Dima
|
4e91d4e7bc
|
feat(#141): add interaction network plotting
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2026-04-09 15:55:50 +02:00 |
|
Dima
|
0bd4d4771e
|
feat(#256,#258): add diagnostics plotting script
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2026-04-09 15:55:50 +02:00 |
|
Dima
|
40c68b5738
|
feat(#336): add AlphaFold Server JSON exporter
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2026-04-09 15:55:50 +02:00 |
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Dima
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fff63051b4
|
Tests (#600)
* Harden MMseqs species ID resolution fallback
* Reorganize tests for CPU coverage CI
* New
* Fix function coverage checker def-line false positives
* Expand unit coverage for helper and backend manager utilities
* New.
* New.
* Expand unit coverage for template and post-processing helpers
* Expand unit coverage for objects.py edge cases
* Publish HTML coverage reports via GitHub Pages
* Add CPU unit coverage for AlphaFold3 backend helpers
* Reorganize tests and expand backend coverage
* Reset shared test flags between cases
* Expand AF3 prepare_input unit coverage
* Cover AF3 and truemultimer feature creation
* Test AF3 multimer MSA translation paths
* Cover AF3 duplicate-residue multimer fallback
* Cover AF2 resume and postprocess edge paths
* Cover AF3 template mmCIF preparation
* Test small script entry points
* Expand workflow and ModelCIF test coverage
* Add backend extras and install guide
* Clarify AF3 backend installation path
* Stabilize cluster GPU test runners
* Document AF3 CMake SQLite hints
* Simplify backend installation guide
* Align AF3 install with working cluster env
* Backfill typing dataclass_transform for AF2
* Pin TensorFlow for cluster installs
* Fallback AF2 relax when CUDA OpenMM is unavailable
* Raise AF3 default minimum bucket size
* Simplify backend cluster installation guide
* Fix AF3 wrapper JSON output isolation
* Fix AF3 JSON wrapper outputs and MMseqs ID parsing
* Fix CI entrypoint stub and Python 3.8 typing
* Document release readiness test gates
|
2026-04-01 14:13:35 +02:00 |
|
Dima
|
7fd121f842
|
Reorganize tests for CPU coverage CI
|
2026-03-27 15:57:10 +01:00 |
|
Dima
|
c990ab6659
|
Support chopped AF3 JSON feature inputs
|
2026-03-24 12:06:44 +01:00 |
|
Dima
|
31b7612b87
|
setuptools<82
|
2026-02-25 13:28:41 +01:00 |
|
Dima
|
846198edd3
|
Update setuptools version in pyproject.toml
Known security vulnerability CVE-2025-47273
|
2026-02-18 08:42:06 +01:00 |
|
Dima
|
ceaa4d38fa
|
Use ap-parser 0.3.0
|
2026-02-10 11:47:03 +01:00 |
|
Dima Molodenskiy
|
8274eb0ad9
|
New
|
2026-02-10 11:47:03 +01:00 |
|
Dima
|
385e72bb20
|
don't use editable installations for ci/cd. revert to setup.py
|
2024-11-05 16:29:21 +01:00 |
|
Dima Molodenskiy
|
82af84a3c7
|
install colabfold
|
2024-10-30 15:56:11 +01:00 |
|
Dima Molodenskiy
|
8bf958090d
|
install alphafold.alphafold as alphafold
|
2024-10-30 15:49:38 +01:00 |
|
Dima Molodenskiy
|
23ca152706
|
install submodules correctly
|
2024-10-30 15:11:43 +01:00 |
|
Dima Molodenskiy
|
8448a9b266
|
Added quotation marks for script names with dots
|
2024-10-29 14:24:24 +01:00 |
|
Dima Molodenskiy
|
d1509dc0ad
|
Keep *.py extension for all scripts
|
2024-10-29 14:24:24 +01:00 |
|
Dima Molodenskiy
|
6efa670963
|
Avoid absl.flags._exceptions.DuplicateFlagError
|
2024-10-29 14:24:24 +01:00 |
|
Dima Molodenskiy
|
5f90e8da11
|
Wrappers for scripts with absl flags
|
2024-10-29 14:24:24 +01:00 |
|
Dima Molodenskiy
|
0094f858df
|
Added classifiers. Refactored
|
2024-10-29 14:24:24 +01:00 |
|
Dima Molodenskiy
|
bd301778c6
|
New.
|
2024-10-29 14:24:24 +01:00 |
|