60a79b1f6 Raise minimum cmake version to 3.15 e0a079501 Added "--plddt-digit" and "--use-title" in Extraction mode c6b50e0f7 Changed thumbnail 235cce42b Update README.md e3266a215 Update README.md with youtube link ecf4a2044 Version increment due to bioconda/pypi support af13bb1c2 Merge pull request #46 from vagkaratzas/version_bump 0fb664d0c version bump 393f5f32d Preparing new release 975e69171 Add version option to print the version number 6542abbdf WebAssembly support 433b0e98b '--check' for checking FCZ before decompression 50fc71864 Fix for Subsetting databases #39 ee3e15188 -d option for --db e6ec93e61 Applied multiprocessing when single files are given as list e712f4d9c Uploaded ESMatlas full version 0221c8c91 Update README.md with subset decompression 380806c51 [IN PROGRESS] cibuildwheel ubuntu 0a794784a Handle user_id_list as string dddf4f359 Subset db with '--id-list' b7ef92057 Added "split_pdb_by_chain" in python API, Help message update 057cf14f3 Make sure discontinuous warning is written in one go 15615bdab Move stringstream to string conversion outside of critical section afdce8c05 Fix db key being reset for every input file fda932053 Updated citation 228827c41 Fixed OXT bfactor error 62b1fa678 Preparing v0.0.4 release 79c19e31a Fix lookup readin with larger lookup than index bd2047d71 Update README.md 17b84f856 Solved output naming errors in extraction mode a11f3ccf4 Preparing for v0.0.3 release e25ad2145 Added AFDB representatives and mmseqs createsubdb 85a36dbad Merge pull request #22 from steineggerlab/input-processor-wip 04e51b70d Updated to handle database input 0776311bf Merge pull request #21 from steineggerlab/input-processor-wip f716125a0 [TRIAL] Install dirent.h for MSVC ccea33e8f For windows, include dirent.h 1e2e055b6 Solving conflicts from windows min macro and std::min b86eb7155 Fixing windows build 2ce4691e8 rollback 72946c9a5 Fixing for windows 9dd4029db Fixing for windows 9a30b8fb4 [FIXING] Trying to fix windows build 8df72e24c Including lib/windows d1cf8ac97 [FIXING] Python build 344bd8c24 [FIXING] Build for python wheels 79ef40281 [FIXING] Trying to solve python build error 9d02639e1 Handling overwriting problems afa83adb7 Solved tar/tar.gz/dir input processing 53b40ac36 [FIXING] Solved multiple chain & fragment errors cc49e3ad2 Save the original PDB title instead of filename again when compressing 1755e28e1 Correctly print title continuations when returning decompressed PDB files 0fd33ca32 Copy over support for various tar input variations 6ac45dba3 Add file extensions to files inside tars 5585c2f52 Add tar.gz readin support (and replace microtar with MMseqs2's microtar) 147e51824 Replace pow with direct multiplication 2bb2312fd Refactor extraction logic to avoid vectors 340f3ac3e Finish refactoring of input processing f27059981 Add wip code to refactor inputs a905716c6 Added preprint link to README 8c8b6784b Document that ~100k predictions are missing from esmatlas hq 40098bb0e Remove AFDBv4 notice 803ec31ad Add PyMOL plugin to readme d6ba689d1 Add windows download to README and add description how to download databases e3cebd1d1 Fix tar input not reading compressed files inside tar 3c60512ea Update README.md 815c8adec Fix file extension replacement again 0fa4866e1 Fix span range again 24ff35bc3 Fix directory type identification on windows 0a7e94505 Fix spans being one element too large da6f94c2f Replace file-ending correctly for directory output 81a943a3f Fix issue with passing filenames like ./path-to/file to command-line 6e65cfded Add precompiled windows binary b98845163 Fix compression to directory 6091cd769 Rounding in discretizer, less RMSD a3fa83fe2 file input should now correctly be detected cefef1e93 Add option to read in files/directories to compress from a file 0984c5d9f Add option to skip discontinuous chains b26bd764a Fix invalid spans in batch compression e1e0f4608 Avoid crash on empty Discretizer 48978984d Fix sorted check in database_writer f3dd4547d Refactor to allow compression of all combinations {dir, tar} input and {dir, tar, db} output 2c7247cb7 Fix fragment end position 62e477278 Cleanup writeAtomCoordinatesToPDBFile 07d9a93e1 Move all warnings out of the library a430b9004 Fix new timer e781a7950 Merge remote-tracking branch 'refs/remotes/origin/master' 041e45b37 Add support for writing foldcomp databases directly 31cbb3391 Fix crash in parameter/file name parsing 4bc88b92e Create fragments without copying vector<AtomCoordinate> around e9c66daf1 Merge branch 'master' of https://github.com/steineggerlab/foldcomp eadf7b0bf Added time measurement mode a2700f8f6 Resolve DT_UNKNOWN with stat in getdir ce05d6f86 Split multiple chains & discontinuous residues 234a33049 Added descriptions on foldcomp.get_data 107beab54 Blocked splitting until debugging finished bb63dbed0 Merge pull request #16 from steineggerlab/dev fe19e3b2f Update README.md f67404f53 Solved errors in handling discontinuous fragments 416b10b5a Added 'foldcomp.get_data' in Python API 210652861 Added 'Foldcomp::writeTorsionAngles' 56f4f4dd1 Merge branch 'dev' of https://github.com/steineggerlab/foldcomp into dev 0e79b7bb6 Merge pull request #13 from milot-mirdita/dev 25cfe61ed Support for reading gzipped buffers 2a0b9ec90 Add recursive directory read-in mode f03354d94 Added mode for compressing tar files with pdb/cif files cce45476d [IN PROGRESS] Multi-chain support 619f5b226 Merge pull request #12 from steineggerlab/master 5c71c8661 Merge pull request #10 from steineggerlab/master git-subtree-dir: lib/foldcomp git-subtree-split: 60a79b1f6d8fb8223b5a95b68e05aee9201423ac

Uh oh!

Implement --alt-ali in foldseek #12

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