Comments (7)
@csadorf @bdice A future version of GSD will support reading in-memory buffers with the C implementation: glotzerlab/gsd#64
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How could a user use the python-only reader if desired?
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@csadorf Can you define a use case where that would be needed? I don't know when the Python-only reader would be desired.
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The pure python module was introduced the allow reading of files that are not present on the file system, such as a binary (in memory) stream or a non-conventional file-like object such as a database stream.
In essence: the pure python module allows us to read files that have no filename.
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@csadorf I guess that makes sense, though I am not aware of any use cases where that’s relevant except maybe a test/sample file in this package. Maybe there is a way to use GSD directly instead of copy-pasting the files into this package’s source.
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The complete polyhedra zoo is stored in a MongoDB database and is in theory accessible in this manner. Especially useful if you don't have access to /nfs/
as a collaborator for instance.
That said, you can get around it by writing to a temporary file on disk of course.
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I'm changing my mind about this and I think the issue can be closed after #157. We now have a clearer picture of our soft/hard dependencies. Both the minimal and maximal set of dependencies are tested.
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Related Issues (20)
- Host documentation on ReadTheDocs
- Enable installation through pip and conda HOT 2
- Add GitHub CODEOWNERS / PR, Issue templates
- Trajectory attribute for all box objects HOT 2
- Test for trajectory with varying number of particles per frame
- Old Links HOT 6
- Box regularization yields wrong orientations HOT 2
- __main__ entry point for file conversion HOT 3
- Enable/read user defined logged quantities from GSD files. HOT 4
- Add option to explicitly set number of dimensions on read/write (specific use case: DCD) HOT 2
- Use types and typeid properties consistent with HOOMD HOT 4
- Refactor and test hoomd snapshot functions in the Frame and Trajectory class
- Make FrameData private and merge _RawFrameData and FrameData
- Update GSD reader/writer for GSD 2.0 HOT 1
- Add badges for PyPI / conda-forge, etc.
- Modernize DCD Reader's use of NumPy
- Update usage of `read_frame` when reading hoomd trajectories
- CI deploy key not enabled for this repository
- Support GSD 3.0
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