is deleted after use).
+    patterns_dict = dict(((p.name, p) for p in patterns))
+    for p in patterns_dict.values():
+        for sp in p.subpatterns:
+            sp.pattern = patterns_dict[sp.identifier[0]]
+            del sp.identifier
+
+    return patterns_dict, library_info
 
 
-def _read_header(stream: IO[bytes]) -> dict[str, Any]:
+def _read_header(stream: BinaryIO) -> Dict[str, Any]:
     """
     Read the file header and create the library_info dict.
     """
@@ -234,7 +249,8 @@ def _read_header(stream: IO[bytes]) -> dict[str, Any]:
 
 
 def read_elements(
-        stream: IO[bytes],
+        stream: BinaryIO,
+        name: str,
         raw_mode: bool = True,
         ) -> Pattern:
     """
@@ -249,30 +265,28 @@ def read_elements(
     Returns:
         A pattern containing the elements that were read.
     """
-    pat = Pattern()
+    pat = Pattern(name)
 
     elements = klamath.library.read_elements(stream)
     for element in elements:
         if isinstance(element, klamath.elements.Boundary):
-            layer, poly = _boundary_to_polygon(element, raw_mode)
-            pat.shapes[layer].append(poly)
+            poly = _boundary_to_polygon(element, raw_mode)
+            pat.shapes.append(poly)
         elif isinstance(element, klamath.elements.Path):
-            layer, path = _gpath_to_mpath(element, raw_mode)
-            pat.shapes[layer].append(path)
+            path = _gpath_to_mpath(element, raw_mode)
+            pat.shapes.append(path)
         elif isinstance(element, klamath.elements.Text):
-            pat.label(
-                layer=element.layer,
-                offset=element.xy.astype(float),
-                string=element.string.decode('ASCII'),
-                annotations=_properties_to_annotations(element.properties),
-                )
+            label = Label(offset=element.xy.astype(float),
+                          layer=element.layer,
+                          string=element.string.decode('ASCII'),
+                          annotations=_properties_to_annotations(element.properties))
+            pat.labels.append(label)
         elif isinstance(element, klamath.elements.Reference):
-            target, ref = _gref_to_mref(element)
-            pat.refs[target].append(ref)
+            pat.subpatterns.append(_ref_to_subpat(element))
     return pat
 
 
-def _mlayer2gds(mlayer: layer_t) -> tuple[int, int]:
+def _mlayer2gds(mlayer: layer_t) -> Tuple[int, int]:
     """ Helper to turn a layer tuple-or-int into a layer and datatype"""
     if isinstance(mlayer, int):
         layer = mlayer
@@ -288,9 +302,10 @@ def _mlayer2gds(mlayer: layer_t) -> tuple[int, int]:
     return layer, data_type
 
 
-def _gref_to_mref(ref: klamath.library.Reference) -> tuple[str, Ref]:
+def _ref_to_subpat(ref: klamath.library.Reference) -> SubPattern:
     """
-    Helper function to create a Ref from an SREF or AREF. Sets ref.target to struct_name.
+    Helper function to create a SubPattern from an SREF or AREF. Sets subpat.pattern to None
+     and sets the instance .identifier to (struct_name,).
     """
     xy = ref.xy.astype(float)
     offset = xy[0]
@@ -302,115 +317,108 @@ def _gref_to_mref(ref: klamath.library.Reference) -> tuple[str, Ref]:
         repetition = Grid(a_vector=a_vector, b_vector=b_vector,
                           a_count=a_count, b_count=b_count)
 
-    target = ref.struct_name.decode('ASCII')
-    mref = Ref(
-        offset=offset,
-        rotation=numpy.deg2rad(ref.angle_deg),
-        scale=ref.mag,
-        mirrored=ref.invert_y,
-        annotations=_properties_to_annotations(ref.properties),
-        repetition=repetition,
-        )
-    return target, mref
+    subpat = SubPattern(pattern=None,
+                        offset=offset,
+                        rotation=numpy.deg2rad(ref.angle_deg),
+                        scale=ref.mag,
+                        mirrored=(ref.invert_y, False),
+                        annotations=_properties_to_annotations(ref.properties),
+                        repetition=repetition)
+    subpat.identifier = (ref.struct_name.decode('ASCII'),)
+    return subpat
 
 
-def _gpath_to_mpath(gpath: klamath.library.Path, raw_mode: bool) -> tuple[layer_t, Path]:
+def _gpath_to_mpath(gpath: klamath.library.Path, raw_mode: bool) -> Path:
     if gpath.path_type in path_cap_map:
         cap = path_cap_map[gpath.path_type]
     else:
         raise PatternError(f'Unrecognized path type: {gpath.path_type}')
 
-    mpath = Path(
-        vertices=gpath.xy.astype(float),
-        width=gpath.width,
-        cap=cap,
-        offset=numpy.zeros(2),
-        annotations=_properties_to_annotations(gpath.properties),
-        raw=raw_mode,
-        )
+    mpath = Path(vertices=gpath.xy.astype(float),
+                 layer=gpath.layer,
+                 width=gpath.width,
+                 cap=cap,
+                 offset=numpy.zeros(2),
+                 annotations=_properties_to_annotations(gpath.properties),
+                 raw=raw_mode,
+                 )
     if cap == Path.Cap.SquareCustom:
         mpath.cap_extensions = gpath.extension
-    return gpath.layer, mpath
+    return mpath
 
 
-def _boundary_to_polygon(boundary: klamath.library.Boundary, raw_mode: bool) -> tuple[layer_t, Polygon]:
-    return boundary.layer, Polygon(
-        vertices=boundary.xy[:-1].astype(float),
-        offset=numpy.zeros(2),
-        annotations=_properties_to_annotations(boundary.properties),
-        raw=raw_mode,
-        )
+def _boundary_to_polygon(boundary: klamath.library.Boundary, raw_mode: bool) -> Polygon:
+    return Polygon(vertices=boundary.xy[:-1].astype(float),
+                   layer=boundary.layer,
+                   offset=numpy.zeros(2),
+                   annotations=_properties_to_annotations(boundary.properties),
+                   raw=raw_mode,
+                   )
 
 
-def _mrefs_to_grefs(refs: dict[str | None, list[Ref]]) -> list[klamath.library.Reference]:
-    grefs = []
-    for target, rseq in refs.items():
-        if target is None:
+def _subpatterns_to_refs(subpatterns: List[SubPattern]) -> List[klamath.library.Reference]:
+    refs = []
+    for subpat in subpatterns:
+        if subpat.pattern is None:
             continue
-        encoded_name = target.encode('ASCII')
-        for ref in rseq:
-            # Note: GDS also mirrors first and rotates second
-            rep = ref.repetition
-            angle_deg = numpy.rad2deg(ref.rotation) % 360
-            properties = _annotations_to_properties(ref.annotations, 512)
+        encoded_name = subpat.pattern.name.encode('ASCII')
 
-            if isinstance(rep, Grid):
-                b_vector = rep.b_vector if rep.b_vector is not None else numpy.zeros(2)
-                b_count = rep.b_count if rep.b_count is not None else 1
-                xy = numpy.asarray(ref.offset) + numpy.array([
-                    [0.0, 0.0],
-                    rep.a_vector * rep.a_count,
-                    b_vector * b_count,
-                    ])
-                aref = klamath.library.Reference(
-                    struct_name=encoded_name,
-                    xy=rint_cast(xy),
-                    colrow=(numpy.rint(rep.a_count), numpy.rint(rep.b_count)),
-                    angle_deg=angle_deg,
-                    invert_y=ref.mirrored,
-                    mag=ref.scale,
-                    properties=properties,
-                    )
-                grefs.append(aref)
-            elif rep is None:
-                sref = klamath.library.Reference(
-                    struct_name=encoded_name,
-                    xy=rint_cast([ref.offset]),
-                    colrow=None,
-                    angle_deg=angle_deg,
-                    invert_y=ref.mirrored,
-                    mag=ref.scale,
-                    properties=properties,
-                    )
-                grefs.append(sref)
-            else:
-                new_srefs = [
-                    klamath.library.Reference(
-                        struct_name=encoded_name,
-                        xy=rint_cast([ref.offset + dd]),
-                        colrow=None,
-                        angle_deg=angle_deg,
-                        invert_y=ref.mirrored,
-                        mag=ref.scale,
-                        properties=properties,
-                        )
-                    for dd in rep.displacements]
-                grefs += new_srefs
-    return grefs
+        # Note: GDS mirrors first and rotates second
+        mirror_across_x, extra_angle = normalize_mirror(subpat.mirrored)
+        rep = subpat.repetition
+        angle_deg = numpy.rad2deg(subpat.rotation + extra_angle) % 360
+        properties = _annotations_to_properties(subpat.annotations, 512)
+
+        if isinstance(rep, Grid):
+            b_vector = rep.b_vector if rep.b_vector is not None else numpy.zeros(2)
+            b_count = rep.b_count if rep.b_count is not None else 1
+            xy: NDArray[numpy.float64] = numpy.array(subpat.offset) + [
+                [0, 0],
+                rep.a_vector * rep.a_count,
+                b_vector * b_count,
+                ]
+            aref = klamath.library.Reference(struct_name=encoded_name,
+                                             xy=numpy.round(xy).astype(int),
+                                             colrow=(numpy.round(rep.a_count), numpy.round(rep.b_count)),
+                                             angle_deg=angle_deg,
+                                             invert_y=mirror_across_x,
+                                             mag=subpat.scale,
+                                             properties=properties)
+            refs.append(aref)
+        elif rep is None:
+            ref = klamath.library.Reference(struct_name=encoded_name,
+                                            xy=numpy.round([subpat.offset]).astype(int),
+                                            colrow=None,
+                                            angle_deg=angle_deg,
+                                            invert_y=mirror_across_x,
+                                            mag=subpat.scale,
+                                            properties=properties)
+            refs.append(ref)
+        else:
+            new_srefs = [klamath.library.Reference(struct_name=encoded_name,
+                                                   xy=numpy.round([subpat.offset + dd]).astype(int),
+                                                   colrow=None,
+                                                   angle_deg=angle_deg,
+                                                   invert_y=mirror_across_x,
+                                                   mag=subpat.scale,
+                                                   properties=properties)
+                         for dd in rep.displacements]
+            refs += new_srefs
+    return refs
 
 
-def _properties_to_annotations(properties: dict[int, bytes]) -> annotations_t:
+def _properties_to_annotations(properties: Dict[int, bytes]) -> annotations_t:
     return {str(k): [v.decode()] for k, v in properties.items()}
 
 
-def _annotations_to_properties(annotations: annotations_t, max_len: int = 126) -> dict[int, bytes]:
+def _annotations_to_properties(annotations: annotations_t, max_len: int = 126) -> Dict[int, bytes]:
     cum_len = 0
     props = {}
     for key, vals in annotations.items():
         try:
             i = int(key)
-        except ValueError as err:
-            raise PatternError(f'Annotation key {key} is not convertable to an integer') from err
+        except ValueError:
+            raise PatternError(f'Annotation key {key} is not convertable to an integer')
         if not (0 < i < 126):
             raise PatternError(f'Annotation key {key} converts to {i} (must be in the range [1,125])')
 
@@ -426,93 +434,138 @@ def _annotations_to_properties(annotations: annotations_t, max_len: int = 126) -
 
 
 def _shapes_to_elements(
-        shapes: dict[layer_t, list[Shape]],
+        shapes: List[Shape],
         polygonize_paths: bool = False,
-        ) -> list[klamath.elements.Element]:
-    elements: list[klamath.elements.Element] = []
+        ) -> List[klamath.elements.Element]:
+    elements: List[klamath.elements.Element] = []
     # Add a Boundary element for each shape, and Path elements if necessary
-    for mlayer, sseq in shapes.items():
-        layer, data_type = _mlayer2gds(mlayer)
-        for shape in sseq:
-            if shape.repetition is not None:
-                raise PatternError('Shape repetitions are not supported by GDS.'
-                                   ' Please call library.wrap_repeated_shapes() before writing to file.')
+    for shape in shapes:
+        layer, data_type = _mlayer2gds(shape.layer)
+        properties = _annotations_to_properties(shape.annotations, 128)
+        if isinstance(shape, Path) and not polygonize_paths:
+            xy = numpy.round(shape.vertices + shape.offset).astype(int)
+            width = numpy.round(shape.width).astype(int)
+            path_type = next(k for k, v in path_cap_map.items() if v == shape.cap)    # reverse lookup
 
-            properties = _annotations_to_properties(shape.annotations, 128)
-            if isinstance(shape, Path) and not polygonize_paths:
-                xy = rint_cast(shape.vertices + shape.offset)
-                width = rint_cast(shape.width)
-                path_type = next(k for k, v in path_cap_map.items() if v == shape.cap)    # reverse lookup
+            extension: Tuple[int, int]
+            if shape.cap == Path.Cap.SquareCustom and shape.cap_extensions is not None:
+                extension = tuple(shape.cap_extensions)     # type: ignore
+            else:
+                extension = (0, 0)
 
-                extension: tuple[int, int]
-                if shape.cap == Path.Cap.SquareCustom and shape.cap_extensions is not None:
-                    extension = tuple(shape.cap_extensions)     # type: ignore
-                else:
-                    extension = (0, 0)
-
-                path = klamath.elements.Path(
-                    layer=(layer, data_type),
-                    xy=xy,
-                    path_type=path_type,
-                    width=int(width),
-                    extension=extension,
-                    properties=properties,
-                    )
-                elements.append(path)
-            elif isinstance(shape, Polygon):
-                polygon = shape
+            path = klamath.elements.Path(layer=(layer, data_type),
+                                         xy=xy,
+                                         path_type=path_type,
+                                         width=width,
+                                         extension=extension,
+                                         properties=properties)
+            elements.append(path)
+        elif isinstance(shape, Polygon):
+            polygon = shape
+            xy_closed = numpy.empty((polygon.vertices.shape[0] + 1, 2), dtype=numpy.int32)
+            numpy.rint(polygon.vertices + polygon.offset, out=xy_closed[:-1], casting='unsafe')
+            xy_closed[-1] = xy_closed[0]
+            boundary = klamath.elements.Boundary(layer=(layer, data_type),
+                                                 xy=xy_closed,
+                                                 properties=properties)
+            elements.append(boundary)
+        else:
+            for polygon in shape.to_polygons():
                 xy_closed = numpy.empty((polygon.vertices.shape[0] + 1, 2), dtype=numpy.int32)
                 numpy.rint(polygon.vertices + polygon.offset, out=xy_closed[:-1], casting='unsafe')
                 xy_closed[-1] = xy_closed[0]
-                boundary = klamath.elements.Boundary(
-                    layer=(layer, data_type),
-                    xy=xy_closed,
-                    properties=properties,
-                    )
+                boundary = klamath.elements.Boundary(layer=(layer, data_type),
+                                                     xy=xy_closed,
+                                                     properties=properties)
                 elements.append(boundary)
-            else:
-                for polygon in shape.to_polygons():
-                    xy_closed = numpy.empty((polygon.vertices.shape[0] + 1, 2), dtype=numpy.int32)
-                    numpy.rint(polygon.vertices + polygon.offset, out=xy_closed[:-1], casting='unsafe')
-                    xy_closed[-1] = xy_closed[0]
-                    boundary = klamath.elements.Boundary(
-                        layer=(layer, data_type),
-                        xy=xy_closed,
-                        properties=properties,
-                        )
-                    elements.append(boundary)
     return elements
 
 
-def _labels_to_texts(labels: dict[layer_t, list[Label]]) -> list[klamath.elements.Text]:
+def _labels_to_texts(labels: List[Label]) -> List[klamath.elements.Text]:
     texts = []
-    for mlayer, lseq in labels.items():
-        layer, text_type = _mlayer2gds(mlayer)
-        for label in lseq:
-            properties = _annotations_to_properties(label.annotations, 128)
-            xy = rint_cast([label.offset])
-            text = klamath.elements.Text(
-                layer=(layer, text_type),
-                xy=xy,
-                string=label.string.encode('ASCII'),
-                properties=properties,
-                presentation=0,  # font number & alignment -- unused by us
-                angle_deg=0,     # rotation -- unused by us
-                invert_y=False,  # inversion -- unused by us
-                width=0,         # stroke width -- unused by us
-                path_type=0,     # text path endcaps, unused
-                mag=1,           # size -- unused by us
-                )
-            texts.append(text)
+    for label in labels:
+        properties = _annotations_to_properties(label.annotations, 128)
+        layer, text_type = _mlayer2gds(label.layer)
+        xy = numpy.round([label.offset]).astype(int)
+        text = klamath.elements.Text(layer=(layer, text_type),
+                                     xy=xy,
+                                     string=label.string.encode('ASCII'),
+                                     properties=properties,
+                                     presentation=0,  # TODO maybe set some of these?
+                                     angle_deg=0,
+                                     invert_y=False,
+                                     width=0,
+                                     path_type=0,
+                                     mag=1)
+        texts.append(text)
     return texts
 
 
+def disambiguate_pattern_names(
+        patterns: Sequence[Pattern],
+        max_name_length: int = 32,
+        suffix_length: int = 6,
+        dup_warn_filter: Optional[Callable[[str], bool]] = None,
+        ) -> None:
+    """
+    Args:
+        patterns: List of patterns to disambiguate
+        max_name_length: Names longer than this will be truncated
+        suffix_length: Names which get truncated are truncated by this many extra characters. This is to
+            leave room for a suffix if one is necessary.
+        dup_warn_filter: (optional) Function for suppressing warnings about cell names changing. Receives
+            the cell name and returns `False` if the warning should be suppressed and `True` if it should
+            be displayed. Default displays all warnings.
+    """
+    used_names = []
+    for pat in set(patterns):
+        # Shorten names which already exceed max-length
+        if len(pat.name) > max_name_length:
+            shortened_name = pat.name[:max_name_length - suffix_length]
+            logger.warning(f'Pattern name "{pat.name}" is too long ({len(pat.name)}/{max_name_length} chars),\n'
+                           + f' shortening to "{shortened_name}" before generating suffix')
+        else:
+            shortened_name = pat.name
+
+        # Remove invalid characters
+        sanitized_name = re.compile(r'[^A-Za-z0-9_\?\$]').sub('_', shortened_name)
+
+        # Add a suffix that makes the name unique
+        i = 0
+        suffixed_name = sanitized_name
+        while suffixed_name in used_names or suffixed_name == '':
+            suffix = base64.b64encode(struct.pack('>Q', i), b'$?').decode('ASCII')
+
+            suffixed_name = sanitized_name + '$' + suffix[:-1].lstrip('A')
+            i += 1
+
+        if sanitized_name == '':
+            logger.warning(f'Empty pattern name saved as "{suffixed_name}"')
+        elif suffixed_name != sanitized_name:
+            if dup_warn_filter is None or dup_warn_filter(pat.name):
+                logger.warning(f'Pattern name "{pat.name}" ({sanitized_name}) appears multiple times;\n'
+                               + f' renaming to "{suffixed_name}"')
+
+        # Encode into a byte-string and perform some final checks
+        encoded_name = suffixed_name.encode('ASCII')
+        if len(encoded_name) == 0:
+            # Should never happen since zero-length names are replaced
+            raise PatternError(f'Zero-length name after sanitize+encode,\n originally "{pat.name}"')
+        if len(encoded_name) > max_name_length:
+            raise PatternError(f'Pattern name "{encoded_name!r}" length > {max_name_length} after encode,\n'
+                               + f' originally "{pat.name}"')
+
+        pat.name = suffixed_name
+        used_names.append(suffixed_name)
+
+
 def load_library(
-        stream: IO[bytes],
+        stream: BinaryIO,
+        tag: str,
+        is_secondary: Optional[Callable[[str], bool]] = None,
         *,
         full_load: bool = False,
-        postprocess: Callable[[ILibraryView, str, Pattern], Pattern] | None = None
-        ) -> tuple[LazyLibrary, dict[str, Any]]:
+        ) -> Tuple[Library, Dict[str, Any]]:
     """
     Scan a GDSII stream to determine what structures are present, and create
         a library from them. This enables deferred reading of structures
@@ -521,30 +574,36 @@ def load_library(
 
     Args:
         stream: Seekable stream. Position 0 should be the start of the file.
-            The caller should leave the stream open while the library
-            is still in use, since the library will need to access it
-            in order to read the structure contents.
+                The caller should leave the stream open while the library
+                is still in use, since the library will need to access it
+                in order to read the structure contents.
+        tag: Unique identifier that will be used to identify this data source
+        is_secondary: Function which takes a structure name and returns
+                      True if the structure should only be used as a subcell
+                      and not appear in the main Library interface.
+                      Default always returns False.
         full_load: If True, force all structures to be read immediately rather
-            than as-needed. Since data is read sequentially from the file, this
-            will be faster than using the resulting library's `precache` method.
-        postprocess: If given, this function is used to post-process each
-            pattern *upon first load only*.
+                   than as-needed. Since data is read sequentially from the file,
+                   this will be faster than using the resulting library's
+                   `precache` method.
 
     Returns:
-        LazyLibrary object, allowing for deferred load of structures.
+        Library object, allowing for deferred load of structures.
         Additional library info (dict, same format as from `read`).
     """
+    if is_secondary is None:
+        def is_secondary(k: str) -> bool:
+            return False
+    assert(is_secondary is not None)
+
     stream.seek(0)
-    lib = LazyLibrary()
+    lib = Library()
 
     if full_load:
         # Full load approach (immediately load everything)
         patterns, library_info = read(stream)
         for name, pattern in patterns.items():
-            if postprocess is not None:
-                lib[name] = postprocess(lib, name, pattern)
-            else:
-                lib[name] = pattern
+            lib.set_const(name, tag, pattern, secondary=is_secondary(name))
         return lib, library_info
 
     # Normal approach (scan and defer load)
@@ -556,23 +615,21 @@ def load_library(
 
         def mkstruct(pos: int = pos, name: str = name) -> Pattern:
             stream.seek(pos)
-            pat = read_elements(stream, raw_mode=True)
-            if postprocess is not None:
-                pat = postprocess(lib, name, pat)
-            return pat
+            return read_elements(stream, name, raw_mode=True)
 
-        lib[name] = mkstruct
+        lib.set_value(name, tag, mkstruct, secondary=is_secondary(name))
 
     return lib, library_info
 
 
 def load_libraryfile(
-        filename: str | pathlib.Path,
+        filename: Union[str, pathlib.Path],
+        tag: str,
+        is_secondary: Optional[Callable[[str], bool]] = None,
         *,
         use_mmap: bool = True,
         full_load: bool = False,
-        postprocess: Callable[[ILibraryView, str, Pattern], Pattern] | None = None
-        ) -> tuple[LazyLibrary, dict[str, Any]]:
+        ) -> Tuple[Library, Dict[str, Any]]:
     """
     Wrapper for `load_library()` that takes a filename or path instead of a stream.
 
@@ -583,65 +640,31 @@ def load_libraryfile(
 
     Args:
         path: filename or path to read from
+        tag: Unique identifier for library, see `load_library`
+        is_secondary: Function specifying subcess, see `load_library`
         use_mmap: If `True`, will attempt to memory-map the file instead
                   of buffering. In the case of gzipped files, the file
                   is decompressed into a python `bytes` object in memory
                   and reopened as an `io.BytesIO` stream.
         full_load: If `True`, immediately loads all data. See `load_library`.
-        postprocess: Passed to `load_library`
 
     Returns:
-        LazyLibrary object, allowing for deferred load of structures.
+        Library object, allowing for deferred load of structures.
         Additional library info (dict, same format as from `read`).
     """
     path = pathlib.Path(filename)
-    stream: IO[bytes]
     if is_gzipped(path):
-        if use_mmap:
+        if mmap:
             logger.info('Asked to mmap a gzipped file, reading into memory instead...')
-            gz_stream = gzip.open(path, mode='rb')      # noqa: SIM115
-            stream = io.BytesIO(gz_stream.read())       # type: ignore
+            base_stream = gzip.open(path, mode='rb')
+            stream = io.BytesIO(base_stream.read())
         else:
-            gz_stream = gzip.open(path, mode='rb')      # noqa: SIM115
-            stream = io.BufferedReader(gz_stream)       # type: ignore
-    else:       # noqa: PLR5501
-        if use_mmap:
-            base_stream = path.open(mode='rb', buffering=0)                         # noqa: SIM115
-            stream = mmap.mmap(base_stream.fileno(), 0, access=mmap.ACCESS_READ)    # type: ignore
+            base_stream = gzip.open(path, mode='rb')
+            stream = io.BufferedReader(base_stream)
+    else:
+        base_stream = open(path, mode='rb')
+        if mmap:
+            stream = mmap.mmap(base_stream.fileno(), 0, access=mmap.ACCESS_READ)
         else:
-            stream = path.open(mode='rb')          # noqa: SIM115
-    return load_library(stream, full_load=full_load, postprocess=postprocess)
-
-
-def check_valid_names(
-        names: Iterable[str],
-        max_length: int = 32,
-        ) -> None:
-    """
-    Check all provided names to see if they're valid GDSII cell names.
-
-    Args:
-        names: Collection of names to check
-        max_length: Max allowed length
-
-    """
-    allowed_chars = set(string.ascii_letters + string.digits + '_?$')
-
-    bad_chars = [
-        name for name in names
-        if not set(name).issubset(allowed_chars)
-        ]
-
-    bad_lengths = [
-        name for name in names
-        if len(name) > max_length
-        ]
-
-    if bad_chars:
-        logger.error('Names contain invalid characters:\n' + pformat(bad_chars))
-
-    if bad_lengths:
-        logger.error(f'Names too long (>{max_length}:\n' + pformat(bad_chars))
-
-    if bad_chars or bad_lengths:
-        raise LibraryError('Library contains invalid names, see log above')
+            stream = io.BufferedReader(base_stream)
+    return load_library(stream, tag, is_secondary)

masque/file/klamath.py

@@ -0,0 +1,2 @@
+# FOr backwards compatibility
+from .gdsii import *

masque/file/oasis.py

@@ -10,36 +10,33 @@ Note that OASIS references follow the same convention as `masque`,
 
   Scaling, rotation, and mirroring apply to individual instances, not grid
    vectors or offsets.
-
-Notes:
- * Gzip modification time is set to 0 (start of current epoch, usually 1970-01-01)
 """
-from typing import Any, IO, cast
-from collections.abc import Sequence, Iterable, Mapping, Callable
+from typing import List, Any, Dict, Tuple, Callable, Union, Sequence, Iterable, Optional
+import re
+import io
+import copy
+import base64
+import struct
 import logging
 import pathlib
 import gzip
-import string
-from pprint import pformat
 
 import numpy
-from numpy.typing import ArrayLike, NDArray
 import fatamorgana
 import fatamorgana.records as fatrec
 from fatamorgana.basic import PathExtensionScheme, AString, NString, PropStringReference
 
-from .utils import is_gzipped, tmpfile
-from .. import Pattern, Ref, PatternError, LibraryError, Label, Shape
-from ..library import Library, ILibrary
-from ..shapes import Path, Circle
+from .utils import clean_pattern_vertices, is_gzipped
+from .. import Pattern, SubPattern, PatternError, Label, Shape
+from ..shapes import Polygon, Path, Circle
 from ..repetition import Grid, Arbitrary, Repetition
-from ..utils import layer_t, annotations_t
+from ..utils import layer_t, normalize_mirror, annotations_t
 
 
 logger = logging.getLogger(__name__)
 
 
-logger.warning('OASIS support is experimental!')
+logger.warning('OASIS support is experimental and mostly untested!')
 
 
 path_cap_map = {
@@ -48,23 +45,21 @@ path_cap_map = {
     PathExtensionScheme.Arbitrary: Path.Cap.SquareCustom,
     }
 
-#TODO implement more shape types in OASIS?
-
-def rint_cast(val: ArrayLike) -> NDArray[numpy.int64]:
-    return numpy.rint(val).astype(numpy.int64)
-
+#TODO implement more shape types?
 
 def build(
-        library: Mapping[str, Pattern],           # NOTE: Pattern here should be treated as immutable!
+        patterns: Union[Pattern, Sequence[Pattern]],
         units_per_micron: int,
-        layer_map: dict[str, int | tuple[int, int]] | None = None,
+        layer_map: Optional[Dict[str, Union[int, Tuple[int, int]]]] = None,
         *,
-        annotations: annotations_t | None = None,
+        modify_originals: bool = False,
+        disambiguate_func: Optional[Callable[[Iterable[Pattern]], None]] = None,
+        annotations: Optional[annotations_t] = None,
         ) -> fatamorgana.OasisLayout:
     """
-    Convert a collection of {name: Pattern} pairs to an OASIS stream, writing patterns
-     as OASIS cells, refs as Placement records, and mapping other shapes and labels
-     to equivalent record types (Polygon, Path, Circle, Text).
+    Convert a `Pattern` or list of patterns to an OASIS stream, writing patterns
+     as OASIS cells, subpatterns as Placement records, and other shapes and labels
+     mapped to equivalent record types (Polygon, Path, Circle, Text).
      Other shape types may be converted to polygons if no equivalent
      record type exists (or is not implemented here yet).
 
@@ -76,17 +71,14 @@ def build(
         If a layer map is provided, layer strings will be converted
             automatically, and layer names will be written to the file.
 
-    Other functions you may want to call:
-        - `masque.file.oasis.check_valid_names(library.keys())` to check for invalid names
-        - `library.dangling_refs()` to check for references to missing patterns
-        - `pattern.polygonize()` for any patterns with shapes other
-            than `masque.shapes.Polygon`, `masque.shapes.Path`, or `masque.shapes.Circle`
+    If you want pattern polygonized with non-default arguments, just call `pattern.polygonize()`
+     prior to calling this function.
 
     Args:
-        library: A {name: Pattern} mapping of patterns to write.
+        patterns: A Pattern or list of patterns to convert.
         units_per_micron: Written into the OASIS file, number of grid steps per micrometer.
             All distances are assumed to be an integer multiple of the grid step, and are stored as such.
-        layer_map: dictionary which translates layer names into layer numbers. If this argument is
+        layer_map: Dictionary which translates layer names into layer numbers. If this argument is
             provided, input shapes and labels are allowed to have layer names instead of numbers.
             It is assumed that geometry and text share the same layer names, and each name is
             assigned only to a single layer (not a range).
@@ -94,23 +86,31 @@ def build(
             into numbers, omit this argument, and manually generate the required
             `fatamorgana.records.LayerName` entries.
             Default is an empty dict (no names provided).
+        modify_originals: If `True`, the original pattern is modified as part of the writing
+            process. Otherwise, a copy is made and `deepunlock()`-ed.
+            Default `False`.
+        disambiguate_func: Function which takes a list of patterns and alters them
+            to make their names valid and unique. Default is `disambiguate_pattern_names`.
         annotations: dictionary of key-value pairs which are saved as library-level properties
 
     Returns:
         `fatamorgana.OasisLayout`
     """
-    if not isinstance(library, ILibrary):
-        if isinstance(library, dict):
-            library = Library(library)
-        else:
-            library = Library(dict(library))
+    if isinstance(patterns, Pattern):
+        patterns = [patterns]
 
     if layer_map is None:
         layer_map = {}
 
+    if disambiguate_func is None:
+        disambiguate_func = disambiguate_pattern_names
+
     if annotations is None:
         annotations = {}
 
+    if not modify_originals:
+        patterns = [p.deepunlock() for p in copy.deepcopy(patterns)]
+
     # Create library
     lib = fatamorgana.OasisLayout(unit=units_per_micron, validation=None)
     lib.properties = annotations_to_properties(annotations)
@@ -119,38 +119,44 @@ def build(
         for name, layer_num in layer_map.items():
             layer, data_type = _mlayer2oas(layer_num)
             lib.layers += [
-                fatrec.LayerName(
-                    nstring=name,
-                    layer_interval=(layer, layer),
-                    type_interval=(data_type, data_type),
-                    is_textlayer=tt,
-                    )
+                fatrec.LayerName(nstring=name,
+                                 layer_interval=(layer, layer),
+                                 type_interval=(data_type, data_type),
+                                 is_textlayer=tt)
                 for tt in (True, False)]
 
-        def layer2oas(mlayer: layer_t) -> tuple[int, int]:
-            assert layer_map is not None
+        def layer2oas(mlayer: layer_t) -> Tuple[int, int]:
+            assert(layer_map is not None)
             layer_num = layer_map[mlayer] if isinstance(mlayer, str) else mlayer
             return _mlayer2oas(layer_num)
     else:
         layer2oas = _mlayer2oas
 
+    # Get a dict of id(pattern) -> pattern
+    patterns_by_id = {id(pattern): pattern for pattern in patterns}
+    for pattern in patterns:
+        for i, p in pattern.referenced_patterns_by_id().items():
+            patterns_by_id[i] = p
+
+    disambiguate_func(patterns_by_id.values())
+
     # Now create a structure for each pattern
-    for name, pat in library.items():
-        structure = fatamorgana.Cell(name=name)
+    for pat in patterns_by_id.values():
+        structure = fatamorgana.Cell(name=pat.name)
         lib.cells.append(structure)
 
         structure.properties += annotations_to_properties(pat.annotations)
 
         structure.geometry += _shapes_to_elements(pat.shapes, layer2oas)
         structure.geometry += _labels_to_texts(pat.labels, layer2oas)
-        structure.placements += _refs_to_placements(pat.refs)
+        structure.placements += _subpatterns_to_placements(pat.subpatterns)
 
     return lib
 
 
 def write(
-        library: Mapping[str, Pattern],           # NOTE: Pattern here should be treated as immutable!
-        stream: IO[bytes],
+        patterns: Union[Sequence[Pattern], Pattern],
+        stream: io.BufferedIOBase,
         *args,
         **kwargs,
         ) -> None:
@@ -159,18 +165,18 @@ def write(
       for details.
 
     Args:
-        library: A {name: Pattern} mapping of patterns to write.
+        patterns: A Pattern or list of patterns to write to file.
         stream: Stream to write to.
         *args: passed to `oasis.build()`
         **kwargs: passed to `oasis.build()`
     """
-    lib = build(library, *args, **kwargs)
+    lib = build(patterns, *args, **kwargs)
     lib.write(stream)
 
 
 def writefile(
-        library: Mapping[str, Pattern],           # NOTE: Pattern here should be treated as immutable!
-        filename: str | pathlib.Path,
+        patterns: Union[Sequence[Pattern], Pattern],
+        filename: Union[str, pathlib.Path],
         *args,
         **kwargs,
         ) -> None:
@@ -180,33 +186,26 @@ def writefile(
     Will automatically compress the file if it has a .gz suffix.
 
     Args:
-        library: A {name: Pattern} mapping of patterns to write.
+        patterns: `Pattern` or list of patterns to save
         filename: Filename to save to.
         *args: passed to `oasis.write`
         **kwargs: passed to `oasis.write`
     """
     path = pathlib.Path(filename)
+    if path.suffix == '.gz':
+        open_func: Callable = gzip.open
+    else:
+        open_func = open
 
-    with tmpfile(path) as base_stream:
-        streams: tuple[Any, ...] = (base_stream,)
-        if path.suffix == '.gz':
-            stream = cast(IO[bytes], gzip.GzipFile(filename='', mtime=0, fileobj=base_stream, mode='wb'))
-            streams += (stream,)
-        else:
-            stream = base_stream
-
-        try:
-            write(library, stream, *args, **kwargs)
-        finally:
-            for ss in streams:
-                ss.close()
+    with io.BufferedWriter(open_func(path, mode='wb')) as stream:
+        write(patterns, stream, *args, **kwargs)
 
 
 def readfile(
-        filename: str | pathlib.Path,
+        filename: Union[str, pathlib.Path],
         *args,
         **kwargs,
-        ) -> tuple[Library, dict[str, Any]]:
+        ) -> Tuple[Dict[str, Pattern], Dict[str, Any]]:
     """
     Wrapper for `oasis.read()` that takes a filename or path instead of a stream.
 
@@ -223,18 +222,19 @@ def readfile(
     else:
         open_func = open
 
-    with open_func(path, mode='rb') as stream:
+    with io.BufferedReader(open_func(path, mode='rb')) as stream:
         results = read(stream, *args, **kwargs)
     return results
 
 
 def read(
-        stream: IO[bytes],
-        ) -> tuple[Library, dict[str, Any]]:
+        stream: io.BufferedIOBase,
+        clean_vertices: bool = True,
+        ) -> Tuple[Dict[str, Pattern], Dict[str, Any]]:
     """
     Read a OASIS file and translate it into a dict of Pattern objects. OASIS cells are
      translated into Pattern objects; Polygons are translated into polygons, and Placements
-     are translated into Ref objects.
+     are translated into SubPattern objects.
 
     Additional library info is returned in a dict, containing:
       'units_per_micrometer': number of database units per micrometer (all values are in database units)
@@ -243,15 +243,18 @@ def read(
 
     Args:
         stream: Stream to read from.
+        clean_vertices: If `True`, remove any redundant vertices when loading polygons.
+            The cleaning process removes any polygons with zero area or <3 vertices.
+            Default `True`.
 
     Returns:
-        - dict of `pattern_name`:`Pattern`s generated from OASIS cells
-        - dict of OASIS library info
+        - Dict of `pattern_name`:`Pattern`s generated from OASIS cells
+        - Dict of OASIS library info
     """
 
     lib = fatamorgana.OasisLayout.read(stream)
 
-    library_info: dict[str, Any] = {
+    library_info: Dict[str, Any] = {
         'units_per_micrometer': lib.unit,
         'annotations': properties_to_annotations(lib.properties, lib.propnames, lib.propstrings),
         }
@@ -261,76 +264,72 @@ def read(
         layer_map[str(layer_name.nstring)] = layer_name
     library_info['layer_map'] = layer_map
 
-    mlib = Library()
+    patterns = []
     for cell in lib.cells:
         if isinstance(cell.name, int):
             cell_name = lib.cellnames[cell.name].nstring.string
         else:
             cell_name = cell.name.string
 
-        pat = Pattern()
+        pat = Pattern(name=cell_name)
         for element in cell.geometry:
             if isinstance(element, fatrec.XElement):
                 logger.warning('Skipping XElement record')
                 # note XELEMENT has no repetition
                 continue
 
-            assert not isinstance(element.repetition, fatamorgana.ReuseRepetition)
+            assert(not isinstance(element.repetition, fatamorgana.ReuseRepetition))
             repetition = repetition_fata2masq(element.repetition)
 
             # Switch based on element type:
             if isinstance(element, fatrec.Polygon):
-                # Drop last point (`fatamorgana` returns explicity closed list; we use implicit close)
-                # also need `cumsum` to convert from deltas to locations
-                vertices = numpy.cumsum(numpy.vstack(((0, 0), element.get_point_list()[:-1])), axis=0)
-
+                vertices = numpy.cumsum(numpy.vstack(((0, 0), element.get_point_list())), axis=0)
                 annotations = properties_to_annotations(element.properties, lib.propnames, lib.propstrings)
-                pat.polygon(
-                    vertices=vertices,
-                    layer=element.get_layer_tuple(),
-                    offset=element.get_xy(),
-                    annotations=annotations,
-                    repetition=repetition,
-                    )
+                poly = Polygon(vertices=vertices,
+                               layer=element.get_layer_tuple(),
+                               offset=element.get_xy(),
+                               annotations=annotations,
+                               repetition=repetition)
+
+                pat.shapes.append(poly)
+
             elif isinstance(element, fatrec.Path):
                 vertices = numpy.cumsum(numpy.vstack(((0, 0), element.get_point_list())), axis=0)
 
                 cap_start = path_cap_map[element.get_extension_start()[0]]
                 cap_end   = path_cap_map[element.get_extension_end()[0]]
                 if cap_start != cap_end:
-                    raise PatternError('masque does not support multiple cap types on a single path.')      # TODO handle multiple cap types
+                    raise Exception('masque does not support multiple cap types on a single path.')      # TODO handle multiple cap types
                 cap = cap_start
 
-                path_args: dict[str, Any] = {}
+                path_args: Dict[str, Any] = {}
                 if cap == Path.Cap.SquareCustom:
-                    path_args['cap_extensions'] = numpy.array((
-                        element.get_extension_start()[1],
-                        element.get_extension_end()[1],
-                        ))
+                    path_args['cap_extensions'] = numpy.array((element.get_extension_start()[1],
+                                                               element.get_extension_end()[1]))
 
                 annotations = properties_to_annotations(element.properties, lib.propnames, lib.propstrings)
-                pat.path(
-                    vertices=vertices,
-                    layer=element.get_layer_tuple(),
-                    offset=element.get_xy(),
-                    repetition=repetition,
-                    annotations=annotations,
-                    width=element.get_half_width() * 2,
-                    cap=cap,
-                    **path_args,
-                    )
+                path = Path(vertices=vertices,
+                            layer=element.get_layer_tuple(),
+                            offset=element.get_xy(),
+                            repetition=repetition,
+                            annotations=annotations,
+                            width=element.get_half_width() * 2,
+                            cap=cap,
+                            **path_args)
+
+                pat.shapes.append(path)
 
             elif isinstance(element, fatrec.Rectangle):
                 width = element.get_width()
                 height = element.get_height()
                 annotations = properties_to_annotations(element.properties, lib.propnames, lib.propstrings)
-                pat.polygon(
-                    layer=element.get_layer_tuple(),
-                    offset=element.get_xy(),
-                    repetition=repetition,
-                    vertices=numpy.array(((0, 0), (1, 0), (1, 1), (0, 1))) * (width, height),
-                    annotations=annotations,
-                    )
+                rect = Polygon(layer=element.get_layer_tuple(),
+                               offset=element.get_xy(),
+                               repetition=repetition,
+                               vertices=numpy.array(((0, 0), (1, 0), (1, 1), (0, 1))) * (width, height),
+                               annotations=annotations,
+                               )
+                pat.shapes.append(rect)
 
             elif isinstance(element, fatrec.Trapezoid):
                 vertices = numpy.array(((0, 0), (1, 0), (1, 1), (0, 1))) * (element.get_width(), element.get_height())
@@ -358,13 +357,13 @@ def read(
                         vertices[2, 0] -= b
 
                 annotations = properties_to_annotations(element.properties, lib.propnames, lib.propstrings)
-                pat.polygon(
-                    layer=element.get_layer_tuple(),
-                    offset=element.get_xy(),
-                    repetition=repetition,
-                    vertices=vertices,
-                    annotations=annotations,
-                    )
+                trapz = Polygon(layer=element.get_layer_tuple(),
+                                offset=element.get_xy(),
+                                repetition=repetition,
+                                vertices=vertices,
+                                annotations=annotations,
+                                )
+                pat.shapes.append(trapz)
 
             elif isinstance(element, fatrec.CTrapezoid):
                 cttype = element.get_ctrapezoid_type()
@@ -413,24 +412,22 @@ def read(
                     vertices[0, 1] += width
 
                 annotations = properties_to_annotations(element.properties, lib.propnames, lib.propstrings)
-                pat.polygon(
-                    layer=element.get_layer_tuple(),
-                    offset=element.get_xy(),
-                    repetition=repetition,
-                    vertices=vertices,
-                    annotations=annotations,
-                    )
+                ctrapz = Polygon(layer=element.get_layer_tuple(),
+                                 offset=element.get_xy(),
+                                 repetition=repetition,
+                                 vertices=vertices,
+                                 annotations=annotations,
+                                 )
+                pat.shapes.append(ctrapz)
 
             elif isinstance(element, fatrec.Circle):
                 annotations = properties_to_annotations(element.properties, lib.propnames, lib.propstrings)
-                layer = element.get_layer_tuple()
-                circle = Circle(
-                    offset=element.get_xy(),
-                    repetition=repetition,
-                    annotations=annotations,
-                    radius=float(element.get_radius()),
-                    )
-                pat.shapes[layer].append(circle)
+                circle = Circle(layer=element.get_layer_tuple(),
+                                offset=element.get_xy(),
+                                repetition=repetition,
+                                annotations=annotations,
+                                radius=float(element.get_radius()))
+                pat.shapes.append(circle)
 
             elif isinstance(element, fatrec.Text):
                 annotations = properties_to_annotations(element.properties, lib.propnames, lib.propstrings)
@@ -439,30 +436,38 @@ def read(
                     string = lib.textstrings[str_or_ref].string
                 else:
                     string = str_or_ref.string
-                pat.label(
-                    layer=element.get_layer_tuple(),
-                    offset=element.get_xy(),
-                    repetition=repetition,
-                    annotations=annotations,
-                    string=string,
-                    )
+                label = Label(layer=element.get_layer_tuple(),
+                              offset=element.get_xy(),
+                              repetition=repetition,
+                              annotations=annotations,
+                              string=string)
+                pat.labels.append(label)
 
             else:
                 logger.warning(f'Skipping record {element} (unimplemented)')
                 continue
 
         for placement in cell.placements:
-            target, ref = _placement_to_ref(placement, lib)
-            if isinstance(target, int):
-                target = lib.cellnames[target].nstring.string
-            pat.refs[target].append(ref)
+            pat.subpatterns.append(_placement_to_subpat(placement, lib))
 
-        mlib[cell_name] = pat
+        if clean_vertices:
+            clean_pattern_vertices(pat)
+        patterns.append(pat)
 
-    return mlib, library_info
+    # Create a dict of {pattern.name: pattern, ...}, then fix up all subpattern.pattern entries
+    #  according to the subpattern.identifier (which is deleted after use).
+    patterns_dict = dict(((p.name, p) for p in patterns))
+    for p in patterns_dict.values():
+        for sp in p.subpatterns:
+            ident = sp.identifier[0]
+            name = ident if isinstance(ident, str) else lib.cellnames[ident].nstring.string
+            sp.pattern = patterns_dict[name]
+            del sp.identifier
+
+    return patterns_dict, library_info
 
 
-def _mlayer2oas(mlayer: layer_t) -> tuple[int, int]:
+def _mlayer2oas(mlayer: layer_t) -> Tuple[int, int]:
     """ Helper to turn a layer tuple-or-int into a layer and datatype"""
     if isinstance(mlayer, int):
         layer = mlayer
@@ -474,163 +479,182 @@ def _mlayer2oas(mlayer: layer_t) -> tuple[int, int]:
         else:
             data_type = 0
     else:
-        raise PatternError(f'Invalid layer for OASIS: {mlayer}. Note that OASIS layers cannot be '
+        raise PatternError(f'Invalid layer for OASIS: {layer}. Note that OASIS layers cannot be '
                            f'strings unless a layer map is provided.')
     return layer, data_type
 
 
-def _placement_to_ref(placement: fatrec.Placement, lib: fatamorgana.OasisLayout) -> tuple[int | str, Ref]:
+def _placement_to_subpat(placement: fatrec.Placement, lib: fatamorgana.OasisLayout) -> SubPattern:
     """
-    Helper function to create a Ref from a placment. Also returns the placement name (or id).
+    Helper function to create a SubPattern from a placment. Sets subpat.pattern to None
+     and sets the instance .identifier to (struct_name,).
     """
-    assert not isinstance(placement.repetition, fatamorgana.ReuseRepetition)
+    assert(not isinstance(placement.repetition, fatamorgana.ReuseRepetition))
     xy = numpy.array((placement.x, placement.y))
     mag = placement.magnification if placement.magnification is not None else 1
-
     pname = placement.get_name()
-    name: int | str = pname if isinstance(pname, int) else pname.string       # TODO deal with referenced names
-
+    name = pname if isinstance(pname, int) else pname.string
     annotations = properties_to_annotations(placement.properties, lib.propnames, lib.propstrings)
     if placement.angle is None:
         rotation = 0
     else:
         rotation = numpy.deg2rad(float(placement.angle))
-    ref = Ref(
-        offset=xy,
-        mirrored=placement.flip,
-        rotation=rotation,
-        scale=float(mag),
-        repetition=repetition_fata2masq(placement.repetition),
-        annotations=annotations,
-        )
-    return name, ref
+    subpat = SubPattern(offset=xy,
+                        pattern=None,
+                        mirrored=(placement.flip, False),
+                        rotation=rotation,
+                        scale=float(mag),
+                        identifier=(name,),
+                        repetition=repetition_fata2masq(placement.repetition),
+                        annotations=annotations)
+    return subpat
 
 
-def _refs_to_placements(
-        refs: dict[str | None, list[Ref]],
-        ) -> list[fatrec.Placement]:
-    placements = []
-    for target, rseq in refs.items():
-        if target is None:
+def _subpatterns_to_placements(
+        subpatterns: List[SubPattern],
+        ) -> List[fatrec.Placement]:
+    refs = []
+    for subpat in subpatterns:
+        if subpat.pattern is None:
             continue
-        for ref in rseq:
-            # Note: OASIS also mirrors first and rotates second
-            frep, rep_offset = repetition_masq2fata(ref.repetition)
 
-            offset = rint_cast(ref.offset + rep_offset)
-            angle = numpy.rad2deg(ref.rotation) % 360
-            placement = fatrec.Placement(
-                name=target,
-                flip=ref.mirrored,
-                angle=angle,
-                magnification=ref.scale,
-                properties=annotations_to_properties(ref.annotations),
-                x=offset[0],
-                y=offset[1],
-                repetition=frep,
-                )
+        # Note: OASIS mirrors first and rotates second
+        mirror_across_x, extra_angle = normalize_mirror(subpat.mirrored)
+        frep, rep_offset = repetition_masq2fata(subpat.repetition)
 
-            placements.append(placement)
-    return placements
+        offset = numpy.round(subpat.offset + rep_offset).astype(int)
+        angle = numpy.rad2deg(subpat.rotation + extra_angle) % 360
+        ref = fatrec.Placement(
+            name=subpat.pattern.name,
+            flip=mirror_across_x,
+            angle=angle,
+            magnification=subpat.scale,
+            properties=annotations_to_properties(subpat.annotations),
+            x=offset[0],
+            y=offset[1],
+            repetition=frep)
+
+        refs.append(ref)
+    return refs
 
 
 def _shapes_to_elements(
-        shapes: dict[layer_t, list[Shape]],
-        layer2oas: Callable[[layer_t], tuple[int, int]],
-        ) -> list[fatrec.Polygon | fatrec.Path | fatrec.Circle]:
+        shapes: List[Shape],
+        layer2oas: Callable[[layer_t], Tuple[int, int]],
+        ) -> List[Union[fatrec.Polygon, fatrec.Path, fatrec.Circle]]:
     # Add a Polygon record for each shape, and Path elements if necessary
-    elements: list[fatrec.Polygon | fatrec.Path | fatrec.Circle] = []
-    for mlayer, sseq in shapes.items():
-        layer, datatype = layer2oas(mlayer)
-        for shape in sseq:
-            repetition, rep_offset = repetition_masq2fata(shape.repetition)
-            properties = annotations_to_properties(shape.annotations)
-            if isinstance(shape, Circle):
-                offset = rint_cast(shape.offset + rep_offset)
-                radius = rint_cast(shape.radius)
-                circle = fatrec.Circle(
-                    layer=layer,
-                    datatype=datatype,
-                    radius=cast(int, radius),
-                    x=offset[0],
-                    y=offset[1],
-                    properties=properties,
-                    repetition=repetition,
-                    )
-                elements.append(circle)
-            elif isinstance(shape, Path):
-                xy = rint_cast(shape.offset + shape.vertices[0] + rep_offset)
-                deltas = rint_cast(numpy.diff(shape.vertices, axis=0))
-                half_width = rint_cast(shape.width / 2)
-                path_type = next(k for k, v in path_cap_map.items() if v == shape.cap)    # reverse lookup
-                extension_start = (path_type, shape.cap_extensions[0] if shape.cap_extensions is not None else None)
-                extension_end = (path_type, shape.cap_extensions[1] if shape.cap_extensions is not None else None)
-                path = fatrec.Path(
-                    layer=layer,
-                    datatype=datatype,
-                    point_list=cast(Sequence[Sequence[int]], deltas),
-                    half_width=cast(int, half_width),
-                    x=xy[0],
-                    y=xy[1],
-                    extension_start=extension_start,       # TODO implement multiple cap types?
-                    extension_end=extension_end,
-                    properties=properties,
-                    repetition=repetition,
-                    )
-                elements.append(path)
-            else:
-                for polygon in shape.to_polygons():
-                    xy = rint_cast(polygon.offset + polygon.vertices[0] + rep_offset)
-                    points = rint_cast(numpy.diff(polygon.vertices, axis=0))
-                    elements.append(fatrec.Polygon(
-                        layer=layer,
-                        datatype=datatype,
-                        x=xy[0],
-                        y=xy[1],
-                        point_list=cast(list[list[int]], points),
-                        properties=properties,
-                        repetition=repetition,
-                        ))
+    elements: List[Union[fatrec.Polygon, fatrec.Path, fatrec.Circle]] = []
+    for shape in shapes:
+        layer, datatype = layer2oas(shape.layer)
+        repetition, rep_offset = repetition_masq2fata(shape.repetition)
+        properties = annotations_to_properties(shape.annotations)
+        if isinstance(shape, Circle):
+            offset = numpy.round(shape.offset + rep_offset).astype(int)
+            radius = numpy.round(shape.radius).astype(int)
+            circle = fatrec.Circle(layer=layer,
+                                   datatype=datatype,
+                                   radius=radius,
+                                   x=offset[0],
+                                   y=offset[1],
+                                   properties=properties,
+                                   repetition=repetition)
+            elements.append(circle)
+        elif isinstance(shape, Path):
+            xy = numpy.round(shape.offset + shape.vertices[0] + rep_offset).astype(int)
+            deltas = numpy.round(numpy.diff(shape.vertices, axis=0)).astype(int)
+            half_width = numpy.round(shape.width / 2).astype(int)
+            path_type = next(k for k, v in path_cap_map.items() if v == shape.cap)    # reverse lookup
+            extension_start = (path_type, shape.cap_extensions[0] if shape.cap_extensions is not None else None)
+            extension_end = (path_type, shape.cap_extensions[1] if shape.cap_extensions is not None else None)
+            path = fatrec.Path(layer=layer,
+                               datatype=datatype,
+                               point_list=deltas,
+                               half_width=half_width,
+                               x=xy[0],
+                               y=xy[1],
+                               extension_start=extension_start,       # TODO implement multiple cap types?
+                               extension_end=extension_end,
+                               properties=properties,
+                               repetition=repetition,
+                               )
+            elements.append(path)
+        else:
+            for polygon in shape.to_polygons():
+                xy = numpy.round(polygon.offset + polygon.vertices[0] + rep_offset).astype(int)
+                points = numpy.round(numpy.diff(polygon.vertices, axis=0)).astype(int)
+                elements.append(fatrec.Polygon(layer=layer,
+                                               datatype=datatype,
+                                               x=xy[0],
+                                               y=xy[1],
+                                               point_list=points,
+                                               properties=properties,
+                                               repetition=repetition))
     return elements
 
 
 def _labels_to_texts(
-        labels: dict[layer_t, list[Label]],
-        layer2oas: Callable[[layer_t], tuple[int, int]],
-        ) -> list[fatrec.Text]:
+        labels: List[Label],
+        layer2oas: Callable[[layer_t], Tuple[int, int]],
+        ) -> List[fatrec.Text]:
     texts = []
-    for mlayer, lseq in labels.items():
-        layer, datatype = layer2oas(mlayer)
-        for label in lseq:
-            repetition, rep_offset = repetition_masq2fata(label.repetition)
-            xy = rint_cast(label.offset + rep_offset)
-            properties = annotations_to_properties(label.annotations)
-            texts.append(fatrec.Text(
-                layer=layer,
-                datatype=datatype,
-                x=xy[0],
-                y=xy[1],
-                string=label.string,
-                properties=properties,
-                repetition=repetition,
-                ))
+    for label in labels:
+        layer, datatype = layer2oas(label.layer)
+        repetition, rep_offset = repetition_masq2fata(label.repetition)
+        xy = numpy.round(label.offset + rep_offset).astype(int)
+        properties = annotations_to_properties(label.annotations)
+        texts.append(fatrec.Text(layer=layer,
+                                 datatype=datatype,
+                                 x=xy[0],
+                                 y=xy[1],
+                                 string=label.string,
+                                 properties=properties,
+                                 repetition=repetition))
     return texts
 
 
+def disambiguate_pattern_names(
+        patterns,
+        dup_warn_filter: Callable[[str], bool] = None,      # If returns False, don't warn about this name
+        ) -> None:
+    used_names = []
+    for pat in patterns:
+        sanitized_name = re.compile(r'[^A-Za-z0-9_\?\$]').sub('_', pat.name)
+
+        i = 0
+        suffixed_name = sanitized_name
+        while suffixed_name in used_names or suffixed_name == '':
+            suffix = base64.b64encode(struct.pack('>Q', i), b'$?').decode('ASCII')
+
+            suffixed_name = sanitized_name + '$' + suffix[:-1].lstrip('A')
+            i += 1
+
+        if sanitized_name == '':
+            logger.warning(f'Empty pattern name saved as "{suffixed_name}"')
+        elif suffixed_name != sanitized_name:
+            if dup_warn_filter is None or dup_warn_filter(pat.name):
+                logger.warning(f'Pattern name "{pat.name}" ({sanitized_name}) appears multiple times;\n'
+                               + f' renaming to "{suffixed_name}"')
+
+        if len(suffixed_name) == 0:
+            # Should never happen since zero-length names are replaced
+            raise PatternError(f'Zero-length name after sanitize+encode,\n originally "{pat.name}"')
+
+        pat.name = suffixed_name
+        used_names.append(suffixed_name)
+
+
 def repetition_fata2masq(
-        rep: fatamorgana.GridRepetition | fatamorgana.ArbitraryRepetition | None,
-        ) -> Repetition | None:
-    mrep: Repetition | None
+        rep: Union[fatamorgana.GridRepetition, fatamorgana.ArbitraryRepetition, None],
+        ) -> Optional[Repetition]:
+    mrep: Optional[Repetition]
     if isinstance(rep, fatamorgana.GridRepetition):
         mrep = Grid(a_vector=rep.a_vector,
                     b_vector=rep.b_vector,
                     a_count=rep.a_count,
                     b_count=rep.b_count)
     elif isinstance(rep, fatamorgana.ArbitraryRepetition):
-        displacements = numpy.cumsum(numpy.column_stack((
-            rep.x_displacements,
-            rep.y_displacements,
-            )), axis=0)
+        displacements = numpy.cumsum(numpy.column_stack((rep.x_displacements,
+                                                         rep.y_displacements)), axis=0)
         displacements = numpy.vstack(([0, 0], displacements))
         mrep = Arbitrary(displacements)
     elif rep is None:
@@ -639,37 +663,37 @@ def repetition_fata2masq(
 
 
 def repetition_masq2fata(
-        rep: Repetition | None,
-        ) -> tuple[
-            fatamorgana.GridRepetition | fatamorgana.ArbitraryRepetition | None,
-            tuple[int, int]
-            ]:
-    frep: fatamorgana.GridRepetition | fatamorgana.ArbitraryRepetition | None
+        rep: Optional[Repetition],
+        ) -> Tuple[Union[fatamorgana.GridRepetition,
+                         fatamorgana.ArbitraryRepetition,
+                         None],
+                   Tuple[int, int]]:
+    frep: Union[fatamorgana.GridRepetition, fatamorgana.ArbitraryRepetition, None]
     if isinstance(rep, Grid):
         a_vector = rint_cast(rep.a_vector)
         b_vector = rint_cast(rep.b_vector) if rep.b_vector is not None else None
         a_count = rint_cast(rep.a_count)
         b_count = rint_cast(rep.b_count) if rep.b_count is not None else None
         frep = fatamorgana.GridRepetition(
-            a_vector=cast(list[int], a_vector),
-            b_vector=cast(list[int] | None, b_vector),
-            a_count=cast(int, a_count),
-            b_count=cast(int | None, b_count),
+            a_vector=a_vector,
+            b_vector=b_vector,
+            a_count=a_count,
+            b_count=b_count,
             )
         offset = (0, 0)
     elif isinstance(rep, Arbitrary):
         diffs = numpy.diff(rep.displacements, axis=0)
         diff_ints = rint_cast(diffs)
-        frep = fatamorgana.ArbitraryRepetition(diff_ints[:, 0], diff_ints[:, 1])        # type: ignore
+        frep = fatamorgana.ArbitraryRepetition(diff_ints[:, 0], diff_ints[:, 1])
         offset = rep.displacements[0, :]
     else:
-        assert rep is None
+        assert(rep is None)
         frep = None
         offset = (0, 0)
     return frep, offset
 
 
-def annotations_to_properties(annotations: annotations_t) -> list[fatrec.Property]:
+def annotations_to_properties(annotations: annotations_t) -> List[fatrec.Property]:
     #TODO determine is_standard based on key?
     properties = []
     for key, values in annotations.items():
@@ -680,24 +704,24 @@ def annotations_to_properties(annotations: annotations_t) -> list[fatrec.Propert
 
 
 def properties_to_annotations(
-        properties: list[fatrec.Property],
-        propnames: dict[int, NString],
-        propstrings: dict[int, AString],
+        properties: List[fatrec.Property],
+        propnames: Dict[int, NString],
+        propstrings: Dict[int, AString],
         ) -> annotations_t:
     annotations = {}
     for proprec in properties:
-        assert proprec.name is not None
+        assert(proprec.name is not None)
         if isinstance(proprec.name, int):
             key = propnames[proprec.name].string
         else:
             key = proprec.name.string
-        values: list[str | float | int] = []
+        values: List[Union[str, float, int]] = []
 
-        assert proprec.values is not None
+        assert(proprec.values is not None)
         for value in proprec.values:
-            if isinstance(value, float | int):
+            if isinstance(value, (float, int)):
                 values.append(value)
-            elif isinstance(value, NString | AString):
+            elif isinstance(value, (NString, AString)):
                 values.append(value.string)
             elif isinstance(value, PropStringReference):
                 values.append(propstrings[value.ref].string)  # dereference
@@ -711,25 +735,3 @@ def properties_to_annotations(
     properties = [fatrec.Property(key, vals, is_standard=False)
                   for key, vals in annotations.items()]
     return properties
-
-
-def check_valid_names(
-        names: Iterable[str],
-        ) -> None:
-    """
-    Check all provided names to see if they're valid GDSII cell names.
-
-    Args:
-        names: Collection of names to check
-        max_length: Max allowed length
-
-    """
-    allowed_chars = set(string.ascii_letters + string.digits + string.punctuation + ' ')
-
-    bad_chars = [
-        name for name in names
-        if not set(name).issubset(allowed_chars)
-        ]
-
-    if bad_chars:
-        raise LibraryError('Names contain invalid characters:\n' + pformat(bad_chars))

masque/file/python_gdsii.py

@@ -0,0 +1,580 @@
+"""
+GDSII file format readers and writers using python-gdsii
+
+Note that GDSII references follow the same convention as `masque`,
+  with this order of operations:
+   1. Mirroring
+   2. Rotation
+   3. Scaling
+   4. Offset and array expansion (no mirroring/rotation/scaling applied to offsets)
+
+  Scaling, rotation, and mirroring apply to individual instances, not grid
+   vectors or offsets.
+
+Notes:
+ * absolute positioning is not supported
+ * PLEX is not supported
+ * ELFLAGS are not supported
+ * GDS does not support library- or structure-level annotations
+"""
+from typing import List, Any, Dict, Tuple, Callable, Union, Iterable, Optional
+from typing import Sequence
+import re
+import io
+import copy
+import base64
+import struct
+import logging
+import pathlib
+import gzip
+
+import numpy
+from numpy.typing import NDArray, ArrayLike
+# python-gdsii
+import gdsii.library    #type: ignore
+import gdsii.structure  #type: ignore
+import gdsii.elements   #type: ignore
+
+from .utils import clean_pattern_vertices, is_gzipped
+from .. import Pattern, SubPattern, PatternError, Label, Shape
+from ..shapes import Polygon, Path
+from ..repetition import Grid
+from ..utils import get_bit, set_bit, layer_t, normalize_mirror, annotations_t
+
+
+logger = logging.getLogger(__name__)
+
+
+path_cap_map = {
+    None: Path.Cap.Flush,
+    0: Path.Cap.Flush,
+    1: Path.Cap.Circle,
+    2: Path.Cap.Square,
+    4: Path.Cap.SquareCustom,
+    }
+
+
+def rint_cast(val: ArrayLike) -> NDArray[numpy.int32]:
+    return numpy.rint(val, dtype=numpy.int32, casting='unsafe')
+
+
+def build(
+        patterns: Union[Pattern, Sequence[Pattern]],
+        meters_per_unit: float,
+        logical_units_per_unit: float = 1,
+        library_name: str = 'masque-gdsii-write',
+        *,
+        modify_originals: bool = False,
+        disambiguate_func: Callable[[Iterable[Pattern]], None] = None,
+        ) -> gdsii.library.Library:
+    """
+    Convert a `Pattern` or list of patterns to a GDSII stream, by first calling
+     `.polygonize()` to change the shapes into polygons, and then writing patterns
+     as GDSII structures, polygons as boundary elements, and subpatterns as structure
+     references (sref).
+
+     For each shape,
+        layer is chosen to be equal to `shape.layer` if it is an int,
+            or `shape.layer[0]` if it is a tuple
+        datatype is chosen to be `shape.layer[1]` if available,
+            otherwise `0`
+
+    It is often a good idea to run `pattern.subpatternize()` prior to calling this function,
+     especially if calling `.polygonize()` will result in very many vertices.
+
+    If you want pattern polygonized with non-default arguments, just call `pattern.polygonize()`
+     prior to calling this function.
+
+    Args:
+        patterns: A Pattern or list of patterns to convert.
+        meters_per_unit: Written into the GDSII file, meters per (database) length unit.
+            All distances are assumed to be an integer multiple of this unit, and are stored as such.
+        logical_units_per_unit: Written into the GDSII file. Allows the GDSII to specify a
+            "logical" unit which is different from the "database" unit, for display purposes.
+            Default `1`.
+        library_name: Library name written into the GDSII file.
+            Default 'masque-gdsii-write'.
+        modify_originals: If `True`, the original pattern is modified as part of the writing
+            process. Otherwise, a copy is made and `deepunlock()`-ed.
+            Default `False`.
+        disambiguate_func: Function which takes a list of patterns and alters them
+            to make their names valid and unique. Default is `disambiguate_pattern_names`, which
+            attempts to adhere to the GDSII standard as well as possible.
+            WARNING: No additional error checking is performed on the results.
+
+    Returns:
+        `gdsii.library.Library`
+    """
+    if isinstance(patterns, Pattern):
+        patterns = [patterns]
+
+    if disambiguate_func is None:
+        disambiguate_func = disambiguate_pattern_names          # type: ignore
+    assert(disambiguate_func is not None)       # placate mypy
+
+    if not modify_originals:
+        patterns = [p.deepunlock() for p in copy.deepcopy(patterns)]
+
+    patterns = [p.wrap_repeated_shapes() for p in patterns]
+
+    # Create library
+    lib = gdsii.library.Library(version=600,
+                                name=library_name.encode('ASCII'),
+                                logical_unit=logical_units_per_unit,
+                                physical_unit=meters_per_unit)
+
+    # Get a dict of id(pattern) -> pattern
+    patterns_by_id = {id(pattern): pattern for pattern in patterns}
+    for pattern in patterns:
+        for i, p in pattern.referenced_patterns_by_id().items():
+            patterns_by_id[i] = p
+
+    disambiguate_func(patterns_by_id.values())
+
+    # Now create a structure for each pattern, and add in any Boundary and SREF elements
+    for pat in patterns_by_id.values():
+        structure = gdsii.structure.Structure(name=pat.name.encode('ASCII'))
+        lib.append(structure)
+
+        structure += _shapes_to_elements(pat.shapes)
+        structure += _labels_to_texts(pat.labels)
+        structure += _subpatterns_to_refs(pat.subpatterns)
+
+    return lib
+
+
+def write(
+        patterns: Union[Pattern, Sequence[Pattern]],
+        stream: io.BufferedIOBase,
+        *args,
+        **kwargs,
+        ) -> None:
+    """
+    Write a `Pattern` or list of patterns to a GDSII file.
+    See `masque.file.gdsii.build()` for details.
+
+    Args:
+        patterns: A Pattern or list of patterns to write to file.
+        stream: Stream to write to.
+        *args: passed to `masque.file.gdsii.build()`
+        **kwargs: passed to `masque.file.gdsii.build()`
+    """
+    lib = build(patterns, *args, **kwargs)
+    lib.save(stream)
+    return
+
+def writefile(
+        patterns: Union[Sequence[Pattern], Pattern],
+        filename: Union[str, pathlib.Path],
+        *args,
+        **kwargs,
+        ) -> None:
+    """
+    Wrapper for `masque.file.gdsii.write()` that takes a filename or path instead of a stream.
+
+    Will automatically compress the file if it has a .gz suffix.
+
+    Args:
+        patterns: `Pattern` or list of patterns to save
+        filename: Filename to save to.
+        *args: passed to `masque.file.gdsii.write`
+        **kwargs: passed to `masque.file.gdsii.write`
+    """
+    path = pathlib.Path(filename)
+    if path.suffix == '.gz':
+        open_func: Callable = gzip.open
+    else:
+        open_func = open
+
+    with io.BufferedWriter(open_func(path, mode='wb')) as stream:
+        write(patterns, stream, *args, **kwargs)
+
+
+def readfile(
+        filename: Union[str, pathlib.Path],
+        *args,
+        **kwargs,
+        ) -> Tuple[Dict[str, Pattern], Dict[str, Any]]:
+    """
+    Wrapper for `masque.file.gdsii.read()` that takes a filename or path instead of a stream.
+
+    Will automatically decompress gzipped files.
+
+    Args:
+        filename: Filename to save to.
+        *args: passed to `masque.file.gdsii.read`
+        **kwargs: passed to `masque.file.gdsii.read`
+    """
+    path = pathlib.Path(filename)
+    if is_gzipped(path):
+        open_func: Callable = gzip.open
+    else:
+        open_func = open
+
+    with io.BufferedReader(open_func(path, mode='rb')) as stream:
+        results = read(stream, *args, **kwargs)
+    return results
+
+
+def read(
+        stream: io.BufferedIOBase,
+        clean_vertices: bool = True,
+        ) -> Tuple[Dict[str, Pattern], Dict[str, Any]]:
+    """
+    Read a gdsii file and translate it into a dict of Pattern objects. GDSII structures are
+     translated into Pattern objects; boundaries are translated into polygons, and srefs and arefs
+     are translated into SubPattern objects.
+
+    Additional library info is returned in a dict, containing:
+      'name': name of the library
+      'meters_per_unit': number of meters per database unit (all values are in database units)
+      'logical_units_per_unit': number of "logical" units displayed by layout tools (typically microns)
+                                per database unit
+
+    Args:
+        stream: Stream to read from.
+        clean_vertices: If `True`, remove any redundant vertices when loading polygons.
+            The cleaning process removes any polygons with zero area or <3 vertices.
+            Default `True`.
+
+    Returns:
+        - Dict of pattern_name:Patterns generated from GDSII structures
+        - Dict of GDSII library info
+    """
+
+    lib = gdsii.library.Library.load(stream)
+
+    library_info = {'name': lib.name.decode('ASCII'),
+                    'meters_per_unit': lib.physical_unit,
+                    'logical_units_per_unit': lib.logical_unit,
+                    }
+
+    raw_mode = True     # Whether to construct shapes in raw mode (less error checking)
+
+    patterns = []
+    for structure in lib:
+        pat = Pattern(name=structure.name.decode('ASCII'))
+        for element in structure:
+            # Switch based on element type:
+            if isinstance(element, gdsii.elements.Boundary):
+                poly = _boundary_to_polygon(element, raw_mode)
+                pat.shapes.append(poly)
+
+            if isinstance(element, gdsii.elements.Path):
+                path = _gpath_to_mpath(element, raw_mode)
+                pat.shapes.append(path)
+
+            elif isinstance(element, gdsii.elements.Text):
+                label = Label(offset=element.xy.astype(float),
+                              layer=(element.layer, element.text_type),
+                              string=element.string.decode('ASCII'))
+                pat.labels.append(label)
+
+            elif isinstance(element, (gdsii.elements.SRef, gdsii.elements.ARef)):
+                pat.subpatterns.append(_ref_to_subpat(element))
+
+        if clean_vertices:
+            clean_pattern_vertices(pat)
+        patterns.append(pat)
+
+    # Create a dict of {pattern.name: pattern, ...}, then fix up all subpattern.pattern entries
+    #  according to the subpattern.identifier (which is deleted after use).
+    patterns_dict = dict(((p.name, p) for p in patterns))
+    for p in patterns_dict.values():
+        for sp in p.subpatterns:
+            sp.pattern = patterns_dict[sp.identifier[0].decode('ASCII')]
+            del sp.identifier
+
+    return patterns_dict, library_info
+
+
+def _mlayer2gds(mlayer: layer_t) -> Tuple[int, int]:
+    """ Helper to turn a layer tuple-or-int into a layer and datatype"""
+    if isinstance(mlayer, int):
+        layer = mlayer
+        data_type = 0
+    elif isinstance(mlayer, tuple):
+        layer = mlayer[0]
+        if len(mlayer) > 1:
+            data_type = mlayer[1]
+        else:
+            data_type = 0
+    else:
+        raise PatternError(f'Invalid layer for gdsii: {mlayer}. Note that gdsii layers cannot be strings.')
+    return layer, data_type
+
+
+def _ref_to_subpat(
+        element: Union[gdsii.elements.SRef,
+                       gdsii.elements.ARef]
+        ) -> SubPattern:
+    """
+    Helper function to create a SubPattern from an SREF or AREF. Sets subpat.pattern to None
+     and sets the instance .identifier to (struct_name,).
+
+    NOTE: "Absolute" means not affected by parent elements.
+           That's not currently supported by masque at all (and not planned).
+    """
+    rotation = 0.0
+    offset = numpy.array(element.xy[0], dtype=float)
+    scale = 1.0
+    mirror_across_x = False
+    repetition = None
+
+    if element.strans is not None:
+        if element.mag is not None:
+            scale = element.mag
+            # Bit 13 means absolute scale
+            if get_bit(element.strans, 15 - 13):
+                raise PatternError('Absolute scale is not implemented in masque!')
+        if element.angle is not None:
+            rotation = numpy.deg2rad(element.angle)
+            # Bit 14 means absolute rotation
+            if get_bit(element.strans, 15 - 14):
+                raise PatternError('Absolute rotation is not implemented in masque!')
+        # Bit 0 means mirror x-axis
+        if get_bit(element.strans, 15 - 0):
+            mirror_across_x = True
+
+    if isinstance(element, gdsii.elements.ARef):
+        a_count = element.cols
+        b_count = element.rows
+        a_vector = (element.xy[1] - offset) / a_count
+        b_vector = (element.xy[2] - offset) / b_count
+        repetition = Grid(a_vector=a_vector, b_vector=b_vector,
+                          a_count=a_count, b_count=b_count)
+
+    subpat = SubPattern(pattern=None,
+                        offset=offset,
+                        rotation=rotation,
+                        scale=scale,
+                        mirrored=(mirror_across_x, False),
+                        annotations=_properties_to_annotations(element.properties),
+                        repetition=repetition)
+    subpat.identifier = (element.struct_name,)
+    return subpat
+
+
+def _gpath_to_mpath(element: gdsii.elements.Path, raw_mode: bool) -> Path:
+    if element.path_type in path_cap_map:
+        cap = path_cap_map[element.path_type]
+    else:
+        raise PatternError(f'Unrecognized path type: {element.path_type}')
+
+    args = {'vertices': element.xy.astype(float),
+            'layer': (element.layer, element.data_type),
+            'width': element.width if element.width is not None else 0.0,
+            'cap': cap,
+            'offset': numpy.zeros(2),
+            'annotations': _properties_to_annotations(element.properties),
+            'raw': raw_mode,
+           }
+
+    if cap == Path.Cap.SquareCustom:
+        args['cap_extensions'] = numpy.zeros(2)
+        if element.bgn_extn is not None:
+            args['cap_extensions'][0] = element.bgn_extn
+        if element.end_extn is not None:
+            args['cap_extensions'][1] = element.end_extn
+
+    return Path(**args)
+
+
+def _boundary_to_polygon(element: gdsii.elements.Boundary, raw_mode: bool) -> Polygon:
+    args = {'vertices': element.xy[:-1].astype(float),
+            'layer': (element.layer, element.data_type),
+            'offset': numpy.zeros(2),
+            'annotations': _properties_to_annotations(element.properties),
+            'raw': raw_mode,
+           }
+    return Polygon(**args)
+
+
+def _subpatterns_to_refs(
+        subpatterns: List[SubPattern],
+        ) -> List[Union[gdsii.elements.ARef, gdsii.elements.SRef]]:
+    refs = []
+    for subpat in subpatterns:
+        if subpat.pattern is None:
+            continue
+        encoded_name = subpat.pattern.name.encode('ASCII')
+
+        # Note: GDS mirrors first and rotates second
+        mirror_across_x, extra_angle = normalize_mirror(subpat.mirrored)
+        rep = subpat.repetition
+
+        new_refs: List[Union[gdsii.elements.SRef, gdsii.elements.ARef]]
+        ref: Union[gdsii.elements.SRef, gdsii.elements.ARef]
+        if isinstance(rep, Grid):
+            b_vector = rep.b_vector if rep.b_vector is not None else numpy.zeros(2)
+            b_count = rep.b_count if rep.b_count is not None else 1
+            xy: NDArray[numpy.float64] = numpy.array(subpat.offset) + [
+                [0, 0],
+                rep.a_vector * rep.a_count,
+                b_vector * b_count,
+                ]
+            ref = gdsii.elements.ARef(
+                struct_name=encoded_name,
+                xy=rint_cast(xy),
+                cols=rint_cast(rep.a_count),
+                rows=rint_cast(rep.b_count),
+                )
+            new_refs = [ref]
+        elif rep is None:
+            ref = gdsii.elements.SRef(
+                struct_name=encoded_name,
+                xy=rint_cast([subpat.offset]),
+                )
+            new_refs = [ref]
+        else:
+            new_refs = [gdsii.elements.SRef(
+                            struct_name=encoded_name,
+                            xy=rint_cast([subpat.offset + dd]),
+                            )
+                        for dd in rep.displacements]
+
+        for ref in new_refs:
+            ref.angle = numpy.rad2deg(subpat.rotation + extra_angle) % 360
+            #  strans must be non-None for angle and mag to take effect
+            ref.strans = set_bit(0, 15 - 0, mirror_across_x)
+            ref.mag = subpat.scale
+            ref.properties = _annotations_to_properties(subpat.annotations, 512)
+
+        refs += new_refs
+    return refs
+
+
+def _properties_to_annotations(properties: List[Tuple[int, bytes]]) -> annotations_t:
+    return {str(k): [v.decode()] for k, v in properties}
+
+
+def _annotations_to_properties(annotations: annotations_t, max_len: int = 126) -> List[Tuple[int, bytes]]:
+    cum_len = 0
+    props = []
+    for key, vals in annotations.items():
+        try:
+            i = int(key)
+        except ValueError:
+            raise PatternError(f'Annotation key {key} is not convertable to an integer')
+        if not (0 < i < 126):
+            raise PatternError(f'Annotation key {key} converts to {i} (must be in the range [1,125])')
+
+        val_strings = ' '.join(str(val) for val in vals)
+        b = val_strings.encode()
+        if len(b) > 126:
+            raise PatternError(f'Annotation value {b!r} is longer than 126 characters!')
+        cum_len += numpy.ceil(len(b) / 2) * 2 + 2
+        if cum_len > max_len:
+            raise PatternError(f'Sum of annotation data will be longer than {max_len} bytes! Generated bytes were {b!r}')
+        props.append((i, b))
+    return props
+
+
+def _shapes_to_elements(
+        shapes: List[Shape],
+        polygonize_paths: bool = False,
+        ) -> List[Union[gdsii.elements.Boundary, gdsii.elements.Path]]:
+    elements: List[Union[gdsii.elements.Boundary, gdsii.elements.Path]] = []
+    # Add a Boundary element for each shape, and Path elements if necessary
+    for shape in shapes:
+        layer, data_type = _mlayer2gds(shape.layer)
+        properties = _annotations_to_properties(shape.annotations, 128)
+        if isinstance(shape, Path) and not polygonize_paths:
+            xy = rint_cast(shape.vertices + shape.offset)
+            width = rint_cast(shape.width)
+            path_type = next(k for k, v in path_cap_map.items() if v == shape.cap)    # reverse lookup
+            path = gdsii.elements.Path(layer=layer,
+                                       data_type=data_type,
+                                       xy=xy)
+            path.path_type = path_type
+            path.width = width
+            path.properties = properties
+            elements.append(path)
+        else:
+            for polygon in shape.to_polygons():
+                xy_closed = numpy.empty((polygon.vertices.shape[0] + 1, 2), dtype=numpy.int32)
+                numpy.rint(polygon.vertices + polygon.offset, out=xy_closed[:-1], casting='unsafe')
+                xy_closed[-1] = xy_closed[0]
+                boundary = gdsii.elements.Boundary(
+                    layer=layer,
+                    data_type=data_type,
+                    xy=xy_closed,
+                    )
+                boundary.properties = properties
+                elements.append(boundary)
+    return elements
+
+
+def _labels_to_texts(labels: List[Label]) -> List[gdsii.elements.Text]:
+    texts = []
+    for label in labels:
+        properties = _annotations_to_properties(label.annotations, 128)
+        layer, text_type = _mlayer2gds(label.layer)
+        xy = rint_cast([label.offset])
+        text = gdsii.elements.Text(
+            layer=layer,
+            text_type=text_type,
+            xy=xy,
+            string=label.string.encode('ASCII'),
+            )
+        text.properties = properties
+        texts.append(text)
+    return texts
+
+
+def disambiguate_pattern_names(
+        patterns: Sequence[Pattern],
+        max_name_length: int = 32,
+        suffix_length: int = 6,
+        dup_warn_filter: Optional[Callable[[str], bool]] = None,
+        ) -> None:
+    """
+    Args:
+        patterns: List of patterns to disambiguate
+        max_name_length: Names longer than this will be truncated
+        suffix_length: Names which get truncated are truncated by this many extra characters. This is to
+            leave room for a suffix if one is necessary.
+        dup_warn_filter: (optional) Function for suppressing warnings about cell names changing. Receives
+            the cell name and returns `False` if the warning should be suppressed and `True` if it should
+            be displayed. Default displays all warnings.
+    """
+    used_names = []
+    for pat in set(patterns):
+        # Shorten names which already exceed max-length
+        if len(pat.name) > max_name_length:
+            shortened_name = pat.name[:max_name_length - suffix_length]
+            logger.warning(f'Pattern name "{pat.name}" is too long ({len(pat.name)}/{max_name_length} chars),\n'
+                           + f' shortening to "{shortened_name}" before generating suffix')
+        else:
+            shortened_name = pat.name
+
+        # Remove invalid characters
+        sanitized_name = re.compile(r'[^A-Za-z0-9_\?\$]').sub('_', shortened_name)
+
+        # Add a suffix that makes the name unique
+        i = 0
+        suffixed_name = sanitized_name
+        while suffixed_name in used_names or suffixed_name == '':
+            suffix = base64.b64encode(struct.pack('>Q', i), b'$?').decode('ASCII')
+
+            suffixed_name = sanitized_name + '$' + suffix[:-1].lstrip('A')
+            i += 1
+
+        if sanitized_name == '':
+            logger.warning(f'Empty pattern name saved as "{suffixed_name}"')
+        elif suffixed_name != sanitized_name:
+            if dup_warn_filter is None or dup_warn_filter(pat.name):
+                logger.warning(f'Pattern name "{pat.name}" ({sanitized_name}) appears multiple times;\n'
+                               + f' renaming to "{suffixed_name}"')
+
+        # Encode into a byte-string and perform some final checks
+        encoded_name = suffixed_name.encode('ASCII')
+        if len(encoded_name) == 0:
+            # Should never happen since zero-length names are replaced
+            raise PatternError(f'Zero-length name after sanitize+encode,\n originally "{pat.name}"')
+        if len(encoded_name) > max_name_length:
+            raise PatternError(f'Pattern name "{encoded_name!r}" length > {max_name_length} after encode,\n'
+                               + f' originally "{pat.name}"')
+
+        pat.name = suffixed_name
+        used_names.append(suffixed_name)

masque/file/svg.py

@@ -1,7 +1,7 @@
 """
 SVG file format readers and writers
 """
-from collections.abc import Mapping
+from typing import Dict, Optional
 import warnings
 
 import numpy
@@ -13,23 +13,22 @@ from .. import Pattern
 
 
 def writefile(
-        library: Mapping[str, Pattern],
-        top: str,
+        pattern: Pattern,
         filename: str,
         custom_attributes: bool = False,
         ) -> None:
     """
     Write a Pattern to an SVG file, by first calling .polygonize() on it
      to change the shapes into polygons, and then writing patterns as SVG
-     groups (<g>, inside <defs>), polygons as paths (<path>), and refs
+     groups (<g>, inside <defs>), polygons as paths (<path>), and subpatterns
      as <use> elements.
 
     Note that this function modifies the Pattern.
 
-    If `custom_attributes` is `True`, a non-standard `pattern_layer` attribute
-     is written to the relevant elements.
+    If `custom_attributes` is `True`, non-standard `pattern_layer` and `pattern_dose` attributes
+     are written to the relevant elements.
 
-    It is often a good idea to run `pattern.dedup()` on pattern prior to
+    It is often a good idea to run `pattern.subpatternize()` on pattern prior to
      calling this function, especially if calling `.polygonize()` will result in very
      many vertices.
 
@@ -39,18 +38,17 @@ def writefile(
     Args:
         pattern: Pattern to write to file. Modified by this function.
         filename: Filename to write to.
-        custom_attributes: Whether to write non-standard `pattern_layer` attribute to the
-            SVG elements.
+        custom_attributes: Whether to write non-standard `pattern_layer` and
+            `pattern_dose` attributes to the SVG elements.
     """
-    pattern = library[top]
 
     # Polygonize pattern
     pattern.polygonize()
 
-    bounds = pattern.get_bounds(library=library)
+    bounds = pattern.get_bounds()
     if bounds is None:
         bounds_min, bounds_max = numpy.array([[-1, -1], [1, 1]])
-        warnings.warn('Pattern had no bounds (empty?); setting arbitrary viewbox', stacklevel=1)
+        warnings.warn('Pattern had no bounds (empty?); setting arbitrary viewbox')
     else:
         bounds_min, bounds_max = bounds
 
@@ -61,39 +59,42 @@ def writefile(
     svg = svgwrite.Drawing(filename, profile='full', viewBox=viewbox_string,
                            debug=(not custom_attributes))
 
-    # Now create a group for each pattern and add in any Boundary and Use elements
-    for name, pat in library.items():
-        svg_group = svg.g(id=mangle_name(name), fill='blue', stroke='red')
+    # Get a dict of id(pattern) -> pattern
+    patterns_by_id = {**(pattern.referenced_patterns_by_id()), id(pattern): pattern}        # type: Dict[int, Optional[Pattern]]
 
-        for layer, shapes in pat.shapes.items():
-            for shape in shapes:
-                for polygon in shape.to_polygons():
-                    path_spec = poly2path(polygon.vertices + polygon.offset)
+    # Now create a group for each row in sd_table (ie, each pattern + dose combination)
+    #  and add in any Boundary and Use elements
+    for pat in patterns_by_id.values():
+        if pat is None:
+            continue
+        svg_group = svg.g(id=mangle_name(pat), fill='blue', stroke='red')
 
-                    path = svg.path(d=path_spec)
-                    if custom_attributes:
-                        path['pattern_layer'] = layer
+        for shape in pat.shapes:
+            for polygon in shape.to_polygons():
+                path_spec = poly2path(polygon.vertices + polygon.offset)
 
-                    svg_group.add(path)
+                path = svg.path(d=path_spec)
+                if custom_attributes:
+                    path['pattern_layer'] = polygon.layer
+                    path['pattern_dose'] = polygon.dose
 
-        for target, refs in pat.refs.items():
-            if target is None:
+                svg_group.add(path)
+
+        for subpat in pat.subpatterns:
+            if subpat.pattern is None:
                 continue
-            for ref in refs:
-                transform = f'scale({ref.scale:g}) rotate({ref.rotation:g}) translate({ref.offset[0]:g},{ref.offset[1]:g})'
-                use = svg.use(href='#' + mangle_name(target), transform=transform)
-                svg_group.add(use)
+            transform = f'scale({subpat.scale:g}) rotate({subpat.rotation:g}) translate({subpat.offset[0]:g},{subpat.offset[1]:g})'
+            use = svg.use(href='#' + mangle_name(subpat.pattern), transform=transform)
+            if custom_attributes:
+                use['pattern_dose'] = subpat.dose
+            svg_group.add(use)
 
         svg.defs.add(svg_group)
-    svg.add(svg.use(href='#' + mangle_name(top)))
+    svg.add(svg.use(href='#' + mangle_name(pattern)))
     svg.save()
 
 
-def writefile_inverted(
-        library: Mapping[str, Pattern],
-        top: str,
-        filename: str,
-        ) -> None:
+def writefile_inverted(pattern: Pattern, filename: str):
     """
     Write an inverted Pattern to an SVG file, by first calling `.polygonize()` and
      `.flatten()` on it to change the shapes into polygons, then drawing a bounding
@@ -109,15 +110,13 @@ def writefile_inverted(
         pattern: Pattern to write to file. Modified by this function.
         filename: Filename to write to.
     """
-    pattern = library[top]
-
     # Polygonize and flatten pattern
-    pattern.polygonize().flatten(library)
+    pattern.polygonize().flatten()
 
-    bounds = pattern.get_bounds(library=library)
+    bounds = pattern.get_bounds()
     if bounds is None:
         bounds_min, bounds_max = numpy.array([[-1, -1], [1, 1]])
-        warnings.warn('Pattern had no bounds (empty?); setting arbitrary viewbox', stacklevel=1)
+        warnings.warn('Pattern had no bounds (empty?); setting arbitrary viewbox')
     else:
         bounds_min, bounds_max = bounds
 
@@ -135,10 +134,9 @@ def writefile_inverted(
     path_spec = poly2path(slab_edge)
 
     # Draw polygons with reversed vertex order
-    for _layer, shapes in pattern.shapes.items():
-        for shape in shapes:
-            for polygon in shape.to_polygons():
-                path_spec += poly2path(polygon.vertices[::-1] + polygon.offset)
+    for shape in pattern.shapes:
+        for polygon in shape.to_polygons():
+            path_spec += poly2path(polygon.vertices[::-1] + polygon.offset)
 
     svg.add(svg.path(d=path_spec, fill='blue', stroke='red'))
     svg.save()
@@ -154,9 +152,9 @@ def poly2path(vertices: ArrayLike) -> str:
     Returns:
         SVG path-string.
     """
-    verts = numpy.asarray(vertices)
-    commands = 'M{:g},{:g} '.format(verts[0][0], verts[0][1])      # noqa: UP032
+    verts = numpy.array(vertices, copy=False)
+    commands = 'M{:g},{:g} '.format(verts[0][0], verts[0][1])
     for vertex in verts[1:]:
-        commands += 'L{:g},{:g}'.format(vertex[0], vertex[1])      # noqa: UP032
+        commands += 'L{:g},{:g}'.format(vertex[0], vertex[1])
     commands += ' Z   '
     return commands

masque/file/utils.py

@@ -1,105 +1,29 @@
 """
 Helper functions for file reading and writing
 """
-from typing import IO
-from collections.abc import Iterator, Mapping
+from typing import Set, Tuple, List
 import re
+import copy
 import pathlib
-import logging
-import tempfile
-import shutil
-from collections import defaultdict
-from contextlib import contextmanager
-from pprint import pformat
-from itertools import chain
 
-from .. import Pattern, PatternError, Library, LibraryError
+from .. import Pattern, PatternError
 from ..shapes import Polygon, Path
 
 
-logger = logging.getLogger(__name__)
-
-
-def preflight(
-        lib: Library,
-        sort: bool = True,
-        sort_elements: bool = False,
-        allow_dangling_refs: bool | None = None,
-        allow_named_layers: bool = True,
-        prune_empty_patterns: bool = False,
-        wrap_repeated_shapes: bool = False,
-        ) -> Library:
+def mangle_name(pattern: Pattern, dose_multiplier: float = 1.0) -> str:
     """
-    Run a standard set of useful operations and checks, usually done immediately prior
-    to writing to a file (or immediately after reading).
+    Create a name using `pattern.name`, `id(pattern)`, and the dose multiplier.
 
     Args:
-        sort: Whether to sort the patterns based on their names, and optionaly sort the pattern contents.
-            Default True. Useful for reproducible builds.
-        sort_elements: Whether to sort the pattern contents. Requires sort=True to run.
-        allow_dangling_refs: If `None` (default), warns about any refs to patterns that are not
-            in the provided library. If `True`, no check is performed; if `False`, a `LibraryError`
-            is raised instead.
-        allow_named_layers: If `False`, raises a `PatternError` if any layer is referred to by
-            a string instead of a number (or tuple).
-        prune_empty_patterns: Runs `Library.prune_empty()`, recursively deleting any empty patterns.
-        wrap_repeated_shapes: Runs `Library.wrap_repeated_shapes()`, turning repeated shapes into
-            repeated refs containing non-repeated shapes.
-
-    Returns:
-        `lib` or an equivalent sorted library
-    """
-    if sort:
-        lib = Library(dict(sorted(
-            (nn, pp.sort(sort_elements=sort_elements)) for nn, pp in lib.items()
-            )))
-
-    if not allow_dangling_refs:
-        refs = lib.referenced_patterns()
-        dangling = refs - set(lib.keys())
-        if dangling:
-            msg = 'Dangling refs found: ' + pformat(dangling)
-            if allow_dangling_refs is None:
-                logger.warning(msg)
-            else:
-                raise LibraryError(msg)
-
-    if not allow_named_layers:
-        named_layers: Mapping[str, set] = defaultdict(set)
-        for name, pat in lib.items():
-            for layer in chain(pat.shapes.keys(), pat.labels.keys()):
-                if isinstance(layer, str):
-                    named_layers[name].add(layer)
-        named_layers = dict(named_layers)
-        if named_layers:
-            raise PatternError('Non-numeric layers found:' + pformat(named_layers))
-
-    if prune_empty_patterns:
-        pruned = lib.prune_empty()
-        if pruned:
-            logger.info(f'Preflight pruned {len(pruned)} empty patterns')
-            logger.debug('Pruned: ' + pformat(pruned))
-        else:
-            logger.debug('Preflight found no empty patterns')
-
-    if wrap_repeated_shapes:
-        lib.wrap_repeated_shapes()
-
-    return lib
-
-
-def mangle_name(name: str) -> str:
-    """
-    Sanitize a name.
-
-    Args:
-        name: Name we want to mangle.
+        pattern: Pattern whose name we want to mangle.
+        dose_multiplier: Dose multiplier to mangle with.
 
     Returns:
         Mangled name.
     """
     expression = re.compile(r'[^A-Za-z0-9_\?\$]')
-    sanitized_name = expression.sub('_', name)
+    full_name = '{}_{}_{}'.format(pattern.name, dose_multiplier, id(pattern))
+    sanitized_name = expression.sub('_', full_name)
     return sanitized_name
 
 
@@ -114,39 +38,149 @@ def clean_pattern_vertices(pat: Pattern) -> Pattern:
     Returns:
         pat
     """
-    for shapes in pat.shapes.values():
-        remove_inds = []
-        for ii, shape in enumerate(shapes):
-            if not isinstance(shape, Polygon | Path):
-                continue
-            try:
-                shape.clean_vertices()
-            except PatternError:
-                remove_inds.append(ii)
-        for ii in sorted(remove_inds, reverse=True):
-            del shapes[ii]
+    remove_inds = []
+    for ii, shape in enumerate(pat.shapes):
+        if not isinstance(shape, (Polygon, Path)):
+            continue
+        try:
+            shape.clean_vertices()
+        except PatternError:
+            remove_inds.append(ii)
+    for ii in sorted(remove_inds, reverse=True):
+        del pat.shapes[ii]
     return pat
 
 
+def make_dose_table(patterns: List[Pattern], dose_multiplier: float = 1.0) -> Set[Tuple[int, float]]:
+    """
+    Create a set containing `(id(pat), written_dose)` for each pattern (including subpatterns)
+
+    Args:
+        pattern: Source Patterns.
+        dose_multiplier: Multiplier for all written_dose entries.
+
+    Returns:
+        `{(id(subpat.pattern), written_dose), ...}`
+    """
+    dose_table = {(id(pattern), dose_multiplier) for pattern in patterns}
+    for pattern in patterns:
+        for subpat in pattern.subpatterns:
+            if subpat.pattern is None:
+                continue
+            subpat_dose_entry = (id(subpat.pattern), subpat.dose * dose_multiplier)
+            if subpat_dose_entry not in dose_table:
+                subpat_dose_table = make_dose_table([subpat.pattern], subpat.dose * dose_multiplier)
+                dose_table = dose_table.union(subpat_dose_table)
+    return dose_table
+
+
+def dtype2dose(pattern: Pattern) -> Pattern:
+    """
+    For each shape in the pattern, if the layer is a tuple, set the
+      layer to the tuple's first element and set the dose to the
+      tuple's second element.
+
+    Generally intended for use with `Pattern.apply()`.
+
+    Args:
+        pattern: Pattern to modify
+
+    Returns:
+        pattern
+    """
+    for shape in pattern.shapes:
+        if isinstance(shape.layer, tuple):
+            shape.dose = shape.layer[1]
+            shape.layer = shape.layer[0]
+    return pattern
+
+
+def dose2dtype(
+        patterns: List[Pattern],
+        ) -> Tuple[List[Pattern], List[float]]:
+    """
+     For each shape in each pattern, set shape.layer to the tuple
+     (base_layer, datatype), where:
+        layer is chosen to be equal to the original shape.layer if it is an int,
+            or shape.layer[0] if it is a tuple. `str` layers raise a PatterError.
+        datatype is chosen arbitrarily, based on calcualted dose for each shape.
+            Shapes with equal calcualted dose will have the same datatype.
+            A list of doses is retured, providing a mapping between datatype
+            (list index) and dose (list entry).
+
+    Note that this function modifies the input Pattern(s).
+
+    Args:
+        patterns: A `Pattern` or list of patterns to write to file. Modified by this function.
+
+    Returns:
+        (patterns, dose_list)
+            patterns: modified input patterns
+            dose_list: A list of doses, providing a mapping between datatype (int, list index)
+                       and dose (float, list entry).
+    """
+    # Get a dict of id(pattern) -> pattern
+    patterns_by_id = {id(pattern): pattern for pattern in patterns}
+    for pattern in patterns:
+        for i, p in pattern.referenced_patterns_by_id().items():
+            patterns_by_id[i] = p
+
+    # Get a table of (id(pat), written_dose) for each pattern and subpattern
+    sd_table = make_dose_table(patterns)
+
+    # Figure out all the unique doses necessary to write this pattern
+    #  This means going through each row in sd_table and adding the dose values needed to write
+    #  that subpattern at that dose level
+    dose_vals = set()
+    for pat_id, pat_dose in sd_table:
+        pat = patterns_by_id[pat_id]
+        for shape in pat.shapes:
+            dose_vals.add(shape.dose * pat_dose)
+
+    if len(dose_vals) > 256:
+        raise PatternError('Too many dose values: {}, maximum 256 when using dtypes.'.format(len(dose_vals)))
+
+    dose_vals_list = list(dose_vals)
+
+    # Create a new pattern for each non-1-dose entry in the dose table
+    #   and update the shapes to reflect their new dose
+    new_pats = {}  # (id, dose) -> new_pattern mapping
+    for pat_id, pat_dose in sd_table:
+        if pat_dose == 1:
+            new_pats[(pat_id, pat_dose)] = patterns_by_id[pat_id]
+            continue
+
+        old_pat = patterns_by_id[pat_id]
+        pat = old_pat.copy()  # keep old subpatterns
+        pat.shapes = copy.deepcopy(old_pat.shapes)
+        pat.labels = copy.deepcopy(old_pat.labels)
+
+        encoded_name = mangle_name(pat, pat_dose)
+        if len(encoded_name) == 0:
+            raise PatternError('Zero-length name after mangle+encode, originally "{}"'.format(pat.name))
+        pat.name = encoded_name
+
+        for shape in pat.shapes:
+            data_type = dose_vals_list.index(shape.dose * pat_dose)
+            if isinstance(shape.layer, int):
+                shape.layer = (shape.layer, data_type)
+            elif isinstance(shape.layer, tuple):
+                shape.layer = (shape.layer[0], data_type)
+            else:
+                raise PatternError(f'Invalid layer for gdsii: {shape.layer}')
+
+        new_pats[(pat_id, pat_dose)] = pat
+
+    # Go back through all the dose-specific patterns and fix up their subpattern entries
+    for (pat_id, pat_dose), pat in new_pats.items():
+        for subpat in pat.subpatterns:
+            dose_mult = subpat.dose * pat_dose
+            subpat.pattern = new_pats[(id(subpat.pattern), dose_mult)]
+
+    return patterns, dose_vals_list
+
+
 def is_gzipped(path: pathlib.Path) -> bool:
-    with path.open('rb') as stream:
+    with open(path, 'rb') as stream:
         magic_bytes = stream.read(2)
         return magic_bytes == b'\x1f\x8b'
-
-
-@contextmanager
-def tmpfile(path: str | pathlib.Path) -> Iterator[IO[bytes]]:
-    """
-    Context manager which allows you to write to a temporary file,
-    and move that file into its final location only after the write
-    has finished.
-    """
-    path = pathlib.Path(path)
-    suffixes = ''.join(path.suffixes)
-    with tempfile.NamedTemporaryFile(suffix=suffixes, delete=False) as tmp_stream:
-        yield tmp_stream
-
-    try:
-        shutil.move(tmp_stream.name, path)
-    finally:
-        pathlib.Path(tmp_stream.name).unlink(missing_ok=True)

masque/label.py

@@ -1,30 +1,31 @@
-from typing import Self, Any
+from typing import Tuple, Dict, Optional, TypeVar
 import copy
-import functools
 
 import numpy
 from numpy.typing import ArrayLike, NDArray
 
 from .repetition import Repetition
-from .utils import rotation_matrix_2d, annotations_t, annotations_eq, annotations_lt, rep2key
-from .traits import PositionableImpl, Copyable, Pivotable, RepeatableImpl, Bounded
+from .utils import rotation_matrix_2d, layer_t, AutoSlots, annotations_t
+from .traits import PositionableImpl, LayerableImpl, Copyable, Pivotable, LockableImpl, RepeatableImpl
 from .traits import AnnotatableImpl
 
 
-@functools.total_ordering
-class Label(PositionableImpl, RepeatableImpl, AnnotatableImpl, Bounded, Pivotable, Copyable):
+L = TypeVar('L', bound='Label')
+
+
+class Label(PositionableImpl, LayerableImpl, LockableImpl, RepeatableImpl, AnnotatableImpl,
+            Pivotable, Copyable, metaclass=AutoSlots):
     """
-    A text annotation with a position (but no size; it is not drawn)
+    A text annotation with a position and layer (but no size; it is not drawn)
     """
-    __slots__ = (
-        '_string',
-        # Inherited
-        '_offset', '_repetition', '_annotations',
-        )
+    __slots__ = ( '_string', 'identifier')
 
     _string: str
     """ Label string """
 
+    identifier: Tuple
+    """ Arbitrary identifier tuple, useful for keeping track of history when flattening """
+
     '''
     ---- Properties
     '''
@@ -45,45 +46,38 @@ class Label(PositionableImpl, RepeatableImpl, AnnotatableImpl, Bounded, Pivotabl
             string: str,
             *,
             offset: ArrayLike = (0.0, 0.0),
-            repetition: Repetition | None = None,
-            annotations: annotations_t | None = None,
+            layer: layer_t = 0,
+            repetition: Optional[Repetition] = None,
+            annotations: Optional[annotations_t] = None,
+            locked: bool = False,
+            identifier: Tuple = (),
             ) -> None:
+        LockableImpl.unlock(self)
+        self.identifier = identifier
         self.string = string
-        self.offset = numpy.array(offset, dtype=float)
+        self.offset = numpy.array(offset, dtype=float, copy=True)
+        self.layer = layer
         self.repetition = repetition
         self.annotations = annotations if annotations is not None else {}
+        self.set_locked(locked)
 
-    def __copy__(self) -> Self:
-        return type(self)(
-            string=self.string,
-            offset=self.offset.copy(),
-            repetition=self.repetition,
-            )
+    def __copy__(self: L) -> L:
+        return type(self)(string=self.string,
+                          offset=self.offset.copy(),
+                          layer=self.layer,
+                          repetition=self.repetition,
+                          locked=self.locked,
+                          identifier=self.identifier)
 
-    def __deepcopy__(self, memo: dict | None = None) -> Self:
+    def __deepcopy__(self: L, memo: Dict = None) -> L:
         memo = {} if memo is None else memo
         new = copy.copy(self)
+        LockableImpl.unlock(new)
         new._offset = self._offset.copy()
+        new.set_locked(self.locked)
         return new
 
-    def __lt__(self, other: 'Label') -> bool:
-        if self.string != other.string:
-            return self.string < other.string
-        if not numpy.array_equal(self.offset, other.offset):
-            return tuple(self.offset) < tuple(other.offset)
-        if self.repetition != other.repetition:
-            return rep2key(self.repetition) < rep2key(other.repetition)
-        return annotations_lt(self.annotations, other.annotations)
-
-    def __eq__(self, other: Any) -> bool:
-        return (
-            self.string == other.string
-            and numpy.array_equal(self.offset, other.offset)
-            and self.repetition == other.repetition
-            and annotations_eq(self.annotations, other.annotations)
-            )
-
-    def rotate_around(self, pivot: ArrayLike, rotation: float) -> Self:
+    def rotate_around(self: L, pivot: ArrayLike, rotation: float) -> L:
         """
         Rotate the label around a point.
 
@@ -94,13 +88,13 @@ class Label(PositionableImpl, RepeatableImpl, AnnotatableImpl, Bounded, Pivotabl
         Returns:
             self
         """
-        pivot = numpy.asarray(pivot, dtype=float)
+        pivot = numpy.array(pivot, dtype=float)
         self.translate(-pivot)
         self.offset = numpy.dot(rotation_matrix_2d(rotation), self.offset)
         self.translate(+pivot)
         return self
 
-    def get_bounds_single(self) -> NDArray[numpy.float64]:
+    def get_bounds(self) -> NDArray[numpy.float64]:
         """
         Return the bounds of the label.
 
@@ -112,3 +106,17 @@ class Label(PositionableImpl, RepeatableImpl, AnnotatableImpl, Bounded, Pivotabl
             Bounds [[xmin, xmax], [ymin, ymax]]
         """
         return numpy.array([self.offset, self.offset])
+
+    def lock(self: L) -> L:
+        PositionableImpl._lock(self)
+        LockableImpl.lock(self)
+        return self
+
+    def unlock(self: L) -> L:
+        LockableImpl.unlock(self)
+        PositionableImpl._unlock(self)
+        return self
+
+    def __repr__(self) -> str:
+        locked = ' L' if self.locked else ''
+        return f'<Label "{self.string}" l{self.layer} o{self.offset}{locked}>'

masque/library/__init__.py

@@ -0,0 +1,2 @@
+from .library import Library, PatternGenerator
+from .device_library import DeviceLibrary, LibDeviceLibrary

masque/library/device_library.py

@@ -0,0 +1,298 @@
+"""
+DeviceLibrary class for managing unique name->device mappings and
+ deferred loading or creation.
+"""
+from typing import Dict, Callable, TypeVar, TYPE_CHECKING
+from typing import Any, Tuple, Union, Iterator
+import logging
+from pprint import pformat
+
+from ..error import DeviceLibraryError
+from ..library import Library
+from ..builder import Device
+from .. import Pattern
+
+
+logger = logging.getLogger(__name__)
+
+
+D = TypeVar('D', bound='DeviceLibrary')
+L = TypeVar('L', bound='LibDeviceLibrary')
+
+
+class DeviceLibrary:
+    """
+    This class maps names to functions which generate or load the
+     relevant `Device` object.
+
+    This class largely functions the same way as `Library`, but
+     operates on `Device`s rather than `Patterns` and thus has no
+     need for distinctions between primary/secondary devices (as
+     there is no inter-`Device` hierarchy).
+
+    Each device is cached the first time it is used. The cache can
+     be disabled by setting the `enable_cache` attribute to `False`.
+    """
+    generators: Dict[str, Callable[[], Device]]
+    cache: Dict[Union[str, Tuple[str, str]], Device]
+    enable_cache: bool = True
+
+    def __init__(self) -> None:
+        self.generators = {}
+        self.cache = {}
+
+    def __setitem__(self, key: str, value: Callable[[], Device]) -> None:
+        self.generators[key] = value
+        if key in self.cache:
+            del self.cache[key]
+
+    def __delitem__(self, key: str) -> None:
+        del self.generators[key]
+        if key in self.cache:
+            del self.cache[key]
+
+    def __getitem__(self, key: str) -> Device:
+        if self.enable_cache and key in self.cache:
+            logger.debug(f'found {key} in cache')
+            return self.cache[key]
+
+        logger.debug(f'loading {key}')
+        dev = self.generators[key]()
+        self.cache[key] = dev
+        return dev
+
+    def __iter__(self) -> Iterator[str]:
+        return iter(self.keys())
+
+    def __contains__(self, key: str) -> bool:
+        return key in self.generators
+
+    def keys(self) -> Iterator[str]:
+        return iter(self.generators.keys())
+
+    def values(self) -> Iterator[Device]:
+        return iter(self[key] for key in self.keys())
+
+    def items(self) -> Iterator[Tuple[str, Device]]:
+        return iter((key, self[key]) for key in self.keys())
+
+    def __repr__(self) -> str:
+        return '<DeviceLibrary with keys ' + repr(list(self.generators.keys())) + '>'
+
+    def set_const(self, const: Device) -> None:
+        """
+        Convenience function to avoid having to manually wrap
+         already-generated Device objects into callables.
+
+        Args:
+            const: Pre-generated device object
+        """
+        self.generators[const.pattern.name] = lambda: const
+
+    def add(
+            self: D,
+            other: D,
+            use_ours: Callable[[str], bool] = lambda name: False,
+            use_theirs: Callable[[str], bool] = lambda name: False,
+            ) -> D:
+        """
+        Add keys from another library into this one.
+
+        There must be no conflicting keys.
+
+        Args:
+            other: The library to insert keys from
+            use_ours: Decision function for name conflicts. Will be called with duplicate cell names.
+                Should return `True` if the value from `self` should be used.
+            use_theirs: Decision function for name conflicts. Same format as `use_ours`.
+                Should return `True` if the value from `other` should be used.
+                `use_ours` takes priority over `use_theirs`.
+
+        Returns:
+            self
+        """
+        duplicates = set(self.keys()) & set(other.keys())
+        keep_ours = set(name for name in duplicates if use_ours(name))
+        keep_theirs = set(name for name in duplicates - keep_ours if use_theirs(name))
+        conflicts = duplicates - keep_ours - keep_theirs
+        if conflicts:
+            raise DeviceLibraryError('Duplicate keys encountered in DeviceLibrary merge: '
+                                     + pformat(conflicts))
+
+        for name in set(other.generators.keys()) - keep_ours:
+            self.generators[name] = other.generators[name]
+            if name in other.cache:
+                self.cache[name] = other.cache[name]
+        return self
+
+    def clear_cache(self: D) -> D:
+        """
+        Clear the cache of this library.
+        This is usually used before modifying or deleting cells, e.g. when merging
+          with another library.
+
+        Returns:
+            self
+        """
+        self.cache = {}
+        return self
+
+    def add_device(
+            self,
+            name: str,
+            fn: Callable[[], Device],
+            dev2pat: Callable[[Device], Pattern],
+            prefix: str = '',
+            ) -> None:
+        """
+        Convenience function for adding a device to the library.
+
+        - The device is generated with the provided `fn()`
+        - Port info is written to the pattern using the provied dev2pat
+        - The pattern is renamed to match the provided `prefix + name`
+        - If `prefix` is non-empty, a wrapped copy is also added, named
+            `name` (no prefix). See `wrap_device()` for details.
+
+        Adding devices with this function helps to
+        - Make sure Pattern names are reflective of what the devices are named
+        - Ensure port info is written into the `Pattern`, so that the `Device`
+            can be reconstituted from the layout.
+        - Simplify adding a prefix to all device names, to make it easier to
+            track their provenance and purpose, while also allowing for
+            generic device names which can later be swapped out with different
+            underlying implementations.
+
+        Args:
+            name: Base name for the device. If a prefix is used, this is the
+                "generic" name (e.g. "L3_cavity" vs "2022_02_02_L3_cavity").
+            fn: Function which is called to generate the device.
+            dev2pat: Post-processing function which is called to add the port
+                info into the device's pattern.
+            prefix: If present, the actual device is named `prefix + name`, and
+                a second device with name `name` is also added (containing only
+                this one).
+        """
+        def build_dev() -> Device:
+            dev = fn()
+            dev.pattern = dev2pat(dev)
+            dev.pattern.rename(prefix + name)
+            return dev
+
+        self[prefix + name] = build_dev
+        if prefix:
+            self.wrap_device(name, prefix + name)
+
+    def wrap_device(
+            self,
+            name: str,
+            old_name: str,
+            ) -> None:
+        """
+        Create a new device which simply contains an instance of an already-existing device.
+
+          This is useful for assigning an alternate name to a device, while still keeping
+        the original name available for traceability.
+
+        Args:
+            name: Name for the wrapped device.
+            old_name: Name of the existing device to wrap.
+        """
+
+        def build_wrapped_dev() -> Device:
+            old_dev = self[old_name]
+            wrapper = Pattern(name=name)
+            wrapper.addsp(old_dev.pattern)
+            return Device(wrapper, old_dev.ports)
+
+        self[name] = build_wrapped_dev
+
+
+class LibDeviceLibrary(DeviceLibrary):
+    """
+    Extends `DeviceLibrary`, enabling it to ingest `Library` objects
+     (e.g. obtained by loading a GDS file).
+
+    Each `Library` object must be accompanied by a `pat2dev` function,
+      which takes in the `Pattern` and returns a full `Device` (including
+      port info). This is usually accomplished by scanning the `Pattern` for
+      port-related geometry, but could also bake in external info.
+
+    `Library` objects are ingested into `underlying`, which is a
+     `Library` which is kept in sync with the `DeviceLibrary` when
+     devices are removed (or new libraries added via `add_library()`).
+    """
+    underlying: Library
+
+    def __init__(self) -> None:
+        DeviceLibrary.__init__(self)
+        self.underlying = Library()
+
+    def __setitem__(self, key: str, value: Callable[[], Device]) -> None:
+        self.generators[key] = value
+        if key in self.cache:
+            del self.cache[key]
+
+        # If any `Library` that has been (or will be) added has an entry for `key`,
+        #   it will be added to `self.underlying` and then returned by it during subpattern
+        #   resolution for other entries, and will conflict with the name for our
+        #   wrapped device. To avoid that, we need to set ourselves as the "true" source of
+        #   the `Pattern` named `key`.
+        if key in self.underlying:
+            raise DeviceLibraryError(f'Device name {key} already exists in underlying Library!'
+                                     ' Demote or delete it first.')
+
+        # NOTE that this means the `Device` may be cached without the `Pattern` being in
+        #  the `underlying` cache yet!
+        self.underlying.set_value(key, '__DeviceLibrary', lambda: self[key].pattern)
+
+    def __delitem__(self, key: str) -> None:
+        DeviceLibrary.__delitem__(self, key)
+        if key in self.underlying:
+            del self.underlying[key]
+
+    def add_library(
+            self: L,
+            lib: Library,
+            pat2dev: Callable[[Pattern], Device],
+            use_ours: Callable[[Union[str, Tuple[str, str]]], bool] = lambda name: False,
+            use_theirs: Callable[[Union[str, Tuple[str, str]]], bool] = lambda name: False,
+            ) -> L:
+        """
+        Add a pattern `Library` into this `LibDeviceLibrary`.
+
+        This requires a `pat2dev` function which can transform each `Pattern`
+          into a `Device`. For example, this can be accomplished by scanning
+          the `Pattern` data for port location info or by looking up port info
+          based on the pattern name or other characteristics in a hardcoded or
+          user-supplied dictionary.
+
+        Args:
+            lib: Pattern library to add.
+            pat2dev: Function for transforming each `Pattern` object from `lib`
+                into a `Device` which will be returned by this device library.
+            use_ours: Decision function for name conflicts. Will be called with
+                duplicate cell names, and (name, tag) tuples from the underlying library.
+                Should return `True` if the value from `self` should be used.
+            use_theirs: Decision function for name conflicts. Same format as `use_ours`.
+                Should return `True` if the value from `other` should be used.
+                `use_ours` takes priority over `use_theirs`.
+
+        Returns:
+            self
+        """
+        duplicates = set(lib.keys()) & set(self.keys())
+        keep_ours = set(name for name in duplicates if use_ours(name))
+        keep_theirs = set(name for name in duplicates - keep_ours if use_theirs(name))
+        bad_duplicates = duplicates - keep_ours - keep_theirs
+        if bad_duplicates:
+            raise DeviceLibraryError('Duplicate devices (no action specified): ' + pformat(bad_duplicates))
+
+        # No 'bad' duplicates, so all duplicates should be overwritten
+        for name in keep_theirs:
+            self.underlying.demote(name)
+
+        self.underlying.add(lib, use_ours, use_theirs)
+
+        for name in lib:
+            self.generators[name] = lambda name=name: pat2dev(self.underlying[name])
+        return self

masque/library/library.py

@@ -0,0 +1,355 @@
+"""
+Library class for managing unique name->pattern mappings and
+ deferred loading or creation.
+"""
+from typing import Dict, Callable, TypeVar, TYPE_CHECKING
+from typing import Any, Tuple, Union, Iterator
+import logging
+from pprint import pformat
+from dataclasses import dataclass
+import copy
+
+from ..error import LibraryError
+
+if TYPE_CHECKING:
+    from ..pattern import Pattern
+
+
+logger = logging.getLogger(__name__)
+
+
+@dataclass
+class PatternGenerator:
+    __slots__ = ('tag', 'gen')
+    tag: str
+    """ Unique identifier for the source """
+
+    gen: Callable[[], 'Pattern']
+    """ Function which generates a pattern when called """
+
+
+L = TypeVar('L', bound='Library')
+
+
+class Library:
+    """
+    This class is usually used to create a library of Patterns by mapping names to
+     functions which generate or load the relevant `Pattern` object as-needed.
+
+    Generated/loaded patterns can have "symbolic" references, where a SubPattern
+     object `sp` has a `None`-valued `sp.pattern` attribute, in which case the
+     Library expects `sp.identifier[0]` to contain a string which specifies the
+     referenced pattern's name.
+
+    Patterns can either be "primary" (default) or "secondary". Both get the
+     same deferred-load behavior, but "secondary" patterns may have conflicting
+     names and are not accessible through basic []-indexing. They are only used
+     to fill symbolic references in cases where there is no "primary" pattern
+     available, and only if both the referencing and referenced pattern-generators'
+     `tag` values match (i.e., only if they came from the same source).
+
+    Primary patterns can be turned into secondary patterns with the `demote`
+     method, `promote` performs the reverse (secondary -> primary) operation.
+
+    The `set_const` and `set_value` methods provide an easy way to transparently
+      construct PatternGenerator objects and directly set create "secondary"
+      patterns.
+
+    The cache can be disabled by setting the `enable_cache` attribute to `False`.
+    """
+    primary: Dict[str, PatternGenerator]
+    secondary: Dict[Tuple[str, str], PatternGenerator]
+    cache: Dict[Union[str, Tuple[str, str]], 'Pattern']
+    enable_cache: bool = True
+
+    def __init__(self) -> None:
+        self.primary = {}
+        self.secondary = {}
+        self.cache = {}
+
+    def __setitem__(self, key: str, value: PatternGenerator) -> None:
+        self.primary[key] = value
+        if key in self.cache:
+            logger.warning(f'Replaced library item "{key}" & existing cache entry.'
+                           ' Previously-generated Pattern will *not* be updated!')
+            del self.cache[key]
+
+    def __delitem__(self, key: str) -> None:
+        if isinstance(key, str):
+            del self.primary[key]
+        elif isinstance(key, tuple):
+            del self.secondary[key]
+
+        if key in self.cache:
+            logger.warning(f'Deleting library item "{key}" & existing cache entry.'
+                           ' Previously-generated Pattern may remain in the wild!')
+            del self.cache[key]
+
+    def __getitem__(self, key: str) -> 'Pattern':
+        return self.get_primary(key)
+
+    def __iter__(self) -> Iterator[str]:
+        return iter(self.keys())
+
+    def __contains__(self, key: str) -> bool:
+        return key in self.primary
+
+    def get_primary(self, key: str) -> 'Pattern':
+        if self.enable_cache and key in self.cache:
+            logger.debug(f'found {key} in cache')
+            return self.cache[key]
+
+        logger.debug(f'loading {key}')
+        pg = self.primary[key]
+        pat = pg.gen()
+        self.resolve_subpatterns(pat, pg.tag)
+        self.cache[key] = pat
+        return pat
+
+    def get_secondary(self, key: str, tag: str) -> 'Pattern':
+        logger.debug(f'get_secondary({key}, {tag})')
+        key2 = (key, tag)
+        if self.enable_cache and key2 in self.cache:
+            return self.cache[key2]
+
+        pg = self.secondary[key2]
+        pat = pg.gen()
+        self.resolve_subpatterns(pat, pg.tag)
+        self.cache[key2] = pat
+        return pat
+
+    def set_secondary(self, key: str, tag: str, value: PatternGenerator) -> None:
+        self.secondary[(key, tag)] = value
+        if (key, tag) in self.cache:
+            logger.warning(f'Replaced library item "{key}" & existing cache entry.'
+                           ' Previously-generated Pattern will *not* be updated!')
+            del self.cache[(key, tag)]
+
+    def resolve_subpatterns(self, pat: 'Pattern', tag: str) -> 'Pattern':
+        logger.debug(f'Resolving subpatterns in {pat.name}')
+        for sp in pat.subpatterns:
+            if sp.pattern is not None:
+                continue
+
+            key = sp.identifier[0]
+            if key in self.primary:
+                sp.pattern = self.get_primary(key)
+                continue
+
+            if (key, tag) in self.secondary:
+                sp.pattern = self.get_secondary(key, tag)
+                continue
+
+            raise LibraryError(f'Broken reference to {key} (tag {tag})')
+        return pat
+
+    def keys(self) -> Iterator[str]:
+        return iter(self.primary.keys())
+
+    def values(self) -> Iterator['Pattern']:
+        return iter(self[key] for key in self.keys())
+
+    def items(self) -> Iterator[Tuple[str, 'Pattern']]:
+        return iter((key, self[key]) for key in self.keys())
+
+    def __repr__(self) -> str:
+        return '<Library with keys ' + repr(list(self.primary.keys())) + '>'
+
+    def set_const(
+            self,
+            key: str,
+            tag: Any,
+            const: 'Pattern',
+            secondary: bool = False,
+            ) -> None:
+        """
+        Convenience function to avoid having to manually wrap
+         constant values into callables.
+
+        Args:
+            key: Lookup key, usually the cell/pattern name
+            tag: Unique tag for the source, used to disambiguate secondary patterns
+            const: Pattern object to return
+            secondary: If True, this pattern is not accessible for normal lookup, and is
+                        only used as a sub-component of other patterns if no non-secondary
+                        equivalent is available.
+        """
+        pg = PatternGenerator(tag=tag, gen=lambda: const)
+        if secondary:
+            self.secondary[(key, tag)] = pg
+        else:
+            self.primary[key] = pg
+
+    def set_value(
+            self,
+            key: str,
+            tag: str,
+            value: Callable[[], 'Pattern'],
+            secondary: bool = False,
+            ) -> None:
+        """
+        Convenience function to automatically build a PatternGenerator.
+
+        Args:
+            key: Lookup key, usually the cell/pattern name
+            tag: Unique tag for the source, used to disambiguate secondary patterns
+            value: Callable which takes no arguments and generates the `Pattern` object
+            secondary: If True, this pattern is not accessible for normal lookup, and is
+                        only used as a sub-component of other patterns if no non-secondary
+                        equivalent is available.
+        """
+        pg = PatternGenerator(tag=tag, gen=value)
+        if secondary:
+            self.secondary[(key, tag)] = pg
+        else:
+            self.primary[key] = pg
+
+    def precache(self: L) -> L:
+        """
+        Force all patterns into the cache
+
+        Returns:
+            self
+        """
+        for key in self.primary:
+            _ = self.get_primary(key)
+        for key2 in self.secondary:
+            _ = self.get_secondary(*key2)
+        return self
+
+    def add(
+            self: L,
+            other: L,
+            use_ours: Callable[[Union[str, Tuple[str, str]]], bool] = lambda name: False,
+            use_theirs: Callable[[Union[str, Tuple[str, str]]], bool] = lambda name: False,
+            ) -> L:
+        """
+        Add keys from another library into this one.
+
+        Args:
+            other: The library to insert keys from
+            use_ours: Decision function for name conflicts.
+                May be called with cell names and (name, tag) tuples for primary or
+                secondary cells, respectively.
+                Should return `True` if the value from `self` should be used.
+            use_theirs: Decision function for name conflicts. Same format as `use_ours`.
+                Should return `True` if the value from `other` should be used.
+                `use_ours` takes priority over `use_theirs`.
+        Returns:
+            self
+        """
+        duplicates1 = set(self.primary.keys()) & set(other.primary.keys())
+        duplicates2 = set(self.secondary.keys()) & set(other.secondary.keys())
+        keep_ours1 = set(name for name in duplicates1 if use_ours(name))
+        keep_ours2 = set(name for name in duplicates2 if use_ours(name))
+        keep_theirs1 = set(name for name in duplicates1 - keep_ours1 if use_theirs(name))
+        keep_theirs2 = set(name for name in duplicates2 - keep_ours2 if use_theirs(name))
+        conflicts1 = duplicates1 - keep_ours1 - keep_theirs1
+        conflicts2 = duplicates2 - keep_ours2 - keep_theirs2
+
+        if conflicts1:
+            raise LibraryError('Unresolved duplicate keys encountered in library merge: ' + pformat(conflicts1))
+
+        if conflicts2:
+            raise LibraryError('Unresolved duplicate secondary keys encountered in library merge: ' + pformat(conflicts2))
+
+        for key1 in set(other.primary.keys()) - keep_ours1:
+            self[key1] = other.primary[key1]
+            if key1 in other.cache:
+                self.cache[key1] = other.cache[key1]
+
+        for key2 in set(other.secondary.keys()) - keep_ours2:
+            self.set_secondary(*key2, other.secondary[key2])
+            if key2 in other.cache:
+                self.cache[key2] = other.cache[key2]
+
+        return self
+
+    def demote(self, key: str) -> None:
+        """
+        Turn a primary pattern into a secondary one.
+        It will no longer be accessible through [] indexing and will only be used to
+          when referenced by other patterns from the same source, and only if no primary
+          pattern with the same name exists.
+
+        Args:
+            key: Lookup key, usually the cell/pattern name
+        """
+        pg = self.primary[key]
+        key2 = (key, pg.tag)
+        self.secondary[key2] = pg
+        if key in self.cache:
+            self.cache[key2] = self.cache[key]
+        del self[key]
+
+    def promote(self, key: str, tag: str) -> None:
+        """
+        Turn a secondary pattern into a primary one.
+        It will become accessible through [] indexing and will be used to satisfy any
+          reference to a pattern with its key, regardless of tag.
+
+        Args:
+            key: Lookup key, usually the cell/pattern name
+            tag: Unique tag for identifying the pattern's source, used to disambiguate
+                    secondary patterns
+        """
+        if key in self.primary:
+            raise LibraryError(f'Promoting ({key}, {tag}), but {key} already exists in primary!')
+
+        key2 = (key, tag)
+        pg = self.secondary[key2]
+        self.primary[key] = pg
+        if key2 in self.cache:
+            self.cache[key] = self.cache[key2]
+        del self.secondary[key2]
+        del self.cache[key2]
+
+    def copy(self, preserve_cache: bool = False) -> 'Library':
+        """
+        Create a copy of this `Library`.
+
+        A shallow copy is made of the contained dicts.
+        Note that you should probably clear the cache (with `clear_cache()`) after copying.
+
+        Returns:
+            A copy of self
+        """
+        new = Library()
+        new.primary.update(self.primary)
+        new.secondary.update(self.secondary)
+        new.cache.update(self.cache)
+        return new
+
+    def clear_cache(self: L) -> L:
+        """
+        Clear the cache of this library.
+        This is usually used before modifying or deleting cells, e.g. when merging
+          with another library.
+
+        Returns:
+            self
+        """
+        self.cache = {}
+        return self
+
+
+r"""
+    #   Add a filter for names which aren't added
+
+  - Registration:
+    - scanned files (tag=filename, gen_fn[stream, {name: pos}])
+    - generator functions (tag='fn?', gen_fn[params])
+    - merge decision function (based on tag and cell name, can be "neither") ??? neither=keep both, load using same tag!
+  - Load process:
+    - file:
+        - read single cell
+        - check subpat identifiers, and load stuff recursively based on those. If not present, load from same file??
+    - function:
+        - generate cell
+        - traverse and check if we should load any subcells from elsewhere. replace if so.
+            * should fn generate subcells at all, or register those separately and have us control flow? maybe ask us and generate itself if not present?
+
+  - Scan all GDS files, save name -> (file, position). Keep the streams handy.
+  - Merge all names. This requires subcell merge because we don't know hierarchy.
+      - possibly include a "neither" option during merge, to deal with subcells. Means: just use parent's file.
+"""

masque/library/utils.py

@@ -1,5 +1,4 @@
-from typing import TypeVar, Generic
-from collections.abc import Callable
+from typing import Callable, TypeVar, Generic
 from functools import lru_cache
 
 

masque/ports.py

@@ -1,539 +0,0 @@
-from typing import overload, Self, NoReturn, Any
-from collections.abc import Iterable, KeysView, ValuesView, Mapping
-import warnings
-import traceback
-import logging
-import functools
-from collections import Counter
-from abc import ABCMeta, abstractmethod
-from itertools import chain
-
-import numpy
-from numpy import pi
-from numpy.typing import ArrayLike, NDArray
-
-from .traits import PositionableImpl, Rotatable, PivotableImpl, Copyable, Mirrorable
-from .utils import rotate_offsets_around
-from .error import PortError
-
-
-logger = logging.getLogger(__name__)
-
-
-@functools.total_ordering
-class Port(PositionableImpl, Rotatable, PivotableImpl, Copyable, Mirrorable):
-    """
-    A point at which a `Device` can be snapped to another `Device`.
-
-    Each port has an `offset` ((x, y) position) and may also have a
-      `rotation` (orientation) and a `ptype` (port type).
-
-    The `rotation` is an angle, in radians, measured counterclockwise
-      from the +x axis, pointing inwards into the device which owns the port.
-      The rotation may be set to `None`, indicating that any orientation is
-      allowed (e.g. for a DC electrical port). It is stored modulo 2pi.
-
-    The `ptype` is an arbitrary string, default of `unk` (unknown).
-    """
-    __slots__ = (
-        'ptype', '_rotation',
-        # inherited:
-        '_offset',
-        )
-
-    _rotation: float | None
-    """ radians counterclockwise from +x, pointing into device body.
-        Can be `None` to signify undirected port """
-
-    ptype: str
-    """ Port types must match to be plugged together if both are non-zero """
-
-    def __init__(
-            self,
-            offset: ArrayLike,
-            rotation: float | None,
-            ptype: str = 'unk',
-            ) -> None:
-        self.offset = offset
-        self.rotation = rotation
-        self.ptype = ptype
-
-    @property
-    def rotation(self) -> float | None:
-        """ Rotation, radians counterclockwise, pointing into device body. Can be None. """
-        return self._rotation
-
-    @rotation.setter
-    def rotation(self, val: float) -> None:
-        if val is None:
-            self._rotation = None
-        else:
-            if not numpy.size(val) == 1:
-                raise PortError('Rotation must be a scalar')
-            self._rotation = val % (2 * pi)
-
-    @property
-    def x(self) -> float:
-        """ Alias for offset[0] """
-        return self.offset[0]
-
-    @x.setter
-    def x(self, val: float) -> None:
-        self.offset[0] = val
-
-    @property
-    def y(self) -> float:
-        """ Alias for offset[1] """
-        return self.offset[1]
-
-    @y.setter
-    def y(self, val: float) -> None:
-        self.offset[1] = val
-
-    def copy(self) -> Self:
-        return self.deepcopy()
-
-    def get_bounds(self) -> NDArray[numpy.float64]:
-        return numpy.vstack((self.offset, self.offset))
-
-    def set_ptype(self, ptype: str) -> Self:
-        """ Chainable setter for `ptype` """
-        self.ptype = ptype
-        return self
-
-    def mirror(self, axis: int = 0) -> Self:
-        self.offset[1 - axis] *= -1
-        if self.rotation is not None:
-            self.rotation *= -1
-            self.rotation += axis * pi
-        return self
-
-    def rotate(self, rotation: float) -> Self:
-        if self.rotation is not None:
-            self.rotation += rotation
-        return self
-
-    def set_rotation(self, rotation: float | None) -> Self:
-        self.rotation = rotation
-        return self
-
-    def __repr__(self) -> str:
-        if self.rotation is None:
-            rot = 'any'
-        else:
-            rot = str(numpy.rad2deg(self.rotation))
-        return f'<{self.offset}, {rot}, [{self.ptype}]>'
-
-    def __lt__(self, other: 'Port') -> bool:
-        if self.ptype != other.ptype:
-            return self.ptype < other.ptype
-        if not numpy.array_equal(self.offset, other.offset):
-            return tuple(self.offset) < tuple(other.offset)
-        if self.rotation != other.rotation:
-            if self.rotation is None:
-                return True
-            if other.rotation is None:
-                return False
-            return self.rotation < other.rotation
-        return False
-
-    def __eq__(self, other: Any) -> bool:
-        return (
-            type(self) is type(other)
-            and self.ptype == other.ptype
-            and numpy.array_equal(self.offset, other.offset)
-            and self.rotation == other.rotation
-            )
-
-
-class PortList(metaclass=ABCMeta):
-    __slots__ = ()      # Allow subclasses to use __slots__
-
-    @property
-    @abstractmethod
-    def ports(self) -> dict[str, Port]:
-        """ Uniquely-named ports which can be used to snap to other Device instances"""
-        pass
-
-    @ports.setter
-    @abstractmethod
-    def ports(self, value: dict[str, Port]) -> None:
-        pass
-
-    @overload
-    def __getitem__(self, key: str) -> Port:
-        pass
-
-    @overload
-    def __getitem__(self, key: list[str] | tuple[str, ...] | KeysView[str] | ValuesView[str]) -> dict[str, Port]:
-        pass
-
-    def __getitem__(self, key: str | Iterable[str]) -> Port | dict[str, Port]:
-        """
-        For convenience, ports can be read out using square brackets:
-        - `pattern['A'] == Port((0, 0), 0)`
-        - ```
-          pattern[['A', 'B']] == {
-              'A': Port((0, 0), 0),
-              'B': Port((0, 0), pi),
-              }
-          ```
-        """
-        if isinstance(key, str):
-            return self.ports[key]
-        else:                                       # noqa: RET505
-            return {k: self.ports[k] for k in key}
-
-    def __contains__(self, key: str) -> NoReturn:
-        raise NotImplementedError('PortsList.__contains__ is left unimplemented. Use `key in container.ports` instead.')
-
-    # NOTE: Didn't add keys(), items(), values(), __contains__(), etc.
-    # because it's weird on stuff like Pattern that contains other lists
-    # and because you can just grab .ports and use that instead
-
-    def mkport(
-            self,
-            name: str,
-            value: Port,
-            ) -> Self:
-        """
-        Create a port, raising a `PortError` if a port with the same name already exists.
-
-        Args:
-            name: Name for the port. A port with this name should not already exist.
-            value: The `Port` object to which `name` will refer.
-
-        Returns:
-            self
-
-        Raises:
-            `PortError` if the name already exists.
-        """
-        if name in self.ports:
-            raise PortError(f'Port {name} already exists.')
-        assert name not in self.ports
-        self.ports[name] = value
-        return self
-
-    def rename_ports(
-            self,
-            mapping: dict[str, str | None],
-            overwrite: bool = False,
-            ) -> Self:
-        """
-        Renames ports as specified by `mapping`.
-        Ports can be explicitly deleted by mapping them to `None`.
-
-        Args:
-            mapping: dict of `{'old_name': 'new_name'}` pairs. Names can be mapped
-                to `None` to perform an explicit deletion. `'new_name'` can also
-                overwrite an existing non-renamed port to implicitly delete it if
-                `overwrite` is set to `True`.
-            overwrite: Allows implicit deletion of ports if set to `True`; see `mapping`.
-
-        Returns:
-            self
-        """
-        if not overwrite:
-            duplicates = (set(self.ports.keys()) - set(mapping.keys())) & set(mapping.values())
-            if duplicates:
-                raise PortError(f'Unrenamed ports would be overwritten: {duplicates}')
-
-        renamed = {vv: self.ports.pop(kk) for kk, vv in mapping.items()}
-        if None in renamed:
-            del renamed[None]
-
-        self.ports.update(renamed)      # type: ignore
-        return self
-
-    def add_port_pair(
-            self,
-            offset: ArrayLike = (0, 0),
-            rotation: float = 0.0,
-            names: tuple[str, str] = ('A', 'B'),
-            ptype: str = 'unk',
-            ) -> Self:
-        """
-        Add a pair of ports with opposing directions at the specified location.
-
-        Args:
-            offset: Location at which to add the ports
-            rotation: Orientation of the first port. Radians, counterclockwise.
-                Default 0.
-            names: Names for the two ports. Default 'A' and 'B'
-            ptype: Sets the port type for both ports.
-
-        Returns:
-            self
-        """
-        new_ports = {
-            names[0]: Port(offset, rotation=rotation, ptype=ptype),
-            names[1]: Port(offset, rotation=rotation + pi, ptype=ptype),
-            }
-        self.check_ports(names)
-        self.ports.update(new_ports)
-        return self
-
-    def plugged(
-            self,
-            connections: dict[str, str],
-            ) -> Self:
-        """
-        Verify that the ports specified by `connections` are coincident and have opposing
-        rotations, then remove the ports.
-
-        This is used when ports have been "manually" aligned as part of some other routing,
-        but for whatever reason were not eliminated via `plug()`.
-
-        Args:
-            connections: Pairs of ports which "plug" each other (same offset, opposing directions)
-
-        Returns:
-            self
-
-        Raises:
-            `PortError` if the ports are not properly aligned.
-        """
-        a_names, b_names = list(zip(*connections.items(), strict=True))
-        a_ports = [self.ports[pp] for pp in a_names]
-        b_ports = [self.ports[pp] for pp in b_names]
-
-        a_types = [pp.ptype for pp in a_ports]
-        b_types = [pp.ptype for pp in b_ports]
-        type_conflicts = numpy.array([at != bt and 'unk' not in (at, bt)
-                                      for at, bt in zip(a_types, b_types, strict=True)])
-
-        if type_conflicts.any():
-            msg = 'Ports have conflicting types:\n'
-            for nn, (k, v) in enumerate(connections.items()):
-                if type_conflicts[nn]:
-                    msg += f'{k} | {a_types[nn]}:{b_types[nn]} | {v}\n'
-            msg = ''.join(traceback.format_stack()) + '\n' + msg
-            warnings.warn(msg, stacklevel=2)
-
-        a_offsets = numpy.array([pp.offset for pp in a_ports])
-        b_offsets = numpy.array([pp.offset for pp in b_ports])
-        a_rotations = numpy.array([pp.rotation if pp.rotation is not None else 0 for pp in a_ports])
-        b_rotations = numpy.array([pp.rotation if pp.rotation is not None else 0 for pp in b_ports])
-        a_has_rot = numpy.array([pp.rotation is not None for pp in a_ports], dtype=bool)
-        b_has_rot = numpy.array([pp.rotation is not None for pp in b_ports], dtype=bool)
-        has_rot = a_has_rot & b_has_rot
-
-        if has_rot.any():
-            rotations = numpy.mod(a_rotations - b_rotations - pi, 2 * pi)
-            rotations[~has_rot] = rotations[has_rot][0]
-
-            if not numpy.allclose(rotations, 0):
-                rot_deg = numpy.rad2deg(rotations)
-                msg = 'Port orientations do not match:\n'
-                for nn, (k, v) in enumerate(connections.items()):
-                    if not numpy.isclose(rot_deg[nn], 0):
-                        msg += f'{k} | {rot_deg[nn]:g} | {v}\n'
-                raise PortError(msg)
-
-        translations = a_offsets - b_offsets
-        if not numpy.allclose(translations, 0):
-            msg = 'Port translations do not match:\n'
-            for nn, (k, v) in enumerate(connections.items()):
-                if not numpy.allclose(translations[nn], 0):
-                    msg += f'{k} | {translations[nn]} | {v}\n'
-            raise PortError(msg)
-
-        for pp in chain(a_names, b_names):
-            del self.ports[pp]
-        return self
-
-    def check_ports(
-            self,
-            other_names: Iterable[str],
-            map_in: dict[str, str] | None = None,
-            map_out: dict[str, str | None] | None = None,
-            ) -> Self:
-        """
-        Given the provided port mappings, check that:
-            - All of the ports specified in the mappings exist
-            - There are no duplicate port names after all the mappings are performed
-
-        Args:
-            other_names: List of port names being considered for inclusion into
-                `self.ports` (before mapping)
-            map_in: dict of `{'self_port': 'other_port'}` mappings, specifying
-                port connections between the two devices.
-            map_out: dict of `{'old_name': 'new_name'}` mappings, specifying
-                new names for unconnected `other_names` ports.
-
-        Returns:
-            self
-
-        Raises:
-            `PortError` if any ports specified in `map_in` or `map_out` do not
-                exist in `self.ports` or `other_names`.
-            `PortError` if there are any duplicate names after `map_in` and `map_out`
-                are applied.
-        """
-        if map_in is None:
-            map_in = {}
-
-        if map_out is None:
-            map_out = {}
-
-        other = set(other_names)
-
-        missing_inkeys = set(map_in.keys()) - set(self.ports.keys())
-        if missing_inkeys:
-            raise PortError(f'`map_in` keys not present in device: {missing_inkeys}')
-
-        missing_invals = set(map_in.values()) - other
-        if missing_invals:
-            raise PortError(f'`map_in` values not present in other device: {missing_invals}')
-
-        missing_outkeys = set(map_out.keys()) - other
-        if missing_outkeys:
-            raise PortError(f'`map_out` keys not present in other device: {missing_outkeys}')
-
-        orig_remaining = set(self.ports.keys()) - set(map_in.keys())
-        other_remaining = other - set(map_out.keys()) - set(map_in.values())
-        mapped_vals = set(map_out.values())
-        mapped_vals.discard(None)
-
-        conflicts_final = orig_remaining & (other_remaining | mapped_vals)
-        if conflicts_final:
-            raise PortError(f'Device ports conflict with existing ports: {conflicts_final}')
-
-        conflicts_partial = other_remaining & mapped_vals
-        if conflicts_partial:
-            raise PortError(f'`map_out` targets conflict with non-mapped outputs: {conflicts_partial}')
-
-        map_out_counts = Counter(map_out.values())
-        map_out_counts[None] = 0
-        conflicts_out = {k for k, v in map_out_counts.items() if v > 1}
-        if conflicts_out:
-            raise PortError(f'Duplicate targets in `map_out`: {conflicts_out}')
-
-        return self
-
-    def find_transform(
-            self,
-            other: 'PortList',
-            map_in: dict[str, str],
-            *,
-            mirrored: bool = False,
-            set_rotation: bool | None = None,
-            ) -> tuple[NDArray[numpy.float64], float, NDArray[numpy.float64]]:
-        """
-        Given a device `other` and a mapping `map_in` specifying port connections,
-          find the transform which will correctly align the specified ports.
-
-        Args:
-            other: a device
-            map_in: dict of `{'self_port': 'other_port'}` mappings, specifying
-                port connections between the two devices.
-            mirrored: Mirrors `other` across the x axis prior to
-                connecting any ports.
-            set_rotation: If the necessary rotation cannot be determined from
-                the ports being connected (i.e. all pairs have at least one
-                port with `rotation=None`), `set_rotation` must be provided
-                to indicate how much `other` should be rotated. Otherwise,
-                `set_rotation` must remain `None`.
-
-        Returns:
-            - The (x, y) translation (performed last)
-            - The rotation (radians, counterclockwise)
-            - The (x, y) pivot point for the rotation
-
-            The rotation should be performed before the translation.
-        """
-        s_ports = self[map_in.keys()]
-        o_ports = other[map_in.values()]
-        return self.find_port_transform(
-            s_ports=s_ports,
-            o_ports=o_ports,
-            map_in=map_in,
-            mirrored=mirrored,
-            set_rotation=set_rotation,
-            )
-
-    @staticmethod
-    def find_port_transform(
-            s_ports: Mapping[str, Port],
-            o_ports: Mapping[str, Port],
-            map_in: dict[str, str],
-            *,
-            mirrored: bool = False,
-            set_rotation: bool | None = None,
-            ) -> tuple[NDArray[numpy.float64], float, NDArray[numpy.float64]]:
-        """
-        Given two sets of ports (s_ports and o_ports) and a mapping `map_in`
-          specifying port connections, find the transform which will correctly
-          align the specified o_ports onto their respective s_ports.
-
-        Args:t
-            s_ports: A list of stationary ports
-            o_ports: A list of ports which are to be moved/mirrored.
-            map_in: dict of `{'s_port': 'o_port'}` mappings, specifying
-                port connections.
-            mirrored: Mirrors `o_ports` across the x axis prior to
-                connecting any ports.
-            set_rotation: If the necessary rotation cannot be determined from
-                the ports being connected (i.e. all pairs have at least one
-                port with `rotation=None`), `set_rotation` must be provided
-                to indicate how much `o_ports` should be rotated. Otherwise,
-                `set_rotation` must remain `None`.
-
-        Returns:
-            - The (x, y) translation (performed last)
-            - The rotation (radians, counterclockwise)
-            - The (x, y) pivot point for the rotation
-
-            The rotation should be performed before the translation.
-        """
-        s_offsets = numpy.array([p.offset for p in s_ports.values()])
-        o_offsets = numpy.array([p.offset for p in o_ports.values()])
-        s_types = [p.ptype for p in s_ports.values()]
-        o_types = [p.ptype for p in o_ports.values()]
-
-        s_rotations = numpy.array([p.rotation if p.rotation is not None else 0 for p in s_ports.values()])
-        o_rotations = numpy.array([p.rotation if p.rotation is not None else 0 for p in o_ports.values()])
-        s_has_rot = numpy.array([p.rotation is not None for p in s_ports.values()], dtype=bool)
-        o_has_rot = numpy.array([p.rotation is not None for p in o_ports.values()], dtype=bool)
-        has_rot = s_has_rot & o_has_rot
-
-        if mirrored:
-            o_offsets[:, 1] *= -1
-            o_rotations *= -1
-
-        type_conflicts = numpy.array([st != ot and 'unk' not in (st, ot)
-                                      for st, ot in zip(s_types, o_types, strict=True)])
-        if type_conflicts.any():
-            msg = 'Ports have conflicting types:\n'
-            for nn, (k, v) in enumerate(map_in.items()):
-                if type_conflicts[nn]:
-                    msg += f'{k} | {s_types[nn]}:{o_types[nn]} | {v}\n'
-            msg = ''.join(traceback.format_stack()) + '\n' + msg
-            warnings.warn(msg, stacklevel=2)
-
-        rotations = numpy.mod(s_rotations - o_rotations - pi, 2 * pi)
-        if not has_rot.any():
-            if set_rotation is None:
-                PortError('Must provide set_rotation if rotation is indeterminate')
-            rotations[:] = set_rotation
-        else:
-            rotations[~has_rot] = rotations[has_rot][0]
-
-        if not numpy.allclose(rotations[:1], rotations):
-            rot_deg = numpy.rad2deg(rotations)
-            msg = 'Port orientations do not match:\n'
-            for nn, (k, v) in enumerate(map_in.items()):
-                msg += f'{k} | {rot_deg[nn]:g} | {v}\n'
-            raise PortError(msg)
-
-        pivot = o_offsets[0].copy()
-        rotate_offsets_around(o_offsets, pivot, rotations[0])
-        translations = s_offsets - o_offsets
-        if not numpy.allclose(translations[:1], translations):
-            msg = 'Port translations do not match:\n'
-            for nn, (k, v) in enumerate(map_in.items()):
-                msg += f'{k} | {translations[nn]} | {v}\n'
-            raise PortError(msg)
-
-        return translations[0], rotations[0], o_offsets[0]

masque/ref.py

@@ -1,236 +0,0 @@
-"""
- Ref provides basic support for nesting Pattern objects within each other.
- It carries offset, rotation, mirroring, and scaling data for each individual instance.
-"""
-from typing import TYPE_CHECKING, Self, Any
-from collections.abc import Mapping
-import copy
-import functools
-
-import numpy
-from numpy import pi
-from numpy.typing import NDArray, ArrayLike
-
-from .utils import annotations_t, rotation_matrix_2d, annotations_eq, annotations_lt, rep2key
-from .repetition import Repetition
-from .traits import (
-    PositionableImpl, RotatableImpl, ScalableImpl,
-    Mirrorable, PivotableImpl, Copyable, RepeatableImpl, AnnotatableImpl,
-    )
-
-
-if TYPE_CHECKING:
-    from . import Pattern
-
-
-@functools.total_ordering
-class Ref(
-        PositionableImpl, RotatableImpl, ScalableImpl, Mirrorable,
-        PivotableImpl, Copyable, RepeatableImpl, AnnotatableImpl,
-        ):
-    """
-    `Ref` provides basic support for nesting Pattern objects within each other.
-
-    It containts the transformation (mirror, rotation, scale, offset, repetition)
-    and annotations for a single instantiation of a `Pattern`.
-
-    Note that the target (i.e. which pattern a `Ref` instantiates) is not stored within the
-    `Ref` itself, but is specified by the containing `Pattern`.
-
-    Order of operations is (mirror, rotate, scale, translate, repeat).
-    """
-    __slots__ = (
-        '_mirrored',
-        # inherited
-        '_offset', '_rotation', 'scale', '_repetition', '_annotations',
-        )
-
-    _mirrored: bool
-    """ Whether to mirror the instance across the x axis (new_y = -old_y)ubefore rotating. """
-
-    # Mirrored property
-    @property
-    def mirrored(self) -> bool:     # mypy#3004, setter should be SupportsBool
-        return self._mirrored
-
-    @mirrored.setter
-    def mirrored(self, val: bool) -> None:
-        self._mirrored = bool(val)
-
-    def __init__(
-            self,
-            *,
-            offset: ArrayLike = (0.0, 0.0),
-            rotation: float = 0.0,
-            mirrored: bool = False,
-            scale: float = 1.0,
-            repetition: Repetition | None = None,
-            annotations: annotations_t | None = None,
-            ) -> None:
-        """
-        Note: Order is (mirror, rotate, scale, translate, repeat)
-
-        Args:
-            offset: (x, y) offset applied to the referenced pattern. Not affected by rotation etc.
-            rotation: Rotation (radians, counterclockwise) relative to the referenced pattern's (0, 0).
-            mirrored: Whether to mirror the referenced pattern across its x axis before rotating.
-            scale: Scaling factor applied to the pattern's geometry.
-            repetition: `Repetition` object, default `None`
-        """
-        self.offset = offset
-        self.rotation = rotation
-        self.scale = scale
-        self.mirrored = mirrored
-        self.repetition = repetition
-        self.annotations = annotations if annotations is not None else {}
-
-    def __copy__(self) -> 'Ref':
-        new = Ref(
-            offset=self.offset.copy(),
-            rotation=self.rotation,
-            scale=self.scale,
-            mirrored=self.mirrored,
-            repetition=copy.deepcopy(self.repetition),
-            annotations=copy.deepcopy(self.annotations),
-            )
-        return new
-
-    def __deepcopy__(self, memo: dict | None = None) -> 'Ref':
-        memo = {} if memo is None else memo
-        new = copy.copy(self)
-        #new.repetition = copy.deepcopy(self.repetition, memo)
-        #new.annotations = copy.deepcopy(self.annotations, memo)
-        return new
-
-    def __lt__(self, other: 'Ref') -> bool:
-        if (self.offset != other.offset).any():
-            return tuple(self.offset) < tuple(other.offset)
-        if self.mirrored != other.mirrored:
-            return self.mirrored < other.mirrored
-        if self.rotation != other.rotation:
-            return self.rotation < other.rotation
-        if self.scale != other.scale:
-            return self.scale < other.scale
-        if self.repetition != other.repetition:
-            return rep2key(self.repetition) < rep2key(other.repetition)
-        return annotations_lt(self.annotations, other.annotations)
-
-    def __eq__(self, other: Any) -> bool:
-        return (
-            numpy.array_equal(self.offset, other.offset)
-            and self.mirrored == other.mirrored
-            and self.rotation == other.rotation
-            and self.scale == other.scale
-            and self.repetition == other.repetition
-            and annotations_eq(self.annotations, other.annotations)
-            )
-
-    def as_pattern(
-            self,
-            pattern: 'Pattern',
-            ) -> 'Pattern':
-        """
-        Args:
-            pattern: Pattern object to transform
-
-        Returns:
-            A copy of the referenced Pattern which has been scaled, rotated, etc.
-             according to this `Ref`'s properties.
-        """
-        pattern = pattern.deepcopy()
-
-        if self.scale != 1:
-            pattern.scale_by(self.scale)
-        if self.mirrored:
-            pattern.mirror()
-        if self.rotation % (2 * pi) != 0:
-            pattern.rotate_around((0.0, 0.0), self.rotation)
-        if numpy.any(self.offset):
-            pattern.translate_elements(self.offset)
-
-        if self.repetition is not None:
-            combined = type(pattern)()
-            for dd in self.repetition.displacements:
-                temp_pat = pattern.deepcopy()
-                temp_pat.ports = {}
-                temp_pat.translate_elements(dd)
-                combined.append(temp_pat)
-            pattern = combined
-
-        return pattern
-
-    def rotate(self, rotation: float) -> Self:
-        self.rotation += rotation
-        if self.repetition is not None:
-            self.repetition.rotate(rotation)
-        return self
-
-    def mirror(self, axis: int = 0) -> Self:
-        self.mirror_target(axis)
-        self.rotation *= -1
-        if self.repetition is not None:
-            self.repetition.mirror(axis)
-        return self
-
-    def mirror_target(self, axis: int = 0) -> Self:
-        self.mirrored = not self.mirrored
-        self.rotation += axis * pi
-        return self
-
-    def mirror2d_target(self, across_x: bool = False, across_y: bool = False) -> Self:
-        self.mirrored = bool((self.mirrored + across_x + across_y) % 2)
-        if across_y:
-            self.rotation += pi
-        return self
-
-    def as_transforms(self) -> NDArray[numpy.float64]:
-        xys = self.offset[None, :]
-        if self.repetition is not None:
-            xys = xys + self.repetition.displacements
-        transforms = numpy.empty((xys.shape[0], 4))
-        transforms[:, :2] = xys
-        transforms[:, 2] = self.rotation
-        transforms[:, 3] = self.mirrored
-        return transforms
-
-    def get_bounds_single(
-            self,
-            pattern: 'Pattern',
-            *,
-            library: Mapping[str, 'Pattern'] | None = None,
-            ) -> NDArray[numpy.float64] | None:
-        """
-        Return a `numpy.ndarray` containing `[[x_min, y_min], [x_max, y_max]]`, corresponding to the
-         extent of the `Ref` in each dimension.
-        Returns `None` if the contained `Pattern` is empty.
-
-        Args:
-            library: Name-to-Pattern mapping for resul
-
-        Returns:
-            `[[x_min, y_min], [x_max, y_max]]` or `None`
-        """
-        if pattern.is_empty():
-            # no need to run as_pattern()
-            return None
-
-        # if rotation is manhattan, can take pattern's bounds and transform them
-        if numpy.isclose(self.rotation % (pi / 2), 0):
-            unrot_bounds = pattern.get_bounds(library)
-            if unrot_bounds is None:
-                return None
-
-            if self.mirrored:
-                unrot_bounds[:, 1] *= -1
-
-            corners = (rotation_matrix_2d(self.rotation) @ unrot_bounds.T).T
-            bounds = numpy.vstack((numpy.min(corners, axis=0),
-                                   numpy.max(corners, axis=0))) * self.scale + [self.offset]
-            return bounds
-        return self.as_pattern(pattern=pattern).get_bounds(library)
-
-    def __repr__(self) -> str:
-        rotation = f' r{numpy.rad2deg(self.rotation):g}' if self.rotation != 0 else ''
-        scale = f' d{self.scale:g}' if self.scale != 1 else ''
-        mirrored = ' m' if self.mirrored else ''
-        return f'<Ref {self.offset}{rotation}{scale}{mirrored}>'

masque/repetition.py

@@ -2,28 +2,24 @@
     Repetitions provide support for efficiently representing multiple identical
      instances of an object .
 """
-from typing import Any, Self, TypeVar, cast
+
+from typing import Union, Dict, Optional, Sequence, Any, Type
 import copy
-import functools
 from abc import ABCMeta, abstractmethod
 
 import numpy
 from numpy.typing import ArrayLike, NDArray
 
-from .traits import Copyable, Scalable, Rotatable, Mirrorable, Bounded
 from .error import PatternError
-from .utils import rotation_matrix_2d
+from .utils import rotation_matrix_2d, AutoSlots
+from .traits import LockableImpl, Copyable, Scalable, Rotatable, Mirrorable
 
 
-GG = TypeVar('GG', bound='Grid')
-
-
-@functools.total_ordering
-class Repetition(Copyable, Rotatable, Mirrorable, Scalable, Bounded, metaclass=ABCMeta):
+class Repetition(Copyable, Rotatable, Mirrorable, Scalable, metaclass=ABCMeta):
     """
     Interface common to all objects which specify repetitions
     """
-    __slots__ = ()      # Allow subclasses to use __slots__
+    __slots__ = ()
 
     @property
     @abstractmethod
@@ -33,16 +29,8 @@ class Repetition(Copyable, Rotatable, Mirrorable, Scalable, Bounded, metaclass=A
         """
         pass
 
-    @abstractmethod
-    def __le__(self, other: 'Repetition') -> bool:
-        pass
 
-    @abstractmethod
-    def __eq__(self, other: Any) -> bool:
-        pass
-
-
-class Grid(Repetition):
+class Grid(LockableImpl, Repetition, metaclass=AutoSlots):
     """
     `Grid` describes a 2D grid formed by two basis vectors and two 'counts' (sizes).
 
@@ -51,10 +39,10 @@ class Grid(Repetition):
 
     Note that the offsets in either the 2D or 1D grids do not have to be axis-aligned.
     """
-    __slots__ = (
-        '_a_vector', '_b_vector',
-        '_a_count', '_b_count',
-        )
+    __slots__ = ('_a_vector',
+                 '_b_vector',
+                 '_a_count',
+                 '_b_count')
 
     _a_vector: NDArray[numpy.float64]
     """ Vector `[x, y]` specifying the first lattice vector of the grid.
@@ -64,7 +52,7 @@ class Grid(Repetition):
     _a_count: int
     """ Number of instances along the direction specified by the `a_vector` """
 
-    _b_vector: NDArray[numpy.float64] | None
+    _b_vector: Optional[NDArray[numpy.float64]]
     """ Vector `[x, y]` specifying a second lattice vector for the grid.
         Specifies center-to-center spacing between adjacent elements.
         Can be `None` for a 1D array.
@@ -77,8 +65,9 @@ class Grid(Repetition):
             self,
             a_vector: ArrayLike,
             a_count: int,
-            b_vector: ArrayLike | None = None,
-            b_count: int | None = 1,
+            b_vector: Optional[ArrayLike] = None,
+            b_count: Optional[int] = 1,
+            locked: bool = False,
             ) -> None:
         """
         Args:
@@ -90,6 +79,7 @@ class Grid(Repetition):
                 Can be omitted when specifying a 1D array.
             b_count: Number of elements in the `b_vector` direction.
                 Should be omitted if `b_vector` was omitted.
+            locked: Whether the `Grid` is locked after initialization.
 
         Raises:
             PatternError if `b_*` inputs conflict with each other
@@ -101,26 +91,29 @@ class Grid(Repetition):
         if b_vector is None:
             if b_count > 1:
                 raise PatternError('Repetition has b_count > 1 but no b_vector')
-            b_vector = numpy.array([0.0, 0.0])
+            else:
+                b_vector = numpy.array([0.0, 0.0])
 
         if a_count < 1:
             raise PatternError(f'Repetition has too-small a_count: {a_count}')
         if b_count < 1:
             raise PatternError(f'Repetition has too-small b_count: {b_count}')
 
+        object.__setattr__(self, 'locked', False)
         self.a_vector = a_vector        # type: ignore     # setter handles type conversion
         self.b_vector = b_vector        # type: ignore     # setter handles type conversion
         self.a_count = a_count
         self.b_count = b_count
+        self.locked = locked
 
     @classmethod
     def aligned(
-            cls: type[GG],
+            cls: Type,
             x: float,
             y: float,
             x_count: int,
             y_count: int,
-            ) -> GG:
+            ) -> 'Grid':
         """
         Simple constructor for an axis-aligned 2D grid
 
@@ -136,17 +129,18 @@ class Grid(Repetition):
         return cls(a_vector=(x, 0), b_vector=(0, y), a_count=x_count, b_count=y_count)
 
     def __copy__(self) -> 'Grid':
-        new = Grid(
-            a_vector=self.a_vector.copy(),
-            b_vector=copy.copy(self.b_vector),
-            a_count=self.a_count,
-            b_count=self.b_count,
-            )
+        new = Grid(a_vector=self.a_vector.copy(),
+                   b_vector=copy.copy(self.b_vector),
+                   a_count=self.a_count,
+                   b_count=self.b_count,
+                   locked=self.locked)
         return new
 
-    def __deepcopy__(self, memo: dict | None = None) -> Self:
+    def __deepcopy__(self, memo: Dict = None) -> 'Grid':
         memo = {} if memo is None else memo
         new = copy.copy(self)
+        LocakbleImpl.unlock(new)
+        new.locked = self.locked
         return new
 
     # a_vector property
@@ -156,20 +150,22 @@ class Grid(Repetition):
 
     @a_vector.setter
     def a_vector(self, val: ArrayLike) -> None:
-        val = numpy.array(val, dtype=float)
+        if not isinstance(val, numpy.ndarray):
+            val = numpy.array(val, dtype=float)
 
         if val.size != 2:
             raise PatternError('a_vector must be convertible to size-2 ndarray')
-        self._a_vector = val.flatten()
+        self._a_vector = val.flatten().astype(float)
 
     # b_vector property
     @property
-    def b_vector(self) -> NDArray[numpy.float64] | None:
+    def b_vector(self) -> Optional[NDArray[numpy.float64]]:
         return self._b_vector
 
     @b_vector.setter
     def b_vector(self, val: ArrayLike) -> None:
-        val = numpy.array(val, dtype=float)
+        if not isinstance(val, numpy.ndarray):
+            val = numpy.array(val, dtype=float, copy=True)
 
         if val.size != 2:
             raise PatternError('b_vector must be convertible to size-2 ndarray')
@@ -206,7 +202,7 @@ class Grid(Repetition):
         return (aa.flatten()[:, None] * self.a_vector[None, :]
               + bb.flatten()[:, None] * self.b_vector[None, :])             # noqa
 
-    def rotate(self, rotation: float) -> Self:
+    def rotate(self, rotation: float) -> 'Grid':
         """
         Rotate lattice vectors (around (0, 0))
 
@@ -221,7 +217,7 @@ class Grid(Repetition):
             self.b_vector = numpy.dot(rotation_matrix_2d(rotation), self.b_vector)
         return self
 
-    def mirror(self, axis: int = 0) -> Self:
+    def mirror(self, axis: int) -> 'Grid':
         """
         Mirror the Grid across an axis.
 
@@ -237,7 +233,7 @@ class Grid(Repetition):
             self.b_vector[1 - axis] *= -1
         return self
 
-    def get_bounds(self) -> NDArray[numpy.float64] | None:
+    def get_bounds(self) -> Optional[NDArray[numpy.float64]]:
         """
         Return a `numpy.ndarray` containing `[[x_min, y_min], [x_max, y_max]]`, corresponding to the
          extent of the `Grid` in each dimension.
@@ -245,19 +241,15 @@ class Grid(Repetition):
         Returns:
             `[[x_min, y_min], [x_max, y_max]]` or `None`
         """
-        a_extent = self.a_vector * (self.a_count - 1)
-        if self.b_count is None:
-            b_extent = numpy.zeros(2)
-        else:
-            assert self.b_vector is not None
-            b_extent = self.b_vector * (self.b_count - 1)
+        a_extent = self.a_vector * self.a_count
+        b_extent = self.b_vector * self.b_count if (self.b_vector is not None) else 0       # type: Union[NDArray[numpy.float64], float]
 
-        corners = numpy.stack(((0, 0), a_extent, b_extent, a_extent + b_extent))
+        corners = ((0, 0), a_extent, b_extent, a_extent + b_extent)
         xy_min = numpy.min(corners, axis=0)
         xy_max = numpy.max(corners, axis=0)
         return numpy.array((xy_min, xy_max))
 
-    def scale_by(self, c: float) -> Self:
+    def scale_by(self, c: float) -> 'Grid':
         """
         Scale the Grid by a factor
 
@@ -272,12 +264,39 @@ class Grid(Repetition):
             self.b_vector *= c
         return self
 
+    def lock(self) -> 'Grid':
+        """
+        Lock the `Grid`, disallowing changes.
+
+        Returns:
+            self
+        """
+        self.a_vector.flags.writeable = False
+        if self.b_vector is not None:
+            self.b_vector.flags.writeable = False
+        LockableImpl.lock(self)
+        return self
+
+    def unlock(self) -> 'Grid':
+        """
+        Unlock the `Grid`
+
+        Returns:
+            self
+        """
+        self.a_vector.flags.writeable = True
+        if self.b_vector is not None:
+            self.b_vector.flags.writeable = True
+        LockableImpl.unlock(self)
+        return self
+
     def __repr__(self) -> str:
+        locked = ' L' if self.locked else ''
         bv = f', {self.b_vector}' if self.b_vector is not None else ''
-        return (f'<Grid {self.a_count}x{self.b_count} ({self.a_vector}{bv})>')
+        return (f'<Grid {self.a_count}x{self.b_count} ({self.a_vector}{bv}){locked}>')
 
     def __eq__(self, other: Any) -> bool:
-        if type(other) is not type(self):
+        if not isinstance(other, type(self)):
             return False
         if self.a_count != other.a_count or self.b_count != other.b_count:
             return False
@@ -287,30 +306,14 @@ class Grid(Repetition):
             return True
         if self.b_vector is None or other.b_vector is None:
             return False
-        if any(self.b_vector[ii] != other.b_vector[ii] for ii in range(2)):     # noqa: SIM103
+        if any(self.b_vector[ii] != other.b_vector[ii] for ii in range(2)):
+            return False
+        if self.locked != other.locked:
             return False
         return True
 
-    def __le__(self, other: Repetition) -> bool:
-        if type(self) is not type(other):
-            return repr(type(self)) < repr(type(other))
-        other = cast(Grid, other)
-        if self.a_count != other.a_count:
-            return self.a_count < other.a_count
-        if self.b_count != other.b_count:
-            return self.b_count < other.b_count
-        if not numpy.array_equal(self.a_vector, other.a_vector):
-            return tuple(self.a_vector) < tuple(other.a_vector)
-        if self.b_vector is None:
-            return other.b_vector is not None
-        if other.b_vector is None:
-            return False
-        if not numpy.array_equal(self.b_vector, other.b_vector):
-            return tuple(self.a_vector) < tuple(other.a_vector)
-        return False
 
-
-class Arbitrary(Repetition):
+class Arbitrary(LockableImpl, Repetition, metaclass=AutoSlots):
     """
     `Arbitrary` is a simple list of (absolute) displacements for instances.
 
@@ -327,47 +330,63 @@ class Arbitrary(Repetition):
     """
 
     @property
-    def displacements(self) -> Any:     # mypy#3004   NDArray[numpy.float64]:
+    def displacements(self) -> Any:     # TODO: mypy#3004   NDArray[numpy.float64]:
         return self._displacements
 
     @displacements.setter
     def displacements(self, val: ArrayLike) -> None:
-        vala = numpy.array(val, dtype=float)
-        order = numpy.lexsort(vala.T[::-1])     # sortrows
-        self._displacements = vala[order]
+        vala: NDArray[numpy.float64] = numpy.array(val, dtype=float)
+        vala = numpy.sort(vala.view([('', vala.dtype)] * vala.shape[1]), 0).view(vala.dtype)    # sort rows
+        self._displacements = vala
 
     def __init__(
             self,
             displacements: ArrayLike,
+            locked: bool = False,
             ) -> None:
         """
         Args:
             displacements: List of vectors (Nx2 ndarray) specifying displacements.
+            locked: Whether the object is locked after initialization.
         """
+        object.__setattr__(self, 'locked', False)
         self.displacements = displacements
+        self.locked = locked
+
+    def lock(self) -> 'Arbitrary':
+        """
+        Lock the object, disallowing changes.
+
+        Returns:
+            self
+        """
+        self._displacements.flags.writeable = False
+        LockableImpl.lock(self)
+        return self
+
+    def unlock(self) -> 'Arbitrary':
+        """
+        Unlock the object
+
+        Returns:
+            self
+        """
+        self._displacements.flags.writeable = True
+        LockableImpl.unlock(self)
+        return self
 
     def __repr__(self) -> str:
-        return (f'<Arbitrary {len(self.displacements)}pts >')
+        locked = ' L' if self.locked else ''
+        return (f'<Arbitrary {len(self.displacements)}pts {locked}>')
 
     def __eq__(self, other: Any) -> bool:
-        if not type(other) is not type(self):
+        if not isinstance(other, type(self)):
+            return False
+        if self.locked != other.locked:
             return False
         return numpy.array_equal(self.displacements, other.displacements)
 
-    def __le__(self, other: Repetition) -> bool:
-        if type(self) is not type(other):
-            return repr(type(self)) < repr(type(other))
-        other = cast(Arbitrary, other)
-        if self.displacements.size != other.displacements.size:
-            return self.displacements.size < other.displacements.size
-
-        neq = (self.displacements != other.displacements)
-        if neq.any():
-            return self.displacements[neq][0] < other.displacements[neq][0]
-
-        return False
-
-    def rotate(self, rotation: float) -> Self:
+    def rotate(self, rotation: float) -> 'Arbitrary':
         """
         Rotate dispacements (around (0, 0))
 
@@ -380,7 +399,7 @@ class Arbitrary(Repetition):
         self.displacements = numpy.dot(rotation_matrix_2d(rotation), self.displacements.T).T
         return self
 
-    def mirror(self, axis: int = 0) -> Self:
+    def mirror(self, axis: int) -> 'Arbitrary':
         """
         Mirror the displacements across an axis.
 
@@ -394,7 +413,7 @@ class Arbitrary(Repetition):
         self.displacements[1 - axis] *= -1
         return self
 
-    def get_bounds(self) -> NDArray[numpy.float64] | None:
+    def get_bounds(self) -> Optional[NDArray[numpy.float64]]:
         """
         Return a `numpy.ndarray` containing `[[x_min, y_min], [x_max, y_max]]`, corresponding to the
          extent of the `displacements` in each dimension.
@@ -406,7 +425,7 @@ class Arbitrary(Repetition):
         xy_max = numpy.max(self.displacements, axis=0)
         return numpy.array((xy_min, xy_max))
 
-    def scale_by(self, c: float) -> Self:
+    def scale_by(self, c: float) -> 'Arbitrary':
         """
         Scale the displacements by a factor
 

masque/shapes/__init__.py

@@ -3,15 +3,11 @@ Shapes for use with the Pattern class, as well as the Shape abstract class from
  which they are derived.
 """
 
-from .shape import (
-    Shape as Shape,
-    normalized_shape_tuple as normalized_shape_tuple,
-    DEFAULT_POLY_NUM_VERTICES as DEFAULT_POLY_NUM_VERTICES,
-    )
+from .shape import Shape, normalized_shape_tuple, DEFAULT_POLY_NUM_POINTS
 
-from .polygon import Polygon as Polygon
-from .circle import Circle as Circle
-from .ellipse import Ellipse as Ellipse
-from .arc import Arc as Arc
-from .text import Text as Text
-from .path import Path as Path
+from .polygon import Polygon
+from .circle import Circle
+from .ellipse import Ellipse
+from .arc import Arc
+from .text import Text
+from .path import Path

masque/shapes/arc.py

@@ -1,19 +1,19 @@
-from typing import Any, cast
+from typing import List, Dict, Optional, Sequence, Any
 import copy
-import functools
+import math
 
 import numpy
 from numpy import pi
 from numpy.typing import NDArray, ArrayLike
 
-from . import Shape, Polygon, normalized_shape_tuple, DEFAULT_POLY_NUM_VERTICES
-from ..error import PatternError
+from . import Shape, Polygon, normalized_shape_tuple, DEFAULT_POLY_NUM_POINTS
+from .. import PatternError
 from ..repetition import Repetition
-from ..utils import is_scalar, annotations_t, annotations_lt, annotations_eq, rep2key
+from ..utils import is_scalar, layer_t, AutoSlots, annotations_t
+from ..traits import LockableImpl
 
 
-@functools.total_ordering
-class Arc(Shape):
+class Arc(Shape, metaclass=AutoSlots):
     """
     An elliptical arc, formed by cutting off an elliptical ring with two rays which exit from its
      center. It has a position, two radii, a start and stop angle, a rotation, and a width.
@@ -22,11 +22,8 @@ class Arc(Shape):
     The rotation gives the angle from x-axis, counterclockwise, to the first (x) radius.
     The start and stop angle are measured counterclockwise from the first (x) radius.
     """
-    __slots__ = (
-        '_radii', '_angles', '_width', '_rotation',
-        # Inherited
-        '_offset', '_repetition', '_annotations',
-        )
+    __slots__ = ('_radii', '_angles', '_width', '_rotation',
+                 'poly_num_points', 'poly_max_arclen')
 
     _radii: NDArray[numpy.float64]
     """ Two radii for defining an ellipse """
@@ -40,9 +37,15 @@ class Arc(Shape):
     _width: float
     """ Width of the arc """
 
+    poly_num_points: Optional[int]
+    """ Sets the default number of points for `.polygonize()` """
+
+    poly_max_arclen: Optional[float]
+    """ Sets the default max segement length for `.polygonize()` """
+
     # radius properties
     @property
-    def radii(self) -> Any:         # mypy#3004   NDArray[numpy.float64]:
+    def radii(self) -> Any:         #TODO mypy#3004   NDArray[numpy.float64]:
         """
         Return the radii `[rx, ry]`
         """
@@ -79,7 +82,7 @@ class Arc(Shape):
 
     # arc start/stop angle properties
     @property
-    def angles(self) -> Any:            # mypy#3004    NDArray[numpy.float64]:
+    def angles(self) -> Any:            #TODO mypy#3004    NDArray[numpy.float64]:
         """
         Return the start and stop angles `[a_start, a_stop]`.
         Angles are measured from x-axis after rotation
@@ -154,16 +157,24 @@ class Arc(Shape):
             angles: ArrayLike,
             width: float,
             *,
+            poly_num_points: Optional[int] = DEFAULT_POLY_NUM_POINTS,
+            poly_max_arclen: Optional[float] = None,
             offset: ArrayLike = (0.0, 0.0),
             rotation: float = 0,
-            repetition: Repetition | None = None,
-            annotations: annotations_t | None = None,
+            mirrored: Sequence[bool] = (False, False),
+            layer: layer_t = 0,
+            dose: float = 1.0,
+            repetition: Optional[Repetition] = None,
+            annotations: Optional[annotations_t] = None,
+            locked: bool = False,
             raw: bool = False,
             ) -> None:
+        LockableImpl.unlock(self)
+        self.identifier = ()
         if raw:
-            assert isinstance(radii, numpy.ndarray)
-            assert isinstance(angles, numpy.ndarray)
-            assert isinstance(offset, numpy.ndarray)
+            assert(isinstance(radii, numpy.ndarray))
+            assert(isinstance(angles, numpy.ndarray))
+            assert(isinstance(offset, numpy.ndarray))
             self._radii = radii
             self._angles = angles
             self._width = width
@@ -171,6 +182,8 @@ class Arc(Shape):
             self._rotation = rotation
             self._repetition = repetition
             self._annotations = annotations if annotations is not None else {}
+            self._layer = layer
+            self._dose = dose
         else:
             self.radii = radii
             self.angles = angles
@@ -179,54 +192,35 @@ class Arc(Shape):
             self.rotation = rotation
             self.repetition = repetition
             self.annotations = annotations if annotations is not None else {}
+            self.layer = layer
+            self.dose = dose
+        self.poly_num_points = poly_num_points
+        self.poly_max_arclen = poly_max_arclen
+        [self.mirror(a) for a, do in enumerate(mirrored) if do]
+        self.set_locked(locked)
 
-    def __deepcopy__(self, memo: dict | None = None) -> 'Arc':
+    def __deepcopy__(self, memo: Dict = None) -> 'Arc':
         memo = {} if memo is None else memo
         new = copy.copy(self)
+        Shape.unlock(new)
         new._offset = self._offset.copy()
         new._radii = self._radii.copy()
         new._angles = self._angles.copy()
         new._annotations = copy.deepcopy(self._annotations)
+        new.set_locked(self.locked)
         return new
 
-    def __eq__(self, other: Any) -> bool:
-        return (
-            type(self) is type(other)
-            and numpy.array_equal(self.offset, other.offset)
-            and numpy.array_equal(self.radii, other.radii)
-            and numpy.array_equal(self.angles, other.angles)
-            and self.width == other.width
-            and self.rotation == other.rotation
-            and self.repetition == other.repetition
-            and annotations_eq(self.annotations, other.annotations)
-            )
-
-    def __lt__(self, other: Shape) -> bool:
-        if type(self) is not type(other):
-            if repr(type(self)) != repr(type(other)):
-                return repr(type(self)) < repr(type(other))
-            return id(type(self)) < id(type(other))
-        other = cast(Arc, other)
-        if self.width != other.width:
-            return self.width < other.width
-        if not numpy.array_equal(self.radii, other.radii):
-            return tuple(self.radii) < tuple(other.radii)
-        if not numpy.array_equal(self.angles, other.angles):
-            return tuple(self.angles) < tuple(other.angles)
-        if not numpy.array_equal(self.offset, other.offset):
-            return tuple(self.offset) < tuple(other.offset)
-        if self.rotation != other.rotation:
-            return self.rotation < other.rotation
-        if self.repetition != other.repetition:
-            return rep2key(self.repetition) < rep2key(other.repetition)
-        return annotations_lt(self.annotations, other.annotations)
-
     def to_polygons(
             self,
-            num_vertices: int | None = DEFAULT_POLY_NUM_VERTICES,
-            max_arclen: float | None = None,
-            ) -> list[Polygon]:
-        if (num_vertices is None) and (max_arclen is None):
+            poly_num_points: Optional[int] = None,
+            poly_max_arclen: Optional[float] = None,
+            ) -> List[Polygon]:
+        if poly_num_points is None:
+            poly_num_points = self.poly_num_points
+        if poly_max_arclen is None:
+            poly_max_arclen = self.poly_max_arclen
+
+        if (poly_num_points is None) and (poly_max_arclen is None):
             raise PatternError('Max number of points and arclength left unspecified'
                                + ' (default was also overridden)')
 
@@ -235,62 +229,27 @@ class Arc(Shape):
         # Convert from polar angle to ellipse parameter (for [rx*cos(t), ry*sin(t)] representation)
         a_ranges = self._angles_to_parameters()
 
-        # Approximate perimeter via numerical integration
+        # Approximate perimeter
+        # Ramanujan, S., "Modular Equations and Approximations to ,"
+        #  Quart. J. Pure. Appl. Math., vol. 45 (1913-1914), pp. 350-372
+        a0, a1 = a_ranges[1]    # use outer arc
+        h = ((r1 - r0) / (r1 + r0)) ** 2
+        ellipse_perimeter = pi * (r1 + r0) * (1 + 3 * h / (10 + math.sqrt(4 - 3 * h)))
+        perimeter = abs(a0 - a1) / (2 * pi) * ellipse_perimeter         # TODO: make this more accurate
 
-        #perimeter1 = numpy.trapz(numpy.sqrt(r0sin * r0sin + r1cos * r1cos), dx=dt)
-        #from scipy.special import ellipeinc
-        #m = 1 - (r1 / r0) ** 2
-        #t1 = ellipeinc(a1 - pi / 2, m)
-        #t0 = ellipeinc(a0 - pi / 2, m)
-        #perimeter2 = r0 * (t1 - t0)
-
-        def get_arclens(n_pts: int, a0: float, a1: float, dr: float) -> tuple[NDArray[numpy.float64], NDArray[numpy.float64]]:
-            """ Get `n_pts` arclengths """
-            t, dt = numpy.linspace(a0, a1, n_pts, retstep=True)  # NOTE: could probably use an adaptive number of points
-            r0sin = (r0 + dr) * numpy.sin(t)
-            r1cos = (r1 + dr) * numpy.cos(t)
-            arc_dl = numpy.sqrt(r0sin * r0sin + r1cos * r1cos)
-            #arc_lengths = numpy.diff(t) * (arc_dl[1:] + arc_dl[:-1]) / 2
-            arc_lengths = (arc_dl[1:] + arc_dl[:-1]) * numpy.abs(dt) / 2
-            return arc_lengths, t
+        n = []
+        if poly_num_points is not None:
+            n += [poly_num_points]
+        if poly_max_arclen is not None:
+            n += [perimeter / poly_max_arclen]
+        num_points = int(round(max(n)))
 
         wh = self.width / 2.0
-        if num_vertices is not None:
-            n_pts = numpy.ceil(max(self.radii + wh) / min(self.radii) * num_vertices * 100).astype(int)
-            perimeter_inner = get_arclens(n_pts, *a_ranges[0], dr=-wh)[0].sum()
-            perimeter_outer = get_arclens(n_pts, *a_ranges[1], dr= wh)[0].sum()
-            implied_arclen = (perimeter_outer + perimeter_inner + self.width * 2) / num_vertices
-            max_arclen = min(implied_arclen, max_arclen if max_arclen is not None else numpy.inf)
-        assert max_arclen is not None
-
-        def get_thetas(inner: bool) -> NDArray[numpy.float64]:
-            """ Figure out the parameter values at which we should place vertices to meet the arclength constraint"""
-            dr = -wh if inner else wh
-
-            n_pts = numpy.ceil(2 * pi * max(self.radii + dr) / max_arclen).astype(int)
-            arc_lengths, thetas = get_arclens(n_pts, *a_ranges[0 if inner else 1], dr=dr)
-
-            keep = [0]
-            removable = (numpy.cumsum(arc_lengths) <= max_arclen)
-            start = 1
-            while start < arc_lengths.size:
-                next_to_keep = start + numpy.where(removable)[0][-1]    # TODO: any chance we haven't sampled finely enough?
-                keep.append(next_to_keep)
-                removable = (numpy.cumsum(arc_lengths[next_to_keep + 1:]) <= max_arclen)
-                start = next_to_keep + 1
-            if keep[-1] != thetas.size - 1:
-                keep.append(thetas.size - 1)
-
-            thetas = thetas[keep]
-            if inner:
-                thetas = thetas[::-1]
-            return thetas
-
-        if wh in (r0, r1):
+        if wh == r0 or wh == r1:
             thetas_inner = numpy.zeros(1)      # Don't generate multiple vertices if we're at the origin
         else:
-            thetas_inner = get_thetas(inner=True)
-        thetas_outer = get_thetas(inner=False)
+            thetas_inner = numpy.linspace(a_ranges[0][1], a_ranges[0][0], num_points, endpoint=True)
+        thetas_outer = numpy.linspace(a_ranges[1][0], a_ranges[1][1], num_points, endpoint=True)
 
         sin_th_i, cos_th_i = (numpy.sin(thetas_inner), numpy.cos(thetas_inner))
         sin_th_o, cos_th_o = (numpy.sin(thetas_outer), numpy.cos(thetas_outer))
@@ -304,11 +263,11 @@ class Arc(Shape):
         ys = numpy.hstack((ys1, ys2))
         xys = numpy.vstack((xs, ys)).T
 
-        poly = Polygon(xys, offset=self.offset, rotation=self.rotation)
+        poly = Polygon(xys, dose=self.dose, layer=self.layer, offset=self.offset, rotation=self.rotation)
         return [poly]
 
-    def get_bounds_single(self) -> NDArray[numpy.float64]:
-        """
+    def get_bounds(self) -> NDArray[numpy.float64]:
+        '''
         Equation for rotated ellipse is
             `x = x0 + a * cos(t) * cos(rot) - b * sin(t) * sin(phi)`
             `y = y0 + a * cos(t) * sin(rot) + b * sin(t) * cos(rot)`
@@ -319,12 +278,12 @@ class Arc(Shape):
           where -+ is for x, y cases, so that's where the extrema are.
 
         If the extrema are innaccessible due to arc constraints, check the arc endpoints instead.
-        """
+        '''
         a_ranges = self._angles_to_parameters()
 
         mins = []
         maxs = []
-        for a, sgn in zip(a_ranges, (-1, +1), strict=True):
+        for a, sgn in zip(a_ranges, (-1, +1)):
             wh = sgn * self.width / 2
             rx = self.radius_x + wh
             ry = self.radius_y + wh
@@ -381,7 +340,7 @@ class Arc(Shape):
         self.rotation += theta
         return self
 
-    def mirror(self, axis: int = 0) -> 'Arc':
+    def mirror(self, axis: int) -> 'Arc':
         self.offset[axis - 1] *= -1
         self.rotation *= -1
         self.rotation += axis * pi
@@ -415,27 +374,23 @@ class Arc(Shape):
         rotation %= 2 * pi
         width = self.width
 
-        return ((type(self), radii, angles, width / norm_value),
-                (self.offset, scale / norm_value, rotation, False),
-                lambda: Arc(
-                    radii=radii * norm_value,
-                    angles=angles,
-                    width=width * norm_value,
-                    ))
+        return ((type(self), radii, angles, width / norm_value, self.layer),
+                (self.offset, scale / norm_value, rotation, False, self.dose),
+                lambda: Arc(radii=radii * norm_value, angles=angles, width=width * norm_value, layer=self.layer))
 
     def get_cap_edges(self) -> NDArray[numpy.float64]:
-        """
+        '''
         Returns:
             ```
             [[[x0, y0], [x1, y1]],   array of 4 points, specifying the two cuts which
              [[x2, y2], [x3, y3]]],    would create this arc from its corresponding ellipse.
             ```
-        """
+        '''
         a_ranges = self._angles_to_parameters()
 
         mins = []
         maxs = []
-        for a, sgn in zip(a_ranges, (-1, +1), strict=True):
+        for a, sgn in zip(a_ranges, (-1, +1)):
             wh = sgn * self.width / 2
             rx = self.radius_x + wh
             ry = self.radius_y + wh
@@ -454,28 +409,41 @@ class Arc(Shape):
         return numpy.array([mins, maxs]) + self.offset
 
     def _angles_to_parameters(self) -> NDArray[numpy.float64]:
-        """
-        Convert from polar angle to ellipse parameter (for [rx*cos(t), ry*sin(t)] representation)
-
+        '''
         Returns:
             "Eccentric anomaly" parameter ranges for the inner and outer edges, in the form
                    `[[a_min_inner, a_max_inner], [a_min_outer, a_max_outer]]`
-        """
+        '''
         a = []
         for sgn in (-1, +1):
-            wh = sgn * self.width / 2.0
+            wh = sgn * self.width / 2
             rx = self.radius_x + wh
             ry = self.radius_y + wh
 
+            # create paremeter 'a' for parametrized ellipse
             a0, a1 = (numpy.arctan2(rx * numpy.sin(a), ry * numpy.cos(a)) for a in self.angles)
             sign = numpy.sign(self.angles[1] - self.angles[0])
             if sign != numpy.sign(a1 - a0):
                 a1 += sign * 2 * pi
 
             a.append((a0, a1))
-        return numpy.array(a, dtype=float)
+        return numpy.array(a)
+
+    def lock(self) -> 'Arc':
+        self.radii.flags.writeable = False
+        self.angles.flags.writeable = False
+        Shape.lock(self)
+        return self
+
+    def unlock(self) -> 'Arc':
+        Shape.unlock(self)
+        self.radii.flags.writeable = True
+        self.angles.flags.writeable = True
+        return self
 
     def __repr__(self) -> str:
         angles = f' a°{numpy.rad2deg(self.angles)}'
         rotation = f' r°{numpy.rad2deg(self.rotation):g}' if self.rotation != 0 else ''
-        return f'<Arc o{self.offset} r{self.radii}{angles} w{self.width:g}{rotation}>'
+        dose = f' d{self.dose:g}' if self.dose != 1 else ''
+        locked = ' L' if self.locked else ''
+        return f'<Arc l{self.layer} o{self.offset} r{self.radii}{angles} w{self.width:g}{rotation}{dose}{locked}>'

masque/shapes/circle.py

@@ -1,31 +1,32 @@
-from typing import Any, cast
+from typing import List, Dict, Optional
 import copy
-import functools
 
 import numpy
 from numpy import pi
 from numpy.typing import NDArray, ArrayLike
 
-from . import Shape, Polygon, normalized_shape_tuple, DEFAULT_POLY_NUM_VERTICES
-from ..error import PatternError
+from . import Shape, Polygon, normalized_shape_tuple, DEFAULT_POLY_NUM_POINTS
+from .. import PatternError
 from ..repetition import Repetition
-from ..utils import is_scalar, annotations_t, annotations_lt, annotations_eq, rep2key
+from ..utils import is_scalar, layer_t, AutoSlots, annotations_t
+from ..traits import LockableImpl
 
 
-@functools.total_ordering
-class Circle(Shape):
+class Circle(Shape, metaclass=AutoSlots):
     """
     A circle, which has a position and radius.
     """
-    __slots__ = (
-        '_radius',
-        # Inherited
-        '_offset', '_repetition', '_annotations',
-        )
+    __slots__ = ('_radius', 'poly_num_points', 'poly_max_arclen')
 
     _radius: float
     """ Circle radius """
 
+    poly_num_points: Optional[int]
+    """ Sets the default number of points for `.polygonize()` """
+
+    poly_max_arclen: Optional[float]
+    """ Sets the default max segement length for `.polygonize()` """
+
     # radius property
     @property
     def radius(self) -> float:
@@ -46,83 +47,81 @@ class Circle(Shape):
             self,
             radius: float,
             *,
+            poly_num_points: Optional[int] = DEFAULT_POLY_NUM_POINTS,
+            poly_max_arclen: Optional[float] = None,
             offset: ArrayLike = (0.0, 0.0),
-            repetition: Repetition | None = None,
-            annotations: annotations_t | None = None,
+            layer: layer_t = 0,
+            dose: float = 1.0,
+            repetition: Optional[Repetition] = None,
+            annotations: Optional[annotations_t] = None,
+            locked: bool = False,
             raw: bool = False,
             ) -> None:
+        LockableImpl.unlock(self)
+        self.identifier = ()
         if raw:
-            assert isinstance(offset, numpy.ndarray)
+            assert(isinstance(offset, numpy.ndarray))
             self._radius = radius
             self._offset = offset
             self._repetition = repetition
             self._annotations = annotations if annotations is not None else {}
+            self._layer = layer
+            self._dose = dose
         else:
             self.radius = radius
             self.offset = offset
             self.repetition = repetition
             self.annotations = annotations if annotations is not None else {}
+            self.layer = layer
+            self.dose = dose
+        self.poly_num_points = poly_num_points
+        self.poly_max_arclen = poly_max_arclen
+        self.set_locked(locked)
 
-    def __deepcopy__(self, memo: dict | None = None) -> 'Circle':
+    def __deepcopy__(self, memo: Dict = None) -> 'Circle':
         memo = {} if memo is None else memo
         new = copy.copy(self)
+        Shape.unlock(new)
         new._offset = self._offset.copy()
         new._annotations = copy.deepcopy(self._annotations)
+        new.set_locked(self.locked)
         return new
 
-    def __eq__(self, other: Any) -> bool:
-        return (
-            type(self) is type(other)
-            and numpy.array_equal(self.offset, other.offset)
-            and self.radius == other.radius
-            and self.repetition == other.repetition
-            and annotations_eq(self.annotations, other.annotations)
-            )
-
-    def __lt__(self, other: Shape) -> bool:
-        if type(self) is not type(other):
-            if repr(type(self)) != repr(type(other)):
-                return repr(type(self)) < repr(type(other))
-            return id(type(self)) < id(type(other))
-        other = cast(Circle, other)
-        if not self.radius == other.radius:
-            return self.radius < other.radius
-        if not numpy.array_equal(self.offset, other.offset):
-            return tuple(self.offset) < tuple(other.offset)
-        if self.repetition != other.repetition:
-            return rep2key(self.repetition) < rep2key(other.repetition)
-        return annotations_lt(self.annotations, other.annotations)
-
     def to_polygons(
             self,
-            num_vertices: int | None = DEFAULT_POLY_NUM_VERTICES,
-            max_arclen: float | None = None,
-            ) -> list[Polygon]:
-        if (num_vertices is None) and (max_arclen is None):
+            poly_num_points: Optional[int] = None,
+            poly_max_arclen: Optional[float] = None,
+            ) -> List[Polygon]:
+        if poly_num_points is None:
+            poly_num_points = self.poly_num_points
+        if poly_max_arclen is None:
+            poly_max_arclen = self.poly_max_arclen
+
+        if (poly_num_points is None) and (poly_max_arclen is None):
             raise PatternError('Number of points and arclength left '
                                'unspecified (default was also overridden)')
 
-        n: list[float] = []
-        if num_vertices is not None:
-            n += [num_vertices]
-        if max_arclen is not None:
-            n += [2 * pi * self.radius / max_arclen]
-        num_vertices = int(round(max(n)))
-        thetas = numpy.linspace(2 * pi, 0, num_vertices, endpoint=False)
+        n: List[float] = []
+        if poly_num_points is not None:
+            n += [poly_num_points]
+        if poly_max_arclen is not None:
+            n += [2 * pi * self.radius / poly_max_arclen]
+        num_points = int(round(max(n)))
+        thetas = numpy.linspace(2 * pi, 0, num_points, endpoint=False)
         xs = numpy.cos(thetas) * self.radius
         ys = numpy.sin(thetas) * self.radius
         xys = numpy.vstack((xs, ys)).T
 
-        return [Polygon(xys, offset=self.offset)]
+        return [Polygon(xys, offset=self.offset, dose=self.dose, layer=self.layer)]
 
-    def get_bounds_single(self) -> NDArray[numpy.float64]:
+    def get_bounds(self) -> NDArray[numpy.float64]:
         return numpy.vstack((self.offset - self.radius,
                              self.offset + self.radius))
 
-    def rotate(self, theta: float) -> 'Circle':      # noqa: ARG002  (theta unused)
+    def rotate(self, theta: float) -> 'Circle':
         return self
 
-    def mirror(self, axis: int = 0) -> 'Circle':     # noqa: ARG002  (axis unused)
+    def mirror(self, axis: int) -> 'Circle':
         self.offset *= -1
         return self
 
@@ -130,12 +129,14 @@ class Circle(Shape):
         self.radius *= c
         return self
 
-    def normalized_form(self, norm_value: float) -> normalized_shape_tuple:
+    def normalized_form(self, norm_value) -> normalized_shape_tuple:
         rotation = 0.0
         magnitude = self.radius / norm_value
-        return ((type(self),),
-                (self.offset, magnitude, rotation, False),
-                lambda: Circle(radius=norm_value))
+        return ((type(self), self.layer),
+                (self.offset, magnitude, rotation, False, self.dose),
+                lambda: Circle(radius=norm_value, layer=self.layer))
 
     def __repr__(self) -> str:
-        return f'<Circle o{self.offset} r{self.radius:g}>'
+        dose = f' d{self.dose:g}' if self.dose != 1 else ''
+        locked = ' L' if self.locked else ''
+        return f'<Circle l{self.layer} o{self.offset} r{self.radius:g}{dose}{locked}>'

masque/shapes/ellipse.py

@@ -1,29 +1,25 @@
-from typing import Any, Self, cast
+from typing import List, Dict, Sequence, Optional, Any
 import copy
 import math
-import functools
 
 import numpy
 from numpy import pi
 from numpy.typing import ArrayLike, NDArray
 
-from . import Shape, Polygon, normalized_shape_tuple, DEFAULT_POLY_NUM_VERTICES
-from ..error import PatternError
+from . import Shape, Polygon, normalized_shape_tuple, DEFAULT_POLY_NUM_POINTS
+from .. import PatternError
 from ..repetition import Repetition
-from ..utils import is_scalar, rotation_matrix_2d, annotations_t, annotations_lt, annotations_eq, rep2key
+from ..utils import is_scalar, rotation_matrix_2d, layer_t, AutoSlots, annotations_t
+from ..traits import LockableImpl
 
 
-@functools.total_ordering
-class Ellipse(Shape):
+class Ellipse(Shape, metaclass=AutoSlots):
     """
     An ellipse, which has a position, two radii, and a rotation.
     The rotation gives the angle from x-axis, counterclockwise, to the first (x) radius.
     """
-    __slots__ = (
-        '_radii', '_rotation',
-        # Inherited
-        '_offset', '_repetition', '_annotations',
-        )
+    __slots__ = ('_radii', '_rotation',
+                 'poly_num_points', 'poly_max_arclen')
 
     _radii: NDArray[numpy.float64]
     """ Ellipse radii """
@@ -31,9 +27,15 @@ class Ellipse(Shape):
     _rotation: float
     """ Angle from x-axis to first radius (ccw, radians) """
 
+    poly_num_points: Optional[int]
+    """ Sets the default number of points for `.polygonize()` """
+
+    poly_max_arclen: Optional[float]
+    """ Sets the default max segement length for `.polygonize()` """
+
     # radius properties
     @property
-    def radii(self) -> Any:         # mypy#3004  NDArray[numpy.float64]:
+    def radii(self) -> Any:         #TODO mypy#3004  NDArray[numpy.float64]:
         """
         Return the radii `[rx, ry]`
         """
@@ -90,67 +92,64 @@ class Ellipse(Shape):
             self,
             radii: ArrayLike,
             *,
+            poly_num_points: Optional[int] = DEFAULT_POLY_NUM_POINTS,
+            poly_max_arclen: Optional[float] = None,
             offset: ArrayLike = (0.0, 0.0),
             rotation: float = 0,
-            repetition: Repetition | None = None,
-            annotations: annotations_t | None = None,
+            mirrored: Sequence[bool] = (False, False),
+            layer: layer_t = 0,
+            dose: float = 1.0,
+            repetition: Optional[Repetition] = None,
+            annotations: Optional[annotations_t] = None,
+            locked: bool = False,
             raw: bool = False,
             ) -> None:
+        LockableImpl.unlock(self)
+        self.identifier = ()
         if raw:
-            assert isinstance(radii, numpy.ndarray)
-            assert isinstance(offset, numpy.ndarray)
+            assert(isinstance(radii, numpy.ndarray))
+            assert(isinstance(offset, numpy.ndarray))
             self._radii = radii
             self._offset = offset
             self._rotation = rotation
             self._repetition = repetition
             self._annotations = annotations if annotations is not None else {}
+            self._layer = layer
+            self._dose = dose
         else:
             self.radii = radii
             self.offset = offset
             self.rotation = rotation
             self.repetition = repetition
             self.annotations = annotations if annotations is not None else {}
+            self.layer = layer
+            self.dose = dose
+        [self.mirror(a) for a, do in enumerate(mirrored) if do]
+        self.poly_num_points = poly_num_points
+        self.poly_max_arclen = poly_max_arclen
+        self.set_locked(locked)
 
-    def __deepcopy__(self, memo: dict | None = None) -> Self:
+    def __deepcopy__(self, memo: Dict = None) -> 'Ellipse':
         memo = {} if memo is None else memo
         new = copy.copy(self)
+        Shape.unlock(new)
         new._offset = self._offset.copy()
         new._radii = self._radii.copy()
         new._annotations = copy.deepcopy(self._annotations)
+        new.set_locked(self.locked)
         return new
 
-    def __eq__(self, other: Any) -> bool:
-        return (
-            type(self) is type(other)
-            and numpy.array_equal(self.offset, other.offset)
-            and numpy.array_equal(self.radii, other.radii)
-            and self.rotation == other.rotation
-            and self.repetition == other.repetition
-            and annotations_eq(self.annotations, other.annotations)
-            )
-
-    def __lt__(self, other: Shape) -> bool:
-        if type(self) is not type(other):
-            if repr(type(self)) != repr(type(other)):
-                return repr(type(self)) < repr(type(other))
-            return id(type(self)) < id(type(other))
-        other = cast(Ellipse, other)
-        if not numpy.array_equal(self.radii, other.radii):
-            return tuple(self.radii) < tuple(other.radii)
-        if not numpy.array_equal(self.offset, other.offset):
-            return tuple(self.offset) < tuple(other.offset)
-        if self.rotation != other.rotation:
-            return self.rotation < other.rotation
-        if self.repetition != other.repetition:
-            return rep2key(self.repetition) < rep2key(other.repetition)
-        return annotations_lt(self.annotations, other.annotations)
-
     def to_polygons(
             self,
-            num_vertices: int | None = DEFAULT_POLY_NUM_VERTICES,
-            max_arclen: float | None = None,
-            ) -> list[Polygon]:
-        if (num_vertices is None) and (max_arclen is None):
+            poly_num_points: Optional[int] = None,
+            poly_max_arclen: Optional[float] = None,
+            ) -> List[Polygon]:
+        if poly_num_points is None:
+            poly_num_points = self.poly_num_points
+        if poly_max_arclen is None:
+            poly_max_arclen = self.poly_max_arclen
+
+        if (poly_num_points is None) and (poly_max_arclen is None):
             raise PatternError('Number of points and arclength left unspecified'
                                ' (default was also overridden)')
 
@@ -163,37 +162,37 @@ class Ellipse(Shape):
         perimeter = pi * (r1 + r0) * (1 + 3 * h / (10 + math.sqrt(4 - 3 * h)))
 
         n = []
-        if num_vertices is not None:
-            n += [num_vertices]
-        if max_arclen is not None:
-            n += [perimeter / max_arclen]
-        num_vertices = int(round(max(n)))
-        thetas = numpy.linspace(2 * pi, 0, num_vertices, endpoint=False)
+        if poly_num_points is not None:
+            n += [poly_num_points]
+        if poly_max_arclen is not None:
+            n += [perimeter / poly_max_arclen]
+        num_points = int(round(max(n)))
+        thetas = numpy.linspace(2 * pi, 0, num_points, endpoint=False)
 
         sin_th, cos_th = (numpy.sin(thetas), numpy.cos(thetas))
         xs = r0 * cos_th
         ys = r1 * sin_th
         xys = numpy.vstack((xs, ys)).T
 
-        poly = Polygon(xys, offset=self.offset, rotation=self.rotation)
+        poly = Polygon(xys, dose=self.dose, layer=self.layer, offset=self.offset, rotation=self.rotation)
         return [poly]
 
-    def get_bounds_single(self) -> NDArray[numpy.float64]:
+    def get_bounds(self) -> NDArray[numpy.float64]:
         rot_radii = numpy.dot(rotation_matrix_2d(self.rotation), self.radii)
         return numpy.vstack((self.offset - rot_radii[0],
                              self.offset + rot_radii[1]))
 
-    def rotate(self, theta: float) -> Self:
+    def rotate(self, theta: float) -> 'Ellipse':
         self.rotation += theta
         return self
 
-    def mirror(self, axis: int = 0) -> Self:
+    def mirror(self, axis: int) -> 'Ellipse':
         self.offset[axis - 1] *= -1
         self.rotation *= -1
         self.rotation += axis * pi
         return self
 
-    def scale_by(self, c: float) -> Self:
+    def scale_by(self, c: float) -> 'Ellipse':
         self.radii *= c
         return self
 
@@ -206,10 +205,22 @@ class Ellipse(Shape):
             radii = self.radii[::-1] / self.radius_y
             scale = self.radius_y
             angle = (self.rotation + pi / 2) % pi
-        return ((type(self), radii),
-                (self.offset, scale / norm_value, angle, False),
-                lambda: Ellipse(radii=radii * norm_value))
+        return ((type(self), radii, self.layer),
+                (self.offset, scale / norm_value, angle, False, self.dose),
+                lambda: Ellipse(radii=radii * norm_value, layer=self.layer))
+
+    def lock(self) -> 'Ellipse':
+        self.radii.flags.writeable = False
+        Shape.lock(self)
+        return self
+
+    def unlock(self) -> 'Ellipse':
+        Shape.unlock(self)
+        self.radii.flags.writeable = True
+        return self
 
     def __repr__(self) -> str:
-        rotation = f' r{numpy.rad2deg(self.rotation):g}' if self.rotation != 0 else ''
-        return f'<Ellipse o{self.offset} r{self.radii}{rotation}>'
+        rotation = f' r{self.rotation*180/pi:g}' if self.rotation != 0 else ''
+        dose = f' d{self.dose:g}' if self.dose != 1 else ''
+        locked = ' L' if self.locked else ''
+        return f'<Ellipse l{self.layer} o{self.offset} r{self.radii}{rotation}{dose}{locked}>'

masque/shapes/path.py

@@ -1,7 +1,5 @@
-from typing import Any, cast
-from collections.abc import Sequence
+from typing import List, Tuple, Dict, Optional, Sequence, Any
 import copy
-import functools
 from enum import Enum
 
 import numpy
@@ -9,13 +7,13 @@ from numpy import pi, inf
 from numpy.typing import NDArray, ArrayLike
 
 from . import Shape, normalized_shape_tuple, Polygon, Circle
-from ..error import PatternError
+from .. import PatternError
 from ..repetition import Repetition
-from ..utils import is_scalar, rotation_matrix_2d, annotations_lt, annotations_eq, rep2key
+from ..utils import is_scalar, rotation_matrix_2d, layer_t, AutoSlots
 from ..utils import remove_colinear_vertices, remove_duplicate_vertices, annotations_t
+from ..traits import LockableImpl
 
 
-@functools.total_ordering
 class PathCap(Enum):
     Flush = 0       # Path ends at final vertices
     Circle = 1      # Path extends past final vertices with a semicircle of radius width/2
@@ -23,29 +21,19 @@ class PathCap(Enum):
     SquareCustom = 4  # Path extends past final vertices with a rectangle of length
 #                     #     defined by path.cap_extensions
 
-    def __lt__(self, other: Any) -> bool:
-        return self.value == other.value
 
-
-@functools.total_ordering
-class Path(Shape):
+class Path(Shape, metaclass=AutoSlots):
     """
     A path, consisting of a bunch of vertices (Nx2 ndarray), a width, an end-cap shape,
         and an offset.
 
-    Note that the setter for `Path.vertices` will create a copy of the passed vertex coordinates.
-
     A normalized_form(...) is available, but can be quite slow with lots of vertices.
     """
-    __slots__ = (
-        '_vertices', '_width', '_cap', '_cap_extensions',
-        # Inherited
-        '_offset', '_repetition', '_annotations',
-        )
+    __slots__ = ('_vertices', '_width', '_cap', '_cap_extensions')
     _vertices: NDArray[numpy.float64]
     _width: float
     _cap: PathCap
-    _cap_extensions: NDArray[numpy.float64] | None
+    _cap_extensions: Optional[NDArray[numpy.float64]]
 
     Cap = PathCap
 
@@ -70,14 +58,12 @@ class Path(Shape):
     def cap(self) -> PathCap:
         """
         Path end-cap
-
-        Note that `cap_extensions` will be reset to default values if
-         `cap` is changed away from `PathCap.SquareCustom`.
         """
         return self._cap
 
     @cap.setter
     def cap(self, val: PathCap) -> None:
+        # TODO: Document that setting cap can change cap_extensions
         self._cap = PathCap(val)
         if self.cap != PathCap.SquareCustom:
             self.cap_extensions = None
@@ -87,43 +73,38 @@ class Path(Shape):
 
     # cap_extensions property
     @property
-    def cap_extensions(self) -> Any | None:  # mypy#3004  NDArray[numpy.float64]]:
+    def cap_extensions(self) -> Optional[Any]:  #TODO mypy#3004  NDArray[numpy.float64]]:
         """
         Path end-cap extension
 
-        Note that `cap_extensions` will be reset to default values if
-         `cap` is changed away from `PathCap.SquareCustom`.
-
         Returns:
             2-element ndarray or `None`
         """
         return self._cap_extensions
 
     @cap_extensions.setter
-    def cap_extensions(self, vals: ArrayLike | None) -> None:
+    def cap_extensions(self, vals: Optional[ArrayLike]) -> None:
         custom_caps = (PathCap.SquareCustom,)
         if self.cap in custom_caps:
             if vals is None:
-                raise PatternError('Tried to set cap extensions to None on path with custom cap type')
+                raise Exception('Tried to set cap extensions to None on path with custom cap type')
             self._cap_extensions = numpy.array(vals, dtype=float)
         else:
             if vals is not None:
-                raise PatternError('Tried to set custom cap extensions on path with non-custom cap type')
+                raise Exception('Tried to set custom cap extensions on path with non-custom cap type')
             self._cap_extensions = vals
 
     # vertices property
     @property
-    def vertices(self) -> Any:  # mypy#3004  NDArray[numpy.float64]]:
+    def vertices(self) -> Any:  #TODO mypy#3004  NDArray[numpy.float64]]:
         """
-        Vertices of the path (Nx2 ndarray: `[[x0, y0], [x1, y1], ...]`
-
-        When setting, note that a copy of the provided vertices will be made.
+        Vertices of the path (Nx2 ndarray: `[[x0, y0], [x1, y1], ...]`)
         """
         return self._vertices
 
     @vertices.setter
     def vertices(self, val: ArrayLike) -> None:
-        val = numpy.array(val, dtype=float)
+        val = numpy.array(val, dtype=float)                 # TODO document that these might not be copied
         if len(val.shape) < 2 or val.shape[1] != 2:
             raise PatternError('Vertices must be an Nx2 array')
         if val.shape[0] < 2:
@@ -166,23 +147,31 @@ class Path(Shape):
             width: float = 0.0,
             *,
             cap: PathCap = PathCap.Flush,
-            cap_extensions: ArrayLike | None = None,
+            cap_extensions: Optional[ArrayLike] = None,
             offset: ArrayLike = (0.0, 0.0),
             rotation: float = 0,
-            repetition: Repetition | None = None,
-            annotations: annotations_t | None = None,
+            mirrored: Sequence[bool] = (False, False),
+            layer: layer_t = 0,
+            dose: float = 1.0,
+            repetition: Optional[Repetition] = None,
+            annotations: Optional[annotations_t] = None,
+            locked: bool = False,
             raw: bool = False,
             ) -> None:
+        LockableImpl.unlock(self)
         self._cap_extensions = None     # Since .cap setter might access it
 
+        self.identifier = ()
         if raw:
-            assert isinstance(vertices, numpy.ndarray)
-            assert isinstance(offset, numpy.ndarray)
-            assert isinstance(cap_extensions, numpy.ndarray) or cap_extensions is None
+            assert(isinstance(vertices, numpy.ndarray))
+            assert(isinstance(offset, numpy.ndarray))
+            assert(isinstance(cap_extensions, numpy.ndarray) or cap_extensions is None)
             self._vertices = vertices
             self._offset = offset
             self._repetition = repetition
             self._annotations = annotations if annotations is not None else {}
+            self._layer = layer
+            self._dose = dose
             self._width = width
             self._cap = cap
             self._cap_extensions = cap_extensions
@@ -191,63 +180,38 @@ class Path(Shape):
             self.offset = offset
             self.repetition = repetition
             self.annotations = annotations if annotations is not None else {}
+            self.layer = layer
+            self.dose = dose
             self.width = width
             self.cap = cap
             self.cap_extensions = cap_extensions
         self.rotate(rotation)
+        [self.mirror(a) for a, do in enumerate(mirrored) if do]
+        self.set_locked(locked)
 
-    def __deepcopy__(self, memo: dict | None = None) -> 'Path':
+    def __deepcopy__(self, memo: Dict = None) -> 'Path':
         memo = {} if memo is None else memo
         new = copy.copy(self)
+        Shape.unlock(new)
         new._offset = self._offset.copy()
         new._vertices = self._vertices.copy()
         new._cap = copy.deepcopy(self._cap, memo)
         new._cap_extensions = copy.deepcopy(self._cap_extensions, memo)
         new._annotations = copy.deepcopy(self._annotations)
+        new.set_locked(self.locked)
         return new
 
-    def __eq__(self, other: Any) -> bool:
-        return (
-            type(self) is type(other)
-            and numpy.array_equal(self.offset, other.offset)
-            and numpy.array_equal(self.vertices, other.vertices)
-            and self.width == other.width
-            and self.cap == other.cap
-            and numpy.array_equal(self.cap_extensions, other.cap_extensions)        # type: ignore
-            and self.repetition == other.repetition
-            and annotations_eq(self.annotations, other.annotations)
-            )
-
-    def __lt__(self, other: Shape) -> bool:
-        if type(self) is not type(other):
-            if repr(type(self)) != repr(type(other)):
-                return repr(type(self)) < repr(type(other))
-            return id(type(self)) < id(type(other))
-        other = cast(Path, other)
-        if self.width != other.width:
-            return self.width < other.width
-        if self.cap != other.cap:
-            return self.cap < other.cap
-        if not numpy.array_equal(self.cap_extensions, other.cap_extensions):        # type: ignore
-            if other.cap_extensions is None:
-                return False
-            if self.cap_extensions is None:
-                return True
-            return tuple(self.cap_extensions) < tuple(other.cap_extensions)
-        if not numpy.array_equal(self.offset, other.offset):
-            return tuple(self.offset) < tuple(other.offset)
-        if self.repetition != other.repetition:
-            return rep2key(self.repetition) < rep2key(other.repetition)
-        return annotations_lt(self.annotations, other.annotations)
-
     @staticmethod
     def travel(
-            travel_pairs: Sequence[tuple[float, float]],
+            travel_pairs: Sequence[Tuple[float, float]],
             width: float = 0.0,
             cap: PathCap = PathCap.Flush,
-            cap_extensions: tuple[float, float] | None = None,
+            cap_extensions: Optional[Tuple[float, float]] = None,
             offset: ArrayLike = (0.0, 0.0),
             rotation: float = 0,
+            mirrored: Sequence[bool] = (False, False),
+            layer: layer_t = 0,
+            dose: float = 1.0,
             ) -> 'Path':
         """
         Build a path by specifying the turn angles and travel distances
@@ -264,11 +228,16 @@ class Path(Shape):
                 Default `(0, 0)` or `None`, depending on cap type
             offset: Offset, default `(0, 0)`
             rotation: Rotation counterclockwise, in radians. Default `0`
+            mirrored: Whether to mirror across the x or y axes. For example,
+                `mirrored=(True, False)` results in a reflection across the x-axis,
+                multiplying the path's y-coordinates by -1. Default `(False, False)`
+            layer: Layer, default `0`
+            dose: Dose, default `1.0`
 
         Returns:
             The resulting Path object
         """
-        # TODO: Path.travel() needs testing
+        #TODO: needs testing
         direction = numpy.array([1, 0])
 
         verts = [numpy.zeros(2)]
@@ -277,13 +246,14 @@ class Path(Shape):
             verts.append(verts[-1] + direction * distance)
 
         return Path(vertices=verts, width=width, cap=cap, cap_extensions=cap_extensions,
-                    offset=offset, rotation=rotation)
+                    offset=offset, rotation=rotation, mirrored=mirrored,
+                    layer=layer, dose=dose)
 
     def to_polygons(
             self,
-            num_vertices: int | None = None,
-            max_arclen: float | None = None,
-            ) -> list['Polygon']:
+            poly_num_points: int = None,
+            poly_max_arclen: float = None,
+            ) -> List['Polygon']:
         extensions = self._calculate_cap_extensions()
 
         v = remove_colinear_vertices(self.vertices, closed_path=False)
@@ -292,7 +262,7 @@ class Path(Shape):
 
         if self.width == 0:
             verts = numpy.vstack((v, v[::-1]))
-            return [Polygon(offset=self.offset, vertices=verts)]
+            return [Polygon(offset=self.offset, vertices=verts, dose=self.dose, layer=self.layer)]
 
         perp = dvdir[:, ::-1] * [[1, -1]] * self.width / 2
 
@@ -343,33 +313,31 @@ class Path(Shape):
         o1.append(v[-1] - perp[-1])
         verts = numpy.vstack((o0, o1[::-1]))
 
-        polys = [Polygon(offset=self.offset, vertices=verts)]
+        polys = [Polygon(offset=self.offset, vertices=verts, dose=self.dose, layer=self.layer)]
 
         if self.cap == PathCap.Circle:
             #for vert in v:         # not sure if every vertex, or just ends?
             for vert in [v[0], v[-1]]:
-                circ = Circle(offset=vert, radius=self.width / 2)
-                polys += circ.to_polygons(num_vertices=num_vertices, max_arclen=max_arclen)
+                circ = Circle(offset=vert, radius=self.width / 2, dose=self.dose, layer=self.layer)
+                polys += circ.to_polygons(poly_num_points=poly_num_points, poly_max_arclen=poly_max_arclen)
 
         return polys
 
-    def get_bounds_single(self) -> NDArray[numpy.float64]:
+    def get_bounds(self) -> NDArray[numpy.float64]:
         if self.cap == PathCap.Circle:
             bounds = self.offset + numpy.vstack((numpy.min(self.vertices, axis=0) - self.width / 2,
                                                  numpy.max(self.vertices, axis=0) + self.width / 2))
-        elif self.cap in (
-                PathCap.Flush,
-                PathCap.Square,
-                PathCap.SquareCustom,
-                ):
+        elif self.cap in (PathCap.Flush,
+                          PathCap.Square,
+                          PathCap.SquareCustom):
             bounds = numpy.array([[+inf, +inf], [-inf, -inf]])
             polys = self.to_polygons()
             for poly in polys:
-                poly_bounds = poly.get_bounds_single_nonempty()
+                poly_bounds = poly.get_bounds_nonempty()
                 bounds[0, :] = numpy.minimum(bounds[0, :], poly_bounds[0, :])
                 bounds[1, :] = numpy.maximum(bounds[1, :], poly_bounds[1, :])
         else:
-            raise PatternError(f'get_bounds_single() not implemented for endcaps: {self.cap}')
+            raise PatternError(f'get_bounds() not implemented for endcaps: {self.cap}')
 
         return bounds
 
@@ -378,7 +346,7 @@ class Path(Shape):
             self.vertices = numpy.dot(rotation_matrix_2d(theta), self.vertices.T).T
         return self
 
-    def mirror(self, axis: int = 0) -> 'Path':
+    def mirror(self, axis: int) -> 'Path':
         self.vertices[:, axis - 1] *= -1
         return self
 
@@ -405,18 +373,15 @@ class Path(Shape):
         x_min = rotated_vertices[:, 0].argmin()
         if not is_scalar(x_min):
             y_min = rotated_vertices[x_min, 1].argmin()
-            x_min = cast(Sequence, x_min)[y_min]
+            x_min = x_min[y_min]
         reordered_vertices = numpy.roll(rotated_vertices, -x_min, axis=0)
 
         width0 = self.width / norm_value
 
-        return ((type(self), reordered_vertices.data.tobytes(), width0, self.cap),
-                (offset, scale / norm_value, rotation, False),
-                lambda: Path(
-                    reordered_vertices * norm_value,
-                    width=self.width * norm_value,
-                    cap=self.cap,
-                    ))
+        return ((type(self), reordered_vertices.data.tobytes(), width0, self.cap, self.layer),
+                (offset, scale / norm_value, rotation, False, self.dose),
+                lambda: Path(reordered_vertices * norm_value, width=self.width * norm_value,
+                             cap=self.cap, layer=self.layer))
 
     def clean_vertices(self) -> 'Path':
         """
@@ -429,22 +394,22 @@ class Path(Shape):
         return self
 
     def remove_duplicate_vertices(self) -> 'Path':
-        """
+        '''
         Removes all consecutive duplicate (repeated) vertices.
 
         Returns:
             self
-        """
+        '''
         self.vertices = remove_duplicate_vertices(self.vertices, closed_path=False)
         return self
 
     def remove_colinear_vertices(self) -> 'Path':
-        """
+        '''
         Removes consecutive co-linear vertices.
 
         Returns:
             self
-        """
+        '''
         self.vertices = remove_colinear_vertices(self.vertices, closed_path=False)
         return self
 
@@ -452,13 +417,29 @@ class Path(Shape):
         if self.cap == PathCap.Square:
             extensions = numpy.full(2, self.width / 2)
         elif self.cap == PathCap.SquareCustom:
-            assert isinstance(self.cap_extensions, numpy.ndarray)
+            assert(isinstance(self.cap_extensions, numpy.ndarray))
             extensions = self.cap_extensions
         else:
             # Flush or Circle
             extensions = numpy.zeros(2)
         return extensions
 
+    def lock(self) -> 'Path':
+        self.vertices.flags.writeable = False
+        if self.cap_extensions is not None:
+            self.cap_extensions.flags.writeable = False
+        Shape.lock(self)
+        return self
+
+    def unlock(self) -> 'Path':
+        Shape.unlock(self)
+        self.vertices.flags.writeable = True
+        if self.cap_extensions is not None:
+            self.cap_extensions.flags.writeable = True
+        return self
+
     def __repr__(self) -> str:
         centroid = self.offset + self.vertices.mean(axis=0)
-        return f'<Path centroid {centroid} v{len(self.vertices)} w{self.width} c{self.cap}>'
+        dose = f' d{self.dose:g}' if self.dose != 1 else ''
+        locked = ' L' if self.locked else ''
+        return f'<Path l{self.layer} centroid {centroid} v{len(self.vertices)} w{self.width} c{self.cap}{dose}{locked}>'

masque/shapes/polygon.py

@@ -1,52 +1,41 @@
-from typing import Any, cast
-from collections.abc import Sequence
+from typing import List, Dict, Optional, Sequence, Any
 import copy
-import functools
 
 import numpy
 from numpy import pi
 from numpy.typing import NDArray, ArrayLike
 
 from . import Shape, normalized_shape_tuple
-from ..error import PatternError
+from .. import PatternError
 from ..repetition import Repetition
-from ..utils import is_scalar, rotation_matrix_2d, annotations_lt, annotations_eq, rep2key
+from ..utils import is_scalar, rotation_matrix_2d, layer_t, AutoSlots
 from ..utils import remove_colinear_vertices, remove_duplicate_vertices, annotations_t
+from ..traits import LockableImpl
 
 
-@functools.total_ordering
-class Polygon(Shape):
+class Polygon(Shape, metaclass=AutoSlots):
     """
     A polygon, consisting of a bunch of vertices (Nx2 ndarray) which specify an
        implicitly-closed boundary, and an offset.
 
-    Note that the setter for `Polygon.vertices` creates a copy of the
-      passed vertex coordinates.
-
     A `normalized_form(...)` is available, but can be quite slow with lots of vertices.
     """
-    __slots__ = (
-        '_vertices',
-        # Inherited
-        '_offset', '_repetition', '_annotations',
-        )
+    __slots__ = ('_vertices',)
 
     _vertices: NDArray[numpy.float64]
     """ Nx2 ndarray of vertices `[[x0, y0], [x1, y1], ...]` """
 
     # vertices property
     @property
-    def vertices(self) -> Any:        # mypy#3004   NDArray[numpy.float64]:
+    def vertices(self) -> Any:        #TODO mypy#3004   NDArray[numpy.float64]:
         """
         Vertices of the polygon (Nx2 ndarray: `[[x0, y0], [x1, y1], ...]`)
-
-        When setting, note that a copy of the provided vertices will be made,
         """
         return self._vertices
 
     @vertices.setter
     def vertices(self, val: ArrayLike) -> None:
-        val = numpy.array(val, dtype=float)
+        val = numpy.array(val, dtype=float)             # TODO document that these might not be copied
         if len(val.shape) < 2 or val.shape[1] != 2:
             raise PatternError('Vertices must be an Nx2 array')
         if val.shape[0] < 3:
@@ -89,68 +78,55 @@ class Polygon(Shape):
             *,
             offset: ArrayLike = (0.0, 0.0),
             rotation: float = 0.0,
-            repetition: Repetition | None = None,
-            annotations: annotations_t | None = None,
+            mirrored: Sequence[bool] = (False, False),
+            layer: layer_t = 0,
+            dose: float = 1.0,
+            repetition: Optional[Repetition] = None,
+            annotations: Optional[annotations_t] = None,
+            locked: bool = False,
             raw: bool = False,
             ) -> None:
+        LockableImpl.unlock(self)
+        self.identifier = ()
         if raw:
-            assert isinstance(vertices, numpy.ndarray)
-            assert isinstance(offset, numpy.ndarray)
+            assert(isinstance(vertices, numpy.ndarray))
+            assert(isinstance(offset, numpy.ndarray))
             self._vertices = vertices
             self._offset = offset
             self._repetition = repetition
             self._annotations = annotations if annotations is not None else {}
+            self._layer = layer
+            self._dose = dose
         else:
             self.vertices = vertices
             self.offset = offset
             self.repetition = repetition
             self.annotations = annotations if annotations is not None else {}
+            self.layer = layer
+            self.dose = dose
         self.rotate(rotation)
+        [self.mirror(a) for a, do in enumerate(mirrored) if do]
+        self.set_locked(locked)
 
-    def __deepcopy__(self, memo: dict | None = None) -> 'Polygon':
+    def __deepcopy__(self, memo: Optional[Dict] = None) -> 'Polygon':
         memo = {} if memo is None else memo
         new = copy.copy(self)
+        Shape.unlock(new)
         new._offset = self._offset.copy()
         new._vertices = self._vertices.copy()
         new._annotations = copy.deepcopy(self._annotations)
+        new.set_locked(self.locked)
         return new
 
-    def __eq__(self, other: Any) -> bool:
-        return (
-            type(self) is type(other)
-            and numpy.array_equal(self.offset, other.offset)
-            and numpy.array_equal(self.vertices, other.vertices)
-            and self.repetition == other.repetition
-            and annotations_eq(self.annotations, other.annotations)
-            )
-
-    def __lt__(self, other: Shape) -> bool:
-        if type(self) is not type(other):
-            if repr(type(self)) != repr(type(other)):
-                return repr(type(self)) < repr(type(other))
-            return id(type(self)) < id(type(other))
-        other = cast(Polygon, other)
-        if not numpy.array_equal(self.vertices, other.vertices):
-            min_len = min(self.vertices.shape[0], other.vertices.shape[0])
-            eq_mask = self.vertices[:min_len] != other.vertices[:min_len]
-            eq_lt = self.vertices[:min_len] < other.vertices[:min_len]
-            eq_lt_masked = eq_lt[eq_mask]
-            if eq_lt_masked.size > 0:
-                return eq_lt_masked.flat[0]
-            return self.vertices.shape[0] < other.vertices.shape[0]
-        if not numpy.array_equal(self.offset, other.offset):
-            return tuple(self.offset) < tuple(other.offset)
-        if self.repetition != other.repetition:
-            return rep2key(self.repetition) < rep2key(other.repetition)
-        return annotations_lt(self.annotations, other.annotations)
-
     @staticmethod
     def square(
             side_length: float,
             *,
             rotation: float = 0.0,
             offset: ArrayLike = (0.0, 0.0),
-            repetition: Repetition | None = None,
+            layer: layer_t = 0,
+            dose: float = 1.0,
+            repetition: Optional[Repetition] = None,
             ) -> 'Polygon':
         """
         Draw a square given side_length, centered on the origin.
@@ -159,6 +135,8 @@ class Polygon(Shape):
             side_length: Length of one side
             rotation: Rotation counterclockwise, in radians
             offset: Offset, default `(0, 0)`
+            layer: Layer, default `0`
+            dose: Dose, default `1.0`
             repetition: `Repetition` object, default `None`
 
         Returns:
@@ -169,7 +147,8 @@ class Polygon(Shape):
                                    [+1, +1],
                                    [+1, -1]], dtype=float)
         vertices = 0.5 * side_length * norm_square
-        poly = Polygon(vertices, offset=offset, repetition=repetition)
+        poly = Polygon(vertices, offset=offset, layer=layer, dose=dose,
+                       repetition=repetition)
         poly.rotate(rotation)
         return poly
 
@@ -180,7 +159,9 @@ class Polygon(Shape):
             *,
             rotation: float = 0,
             offset: ArrayLike = (0.0, 0.0),
-            repetition: Repetition | None = None,
+            layer: layer_t = 0,
+            dose: float = 1.0,
+            repetition: Optional[Repetition] = None,
             ) -> 'Polygon':
         """
         Draw a rectangle with side lengths lx and ly, centered on the origin.
@@ -190,6 +171,8 @@ class Polygon(Shape):
             ly: Length along y (before rotation)
             rotation: Rotation counterclockwise, in radians
             offset: Offset, default `(0, 0)`
+            layer: Layer, default `0`
+            dose: Dose, default `1.0`
             repetition: `Repetition` object, default `None`
 
         Returns:
@@ -199,22 +182,25 @@ class Polygon(Shape):
                                       [-lx, +ly],
                                       [+lx, +ly],
                                       [+lx, -ly]], dtype=float)
-        poly = Polygon(vertices, offset=offset, repetition=repetition)
+        poly = Polygon(vertices, offset=offset, layer=layer, dose=dose,
+                       repetition=repetition)
         poly.rotate(rotation)
         return poly
 
     @staticmethod
     def rect(
             *,
-            xmin: float | None = None,
-            xctr: float | None = None,
-            xmax: float | None = None,
-            lx: float | None = None,
-            ymin: float | None = None,
-            yctr: float | None = None,
-            ymax: float | None = None,
-            ly: float | None = None,
-            repetition: Repetition | None = None,
+            xmin: Optional[float] = None,
+            xctr: Optional[float] = None,
+            xmax: Optional[float] = None,
+            lx: Optional[float] = None,
+            ymin: Optional[float] = None,
+            yctr: Optional[float] = None,
+            ymax: Optional[float] = None,
+            ly: Optional[float] = None,
+            layer: layer_t = 0,
+            dose: float = 1.0,
+            repetition: Optional[Repetition] = None,
             ) -> 'Polygon':
         """
         Draw a rectangle by specifying side/center positions.
@@ -231,6 +217,8 @@ class Polygon(Shape):
             yctr: Center y coordinate
             ymax: Maximum y coordinate
             ly: Length along y direction
+            layer: Layer, default `0`
+            dose: Dose, default `1.0`
             repetition: `Repetition` object, default `None`
 
         Returns:
@@ -238,76 +226,79 @@ class Polygon(Shape):
         """
         if lx is None:
             if xctr is None:
-                assert xmin is not None
-                assert xmax is not None
+                assert(xmin is not None)
+                assert(xmax is not None)
                 xctr = 0.5 * (xmax + xmin)
                 lx = xmax - xmin
             elif xmax is None:
-                assert xmin is not None
-                assert xctr is not None
+                assert(xmin is not None)
+                assert(xctr is not None)
                 lx = 2 * (xctr - xmin)
             elif xmin is None:
-                assert xctr is not None
-                assert xmax is not None
+                assert(xctr is not None)
+                assert(xmax is not None)
                 lx = 2 * (xmax - xctr)
             else:
                 raise PatternError('Two of xmin, xctr, xmax, lx must be None!')
-        else:                        # noqa: PLR5501
+        else:
             if xctr is not None:
                 pass
             elif xmax is None:
-                assert xmin is not None
-                assert lx is not None
+                assert(xmin is not None)
+                assert(lx is not None)
                 xctr = xmin + 0.5 * lx
             elif xmin is None:
-                assert xmax is not None
-                assert lx is not None
+                assert(xmax is not None)
+                assert(lx is not None)
                 xctr = xmax - 0.5 * lx
             else:
                 raise PatternError('Two of xmin, xctr, xmax, lx must be None!')
 
         if ly is None:
             if yctr is None:
-                assert ymin is not None
-                assert ymax is not None
+                assert(ymin is not None)
+                assert(ymax is not None)
                 yctr = 0.5 * (ymax + ymin)
                 ly = ymax - ymin
             elif ymax is None:
-                assert ymin is not None
-                assert yctr is not None
+                assert(ymin is not None)
+                assert(yctr is not None)
                 ly = 2 * (yctr - ymin)
             elif ymin is None:
-                assert yctr is not None
-                assert ymax is not None
+                assert(yctr is not None)
+                assert(ymax is not None)
                 ly = 2 * (ymax - yctr)
             else:
                 raise PatternError('Two of ymin, yctr, ymax, ly must be None!')
-        else:                        # noqa: PLR5501
+        else:
             if yctr is not None:
                 pass
             elif ymax is None:
-                assert ymin is not None
-                assert ly is not None
+                assert(ymin is not None)
+                assert(ly is not None)
                 yctr = ymin + 0.5 * ly
             elif ymin is None:
-                assert ly is not None
-                assert ymax is not None
+                assert(ly is not None)
+                assert(ymax is not None)
                 yctr = ymax - 0.5 * ly
             else:
                 raise PatternError('Two of ymin, yctr, ymax, ly must be None!')
 
-        poly = Polygon.rectangle(lx, ly, offset=(xctr, yctr), repetition=repetition)
+        poly = Polygon.rectangle(lx, ly, offset=(xctr, yctr),
+                                 layer=layer, dose=dose, repetition=repetition)
         return poly
 
     @staticmethod
     def octagon(
             *,
-            side_length: float | None = None,
-            inner_radius: float | None = None,
+            side_length: Optional[float] = None,
+            inner_radius: Optional[float] = None,
             regular: bool = True,
             center: ArrayLike = (0.0, 0.0),
             rotation: float = 0.0,
-            repetition: Repetition | None = None,
+            layer: layer_t = 0,
+            dose: float = 1.0,
+            repetition: Optional[Repetition] = None,
             ) -> 'Polygon':
         """
         Draw an octagon given one of (side length, inradius, circumradius).
@@ -325,12 +316,17 @@ class Polygon(Shape):
             rotation: Rotation counterclockwise, in radians.
                 `0` results in four axis-aligned sides (the long sides of the
                 irregular octagon).
+            layer: Layer, default `0`
+            dose: Dose, default `1.0`
             repetition: `Repetition` object, default `None`
 
         Returns:
             A Polygon object containing the requested octagon
         """
-        s = (1 + numpy.sqrt(2)) if regular else 2
+        if regular:
+            s = 1 + numpy.sqrt(2)
+        else:
+            s = 2
 
         norm_oct = numpy.array([
             [-1, -s],
@@ -348,18 +344,19 @@ class Polygon(Shape):
             side_length = 2 * inner_radius / s
 
         vertices = 0.5 * side_length * norm_oct
-        poly = Polygon(vertices, offset=center, repetition=repetition)
+        poly = Polygon(vertices, offset=center, layer=layer, dose=dose, repetition=repetition)
         poly.rotate(rotation)
         return poly
 
+
     def to_polygons(
             self,
-            num_vertices: int | None = None,      # unused  # noqa: ARG002
-            max_arclen: float | None = None,      # unused  # noqa: ARG002
-            ) -> list['Polygon']:
+            poly_num_points: int = None,        # unused
+            poly_max_arclen: float = None,      # unused
+            ) -> List['Polygon']:
         return [copy.deepcopy(self)]
 
-    def get_bounds_single(self) -> NDArray[numpy.float64]:         # TODO note shape get_bounds doesn't include repetition
+    def get_bounds(self) -> NDArray[numpy.float64]:
         return numpy.vstack((self.offset + numpy.min(self.vertices, axis=0),
                              self.offset + numpy.max(self.vertices, axis=0)))
 
@@ -368,7 +365,7 @@ class Polygon(Shape):
             self.vertices = numpy.dot(rotation_matrix_2d(theta), self.vertices.T).T
         return self
 
-    def mirror(self, axis: int = 0) -> 'Polygon':
+    def mirror(self, axis: int) -> 'Polygon':
         self.vertices[:, axis - 1] *= -1
         return self
 
@@ -379,9 +376,8 @@ class Polygon(Shape):
     def normalized_form(self, norm_value: float) -> normalized_shape_tuple:
         # Note: this function is going to be pretty slow for many-vertexed polygons, relative to
         #   other shapes
-        meanv = self.vertices.mean(axis=0)
-        zeroed_vertices = self.vertices - meanv
-        offset = meanv + self.offset
+        offset = self.vertices.mean(axis=0) + self.offset
+        zeroed_vertices = self.vertices - offset
 
         scale = zeroed_vertices.std()
         normed_vertices = zeroed_vertices / scale
@@ -395,14 +391,14 @@ class Polygon(Shape):
         x_min = rotated_vertices[:, 0].argmin()
         if not is_scalar(x_min):
             y_min = rotated_vertices[x_min, 1].argmin()
-            x_min = cast(Sequence, x_min)[y_min]
+            x_min = x_min[y_min]
         reordered_vertices = numpy.roll(rotated_vertices, -x_min, axis=0)
 
         # TODO: normalize mirroring?
 
-        return ((type(self), reordered_vertices.data.tobytes()),
-                (offset, scale / norm_value, rotation, False),
-                lambda: Polygon(reordered_vertices * norm_value))
+        return ((type(self), reordered_vertices.data.tobytes(), self.layer),
+                (offset, scale / norm_value, rotation, False, self.dose),
+                lambda: Polygon(reordered_vertices * norm_value, layer=self.layer))
 
     def clean_vertices(self) -> 'Polygon':
         """
@@ -415,25 +411,37 @@ class Polygon(Shape):
         return self
 
     def remove_duplicate_vertices(self) -> 'Polygon':
-        """
+        '''
         Removes all consecutive duplicate (repeated) vertices.
 
         Returns:
             self
-        """
+        '''
         self.vertices = remove_duplicate_vertices(self.vertices, closed_path=True)
         return self
 
     def remove_colinear_vertices(self) -> 'Polygon':
-        """
+        '''
         Removes consecutive co-linear vertices.
 
         Returns:
             self
-        """
+        '''
         self.vertices = remove_colinear_vertices(self.vertices, closed_path=True)
         return self
 
+    def lock(self) -> 'Polygon':
+        self.vertices.flags.writeable = False
+        Shape.lock(self)
+        return self
+
+    def unlock(self) -> 'Polygon':
+        Shape.unlock(self)
+        self.vertices.flags.writeable = True
+        return self
+
     def __repr__(self) -> str:
         centroid = self.offset + self.vertices.mean(axis=0)
-        return f'<Polygon centroid {centroid} v{len(self.vertices)}>'
+        dose = f' d{self.dose:g}' if self.dose != 1 else ''
+        locked = ' L' if self.locked else ''
+        return f'<Polygon l{self.layer} centroid {centroid} v{len(self.vertices)}{dose}{locked}>'

masque/shapes/shape.py

@@ -1,62 +1,57 @@
-from typing import TYPE_CHECKING, Any
-from collections.abc import Callable
+from typing import List, Tuple, Callable, TypeVar, Optional, TYPE_CHECKING
 from abc import ABCMeta, abstractmethod
 
 import numpy
 from numpy.typing import NDArray, ArrayLike
 
-from ..traits import (
-    Rotatable, Mirrorable, Copyable, Scalable,
-    PositionableImpl, PivotableImpl, RepeatableImpl, AnnotatableImpl,
-    )
+from ..traits import (PositionableImpl, LayerableImpl, DoseableImpl,
+                      Rotatable, Mirrorable, Copyable, Scalable,
+                      PivotableImpl, LockableImpl, RepeatableImpl,
+                      AnnotatableImpl)
 
 if TYPE_CHECKING:
     from . import Polygon
 
 
 # Type definitions
-normalized_shape_tuple = tuple[
-    tuple,
-    tuple[NDArray[numpy.float64], float, float, bool],
-    Callable[[], 'Shape'],
-    ]
+normalized_shape_tuple = Tuple[Tuple,
+                               Tuple[NDArray[numpy.float64], float, float, bool, float],
+                               Callable[[], 'Shape']]
 
 # ## Module-wide defaults
 # Default number of points per polygon for shapes
-DEFAULT_POLY_NUM_VERTICES = 24
+DEFAULT_POLY_NUM_POINTS = 24
 
 
-class Shape(PositionableImpl, Rotatable, Mirrorable, Copyable, Scalable,
-            PivotableImpl, RepeatableImpl, AnnotatableImpl, metaclass=ABCMeta):
+T = TypeVar('T', bound='Shape')
+
+
+class Shape(PositionableImpl, LayerableImpl, DoseableImpl, Rotatable, Mirrorable, Copyable, Scalable,
+            PivotableImpl, RepeatableImpl, LockableImpl, AnnotatableImpl, metaclass=ABCMeta):
     """
-    Class specifying functions common to all shapes.
+    Abstract class specifying functions common to all shapes.
     """
-    __slots__ = ()      # Children should use AutoSlots or set slots themselves
+    __slots__ = ()      # Children should use AutoSlots
 
-    #def __copy__(self) -> Self:
-    #    cls = self.__class__
-    #    new = cls.__new__(cls)
-    #    for name in self.__slots__:     # type: str
-    #        object.__setattr__(new, name, getattr(self, name))
-    #    return new
+    identifier: Tuple
+    """ An arbitrary identifier for the shape, usually empty but used by `Pattern.flatten()` """
 
-    #
-    # Methods (abstract)
-    #
-    @abstractmethod
-    def __eq__(self, other: Any) -> bool:
-        pass
-
-    @abstractmethod
-    def __lt__(self, other: 'Shape') -> bool:
-        pass
+    def __copy__(self) -> 'Shape':
+        cls = self.__class__
+        new = cls.__new__(cls)
+        for name in self.__slots__:     # type: str
+            object.__setattr__(new, name, getattr(self, name))
+        return new
 
+    '''
+    --- Abstract methods
+    '''
     @abstractmethod
     def to_polygons(
             self,
-            num_vertices: int | None = None,
-            max_arclen: float | None = None,
-            ) -> list['Polygon']:
+            num_vertices: Optional[int] = None,
+            max_arclen: Optional[float] = None,
+            ) -> List['Polygon']:
         """
         Returns a list of polygons which approximate the shape.
 
@@ -73,9 +68,9 @@ class Shape(PositionableImpl, Rotatable, Mirrorable, Copyable, Scalable,
         pass
 
     @abstractmethod
-    def normalized_form(self, norm_value: int) -> normalized_shape_tuple:
+    def normalized_form(self: T, norm_value: int) -> normalized_shape_tuple:
         """
-        Writes the shape in a standardized notation, with offset, scale, and rotation
+        Writes the shape in a standardized notation, with offset, scale, rotation, and dose
          information separated out from the remaining values.
 
         Args:
@@ -90,20 +85,20 @@ class Shape(PositionableImpl, Rotatable, Mirrorable, Copyable, Scalable,
               `(intrinsic, extrinsic, constructor)`. These are further broken down as:
               `intrinsic`: A tuple of basic types containing all information about the instance that
                          is not contained in 'extrinsic'. Usually, `intrinsic[0] == type(self)`.
-              `extrinsic`: `([x_offset, y_offset], scale, rotation, mirror_across_x_axis)`
+              `extrinsic`: `([x_offset, y_offset], scale, rotation, mirror_across_x_axis, dose)`
               `constructor`: A callable (no arguments) which returns an instance of `type(self)` with
                            internal state equivalent to `intrinsic`.
         """
         pass
 
-    #
-    # Non-abstract methods
-    #
+    '''
+    ---- Non-abstract methods
+    '''
     def manhattanize_fast(
             self,
             grid_x: ArrayLike,
             grid_y: ArrayLike,
-            ) -> list['Polygon']:
+            ) -> List['Polygon']:
         """
         Returns a list of polygons with grid-aligned ("Manhattan") edges approximating the shape.
 
@@ -127,7 +122,7 @@ class Shape(PositionableImpl, Rotatable, Mirrorable, Copyable, Scalable,
 
         polygon_contours = []
         for polygon in self.to_polygons():
-            bounds = polygon.get_bounds_single()
+            bounds = polygon.get_bounds()
             if bounds is None:
                 continue
 
@@ -135,7 +130,7 @@ class Shape(PositionableImpl, Rotatable, Mirrorable, Copyable, Scalable,
 
             vertex_lists = []
             p_verts = polygon.vertices + polygon.offset
-            for v, v_next in zip(p_verts, numpy.roll(p_verts, -1, axis=0), strict=True):
+            for v, v_next in zip(p_verts, numpy.roll(p_verts, -1, axis=0)):
                 dv = v_next - v
 
                 # Find x-index bounds for the line      # TODO: fix this and err_xmin/xmax for grids smaller than the line / shape
@@ -165,7 +160,7 @@ class Shape(PositionableImpl, Rotatable, Mirrorable, Copyable, Scalable,
 
                 m = dv[1] / dv[0]
 
-                def get_grid_inds(xes: ArrayLike, m: float = m, v: NDArray = v) -> NDArray[numpy.float64]:
+                def get_grid_inds(xes: ArrayLike) -> NDArray[numpy.float64]:
                     ys = m * (xes - v[0]) + v[1]
 
                     # (inds - 1) is the index of the y-grid line below the edge's intersection with the x-grid
@@ -180,14 +175,14 @@ class Shape(PositionableImpl, Rotatable, Mirrorable, Copyable, Scalable,
                     return inds
 
                 # Find the y indices on all x gridlines
-                xs = gx[int(gxi_min):int(gxi_max)]
+                xs = gx[gxi_min:gxi_max]
                 inds = get_grid_inds(xs)
 
                 # Find y-intersections for x-midpoints
                 xs2 = (xs[:-1] + xs[1:]) / 2
                 inds2 = get_grid_inds(xs2)
 
-                xinds = numpy.rint(numpy.arange(gxi_min, gxi_max - 0.99, 1 / 3)).astype(numpy.int64)
+                xinds = numpy.rint(numpy.arange(gxi_min, gxi_max - 0.99, 1 / 3), dtype=numpy.int64, casting='unsafe')
 
                 # interleave the results
                 yinds = xinds.copy()
@@ -202,7 +197,12 @@ class Shape(PositionableImpl, Rotatable, Mirrorable, Copyable, Scalable,
                 vertex_lists.append(vlist)
             polygon_contours.append(numpy.vstack(vertex_lists))
 
-        manhattan_polygons = [Polygon(vertices=contour) for contour in polygon_contours]
+        manhattan_polygons = []
+        for contour in polygon_contours:
+            manhattan_polygons.append(Polygon(
+                vertices=contour,
+                layer=self.layer,
+                dose=self.dose))
 
         return manhattan_polygons
 
@@ -210,7 +210,7 @@ class Shape(PositionableImpl, Rotatable, Mirrorable, Copyable, Scalable,
             self,
             grid_x: ArrayLike,
             grid_y: ArrayLike,
-            ) -> list['Polygon']:
+            ) -> List['Polygon']:
         """
         Returns a list of polygons with grid-aligned ("Manhattan") edges approximating the shape.
 
@@ -259,19 +259,18 @@ class Shape(PositionableImpl, Rotatable, Mirrorable, Copyable, Scalable,
         polygon_contours = []
         for polygon in self.to_polygons():
             # Get rid of unused gridlines (anything not within 2 lines of the polygon bounds)
-            bounds = polygon.get_bounds_single()
+            bounds = polygon.get_bounds()
             if bounds is None:
                 continue
 
             mins, maxs = bounds
             keep_x = numpy.logical_and(grx > mins[0], grx < maxs[0])
             keep_y = numpy.logical_and(gry > mins[1], gry < maxs[1])
-            # Flood left & rightwards by 2 cells
-            for kk in (keep_x, keep_y):
-                for ss in (1, 2):
-                    kk[ss:] += kk[:-ss]
-                    kk[:-ss] += kk[ss:]
-                kk[:] = kk > 0
+            for k in (keep_x, keep_y):
+                for s in (1, 2):
+                    k[s:] += k[:-s]
+                    k[:-s] += k[s:]
+                k = k > 0
 
             gx = grx[keep_x]
             gy = gry[keep_y]
@@ -294,10 +293,23 @@ class Shape(PositionableImpl, Rotatable, Mirrorable, Copyable, Scalable,
             for contour in contours:
                 # /2 deals with supersampling
                 # +.5 deals with the fact that our 0-edge becomes -.5 in the super-sampled contour output
-                snapped_contour = numpy.rint((contour + .5) / 2).astype(numpy.int64)
+                snapped_contour = numpy.rint((contour + .5) / 2, dtype=numpy.int64, casting='unsafe')
                 vertices = numpy.hstack((grx[snapped_contour[:, None, 0] + offset_i[0]],
                                          gry[snapped_contour[:, None, 1] + offset_i[1]]))
 
-                manhattan_polygons.append(Polygon(vertices=vertices))
+                manhattan_polygons.append(Polygon(
+                    vertices=vertices,
+                    layer=self.layer,
+                    dose=self.dose))
 
         return manhattan_polygons
+
+    def lock(self: T) -> T:
+        PositionableImpl._lock(self)
+        LockableImpl.lock(self)
+        return self
+
+    def unlock(self: T) -> T:
+        LockableImpl.unlock(self)
+        PositionableImpl._unlock(self)
+        return self

masque/shapes/text.py

@@ -1,37 +1,33 @@
-from typing import Self, Any, cast
+from typing import List, Tuple, Dict, Sequence, Optional, Any
 import copy
-import functools
 
 import numpy
-from numpy import pi, nan
+from numpy import pi, inf
 from numpy.typing import NDArray, ArrayLike
 
 from . import Shape, Polygon, normalized_shape_tuple
-from ..error import PatternError
+from .. import PatternError
 from ..repetition import Repetition
 from ..traits import RotatableImpl
-from ..utils import is_scalar, get_bit, annotations_t, annotations_lt, annotations_eq, rep2key
+from ..utils import is_scalar, get_bit, normalize_mirror, layer_t, AutoSlots
+from ..utils import annotations_t
+from ..traits import LockableImpl
 
 # Loaded on use:
 # from freetype import Face
 # from matplotlib.path import Path
 
 
-@functools.total_ordering
-class Text(RotatableImpl, Shape):
+class Text(RotatableImpl, Shape, metaclass=AutoSlots):
     """
     Text (to be printed e.g. as a set of polygons).
     This is distinct from non-printed Label objects.
     """
-    __slots__ = (
-        '_string', '_height', '_mirrored', 'font_path',
-        # Inherited
-        '_offset', '_repetition', '_annotations', '_rotation',
-        )
+    __slots__ = ('_string', '_height', '_mirrored', 'font_path')
 
     _string: str
     _height: float
-    _mirrored: bool
+    _mirrored: NDArray[numpy.bool_]
     font_path: str
 
     # vertices property
@@ -54,13 +50,16 @@ class Text(RotatableImpl, Shape):
             raise PatternError('Height must be a scalar')
         self._height = val
 
+    # Mirrored property
     @property
-    def mirrored(self) -> bool:     # mypy#3004, should be bool
+    def mirrored(self) -> Any:   #TODO mypy#3004  NDArray[numpy.bool_]:
         return self._mirrored
 
     @mirrored.setter
-    def mirrored(self, val: bool) -> None:
-        self._mirrored = bool(val)
+    def mirrored(self, val: Sequence[bool]) -> None:
+        if is_scalar(val):
+            raise PatternError('Mirrored must be a 2-element list of booleans')
+        self._mirrored = numpy.array(val, dtype=bool, copy=True)
 
     def __init__(
             self,
@@ -70,71 +69,56 @@ class Text(RotatableImpl, Shape):
             *,
             offset: ArrayLike = (0.0, 0.0),
             rotation: float = 0.0,
-            repetition: Repetition | None = None,
-            annotations: annotations_t | None = None,
+            mirrored: ArrayLike = (False, False),
+            layer: layer_t = 0,
+            dose: float = 1.0,
+            repetition: Optional[Repetition] = None,
+            annotations: Optional[annotations_t] = None,
+            locked: bool = False,
             raw: bool = False,
             ) -> None:
+        LockableImpl.unlock(self)
+        self.identifier = ()
         if raw:
-            assert isinstance(offset, numpy.ndarray)
+            assert(isinstance(offset, numpy.ndarray))
+            assert(isinstance(mirrored, numpy.ndarray))
             self._offset = offset
+            self._layer = layer
+            self._dose = dose
             self._string = string
             self._height = height
             self._rotation = rotation
+            self._mirrored = mirrored
             self._repetition = repetition
             self._annotations = annotations if annotations is not None else {}
         else:
             self.offset = offset
+            self.layer = layer
+            self.dose = dose
             self.string = string
             self.height = height
             self.rotation = rotation
+            self.mirrored = mirrored
             self.repetition = repetition
             self.annotations = annotations if annotations is not None else {}
         self.font_path = font_path
+        self.set_locked(locked)
 
-    def __deepcopy__(self, memo: dict | None = None) -> Self:
+    def __deepcopy__(self, memo: Dict = None) -> 'Text':
         memo = {} if memo is None else memo
         new = copy.copy(self)
+        Shape.unlock(new)
         new._offset = self._offset.copy()
+        new._mirrored = copy.deepcopy(self._mirrored, memo)
         new._annotations = copy.deepcopy(self._annotations)
+        new.set_locked(self.locked)
         return new
 
-    def __eq__(self, other: Any) -> bool:
-        return (
-            type(self) is type(other)
-            and numpy.array_equal(self.offset, other.offset)
-            and self.string == other.string
-            and self.height == other.height
-            and self.font_path == other.font_path
-            and self.rotation == other.rotation
-            and self.repetition == other.repetition
-            and annotations_eq(self.annotations, other.annotations)
-            )
-
-    def __lt__(self, other: Shape) -> bool:
-        if type(self) is not type(other):
-            if repr(type(self)) != repr(type(other)):
-                return repr(type(self)) < repr(type(other))
-            return id(type(self)) < id(type(other))
-        other = cast(Text, other)
-        if not self.height == other.height:
-            return self.height < other.height
-        if not self.string == other.string:
-            return self.string < other.string
-        if not self.font_path == other.font_path:
-            return self.font_path < other.font_path
-        if not numpy.array_equal(self.offset, other.offset):
-            return tuple(self.offset) < tuple(other.offset)
-        if self.rotation != other.rotation:
-            return self.rotation < other.rotation
-        if self.repetition != other.repetition:
-            return rep2key(self.repetition) < rep2key(other.repetition)
-        return annotations_lt(self.annotations, other.annotations)
-
     def to_polygons(
             self,
-            num_vertices: int | None = None,      # unused  # noqa: ARG002
-            max_arclen: float | None = None,      # unused  # noqa: ARG002
-            ) -> list[Polygon]:
+            poly_num_points: Optional[int] = None,        # unused
+            poly_max_arclen: Optional[float] = None,      # unused
+            ) -> List[Polygon]:
         all_polygons = []
         total_advance = 0.0
         for char in self.string:
@@ -142,9 +126,8 @@ class Text(RotatableImpl, Shape):
 
             # Move these polygons to the right of the previous letter
             for xys in raw_polys:
-                poly = Polygon(xys)
-                if self.mirrored:
-                    poly.mirror()
+                poly = Polygon(xys, dose=self.dose, layer=self.layer)
+                poly.mirror2d(self.mirrored)
                 poly.scale_by(self.height)
                 poly.offset = self.offset + [total_advance, 0]
                 poly.rotate_around(self.offset, self.rotation)
@@ -155,53 +138,45 @@ class Text(RotatableImpl, Shape):
 
         return all_polygons
 
-    def mirror(self, axis: int = 0) -> Self:
-        self.mirrored = not self.mirrored
-        if axis == 1:
-            self.rotation += pi
+    def mirror(self, axis: int) -> 'Text':
+        self.mirrored[axis] = not self.mirrored[axis]
         return self
 
-    def scale_by(self, c: float) -> Self:
+    def scale_by(self, c: float) -> 'Text':
         self.height *= c
         return self
 
     def normalized_form(self, norm_value: float) -> normalized_shape_tuple:
-        rotation = self.rotation % (2 * pi)
-        return ((type(self), self.string, self.font_path),
-                (self.offset, self.height / norm_value, rotation, bool(self.mirrored)),
-                lambda: Text(
-                    string=self.string,
-                    height=self.height * norm_value,
-                    font_path=self.font_path,
-                    rotation=rotation,
-                    ).mirror2d(across_x=self.mirrored),
-                )
+        mirror_x, rotation = normalize_mirror(self.mirrored)
+        rotation += self.rotation
+        rotation %= 2 * pi
+        return ((type(self), self.string, self.font_path, self.layer),
+                (self.offset, self.height / norm_value, rotation, mirror_x, self.dose),
+                lambda: Text(string=self.string,
+                             height=self.height * norm_value,
+                             font_path=self.font_path,
+                             rotation=rotation,
+                             mirrored=(mirror_x, False),
+                             layer=self.layer))
 
-    def get_bounds_single(self) -> NDArray[numpy.float64]:
+    def get_bounds(self) -> NDArray[numpy.float64]:
         # rotation makes this a huge pain when using slot.advance and glyph.bbox(), so
         #  just convert to polygons instead
+        bounds = numpy.array([[+inf, +inf], [-inf, -inf]])
         polys = self.to_polygons()
-        pbounds = numpy.full((len(polys), 2, 2), nan)
-        for pp, poly in enumerate(polys):
-            pbounds[pp] = poly.get_bounds_nonempty()
-        bounds = numpy.vstack((
-            numpy.min(pbounds[: 0, :], axis=0),
-            numpy.max(pbounds[: 1, :], axis=0),
-            ))
+        for poly in polys:
+            poly_bounds = poly.get_bounds()
+            bounds[0, :] = numpy.minimum(bounds[0, :], poly_bounds[0, :])
+            bounds[1, :] = numpy.maximum(bounds[1, :], poly_bounds[1, :])
 
         return bounds
 
-    def __repr__(self) -> str:
-        rotation = f' r°{numpy.rad2deg(self.rotation):g}' if self.rotation != 0 else ''
-        mirrored = ' m{:d}' if self.mirrored else ''
-        return f'<TextShape "{self.string}" o{self.offset} h{self.height:g}{rotation}{mirrored}>'
-
 
 def get_char_as_polygons(
         font_path: str,
         char: str,
         resolution: float = 48 * 64,
-        ) -> tuple[list[list[list[float]]], float]:
+        ) -> Tuple[List[List[List[float]]], float]:
     from freetype import Face           # type: ignore
     from matplotlib.path import Path    # type: ignore
 
@@ -221,7 +196,7 @@ def get_char_as_polygons(
         'advance' distance (distance from the start of this glyph to the start of the next one)
     """
     if len(char) != 1:
-        raise PatternError('get_char_as_polygons called with non-char')
+        raise Exception('get_char_as_polygons called with non-char')
 
     face = Face(font_path)
     face.set_char_size(resolution)
@@ -230,8 +205,7 @@ def get_char_as_polygons(
     outline = slot.outline
 
     start = 0
-    all_verts_list = []
-    all_codes = []
+    all_verts_list, all_codes = [], []
     for end in outline.contours:
         points = outline.points[start:end + 1]
         points.append(points[0])
@@ -239,7 +213,7 @@ def get_char_as_polygons(
         tags = outline.tags[start:end + 1]
         tags.append(tags[0])
 
-        segments: list[list[list[float]]] = []
+        segments: List[List[List[float]]] = []
         for j, point in enumerate(points):
             # If we already have a segment, add this point to it
             if j > 0:
@@ -284,3 +258,20 @@ def get_char_as_polygons(
         polygons = path.to_polygons()
 
     return polygons, advance
+
+    def lock(self) -> 'Text':
+        self.mirrored.flags.writeable = False
+        Shape.lock(self)
+        return self
+
+    def unlock(self) -> 'Text':
+        Shape.unlock(self)
+        self.mirrored.flags.writeable = True
+        return self
+
+    def __repr__(self) -> str:
+        rotation = f' r°{self.rotation*180/pi:g}' if self.rotation != 0 else ''
+        dose = f' d{self.dose:g}' if self.dose != 1 else ''
+        locked = ' L' if self.locked else ''
+        mirrored = ' m{:d}{:d}'.format(*self.mirrored) if self.mirrored.any() else ''
+        return f'<TextShape "{self.string}" l{self.layer} o{self.offset} h{self.height:g}{rotation}{mirrored}{dose}{locked}>'

masque/subpattern.py

@@ -0,0 +1,248 @@
+"""
+ SubPattern provides basic support for nesting Pattern objects within each other, by adding
+  offset, rotation, scaling, and other such properties to the reference.
+"""
+#TODO more top-level documentation
+
+from typing import Dict, Tuple, Optional, Sequence, TYPE_CHECKING, Any, TypeVar
+import copy
+
+import numpy
+from numpy import pi
+from numpy.typing import NDArray, ArrayLike
+
+from .error import PatternError
+from .utils import is_scalar, AutoSlots, annotations_t
+from .repetition import Repetition
+from .traits import (PositionableImpl, DoseableImpl, RotatableImpl, ScalableImpl,
+                     Mirrorable, PivotableImpl, Copyable, LockableImpl, RepeatableImpl,
+                     AnnotatableImpl)
+
+
+if TYPE_CHECKING:
+    from . import Pattern
+
+
+S = TypeVar('S', bound='SubPattern')
+
+
+class SubPattern(PositionableImpl, DoseableImpl, RotatableImpl, ScalableImpl, Mirrorable,
+                 PivotableImpl, Copyable, RepeatableImpl, LockableImpl, AnnotatableImpl,
+                 metaclass=AutoSlots):
+    """
+    SubPattern provides basic support for nesting Pattern objects within each other, by adding
+     offset, rotation, scaling, and associated methods.
+    """
+    __slots__ = ('_pattern',
+                 '_mirrored',
+                 'identifier',
+                 )
+
+    _pattern: Optional['Pattern']
+    """ The `Pattern` being instanced """
+
+    _mirrored: NDArray[numpy.bool_]
+    """ Whether to mirror the instance across the x and/or y axes. """
+
+    identifier: Tuple[Any, ...]
+    """ Arbitrary identifier, used internally by some `masque` functions. """
+
+    def __init__(
+            self,
+            pattern: Optional['Pattern'],
+            *,
+            offset: ArrayLike = (0.0, 0.0),
+            rotation: float = 0.0,
+            mirrored: Optional[Sequence[bool]] = None,
+            dose: float = 1.0,
+            scale: float = 1.0,
+            repetition: Optional[Repetition] = None,
+            annotations: Optional[annotations_t] = None,
+            locked: bool = False,
+            identifier: Tuple[Any, ...] = (),
+            ) -> None:
+        """
+        Args:
+            pattern: Pattern to reference.
+            offset: (x, y) offset applied to the referenced pattern. Not affected by rotation etc.
+            rotation: Rotation (radians, counterclockwise) relative to the referenced pattern's (0, 0).
+            mirrored: Whether to mirror the referenced pattern across its x and y axes.
+            dose: Scaling factor applied to the dose.
+            scale: Scaling factor applied to the pattern's geometry.
+            repetition: TODO
+            locked: Whether the `SubPattern` is locked after initialization.
+            identifier: Arbitrary tuple, used internally by some `masque` functions.
+        """
+        LockableImpl.unlock(self)
+        self.identifier = identifier
+        self.pattern = pattern
+        self.offset = offset
+        self.rotation = rotation
+        self.dose = dose
+        self.scale = scale
+        if mirrored is None:
+            mirrored = (False, False)
+        self.mirrored = mirrored
+        self.repetition = repetition
+        self.annotations = annotations if annotations is not None else {}
+        self.set_locked(locked)
+
+    def __copy__(self) -> 'SubPattern':
+        new = SubPattern(pattern=self.pattern,
+                         offset=self.offset.copy(),
+                         rotation=self.rotation,
+                         dose=self.dose,
+                         scale=self.scale,
+                         mirrored=self.mirrored.copy(),
+                         repetition=copy.deepcopy(self.repetition),
+                         annotations=copy.deepcopy(self.annotations),
+                         locked=self.locked)
+        return new
+
+    def __deepcopy__(self, memo: Dict = None) -> 'SubPattern':
+        memo = {} if memo is None else memo
+        new = copy.copy(self)
+        LockableImpl.unlock(new)
+        new.pattern = copy.deepcopy(self.pattern, memo)
+        new.repetition = copy.deepcopy(self.repetition, memo)
+        new.annotations = copy.deepcopy(self.annotations, memo)
+        new.set_locked(self.locked)
+        return new
+
+    # pattern property
+    @property
+    def pattern(self) -> Optional['Pattern']:
+        return self._pattern
+
+    @pattern.setter
+    def pattern(self, val: Optional['Pattern']) -> None:
+        from .pattern import Pattern
+        if val is not None and not isinstance(val, Pattern):
+            raise PatternError(f'Provided pattern {val} is not a Pattern object or None!')
+        self._pattern = val
+
+    # Mirrored property
+    @property
+    def mirrored(self) -> Any:   #TODO mypy#3004  NDArray[numpy.bool_]:
+        return self._mirrored
+
+    @mirrored.setter
+    def mirrored(self, val: ArrayLike) -> None:
+        if is_scalar(val):
+            raise PatternError('Mirrored must be a 2-element list of booleans')
+        self._mirrored = numpy.array(val, dtype=bool, copy=True)
+
+    def as_pattern(self) -> 'Pattern':
+        """
+        Returns:
+            A copy of self.pattern which has been scaled, rotated, etc. according to this
+             `SubPattern`'s properties.
+        """
+        assert(self.pattern is not None)
+        pattern = self.pattern.deepcopy().deepunlock()
+        if self.scale != 1:
+            pattern.scale_by(self.scale)
+        if numpy.any(self.mirrored):
+            pattern.mirror2d(self.mirrored)
+        if self.rotation % (2 * pi) != 0:
+            pattern.rotate_around((0.0, 0.0), self.rotation)
+        if numpy.any(self.offset):
+            pattern.translate_elements(self.offset)
+        if self.dose != 1:
+            pattern.scale_element_doses(self.dose)
+
+        if self.repetition is not None:
+            combined = type(pattern)(name='__repetition__')
+            for dd in self.repetition.displacements:
+                temp_pat = pattern.deepcopy()
+                temp_pat.translate_elements(dd)
+                combined.append(temp_pat)
+            pattern = combined
+
+        return pattern
+
+    def rotate(self: S, rotation: float) -> S:
+        self.rotation += rotation
+        if self.repetition is not None:
+            self.repetition.rotate(rotation)
+        return self
+
+    def mirror(self: S, axis: int) -> S:
+        self.mirrored[axis] = not self.mirrored[axis]
+        self.rotation *= -1
+        if self.repetition is not None:
+            self.repetition.mirror(axis)
+        return self
+
+    def get_bounds(self) -> Optional[NDArray[numpy.float64]]:
+        """
+        Return a `numpy.ndarray` containing `[[x_min, y_min], [x_max, y_max]]`, corresponding to the
+         extent of the `SubPattern` in each dimension.
+        Returns `None` if the contained `Pattern` is empty.
+
+        Returns:
+            `[[x_min, y_min], [x_max, y_max]]` or `None`
+        """
+        if self.pattern is None:
+            return None
+        return self.as_pattern().get_bounds()
+
+    def lock(self: S) -> S:
+        """
+        Lock the SubPattern, disallowing changes
+
+        Returns:
+            self
+        """
+        self.mirrored.flags.writeable = False
+        PositionableImpl._lock(self)
+        LockableImpl.lock(self)
+        return self
+
+    def unlock(self: S) -> S:
+        """
+        Unlock the SubPattern
+
+        Returns:
+            self
+        """
+        LockableImpl.unlock(self)
+        PositionableImpl._unlock(self)
+        self.mirrored.flags.writeable = True
+        return self
+
+    def deeplock(self: S) -> S:
+        """
+        Recursively lock the SubPattern and its contained pattern
+
+        Returns:
+            self
+        """
+        assert(self.pattern is not None)
+        self.lock()
+        self.pattern.deeplock()
+        return self
+
+    def deepunlock(self: S) -> S:
+        """
+        Recursively unlock the SubPattern and its contained pattern
+
+        This is dangerous unless you have just performed a deepcopy, since
+        the subpattern and its components may be used in more than one once!
+
+        Returns:
+            self
+        """
+        assert(self.pattern is not None)
+        self.unlock()
+        self.pattern.deepunlock()
+        return self
+
+    def __repr__(self) -> str:
+        name = self.pattern.name if self.pattern is not None else None
+        rotation = f' r{self.rotation*180/pi:g}' if self.rotation != 0 else ''
+        scale = f' d{self.scale:g}' if self.scale != 1 else ''
+        mirrored = ' m{:d}{:d}'.format(*self.mirrored) if self.mirrored.any() else ''
+        dose = f' d{self.dose:g}' if self.dose != 1 else ''
+        locked = ' L' if self.locked else ''
+        return f'<SubPattern "{name}" at {self.offset}{rotation}{scale}{mirrored}{dose}{locked}>'

masque/traits/__init__.py

@@ -1,34 +1,13 @@
 """
 Traits (mixins) and default implementations
-
-Traits and mixins should set `__slots__ = ()` to enable use of `__slots__` in subclasses.
 """
-from .positionable import (
-    Positionable as Positionable,
-    PositionableImpl as PositionableImpl,
-    Bounded as Bounded,
-    )
-from .layerable import (
-    Layerable as Layerable,
-    LayerableImpl as LayerableImpl,
-    )
-from .rotatable import (
-    Rotatable as Rotatable,
-    RotatableImpl as RotatableImpl,
-    Pivotable as Pivotable,
-    PivotableImpl as PivotableImpl,
-    )
-from .repeatable import (
-    Repeatable as Repeatable,
-    RepeatableImpl as RepeatableImpl,
-    )
-from .scalable import (
-    Scalable as Scalable,
-    ScalableImpl as ScalableImpl,
-    )
-from .mirrorable import Mirrorable as Mirrorable
-from .copyable import Copyable as Copyable
-from .annotatable import (
-    Annotatable as Annotatable,
-    AnnotatableImpl as AnnotatableImpl,
-    )
+from .positionable import Positionable, PositionableImpl
+from .layerable import Layerable, LayerableImpl
+from .doseable import Doseable, DoseableImpl
+from .rotatable import Rotatable, RotatableImpl, Pivotable, PivotableImpl
+from .repeatable import Repeatable, RepeatableImpl
+from .scalable import Scalable, ScalableImpl
+from .mirrorable import Mirrorable
+from .copyable import Copyable
+from .lockable import Lockable, LockableImpl
+from .annotatable import Annotatable, AnnotatableImpl

masque/traits/annotatable.py

@@ -1,3 +1,4 @@
+from typing import TypeVar
 #from types import MappingProxyType
 from abc import ABCMeta, abstractmethod
 
@@ -5,19 +6,20 @@ from ..utils import annotations_t
 from ..error import MasqueError
 
 
-_empty_slots = ()     # Workaround to get mypy to ignore intentionally empty slots for superclass
+T = TypeVar('T', bound='Annotatable')
+I = TypeVar('I', bound='AnnotatableImpl')
 
 
 class Annotatable(metaclass=ABCMeta):
     """
-    Trait class for all annotatable entities
+    Abstract class for all annotatable entities
     Annotations correspond to GDS/OASIS "properties"
     """
     __slots__ = ()
 
-    #
-    # Properties
-    #
+    '''
+    ---- Properties
+    '''
     @property
     @abstractmethod
     def annotations(self) -> annotations_t:
@@ -31,20 +33,23 @@ class AnnotatableImpl(Annotatable, metaclass=ABCMeta):
     """
     Simple implementation of `Annotatable`.
     """
-    __slots__ = _empty_slots
+    __slots__ = ()
 
     _annotations: annotations_t
     """ Dictionary storing annotation name/value pairs """
 
-    #
-    # Non-abstract properties
-    #
+    '''
+    ---- Non-abstract properties
+    '''
     @property
     def annotations(self) -> annotations_t:
         return self._annotations
+#        # TODO: Find a way to make sure the subclass implements Lockable without dealing with diamond inheritance or this extra hasattr
+#        if hasattr(self, 'is_locked') and self.is_locked():
+#            return MappingProxyType(self._annotations)
 
     @annotations.setter
-    def annotations(self, annotations: annotations_t) -> None:
+    def annotations(self, annotations: annotations_t):
         if not isinstance(annotations, dict):
             raise MasqueError(f'annotations expected dict, got {type(annotations)}')
         self._annotations = annotations

masque/traits/copyable.py

@@ -1,17 +1,21 @@
-from typing import Self
+from typing import TypeVar
+from abc import ABCMeta
 import copy
 
 
-class Copyable:
+T = TypeVar('T', bound='Copyable')
+
+
+class Copyable(metaclass=ABCMeta):
     """
-    Trait class which adds .copy() and .deepcopy()
+    Abstract class which adds .copy() and .deepcopy()
     """
     __slots__ = ()
 
-    #
-    # Non-abstract methods
-    #
-    def copy(self) -> Self:
+    '''
+    ---- Non-abstract methods
+    '''
+    def copy(self: T) -> T:
         """
         Return a shallow copy of the object.
 
@@ -20,7 +24,7 @@ class Copyable:
         """
         return copy.copy(self)
 
-    def deepcopy(self) -> Self:
+    def deepcopy(self: T) -> T:
         """
         Return a deep copy of the object.
 

masque/traits/doseable.py

@@ -0,0 +1,76 @@
+from typing import TypeVar
+from abc import ABCMeta, abstractmethod
+
+from ..error import MasqueError
+
+
+T = TypeVar('T', bound='Doseable')
+I = TypeVar('I', bound='DoseableImpl')
+
+
+class Doseable(metaclass=ABCMeta):
+    """
+    Abstract class for all doseable entities
+    """
+    __slots__ = ()
+
+    '''
+    ---- Properties
+    '''
+    @property
+    @abstractmethod
+    def dose(self) -> float:
+        """
+        Dose (float >= 0)
+        """
+        pass
+
+#    @dose.setter
+#    @abstractmethod
+#    def dose(self, val: float):
+#        pass
+
+    '''
+    ---- Methods
+    '''
+    def set_dose(self: T, dose: float) -> T:
+        """
+        Set the dose
+
+        Args:
+            dose: new value for dose
+
+        Returns:
+            self
+        """
+        pass
+
+
+class DoseableImpl(Doseable, metaclass=ABCMeta):
+    """
+    Simple implementation of Doseable
+    """
+    __slots__ = ()
+
+    _dose: float
+    """ Dose """
+
+    '''
+    ---- Non-abstract properties
+    '''
+    @property
+    def dose(self) -> float:
+        return self._dose
+
+    @dose.setter
+    def dose(self, val: float):
+        if not val >= 0:
+            raise MasqueError('Dose must be non-negative')
+        self._dose = val
+
+    '''
+    ---- Non-abstract methods
+    '''
+    def set_dose(self: I, dose: float) -> I:
+        self.dose = dose
+        return self

masque/traits/layerable.py

@@ -1,21 +1,21 @@
-from typing import Self
+from typing import TypeVar
 from abc import ABCMeta, abstractmethod
 
 from ..utils import layer_t
 
 
-_empty_slots = ()     # Workaround to get mypy to ignore intentionally empty slots for superclass
+T = TypeVar('T', bound='Layerable')
+I = TypeVar('I', bound='LayerableImpl')
 
 
 class Layerable(metaclass=ABCMeta):
     """
-    Trait class for all layerable entities
+    Abstract class for all layerable entities
     """
     __slots__ = ()
-
-    #
-    # Properties
-    #
+    '''
+    ---- Properties
+    '''
     @property
     @abstractmethod
     def layer(self) -> layer_t:
@@ -29,11 +29,10 @@ class Layerable(metaclass=ABCMeta):
 #    def layer(self, val: layer_t):
 #        pass
 
-    #
-    # Methods
-    #
-    @abstractmethod
-    def set_layer(self, layer: layer_t) -> Self:
+    '''
+    ---- Methods
+    '''
+    def set_layer(self: T, layer: layer_t) -> T:
         """
         Set the layer
 
@@ -50,25 +49,25 @@ class LayerableImpl(Layerable, metaclass=ABCMeta):
     """
     Simple implementation of Layerable
     """
-    __slots__ = _empty_slots
+    __slots__ = ()
 
     _layer: layer_t
     """ Layer number, pair, or name """
 
-    #
-    # Non-abstract properties
-    #
+    '''
+    ---- Non-abstract properties
+    '''
     @property
     def layer(self) -> layer_t:
         return self._layer
 
     @layer.setter
-    def layer(self, val: layer_t) -> None:
+    def layer(self, val: layer_t):
         self._layer = val
 
-    #
-    # Non-abstract methods
-    #
-    def set_layer(self, layer: layer_t) -> Self:
+    '''
+    ---- Non-abstract methods
+    '''
+    def set_layer(self: I, layer: layer_t) -> I:
         self.layer = layer
         return self

masque/traits/lockable.py

@@ -0,0 +1,103 @@
+from typing import TypeVar, Dict, Tuple, Any
+from abc import ABCMeta, abstractmethod
+
+from ..error import PatternLockedError
+
+
+T = TypeVar('T', bound='Lockable')
+I = TypeVar('I', bound='LockableImpl')
+
+
+class Lockable(metaclass=ABCMeta):
+    """
+    Abstract class for all lockable entities
+    """
+    __slots__ = ()      # type: Tuple[str, ...]
+
+    '''
+    ---- Methods
+    '''
+    @abstractmethod
+    def lock(self: T) -> T:
+        """
+        Lock the object, disallowing further changes
+
+        Returns:
+            self
+        """
+        pass
+
+    @abstractmethod
+    def unlock(self: T) -> T:
+        """
+        Unlock the object, reallowing changes
+
+        Returns:
+            self
+        """
+        pass
+
+    @abstractmethod
+    def is_locked(self) -> bool:
+        """
+        Returns:
+            True if the object is locked
+        """
+        pass
+
+    def set_locked(self: T, locked: bool) -> T:
+        """
+        Locks or unlocks based on the argument.
+        No action if already in the requested state.
+
+        Args:
+            locked: State to set.
+
+        Returns:
+            self
+        """
+        if locked != self.is_locked():
+            if locked:
+                self.lock()
+            else:
+                self.unlock()
+        return self
+
+
+class LockableImpl(Lockable, metaclass=ABCMeta):
+    """
+    Simple implementation of Lockable
+    """
+    __slots__ = ()      # type: Tuple[str, ...]
+
+    locked: bool
+    """ If `True`, disallows changes to the object """
+
+    '''
+    ---- Non-abstract methods
+    '''
+    def __setattr__(self, name, value):
+        if self.locked and name != 'locked':
+            raise PatternLockedError()
+        object.__setattr__(self, name, value)
+
+    def __getstate__(self) -> Dict[str, Any]:
+        if hasattr(self, '__slots__'):
+            return {key: getattr(self, key) for key in self.__slots__}
+        else:
+            return self.__dict__
+
+    def __setstate__(self, state: Dict[str, Any]) -> None:
+        for k, v in state.items():
+            object.__setattr__(self, k, v)
+
+    def lock(self: I) -> I:
+        object.__setattr__(self, 'locked', True)
+        return self
+
+    def unlock(self: I) -> I:
+        object.__setattr__(self, 'locked', False)
+        return self
+
+    def is_locked(self) -> bool:
+        return self.locked

masque/traits/mirrorable.py

@@ -1,15 +1,22 @@
-from typing import Self
+from typing import TypeVar, Tuple
 from abc import ABCMeta, abstractmethod
 
 
+T = TypeVar('T', bound='Mirrorable')
+#I = TypeVar('I', bound='MirrorableImpl')
+
+
 class Mirrorable(metaclass=ABCMeta):
     """
-    Trait class for all mirrorable entities
+    Abstract class for all mirrorable entities
     """
     __slots__ = ()
 
+    '''
+    ---- Abstract methods
+    '''
     @abstractmethod
-    def mirror(self, axis: int = 0) -> Self:
+    def mirror(self: T, axis: int) -> T:
         """
         Mirror the entity across an axis.
 
@@ -21,7 +28,7 @@ class Mirrorable(metaclass=ABCMeta):
         """
         pass
 
-    def mirror2d(self, across_x: bool = False, across_y: bool = False) -> Self:
+    def mirror2d(self: T, axes: Tuple[bool, bool]) -> T:
         """
         Optionally mirror the entity across both axes
 
@@ -31,9 +38,9 @@ class Mirrorable(metaclass=ABCMeta):
         Returns:
             self
         """
-        if across_x:
+        if axes[0]:
             self.mirror(0)
-        if across_y:
+        if axes[1]:
             self.mirror(1)
         return self
 
@@ -44,24 +51,24 @@ class Mirrorable(metaclass=ABCMeta):
 #    """
 #    __slots__ = ()
 #
-#    _mirrored: NDArray[numpy.bool]
+#    _mirrored: numpy.ndarray        # ndarray[bool]
 #    """ Whether to mirror the instance across the x and/or y axes. """
 #
-#    #
-#    # Properties
-#    #
+#    '''
+#    ---- Properties
+#    '''
 #    # Mirrored property
 #    @property
-#    def mirrored(self) -> NDArray[numpy.bool]:
+#    def mirrored(self) -> numpy.ndarray:        # ndarray[bool]
 #        """ Whether to mirror across the [x, y] axes, respectively """
 #        return self._mirrored
 #
 #    @mirrored.setter
-#    def mirrored(self, val: Sequence[bool]) -> None:
+#    def mirrored(self, val: Sequence[bool]):
 #        if is_scalar(val):
 #            raise MasqueError('Mirrored must be a 2-element list of booleans')
-#        self._mirrored = numpy.array(val, dtype=bool)
+#        self._mirrored = numpy.array(val, dtype=bool, copy=True)
 #
-#    #
-#    # Methods
-#    #
+#    '''
+#    ---- Methods
+#    '''

masque/traits/positionable.py

@@ -1,4 +1,6 @@
-from typing import Self, Any
+# TODO top-level comment about how traits should set __slots__ = (), and how to use AutoSlots
+
+from typing import TypeVar, Any, Optional
 from abc import ABCMeta, abstractmethod
 
 import numpy
@@ -7,18 +9,19 @@ from numpy.typing import NDArray, ArrayLike
 from ..error import MasqueError
 
 
-_empty_slots = ()     # Workaround to get mypy to ignore intentionally empty slots for superclass
+T = TypeVar('T', bound='Positionable')
+I = TypeVar('I', bound='PositionableImpl')
 
 
 class Positionable(metaclass=ABCMeta):
     """
-    Trait class for all positionable entities
+    Abstract class for all positionable entities
     """
     __slots__ = ()
 
-    #
-    # Properties
-    #
+    '''
+    ---- Abstract properties
+    '''
     @property
     @abstractmethod
     def offset(self) -> NDArray[numpy.float64]:
@@ -27,13 +30,13 @@ class Positionable(metaclass=ABCMeta):
         """
         pass
 
-    @offset.setter
-    @abstractmethod
-    def offset(self, val: ArrayLike) -> None:
-        pass
+#    @offset.setter
+#    @abstractmethod
+#    def offset(self, val: ArrayLike):
+#        pass
 
     @abstractmethod
-    def set_offset(self, offset: ArrayLike) -> Self:
+    def set_offset(self: T, offset: ArrayLike) -> T:
         """
         Set the offset
 
@@ -46,7 +49,7 @@ class Positionable(metaclass=ABCMeta):
         pass
 
     @abstractmethod
-    def translate(self, offset: ArrayLike) -> Self:
+    def translate(self: T, offset: ArrayLike) -> T:
         """
         Translate the entity by the given offset
 
@@ -58,22 +61,41 @@ class Positionable(metaclass=ABCMeta):
         """
         pass
 
+    @abstractmethod
+    def get_bounds(self) -> Optional[NDArray[numpy.float64]]:
+        """
+        Returns `[[x_min, y_min], [x_max, y_max]]` which specify a minimal bounding box for the entity.
+        Returns `None` for an empty entity.
+        """
+        pass
+
+    def get_bounds_nonempty(self) -> NDArray[numpy.float64]:
+        """
+        Returns `[[x_min, y_min], [x_max, y_max]]` which specify a minimal bounding box for the entity.
+        Asserts that the entity is non-empty (i.e., `get_bounds()` does not return None).
+
+        This is handy for destructuring like `xy_min, xy_max = entity.get_bounds_nonempty()`
+        """
+        bounds = self.get_bounds()
+        assert(bounds is not None)
+        return bounds
+
 
 class PositionableImpl(Positionable, metaclass=ABCMeta):
     """
     Simple implementation of Positionable
     """
-    __slots__ = _empty_slots
+    __slots__ = ()
 
     _offset: NDArray[numpy.float64]
     """ `[x_offset, y_offset]` """
 
-    #
-    # Properties
-    #
+    '''
+    ---- Properties
+    '''
     # offset property
     @property
-    def offset(self) -> Any:  # mypy#3004  NDArray[numpy.float64]:
+    def offset(self) -> Any:  #TODO mypy#3003  NDArray[numpy.float64]:
         """
         [x, y] offset
         """
@@ -81,42 +103,40 @@ class PositionableImpl(Positionable, metaclass=ABCMeta):
 
     @offset.setter
     def offset(self, val: ArrayLike) -> None:
-        val = numpy.array(val, dtype=float)
+        if not isinstance(val, numpy.ndarray) or val.dtype != numpy.float64:
+            val = numpy.array(val, dtype=float)
 
         if val.size != 2:
             raise MasqueError('Offset must be convertible to size-2 ndarray')
         self._offset = val.flatten()
 
-    #
-    # Methods
-    #
-    def set_offset(self, offset: ArrayLike) -> Self:
+    '''
+    ---- Methods
+    '''
+    def set_offset(self: I, offset: ArrayLike) -> I:
         self.offset = offset
         return self
 
-    def translate(self, offset: ArrayLike) -> Self:
+    def translate(self: I, offset: ArrayLike) -> I:
         self._offset += offset   # type: ignore         # NDArray += ArrayLike should be fine??
         return self
 
-
-class Bounded(metaclass=ABCMeta):
-    @abstractmethod
-    def get_bounds(self, *args, **kwargs) -> NDArray[numpy.float64] | None:
+    def _lock(self: I) -> I:
         """
-        Returns `[[x_min, y_min], [x_max, y_max]]` which specify a minimal bounding box for the entity.
-        Returns `None` for an empty entity.
+        Lock the entity, disallowing further changes
+
+        Returns:
+            self
         """
-        pass
+        self._offset.flags.writeable = False
+        return self
 
-    def get_bounds_nonempty(self, *args, **kwargs) -> NDArray[numpy.float64]:
+    def _unlock(self: I) -> I:
         """
-        Returns `[[x_min, y_min], [x_max, y_max]]` which specify a minimal bounding box for the entity.
-        Asserts that the entity is non-empty (i.e., `get_bounds()` does not return None).
+        Unlock the entity
 
-        This is handy for destructuring like `xy_min, xy_max = entity.get_bounds_nonempty()`
+        Returns:
+            self
         """
-        bounds = self.get_bounds(*args, **kwargs)
-        assert bounds is not None
-        return bounds
-
-
+        self._offset.flags.writeable = True
+        return self

masque/traits/repeatable.py

@@ -1,32 +1,29 @@
-from typing import Self, TYPE_CHECKING
+from typing import TypeVar, Optional, TYPE_CHECKING
 from abc import ABCMeta, abstractmethod
 
-import numpy
-from numpy.typing import NDArray
-
 from ..error import MasqueError
-from .positionable import Bounded
-
-
-_empty_slots = ()     # Workaround to get mypy to ignore intentionally empty slots for superclass
 
 
 if TYPE_CHECKING:
     from ..repetition import Repetition
 
 
+T = TypeVar('T', bound='Repeatable')
+I = TypeVar('I', bound='RepeatableImpl')
+
+
 class Repeatable(metaclass=ABCMeta):
     """
-    Trait class for all repeatable entities
+    Abstract class for all repeatable entities
     """
     __slots__ = ()
 
-    #
-    # Properties
-    #
+    '''
+    ---- Properties
+    '''
     @property
     @abstractmethod
-    def repetition(self) -> 'Repetition | None':
+    def repetition(self) -> Optional['Repetition']:
         """
         Repetition object, or None (single instance only)
         """
@@ -34,14 +31,14 @@ class Repeatable(metaclass=ABCMeta):
 
 #    @repetition.setter
 #    @abstractmethod
-#    def repetition(self, repetition: 'Repetition | None') -> None:
+#    def repetition(self, repetition: Optional['Repetition']):
 #        pass
 
-    #
-    # Methods
-    #
+    '''
+    ---- Methods
+    '''
     @abstractmethod
-    def set_repetition(self, repetition: 'Repetition | None') -> Self:
+    def set_repetition(self: T, repetition: Optional['Repetition']) -> T:
         """
         Set the repetition
 
@@ -54,57 +51,32 @@ class Repeatable(metaclass=ABCMeta):
         pass
 
 
-class RepeatableImpl(Repeatable, Bounded, metaclass=ABCMeta):
+class RepeatableImpl(Repeatable, metaclass=ABCMeta):
     """
-    Simple implementation of `Repeatable` and extension of `Bounded` to include repetition bounds.
+    Simple implementation of `Repeatable`
     """
-    __slots__ = _empty_slots
+    __slots__ = ()
 
-    _repetition: 'Repetition | None'
+    _repetition: Optional['Repetition']
     """ Repetition object, or None (single instance only) """
 
-    @abstractmethod
-    def get_bounds_single(self, *args, **kwargs) -> NDArray[numpy.float64] | None:
-        pass
-
-    #
-    # Non-abstract properties
-    #
+    '''
+    ---- Non-abstract properties
+    '''
     @property
-    def repetition(self) -> 'Repetition | None':
+    def repetition(self) -> Optional['Repetition']:
         return self._repetition
 
     @repetition.setter
-    def repetition(self, repetition: 'Repetition | None') -> None:
+    def repetition(self, repetition: Optional['Repetition']):
         from ..repetition import Repetition
         if repetition is not None and not isinstance(repetition, Repetition):
             raise MasqueError(f'{repetition} is not a valid Repetition object!')
         self._repetition = repetition
 
-    #
-    # Non-abstract methods
-    #
-    def set_repetition(self, repetition: 'Repetition | None') -> Self:
+    '''
+    ---- Non-abstract methods
+    '''
+    def set_repetition(self: I, repetition: Optional['Repetition']) -> I:
         self.repetition = repetition
         return self
-
-    def get_bounds_single_nonempty(self, *args, **kwargs) -> NDArray[numpy.float64]:
-        """
-        Returns `[[x_min, y_min], [x_max, y_max]]` which specify a minimal bounding box for the entity.
-        Asserts that the entity is non-empty (i.e., `get_bounds()` does not return None).
-
-        This is handy for destructuring like `xy_min, xy_max = entity.get_bounds_nonempty()`
-        """
-        bounds = self.get_bounds_single(*args, **kwargs)
-        assert bounds is not None
-        return bounds
-
-    def get_bounds(self, *args, **kwargs) -> NDArray[numpy.float64] | None:
-        bounds = self.get_bounds_single(*args, **kwargs)
-
-        if bounds is not None and self.repetition is not None:
-            rep_bounds = self.repetition.get_bounds()
-            if rep_bounds is None:
-                return None
-            bounds += rep_bounds
-        return bounds

masque/traits/rotatable.py

@@ -1,29 +1,31 @@
-from typing import Self, cast, Any
+from typing import TypeVar
 from abc import ABCMeta, abstractmethod
 
 import numpy
 from numpy import pi
-from numpy.typing import ArrayLike
+from numpy.typing import ArrayLike, NDArray
 
-from .positionable import Positionable
+#from .positionable import Positionable
 from ..error import MasqueError
-from ..utils import rotation_matrix_2d
+from ..utils import is_scalar, rotation_matrix_2d
 
-
-_empty_slots = ()     # Workaround to get mypy to ignore intentionally empty slots for superclass
+T = TypeVar('T', bound='Rotatable')
+I = TypeVar('I', bound='RotatableImpl')
+P = TypeVar('P', bound='Pivotable')
+J = TypeVar('J', bound='PivotableImpl')
 
 
 class Rotatable(metaclass=ABCMeta):
     """
-    Trait class for all rotatable entities
+    Abstract class for all rotatable entities
     """
     __slots__ = ()
 
-    #
-    # Methods
-    #
+    '''
+    ---- Abstract methods
+    '''
     @abstractmethod
-    def rotate(self, val: float) -> Self:
+    def rotate(self: T, val: float) -> T:
         """
         Rotate the shape around its origin (0, 0), ignoring its offset.
 
@@ -40,33 +42,33 @@ class RotatableImpl(Rotatable, metaclass=ABCMeta):
     """
     Simple implementation of `Rotatable`
     """
-    __slots__ = _empty_slots
+    __slots__ = ()
 
     _rotation: float
     """ rotation for the object, radians counterclockwise """
 
-    #
-    # Properties
-    #
+    '''
+    ---- Properties
+    '''
     @property
     def rotation(self) -> float:
         """ Rotation, radians counterclockwise """
         return self._rotation
 
     @rotation.setter
-    def rotation(self, val: float) -> None:
+    def rotation(self, val: float):
         if not numpy.size(val) == 1:
             raise MasqueError('Rotation must be a scalar')
         self._rotation = val % (2 * pi)
 
-    #
-    # Methods
-    #
-    def rotate(self, rotation: float) -> Self:
+    '''
+    ---- Methods
+    '''
+    def rotate(self: I, rotation: float) -> I:
         self.rotation += rotation
         return self
 
-    def set_rotation(self, rotation: float) -> Self:
+    def set_rotation(self: I, rotation: float) -> I:
         """
         Set the rotation to a value
 
@@ -82,13 +84,13 @@ class RotatableImpl(Rotatable, metaclass=ABCMeta):
 
 class Pivotable(metaclass=ABCMeta):
     """
-    Trait class for entites which can be rotated around a point.
+    Abstract class for entites which can be rotated around a point.
     This requires that they are `Positionable` but not necessarily `Rotatable` themselves.
     """
     __slots__ = ()
 
     @abstractmethod
-    def rotate_around(self, pivot: ArrayLike, rotation: float) -> Self:
+    def rotate_around(self: P, pivot: ArrayLike, rotation: float) -> P:
         """
         Rotate the object around a point.
 
@@ -108,14 +110,11 @@ class PivotableImpl(Pivotable, metaclass=ABCMeta):
     """
     __slots__ = ()
 
-    offset: Any         # TODO see if we can get around defining `offset` in  PivotableImpl
-    """ `[x_offset, y_offset]` """
-
-    def rotate_around(self, pivot: ArrayLike, rotation: float) -> Self:
-        pivot = numpy.asarray(pivot, dtype=float)
-        cast(Positionable, self).translate(-pivot)
-        cast(Rotatable, self).rotate(rotation)
-        self.offset = numpy.dot(rotation_matrix_2d(rotation), self.offset)      # type: ignore # mypy#3004
-        cast(Positionable, self).translate(+pivot)
+    def rotate_around(self: J, pivot: ArrayLike, rotation: float) -> J:
+        pivot = numpy.array(pivot, dtype=float)
+        self.translate(-pivot)
+        self.rotate(rotation)
+        self.offset = numpy.dot(rotation_matrix_2d(rotation), self.offset)      #type: ignore #TODO: mypy#3004
+        self.translate(+pivot)
         return self
 

masque/traits/scalable.py

@@ -1,24 +1,25 @@
-from typing import Self
+from typing import TypeVar
 from abc import ABCMeta, abstractmethod
 
 from ..error import MasqueError
 from ..utils import is_scalar
 
 
-_empty_slots = ()     # Workaround to get mypy to ignore intentionally empty slots for superclass
+T = TypeVar('T', bound='Scalable')
+I = TypeVar('I', bound='ScalableImpl')
 
 
 class Scalable(metaclass=ABCMeta):
     """
-    Trait class for all scalable entities
+    Abstract class for all scalable entities
     """
     __slots__ = ()
 
-    #
-    # Methods
-    #
+    '''
+    ---- Abstract methods
+    '''
     @abstractmethod
-    def scale_by(self, c: float) -> Self:
+    def scale_by(self: T, c: float) -> T:
         """
         Scale the entity by a factor
 
@@ -35,34 +36,34 @@ class ScalableImpl(Scalable, metaclass=ABCMeta):
     """
     Simple implementation of Scalable
     """
-    __slots__ = _empty_slots
+    __slots__ = ()
 
     _scale: float
     """ scale factor for the entity """
 
-    #
-    # Properties
-    #
+    '''
+    ---- Properties
+    '''
     @property
     def scale(self) -> float:
         return self._scale
 
     @scale.setter
-    def scale(self, val: float) -> None:
+    def scale(self, val: float):
         if not is_scalar(val):
             raise MasqueError('Scale must be a scalar')
         if not val > 0:
             raise MasqueError('Scale must be positive')
         self._scale = val
 
-    #
-    # Methods
-    #
-    def scale_by(self, c: float) -> Self:
+    '''
+    ---- Methods
+    '''
+    def scale_by(self: I, c: float) -> I:
         self.scale *= c
         return self
 
-    def set_scale(self, scale: float) -> Self:
+    def set_scale(self: I, scale: float) -> I:
         """
         Set the sclae to a value
 

masque/utils.py

@@ -0,0 +1,165 @@
+"""
+Various helper functions
+"""
+from typing import Any, Union, Tuple, Sequence, Dict, List
+from abc import ABCMeta
+
+import numpy
+from numpy.typing import NDArray, ArrayLike
+
+
+# Type definitions
+layer_t = Union[int, Tuple[int, int], str]
+annotations_t = Dict[str, List[Union[int, float, str]]]
+
+
+def is_scalar(var: Any) -> bool:
+    """
+    Alias for 'not hasattr(var, "__len__")'
+
+    Args:
+        var: Checks if `var` has a length.
+    """
+    return not hasattr(var, "__len__")
+
+
+def get_bit(bit_string: Any, bit_id: int) -> bool:
+    """
+    Interprets bit number `bit_id` from the right (lsb) of `bit_string` as a boolean
+
+    Args:
+        bit_string: Bit string to test
+        bit_id: Bit number, 0-indexed from the right (lsb)
+
+    Returns:
+        Boolean value of the requested bit
+    """
+    return bit_string & (1 << bit_id) != 0
+
+
+def set_bit(bit_string: Any, bit_id: int, value: bool) -> Any:
+    """
+    Returns `bit_string`, with bit number `bit_id` set to boolean `value`.
+
+    Args:
+        bit_string: Bit string to alter
+        bit_id: Bit number, 0-indexed from right (lsb)
+        value: Boolean value to set bit to
+
+    Returns:
+        Altered `bit_string`
+    """
+    mask = (1 << bit_id)
+    bit_string &= ~mask
+    if value:
+        bit_string |= mask
+    return bit_string
+
+
+def rotation_matrix_2d(theta: float) -> NDArray[numpy.float64]:
+    """
+    2D rotation matrix for rotating counterclockwise around the origin.
+
+    Args:
+        theta: Angle to rotate, in radians
+
+    Returns:
+        rotation matrix
+    """
+    return numpy.array([[numpy.cos(theta), -numpy.sin(theta)],
+                        [numpy.sin(theta), +numpy.cos(theta)]])
+
+
+def normalize_mirror(mirrored: Sequence[bool]) -> Tuple[bool, float]:
+    """
+    Converts 0-2 mirror operations `(mirror_across_x_axis, mirror_across_y_axis)`
+    into 0-1 mirror operations and a rotation
+
+    Args:
+        mirrored: `(mirror_across_x_axis, mirror_across_y_axis)`
+
+    Returns:
+        `mirror_across_x_axis` (bool) and
+        `angle_to_rotate` in radians
+    """
+
+    mirrored_x, mirrored_y = mirrored
+    mirror_x = (mirrored_x != mirrored_y)  # XOR
+    angle = numpy.pi if mirrored_y else 0
+    return mirror_x, angle
+
+
+def remove_duplicate_vertices(vertices: ArrayLike, closed_path: bool = True) -> NDArray[numpy.float64]:
+    """
+    Given a list of vertices, remove any consecutive duplicates.
+
+    Args:
+        vertices: `[[x0, y0], [x1, y1], ...]`
+        closed_path: If True, `vertices` is interpreted as an implicity-closed path
+            (i.e. the last vertex will be removed if it is the same as the first)
+
+    Returns:
+        `vertices` with no consecutive duplicates.
+    """
+    vertices = numpy.array(vertices)
+    duplicates = (vertices == numpy.roll(vertices, 1, axis=0)).all(axis=1)
+    if not closed_path:
+        duplicates[0] = False
+    return vertices[~duplicates]
+
+
+def remove_colinear_vertices(vertices: ArrayLike, closed_path: bool = True) -> NDArray[numpy.float64]:
+    """
+    Given a list of vertices, remove any superflous vertices (i.e.
+        those which lie along the line formed by their neighbors)
+
+    Args:
+        vertices: Nx2 ndarray of vertices
+        closed_path: If `True`, the vertices are assumed to represent an implicitly
+           closed path. If `False`, the path is assumed to be open. Default `True`.
+
+    Returns:
+        `vertices` with colinear (superflous) vertices removed.
+    """
+    vertices = remove_duplicate_vertices(vertices)
+
+    # Check for dx0/dy0 == dx1/dy1
+
+    dv = numpy.roll(vertices, -1, axis=0) - vertices  # [y1-y0, y2-y1, ...]
+    dxdy = dv * numpy.roll(dv, 1, axis=0)[:, ::-1]    # [[dx0*(dy_-1), (dx_-1)*dy0], dx1*dy0, dy1*dx0]]
+
+    dxdy_diff = numpy.abs(numpy.diff(dxdy, axis=1))[:, 0]
+    err_mult = 2 * numpy.abs(dxdy).sum(axis=1) + 1e-40
+
+    slopes_equal = (dxdy_diff / err_mult) < 1e-15
+    if not closed_path:
+        slopes_equal[[0, -1]] = False
+
+    return vertices[~slopes_equal]
+
+
+class AutoSlots(ABCMeta):
+    """
+    Metaclass for automatically generating __slots__ based on superclass type annotations.
+
+    Superclasses must set `__slots__ = ()` to make this work properly.
+
+    This is a workaround for the fact that non-empty `__slots__` can't be used
+    with multiple inheritance. Since we only use multiple inheritance with abstract
+    classes, they can have empty `__slots__` and their attribute type annotations
+    can be used to generate a full `__slots__` for the concrete class.
+    """
+    def __new__(cls, name, bases, dctn):
+        parents = set()
+        for base in bases:
+            parents |= set(base.mro())
+
+        slots = tuple(dctn.get('__slots__', tuple()))
+        for parent in parents:
+            if not hasattr(parent, '__annotations__'):
+                continue
+            slots += tuple(getattr(parent, '__annotations__').keys())
+
+        dctn['__slots__'] = slots
+        return super().__new__(cls, name, bases, dctn)
+

masque/utils/__init__.py

@@ -1,41 +1,15 @@
 """
 Various helper functions, type definitions, etc.
 """
-from .types import (
-    layer_t as layer_t,
-    annotations_t as annotations_t,
-    SupportsBool as SupportsBool,
-    )
-from .array import is_scalar as is_scalar
-from .autoslots import AutoSlots as AutoSlots
-from .deferreddict import DeferredDict as DeferredDict
-from .decorators import oneshot as oneshot
+from .types import layer_t, annotations_t
 
-from .bitwise import (
-    get_bit as get_bit,
-    set_bit as set_bit,
-    )
+from .array import is_scalar
+from .autoslots import AutoSlots
+
+from .bitwise import get_bit, set_bit
 from .vertices import (
-    remove_duplicate_vertices as remove_duplicate_vertices,
-    remove_colinear_vertices as remove_colinear_vertices,
-    poly_contains_points as poly_contains_points,
-    )
-from .transform import (
-    rotation_matrix_2d as rotation_matrix_2d,
-    normalize_mirror as normalize_mirror,
-    rotate_offsets_around as rotate_offsets_around,
-    apply_transforms as apply_transforms,
-    )
-from .comparisons import (
-    annotation2key as annotation2key,
-    annotations_lt as annotations_lt,
-    annotations_eq as annotations_eq,
-    layer2key as layer2key,
-    ports_lt as ports_lt,
-    ports_eq as ports_eq,
-    rep2key as rep2key,
+    remove_duplicate_vertices, remove_colinear_vertices, poly_contains_points
     )
+from .transform import rotation_matrix_2d, normalize_mirror
 
-from . import ports2data as ports2data
-
-from . import pack2d as pack2d
+#from . import pack2d

masque/utils/autoslots.py

@@ -12,16 +12,16 @@ class AutoSlots(ABCMeta):
     classes, they can have empty `__slots__` and their attribute type annotations
     can be used to generate a full `__slots__` for the concrete class.
     """
-    def __new__(cls, name, bases, dctn):        # noqa: ANN001,ANN204
+    def __new__(cls, name, bases, dctn):
         parents = set()
         for base in bases:
             parents |= set(base.mro())
 
-        slots = tuple(dctn.get('__slots__', ()))
+        slots = tuple(dctn.get('__slots__', tuple()))
         for parent in parents:
             if not hasattr(parent, '__annotations__'):
                 continue
-            slots += tuple(parent.__annotations__.keys())
+            slots += tuple(getattr(parent, '__annotations__').keys())
 
         dctn['__slots__'] = slots
         return super().__new__(cls, name, bases, dctn)

masque/utils/comparisons.py

@@ -1,106 +0,0 @@
-from typing import Any
-
-from .types import annotations_t, layer_t
-from ..ports import Port
-from ..repetition import Repetition
-
-
-def annotation2key(aaa: int | float | str) -> tuple[bool, Any]:
-    return (isinstance(aaa, str), aaa)
-
-
-def annotations_lt(aa: annotations_t, bb: annotations_t) -> bool:
-    if aa is None:
-        return bb is not None
-    elif bb is None:            # noqa: RET505
-        return False
-
-    if len(aa) != len(bb):
-        return len(aa) < len(bb)
-
-    keys_a = tuple(sorted(aa.keys()))
-    keys_b = tuple(sorted(bb.keys()))
-    if keys_a != keys_b:
-        return keys_a < keys_b
-
-    for key in keys_a:
-        va = aa[key]
-        vb = bb[key]
-        if len(va) != len(vb):
-            return len(va) < len(vb)
-
-        for aaa, bbb in zip(va, vb, strict=True):
-            if aaa != bbb:
-                return annotation2key(aaa) < annotation2key(bbb)
-    return False
-
-
-def annotations_eq(aa: annotations_t, bb: annotations_t) -> bool:
-    if aa is None:
-        return bb is None
-    elif bb is None:            # noqa: RET505
-        return False
-
-    if len(aa) != len(bb):
-        return False
-
-    keys_a = tuple(sorted(aa.keys()))
-    keys_b = tuple(sorted(bb.keys()))
-    if keys_a != keys_b:
-        return keys_a < keys_b
-
-    for key in keys_a:
-        va = aa[key]
-        vb = bb[key]
-        if len(va) != len(vb):
-            return False
-
-        for aaa, bbb in zip(va, vb, strict=True):
-            if aaa != bbb:
-                return False
-
-    return True
-
-
-def layer2key(layer: layer_t) -> tuple[bool, bool, Any]:
-    is_int = isinstance(layer, int)
-    is_str = isinstance(layer, str)
-    layer_tup = (layer) if (is_str or is_int) else layer
-    tup = (
-        is_str,
-        not is_int,
-        layer_tup,
-        )
-    return tup
-
-
-def rep2key(repetition: Repetition | None) -> tuple[bool, Repetition | None]:
-    return (repetition is None, repetition)
-
-
-def ports_eq(aa: dict[str, Port], bb: dict[str, Port]) -> bool:
-    if len(aa) != len(bb):
-        return False
-
-    keys = sorted(aa.keys())
-    if keys != sorted(bb.keys()):
-        return False
-
-    return all(aa[kk] == bb[kk] for kk in keys)
-
-
-def ports_lt(aa: dict[str, Port], bb: dict[str, Port]) -> bool:
-    if len(aa) != len(bb):
-        return len(aa) < len(bb)
-
-    aa_keys = tuple(sorted(aa.keys()))
-    bb_keys = tuple(sorted(bb.keys()))
-    if aa_keys != bb_keys:
-        return aa_keys < bb_keys
-
-    for key in aa_keys:
-        pa = aa[key]
-        pb = bb[key]
-        if pa != pb:
-            return pa < pb
-    return False

masque/utils/decorators.py

@@ -1,21 +0,0 @@
-from collections.abc import Callable
-from functools import wraps
-
-from ..error import OneShotError
-
-
-def oneshot(func: Callable) -> Callable:
-    """
-    Raises a OneShotError if the decorated function is called more than once
-    """
-    expired = False
-
-    @wraps(func)
-    def wrapper(*args, **kwargs):       # noqa: ANN202
-        nonlocal expired
-        if expired:
-            raise OneShotError(func.__name__)
-        expired = True
-        return func(*args, **kwargs)
-
-    return wrapper

masque/utils/pack2d.py

@@ -1,13 +1,37 @@
 """
 2D bin-packing
 """
-from collections.abc import Sequence, Mapping, Callable
+from typing import Tuple, List, Set, Sequence, Callable
 
 import numpy
 from numpy.typing import NDArray, ArrayLike
 
 from ..error import MasqueError
 from ..pattern import Pattern
+from ..subpattern import SubPattern
+
+
+def pack_patterns(patterns: Sequence[Pattern],
+                  regions: numpy.ndarray,
+                  spacing: Tuple[float, float],
+                  presort: bool = True,
+                  allow_rejects: bool = True,
+                  packer: Callable = maxrects_bssf,
+                  ) -> Tuple[Pattern, List[Pattern]]:
+    half_spacing = numpy.array(spacing) / 2
+
+    bounds = [pp.get_bounds() for pp in patterns]
+    sizes = [bb[1] - bb[0] + spacing if bb is not None else spacing for bb in bounds]
+    offsets = [half_spacing - bb[0] if bb is not None else (0, 0) for bb in bounds]
+
+    locations, reject_inds = packer(sizes, regions, presort=presort, allow_rejects=allow_rejects)
+
+    pat = Pattern()
+    pat.subpatterns = [SubPattern(pp, offset=oo + loc)
+                       for pp, oo, loc in zip(patterns, offsets, locations)]
+
+    rejects = [patterns[ii] for ii in reject_inds]
+    return pat, rejects
 
 
 def maxrects_bssf(
@@ -15,36 +39,18 @@ def maxrects_bssf(
         containers: ArrayLike,
         presort: bool = True,
         allow_rejects: bool = True,
-        ) -> tuple[NDArray[numpy.float64], set[int]]:
+        ) -> Tuple[NDArray[numpy.float64], Set[int]]:
     """
-    Pack rectangles `rects` into regions `containers` using the "maximal rectangles best short side fit"
-    algorithm (maxrects_bssf) from "A thousand ways to pack the bin", Jukka Jylanki, 2010.
-
-    This algorithm gives the best results, but is asymptotically slower than `guillotine_bssf_sas`.
-
-    Args:
-        rects: Nx2 array of rectangle sizes `[[x_size0, y_size0], ...]`.
-        containers: Mx4 array of regions into which `rects` will be placed, specified using their
-            corner coordinates ` [[x_min0, y_min0, x_max0, y_max0], ...]`.
-        presort: If `True` (default), largest-shortest-side rectangles will be placed
-            first. Otherwise, they will be placed in the order provided.
-        allow_rejects: If `False`, `MasqueError` will be raised if any rectangle cannot be placed.
-
-    Returns:
-        `[[x_min0, y_min0], ...]` placement locations for `rects`, with the same ordering.
-        The second argument is a set of indicies of `rects` entries which were rejected; their
-        corresponding placement locations should be ignored.
-
-    Raises:
-        MasqueError if `allow_rejects` is `True` but some `rects` could not be placed.
+    sizes should be Nx2
+    regions should be Mx4 (xmin, ymin, xmax, ymax)
     """
-    regions = numpy.asarray(containers, dtype=float)
-    rect_sizes = numpy.asarray(rects, dtype=float)
+    regions = numpy.array(containers, copy=False, dtype=float)
+    rect_sizes = numpy.array(rects, copy=False, dtype=float)
     rect_locs = numpy.zeros_like(rect_sizes)
     rejected_inds = set()
 
     if presort:
-        rotated_sizes = numpy.sort(rect_sizes, axis=1)  # shortest side first
+        rotated_sizes = numpy.sort(rect_sizes, axis=0)  # shortest side first
         rect_order = numpy.lexsort(rotated_sizes.T)[::-1]  # Descending shortest side
         rect_sizes = rect_sizes[rect_order]
 
@@ -62,15 +68,15 @@ def maxrects_bssf(
 
         ''' Place the rect '''
         # Best short-side fit (bssf) to pick a region
-        region_sizes = regions[:, 2:] - regions[:, :2]
-        bssf_scores = (region_sizes - rect_size).min(axis=1).astype(float)
+        bssf_scores = ((regions[:, 2:] - regions[:, :2]) - rect_size).min(axis=1).astype(float)
         bssf_scores[bssf_scores < 0] = numpy.inf        # doesn't fit!
         rr = bssf_scores.argmin()
         if numpy.isinf(bssf_scores[rr]):
             if allow_rejects:
                 rejected_inds.add(rect_ind)
                 continue
-            raise MasqueError(f'Failed to find a suitable location for rectangle {rect_ind}')
+            else:
+                raise MasqueError(f'Failed to find a suitable location for rectangle {rect_ind}')
 
         # Read out location
         loc = regions[rr, :2]
@@ -98,146 +104,62 @@ def maxrects_bssf(
         r_top[:, 1] = loc[1] + rect_size[1]
 
         regions = numpy.vstack((regions[~intersects], r_lft, r_bot, r_rgt, r_top))
-
-    if presort:
-        unsort_order = rect_order.argsort()
-        rect_locs = rect_locs[unsort_order]
-        rejected_inds = set(unsort_order[list(rejected_inds)])
-
     return rect_locs, rejected_inds
 
 
-def guillotine_bssf_sas(
-        rects: ArrayLike,
-        containers: ArrayLike,
-        presort: bool = True,
-        allow_rejects: bool = True,
-        ) -> tuple[NDArray[numpy.float64], set[int]]:
+def guillotine_bssf_sas(rect_sizes: numpy.ndarray,
+                        regions: numpy.ndarray,
+                        presort: bool = True,
+                        allow_rejects: bool = True,
+                        ) -> Tuple[numpy.ndarray, Set[int]]:
     """
-    Pack rectangles `rects` into regions `containers` using the "guillotine best short side fit with
-    shorter axis split rule" algorithm (guillotine-BSSF-SAS) from "A thousand ways to pack the bin",
-    Jukka Jylanki, 2010.
-
-    This algorithm gives the worse results than `maxrects_bssf`, but is asymptotically faster.
-
-    # TODO consider adding rectangle-merge?
-    # TODO guillotine could use some additional testing
-
-    Args:
-        rects: Nx2 array of rectangle sizes `[[x_size0, y_size0], ...]`.
-        containers: Mx4 array of regions into which `rects` will be placed, specified using their
-            corner coordinates ` [[x_min0, y_min0, x_max0, y_max0], ...]`.
-        presort: If `True` (default), largest-shortest-side rectangles will be placed
-            first. Otherwise, they will be placed in the order provided.
-        allow_rejects: If `False`, `MasqueError` will be raised if any rectangle cannot be placed.
-
-    Returns:
-        `[[x_min0, y_min0], ...]` placement locations for `rects`, with the same ordering.
-        The second argument is a set of indicies of `rects` entries which were rejected; their
-        corresponding placement locations should be ignored.
-
-    Raises:
-        MasqueError if `allow_rejects` is `True` but some `rects` could not be placed.
+    sizes should be Nx2
+    regions should be Mx4 (xmin, ymin, xmax, ymax)
+    #TODO: test me!
+    # TODO add rectangle-merge?
     """
-    regions = numpy.asarray(containers, dtype=float)
-    rect_sizes = numpy.asarray(rects, dtype=float)
+    rect_sizes = numpy.array(rect_sizes)
     rect_locs = numpy.zeros_like(rect_sizes)
     rejected_inds = set()
 
     if presort:
-        rotated_sizes = numpy.sort(rect_sizes, axis=1)  # shortest side first
+        rotated_sizes = numpy.sort(rect_sizes, axis=0)  # shortest side first
         rect_order = numpy.lexsort(rotated_sizes.T)[::-1]  # Descending shortest side
         rect_sizes = rect_sizes[rect_order]
 
     for rect_ind, rect_size in enumerate(rect_sizes):
         ''' Place the rect '''
         # Best short-side fit (bssf) to pick a region
-        region_sizes = regions[:, 2:] - regions[:, :2]
-        bssf_scores = (region_sizes - rect_size).min(axis=1).astype(float)
+        bssf_scores = ((regions[:, 2:] - regions[:, :2]) - rect_size).min(axis=1).astype(float)
         bssf_scores[bssf_scores < 0] = numpy.inf        # doesn't fit!
         rr = bssf_scores.argmin()
         if numpy.isinf(bssf_scores[rr]):
             if allow_rejects:
                 rejected_inds.add(rect_ind)
                 continue
-            raise MasqueError(f'Failed to find a suitable location for rectangle {rect_ind}')
+            else:
+                raise MasqueError(f'Failed to find a suitable location for rectangle {rect_ind}')
 
         # Read out location
         loc = regions[rr, :2]
         rect_locs[rect_ind] = loc
 
-        region_size = region_sizes[rr]
+        region_size = regions[rr, 2:] - loc
         split_horiz = region_size[0] < region_size[1]
 
         new_region0 = regions[rr].copy()
         new_region1 = new_region0.copy()
-        split_vertex = loc + rect_size
+        split_vert = loc + rect_size
         if split_horiz:
-            new_region0[2] = split_vertex[0]
-            new_region0[1] = split_vertex[1]
-            new_region1[0] = split_vertex[0]
+            new_region0[2] = split_vert[0]
+            new_region0[1] = split_vert[1]
+            new_region1[0] = split_vert[0]
         else:
-            new_region0[3] = split_vertex[1]
-            new_region0[0] = split_vertex[0]
-            new_region1[1] = split_vertex[1]
+            new_region0[3] = split_vert[1]
+            new_region0[0] = split_vert[0]
+            new_region1[1] = split_vert[1]
 
         regions = numpy.vstack((regions[:rr], regions[rr + 1:],
                                 new_region0, new_region1))
 
-    if presort:
-        unsort_order = rect_order.argsort()
-        rect_locs = rect_locs[unsort_order]
-        rejected_inds = set(unsort_order[list(rejected_inds)])
-
     return rect_locs, rejected_inds
-
-
-def pack_patterns(
-        library: Mapping[str, Pattern],
-        patterns: Sequence[str],
-        containers: ArrayLike,
-        spacing: tuple[float, float],
-        presort: bool = True,
-        allow_rejects: bool = True,
-        packer: Callable = maxrects_bssf,
-        ) -> tuple[Pattern, list[str]]:
-    """
-    Pick placement locations for `patterns` inside the regions specified by `containers`.
-    No rotations are performed.
-
-    Args:
-        library: Library from which `Pattern` objects will be drawn.
-        patterns: Sequence of pattern names which are to be placed.
-        containers: Mx4 array of regions into which `patterns` will be placed, specified using their
-            corner coordinates ` [[x_min0, y_min0, x_max0, y_max0], ...]`.
-        spacing: (x, y) spacing between adjacent patterns. Patterns are effectively expanded outwards
-            by `spacing / 2` prior to placement, so this also affects pattern position relative to
-            container edges.
-        presort: If `True` (default), largest-shortest-side rectangles will be placed
-            first. Otherwise, they will be placed in the order provided.
-        allow_rejects: If `False`, `MasqueError` will be raised if any rectangle cannot be placed.
-        packer: Bin-packing method; see the other functions in this module (namely `maxrects_bssf`
-            and `guillotine_bssf_sas`).
-
-    Returns:
-        A `Pattern` containing one `Ref` for each entry in `patterns`.
-        A list of "rejected" pattern names, for which a valid placement location could not be found.
-
-    Raises:
-        MasqueError if `allow_rejects` is `True` but some `rects` could not be placed.
-    """
-
-    half_spacing = numpy.asarray(spacing, dtype=float) / 2
-
-    bounds = [library[pp].get_bounds() for pp in patterns]
-    sizes = [bb[1] - bb[0] + spacing if bb is not None else spacing for bb in bounds]
-    offsets = [half_spacing - bb[0] if bb is not None else (0, 0) for bb in bounds]
-
-    locations, reject_inds = packer(sizes, containers, presort=presort, allow_rejects=allow_rejects)
-
-    pat = Pattern()
-    for pp, oo, loc in zip(patterns, offsets, locations, strict=True):
-        pat.ref(pp, offset=oo + loc)
-
-    rejects = [patterns[ii] for ii in reject_inds]
-    return pat, rejects

masque/utils/ports2data.py

@@ -1,178 +0,0 @@
-"""
-Functions for writing port data into Pattern geometry/annotations/labels (`ports_to_data`)
-and retrieving it (`data_to_ports`).
-
-  These use the format 'name:ptype angle_deg' written into labels, which are placed at
-the port locations. This particular approach is just a sensible default; feel free to
-to write equivalent functions for your own format or alternate storage methods.
-"""
-from collections.abc import Sequence, Mapping
-import logging
-from itertools import chain
-
-import numpy
-
-from ..pattern import Pattern
-from ..utils import layer_t
-from ..ports import Port
-from ..error import PatternError
-from ..library import ILibraryView, LibraryView
-
-
-logger = logging.getLogger(__name__)
-
-
-def ports_to_data(pattern: Pattern, layer: layer_t) -> Pattern:
-    """
-    Place a text label at each port location, specifying the port data in the format
-        'name:ptype angle_deg'
-
-    This can be used to debug port locations or to automatically generate ports
-      when reading in a GDS file.
-
-    NOTE that `pattern` is modified by this function
-
-    Args:
-        pattern: The pattern which is to have its ports labeled. MODIFIED in-place.
-        layer: The layer on which the labels will be placed.
-
-    Returns:
-        `pattern`
-    """
-    for name, port in pattern.ports.items():
-        if port.rotation is None:
-            angle_deg = numpy.inf
-        else:
-            angle_deg = numpy.rad2deg(port.rotation)
-        pattern.label(layer=layer, string=f'{name}:{port.ptype} {angle_deg:g}', offset=port.offset)
-    return pattern
-
-
-def data_to_ports(
-        layers: Sequence[layer_t],
-        library: Mapping[str, Pattern],
-        pattern: Pattern,               # Pattern is good since we don't want to do library[name] to avoid infinite recursion.
-                                        # LazyLibrary protects against library[ref.target] causing a circular lookup.
-                                        # For others, maybe check for cycles up front? TODO
-        name: str | None = None,     # Note: name optional, but arg order different from read(postprocess=)
-        max_depth: int = 0,
-        skip_subcells: bool = True,
-        # TODO missing ok?
-        ) -> Pattern:
-    """
-    # TODO fixup documentation in ports2data
-    # TODO move to utils.file?
-    Examine `pattern` for labels specifying port info, and use that info
-      to fill out its `ports` attribute.
-
-    Labels are assumed to be placed at the port locations, and have the format
-      'name:ptype angle_deg'
-
-    Args:
-        layers: Search for labels on all the given layers.
-        pattern: Pattern object to scan for labels.
-        max_depth: Maximum hierarcy depth to search. Default 999_999.
-            Reduce this to 0 to avoid ever searching subcells.
-        skip_subcells: If port labels are found at a given hierarcy level,
-            do not continue searching at deeper levels. This allows subcells
-            to contain their own port info without interfering with supercells'
-            port data.
-            Default True.
-
-    Returns:
-        The updated `pattern`. Port labels are not removed.
-    """
-    if pattern.ports:
-        logger.warning(f'Pattern {name if name else pattern} already had ports, skipping data_to_ports')
-        return pattern
-
-    if not isinstance(library, ILibraryView):
-        library = LibraryView(library)
-
-    data_to_ports_flat(layers, pattern, name)
-    if (skip_subcells and pattern.ports) or max_depth == 0:
-        return pattern
-
-    # Load ports for all subpatterns, and use any we find
-    found_ports = False
-    for target in pattern.refs:
-        if target is None:
-            continue
-        pp = data_to_ports(
-            layers=layers,
-            library=library,
-            pattern=library[target],
-            name=target,
-            max_depth=max_depth - 1,
-            skip_subcells=skip_subcells,
-            )
-        found_ports |= bool(pp.ports)
-
-    if not found_ports:
-        return pattern
-
-    for target, refs in pattern.refs.items():
-        if target is None:
-            continue
-        if not refs:
-            continue
-
-        for ref in refs:
-            aa = library.abstract(target)
-            if not aa.ports:
-                break
-
-            aa.apply_ref_transform(ref)
-            pattern.check_ports(other_names=aa.ports.keys())
-            pattern.ports.update(aa.ports)
-    return pattern
-
-
-def data_to_ports_flat(
-        layers: Sequence[layer_t],
-        pattern: Pattern,
-        cell_name: str | None = None,
-        ) -> Pattern:
-    """
-    Examine `pattern` for labels specifying port info, and use that info
-      to fill out its `ports` attribute.
-
-    Labels are assumed to be placed at the port locations, and have the format
-      'name:ptype angle_deg'
-
-    The pattern is assumed to be flat (have no `refs`) and have no pre-existing ports.
-
-    Args:
-        layers: Search for labels on all the given layers.
-        pattern: Pattern object to scan for labels.
-        cell_name: optional, used for warning message only
-
-    Returns:
-        The updated `pattern`. Port labels are not removed.
-    """
-    labels = list(chain.from_iterable(pattern.labels[layer] for layer in layers))
-    if not labels:
-        return pattern
-
-    pstr = cell_name if cell_name is not None else repr(pattern)
-    if pattern.ports:
-        raise PatternError(f'Pattern "{pstr}" has pre-existing ports!')
-
-    local_ports = {}
-    for label in labels:
-        name, property_string = label.string.split(':')
-        properties = property_string.split(' ')
-        ptype = properties[0]
-        angle_deg = float(properties[1]) if len(ptype) else 0
-
-        xy = label.offset
-        angle = numpy.deg2rad(angle_deg)
-
-        if name in local_ports:
-            logger.warning(f'Duplicate port "{name}" in pattern "{pstr}"')
-
-        local_ports[name] = Port(offset=xy, rotation=angle, ptype=ptype)
-
-    pattern.ports.update(local_ports)
-    return pattern
-

masque/utils/transform.py

@@ -1,15 +1,12 @@
 """
 Geometric transforms
 """
-from collections.abc import Sequence
-from functools import lru_cache
+from typing import Sequence, Tuple
 
 import numpy
-from numpy.typing import NDArray, ArrayLike
-from numpy import pi
+from numpy.typing import NDArray
 
 
-@lru_cache
 def rotation_matrix_2d(theta: float) -> NDArray[numpy.float64]:
     """
     2D rotation matrix for rotating counterclockwise around the origin.
@@ -20,18 +17,11 @@ def rotation_matrix_2d(theta: float) -> NDArray[numpy.float64]:
     Returns:
         rotation matrix
     """
-    arr = numpy.array([[numpy.cos(theta), -numpy.sin(theta)],
-                       [numpy.sin(theta), +numpy.cos(theta)]])
-
-    # If this was a manhattan rotation, round to remove some inacuraccies in sin & cos
-    if numpy.isclose(theta % (pi / 2), 0):
-        arr = numpy.round(arr)
-
-    arr.flags.writeable = False
-    return arr
+    return numpy.array([[numpy.cos(theta), -numpy.sin(theta)],
+                        [numpy.sin(theta), +numpy.cos(theta)]])
 
 
-def normalize_mirror(mirrored: Sequence[bool]) -> tuple[bool, float]:
+def normalize_mirror(mirrored: Sequence[bool]) -> Tuple[bool, float]:
     """
     Converts 0-2 mirror operations `(mirror_across_x_axis, mirror_across_y_axis)`
     into 0-1 mirror operations and a rotation
@@ -48,71 +38,3 @@ def normalize_mirror(mirrored: Sequence[bool]) -> tuple[bool, float]:
     mirror_x = (mirrored_x != mirrored_y)  # XOR
     angle = numpy.pi if mirrored_y else 0
     return mirror_x, angle
-
-
-def rotate_offsets_around(
-        offsets: NDArray[numpy.float64],
-        pivot: NDArray[numpy.float64],
-        angle: float,
-        ) -> NDArray[numpy.float64]:
-    """
-    Rotates offsets around a pivot point.
-
-    Args:
-        offsets: Nx2 array, rows are (x, y) offsets
-        pivot: (x, y) location to rotate around
-        angle: rotation angle in radians
-
-    Returns:
-        Nx2 ndarray of (x, y) position after the rotation is applied.
-    """
-    offsets -= pivot
-    offsets[:] = (rotation_matrix_2d(angle) @ offsets.T).T
-    offsets += pivot
-    return offsets
-
-
-def apply_transforms(
-        outer: ArrayLike,
-        inner: ArrayLike,
-        tensor: bool = False,
-        ) -> NDArray[numpy.float64]:
-    """
-    Apply a set of transforms (`outer`) to a second set (`inner`).
-    This is used to find the "absolute" transform for nested `Ref`s.
-
-    The two transforms should be of shape Ox4 and Ix4.
-    Rows should be of the form `(x_offset, y_offset, rotation_ccw_rad, mirror_across_x)`.
-    The output will be of the form (O*I)x4 (if `tensor=False`) or OxIx4 (`tensor=True`).
-
-    Args:
-        outer: Transforms for the container refs. Shape Ox4.
-        inner: Transforms for the contained refs. Shape Ix4.
-        tensor: If `True`, an OxIx4 array is returned, with `result[oo, ii, :]` corresponding
-            to the `oo`th `outer` transform applied to the `ii`th inner transform.
-            If `False` (default), this is concatenated into `(O*I)x4` to allow simple
-            chaining into additional `apply_transforms()` calls.
-
-    Returns:
-        OxIx4 or (O*I)x4 array. Final dimension is
-            `(total_x, total_y, total_rotation_ccw_rad, net_mirrored_x)`.
-    """
-    outer = numpy.atleast_2d(outer).astype(float, copy=False)
-    inner = numpy.atleast_2d(inner).astype(float, copy=False)
-
-    # If mirrored, flip y's
-    xy_mir = numpy.tile(inner[:, :2], (outer.shape[0], 1, 1))   # dims are outer, inner, xyrm
-    xy_mir[outer[:, 3].astype(bool), :, 1] *= -1
-
-    rot_mats = [rotation_matrix_2d(angle) for angle in outer[:, 2]]
-    xy = numpy.einsum('ort,oit->oir', rot_mats, xy_mir)
-
-    tot = numpy.empty((outer.shape[0], inner.shape[0], 4))
-    tot[:, :, :2] = outer[:, None, :2] + xy
-    tot[:, :, 2:] = outer[:, None, 2:] + inner[None, :, 2:]     # sum rotations and mirrored
-    tot[:, :, 2] %= 2 * pi        # clamp rot
-    tot[:, :, 3] %= 2             # clamp mirrored
-
-    if tensor:
-        return tot
-    return numpy.concatenate(tot)

masque/utils/types.py

@@ -1,13 +1,8 @@
 """
 Type definitions
 """
-from typing import Protocol
+from typing import Union, Tuple, Sequence, Dict, List
 
 
-layer_t = int | tuple[int, int] | str
-annotations_t = dict[str, list[int | float | str]]
-
-
-class SupportsBool(Protocol):
-    def __bool__(self) -> bool:
-        ...
+layer_t = Union[int, Tuple[int, int], str]
+annotations_t = Dict[str, List[Union[int, float, str]]]

masque/utils/vertices.py

@@ -15,9 +15,9 @@ def remove_duplicate_vertices(vertices: ArrayLike, closed_path: bool = True) ->
             (i.e. the last vertex will be removed if it is the same as the first)
 
     Returns:
-        `vertices` with no consecutive duplicates. This may be a view into the original array.
+        `vertices` with no consecutive duplicates.
     """
-    vertices = numpy.asarray(vertices)
+    vertices = numpy.array(vertices)
     duplicates = (vertices == numpy.roll(vertices, 1, axis=0)).all(axis=1)
     if not closed_path:
         duplicates[0] = False
@@ -35,7 +35,7 @@ def remove_colinear_vertices(vertices: ArrayLike, closed_path: bool = True) -> N
            closed path. If `False`, the path is assumed to be open. Default `True`.
 
     Returns:
-        `vertices` with colinear (superflous) vertices removed. May be a view into the original array.
+        `vertices` with colinear (superflous) vertices removed.
     """
     vertices = remove_duplicate_vertices(vertices)
 
@@ -73,17 +73,17 @@ def poly_contains_points(
     Returns:
         ndarray of booleans, [point0_is_in_shape, point1_is_in_shape, ...]
     """
-    points = numpy.asarray(points, dtype=float)
-    vertices = numpy.asarray(vertices, dtype=float)
+    points = numpy.array(points, copy=False)
+    vertices = numpy.array(vertices, copy=False)
 
     if points.size == 0:
-        return numpy.zeros(0, dtype=numpy.int8)
+        return numpy.zeros(0)
 
     min_bounds = numpy.min(vertices, axis=0)[None, :]
     max_bounds = numpy.max(vertices, axis=0)[None, :]
 
     trivially_outside = ((points < min_bounds).any(axis=1)
-                       | (points > max_bounds).any(axis=1))     # noqa: E128
+                       | (points > max_bounds).any(axis=1))
 
     nontrivial = ~trivially_outside
     if trivially_outside.all():
@@ -101,10 +101,10 @@ def poly_contains_points(
 
     dv = numpy.roll(verts, -1, axis=0) - verts
     is_left = (dv[:, 0] * (ntpts[..., 1] - verts[:, 1])        # >0 if left of dv, <0 if right, 0 if on the line
-             - dv[:, 1] * (ntpts[..., 0] - verts[:, 0]))    # noqa: E128
+             - dv[:, 1] * (ntpts[..., 0] - verts[:, 0]))
 
     winding_number = ((upward & (is_left > 0)).sum(axis=0)
-                  - (downward & (is_left < 0)).sum(axis=0))    # noqa: E128
+                  - (downward & (is_left < 0)).sum(axis=0))
 
     nontrivial_inside = winding_number != 0        # filter nontrivial points based on winding number
     if include_boundary:
@@ -113,3 +113,5 @@ def poly_contains_points(
     inside = nontrivial.copy()
     inside[nontrivial] = nontrivial_inside
     return inside
+
+

pyproject.toml

@@ -39,11 +39,11 @@ classifiers = [
     "Topic :: Scientific/Engineering :: Electronic Design Automation (EDA)",
     "Topic :: Scientific/Engineering :: Visualization",
     ]
-requires-python = ">=3.11"
+requires-python = ">=3.8"
 dynamic = ["version"]
 dependencies = [
-    "numpy>=1.26",
-    "klamath~=1.4",
+    "numpy~=1.21",
+    "klamath~=1.2",
     ]
 
 
@@ -52,41 +52,9 @@ path = "masque/__init__.py"
 
 [project.optional-dependencies]
 oasis = ["fatamorgana~=0.11"]
-dxf = ["ezdxf~=1.0.2"]
+dxf = ["ezdxf"]
 svg = ["svgwrite"]
 visualize = ["matplotlib"]
 text = ["matplotlib", "freetype-py"]
-
-
-[tool.ruff]
-exclude = [
-    ".git",
-    "dist",
-    ]
-line-length = 145
-indent-width = 4
-lint.dummy-variable-rgx = "^(_+|(_+[a-zA-Z0-9_]*[a-zA-Z0-9]+?))$"
-lint.select = [
-    "NPY", "E", "F", "W", "B", "ANN", "UP", "SLOT", "SIM", "LOG",
-    "C4", "ISC", "PIE", "PT", "RET", "TCH", "PTH", "INT",
-    "ARG", "PL", "R", "TRY",
-    "G010", "G101", "G201", "G202",
-    "Q002", "Q003", "Q004",
-    ]
-lint.ignore = [
-    #"ANN001",   # No annotation
-    "ANN002",   # *args
-    "ANN003",   # **kwargs
-    "ANN401",   # Any
-    "ANN101",   # self: Self
-    "SIM108",   # single-line if / else assignment
-    "RET504",   # x=y+z; return x
-    "PIE790",   # unnecessary pass
-    "ISC003",   # non-implicit string concatenation
-    "C408",     # dict(x=y) instead of {'x': y}
-    "PLR09",    # Too many xxx
-    "PLR2004",  # magic number
-    "PLC0414",  # import x as x
-    "TRY003",   # Long exception message
-    ]
+python-gdsii = ["python-gdsii"]