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Author	SHA1	Message	Date
Samuel Sledzieski	01125ef013	Update predict.py	2025-07-21 10:39:38 -04:00
Samuel Sledzieski	c1b88c909f	Update evaluate.py	2025-07-21 10:38:35 -04:00
Samuel Sledzieski	724c402b79	Update train.py	2025-07-21 10:24:21 -04:00
Samuel Sledzieski	8b0a7b1735	Update autorun-tests.yml ... Update tests to 3.10	2025-07-21 09:41:11 -04:00
Samuel Sledzieski	b4bcfa3664	Update requirements.txt	2025-07-07 11:25:42 -04:00
Samuel Sledzieski	e14c3a27ea	Delete .github/workflows/pypi_publish.yml v0.2.8	2024-09-16 09:37:54 -04:00
Samuel Sledzieski	687f5b09a3	Update version, fix model cuda bug	2024-09-16 09:35:49 -04:00
Samuel Sledzieski	f828adda12	Update predict.py	2024-09-15 21:46:29 -04:00
Samuel Sledzieski	e4304a85b0	Update pypi_publish.yml	2024-09-13 12:09:50 -04:00
Samuel Sledzieski	4a82baaa0c	Merge pull request #69 from samsledje/huggingface_models ... Add HuggingFace support v0.2.7	2024-09-13 11:35:31 -04:00
Samuel Sledzieski	399a39dd14	Update environment.yml	2024-09-13 11:11:19 -04:00
Samuel Sledzieski	5c30f2ebb2	Update requirements.txt for autobuild	2024-09-13 11:10:18 -04:00
Samuel Sledzieski	2f4c222717	Update documentation to explain hfh	2024-09-13 11:06:30 -04:00
Samuel Sledzieski	bb4ee75a66	Upload models to huggingface hub, update prediction script to take hf path	2024-09-13 11:02:23 -04:00
Samuel Sledzieski	b4fd8b4244	Predict script now doesn't store contact maps by default	2024-09-13 09:46:49 -04:00
Samuel Sledzieski	69eba5e745	Remove symlinks and start huggingface file	2024-09-13 09:38:59 -04:00
Samuel Sledzieski	628917f6d3	Delete data/human_v1.sav	2024-08-10 10:24:39 +02:00
Samuel Sledzieski	f586eb2a15	Add files via upload	2024-08-10 10:20:10 +02:00
Samuel Sledzieski	0955991a27	Update pypi_publish.yml	2023-10-24 11:19:43 -04:00
samsledje	6e28eac2ef	add train file with updated 3di file v0.2.6b	2023-10-24 11:01:56 -04:00
samsledje	a56b83c78b	add tt3d structure homology notebooks and update test.sh with new 3di file	2023-10-24 10:04:11 -04:00
Samuel Sledzieski	eae3112b25	Merge pull request #59 from samsledje/kapil-Oct24-update ... R notebooks added for baseline sequence-based analysis	2023-10-24 09:34:45 -04:00
Kapil Devkota	504eb53083	R notebooks added for baseline sequence-based analysis	2023-10-24 01:24:22 -04:00
Samuel Sledzieski	6772e2e26a	Merge branch 'main' of github.com:samsledje/D-SCRIPT v0.2.6	2023-09-28 16:00:35 -04:00
Samuel Sledzieski	b0ca7aeb33	add tt3d to pretrained	2023-09-28 16:00:07 -04:00
Samuel Sledzieski	6529f1b574	Update .readthedocs.yml	2023-08-28 10:53:03 -07:00
Samuel Sledzieski	64ba521374	Update .readthedocs.yml	2023-08-28 10:37:40 -07:00
Samuel Sledzieski	3c80995021	Update requirements.txt	2023-08-28 10:30:04 -07:00
samsledje	5cefd93122	Add tt3d pretrained model	2023-07-31 12:44:48 -04:00
Samuel Sledzieski	3ea021d0bf	Merge pull request #51 from samsledje/tt3d-predict ... Tt3d predict: Update predict CLI to incorporate 3Di .fasta file v0.2.5	2023-07-24 17:35:18 +02:00
samsledje	4e6c0d9b21	debugging foldseek predict	2023-07-24 11:27:08 -04:00
samsledje	8b0b7f5a61	issue #44 update predict and forward signature for foldseek	2023-07-24 09:20:13 -04:00
samsledje	521ade48de	update logging and error raising	2023-07-24 08:42:08 -04:00
samsledje	ce46ba69b1	added foldseek prediction, untested	2023-07-24 08:34:48 -04:00
Samuel Sledzieski	a039e730e0	Merge pull request #50 from samsledje/samsledje-patch-1 ... Update requirements.txt	2023-05-26 13:09:38 -07:00
Samuel Sledzieski	e9fb5b86dc	Update requirements.txt	2023-05-26 13:09:16 -07:00
samsledje	cd1fed9887	fix bad linting v0.2.4	2023-05-26 15:13:59 -04:00
Samuel Sledzieski	6668adefa0	Merge pull request #47 from samsledje/kapil-fseek+opt ... Kapil fseek+opt	2023-05-26 08:47:28 -07:00
Samuel Sledzieski	e70ee3d7dc	Resolve merge conflict	2023-05-26 08:47:11 -07:00
Kapil Devkota	ca04e122a8	Added usage to test.sh	2023-05-25 12:15:39 -04:00
Kapil Devkota	84ceab3843	Removed train_fseek.py for this branch	2023-05-25 12:13:05 -04:00
Kapil Devkota	e2700ce39f	Minor housekeeping/refactoring	2023-05-25 12:11:14 -04:00
Kapil Devkota	0d02081ae0	Minor housekeeping/refactoring	2023-05-25 12:04:53 -04:00
Kapil Devkota	dfa984ac90	Minor housekeeping and refactoring	2023-05-25 12:01:13 -04:00
Kapil Devkota	5b3636246c	Removed the train_fseek_embed.py file for this branch	2023-05-25 11:40:44 -04:00
Kapil Devkota	34497c0917	Cleaning train.py	2023-05-09 13:46:22 -04:00
samsledje	620bd1f1e1	add extract 3di command	2023-05-09 10:14:43 -04:00
Kapil Devkota	0e9403eab7	Added optimized interaction.py	2023-05-08 01:32:04 -04:00
Kapil Devkota	3afad84144	Added fseek changes	2023-05-08 00:43:40 -04:00
Samuel Sledzieski	2b673b6dc4	Update .readthedocs.yml	2023-04-26 15:21:50 -04:00