Oxview export#246
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dave-doty merged 6 commits intoUC-Davis-molecular-computing:devfrom Sep 13, 2022
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cgevans
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Sep 11, 2022
| def __repr__(self) -> str: | ||
| return '_OxdnaVector({}, {}, {})'.format(self.x, self.y, self.z) | ||
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| def __iter__(self) -> Iterator[float]: |
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This is generally convenient, so that list(vector) gives a list [x,y,z]. I don't use it in the code, but do in the tests.
cgevans
commented
Sep 11, 2022
| import scadnano.origami_rectangle as rect | ||
| import scadnano.modifications as mod | ||
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| from scadnano.scadnano import _convert_design_to_oxdna_system |
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This seems like a cleaner way of testing equality to the oxDNA design. The oxDNA tests already test that export format.
dave-doty
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Sep 11, 2022
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Is this ready to merge? |
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It should be: it works, and the tests cover a variety of odd cases. I'll eventually want to do something similar for oxDNA exports, but there are other considerations for that (forces file format, another file to export, etc), and for now, oxview is useful enough (and can export forces files anyway). |
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Oxview's format is largely similar to a json version of oxDNA files, though we can also set the color of each nucleotide.
This code is currently messy, and needs tests and documentation. It currently exports correctly with my large tile systems, but I haven't tested it more thoroughly.
Closes #173.