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Author SHA1 Message Date
samsledje
e3428d1613 Resolve merge 2022-08-18 12:27:49 -04:00
Samuel Sledzieski
eca37c374f Merge pull request #38 from samsledje/automatic-pytesting 
Create automatic test runner
 2022-07-06 09:57:01 -04:00
Samuel Sledzieski
3bbad37b5e Merge pull request #37 from samsledje/fix/corrupt-pretrained-model-retry 
Added typing documentation & automatic retrying for corrupted models
 2022-06-30 12:06:00 -04:00
Samuel Sledzieski
11997309de Create pypi_publish.yml 2022-06-30 12:05:15 -04:00
Samuel Sledzieski
23731a6e91 Update embedding.py 2022-06-30 11:55:09 -04:00
Samuel Sledzieski
37759877f5 Delete dscript/legacy directory 2022-06-30 11:53:37 -04:00
Samuel Sledzieski
487b5e3f4f Update requirements.txt 2022-06-30 11:51:11 -04:00
Samuel Sledzieski
540f9f7977 Update requirements.txt 2022-06-30 11:47:23 -04:00
Samuel Sledzieski
9be9dadae1 Update autorun-tests.yml 2022-06-30 11:46:34 -04:00
Samuel Sledzieski
c4e003f053 Create requirements.txt 2022-06-30 11:45:38 -04:00
Samuel Sledzieski
f0d03d3208 Update and rename python-app.yml to autorun-tests.yml 2022-06-30 11:31:28 -04:00
Samuel Sledzieski
a4eaad0f1b Create automatic test runner 2022-06-30 11:26:10 -04:00
Mert Erden
9ad03503e5 fix: replace print usage with log in pretrained.py 2022-06-29 16:39:26 -04:00
Mert Erden
e4adc459a3 enhancement: added typing documentation & automatic retrying for corrupted models 2022-06-29 14:09:44 -04:00
Samuel Sledzieski
e2db487adc Update __main__.py 2022-06-29 12:53:59 -04:00
samsledje
f4b9b1f961 This file is tab separated, not comma separated. act like it. 2022-06-28 11:48:32 -04:00
samsledje
128d360c03 update setup.py requirements v0.2.1 2022-06-28 11:31:59 -04:00
Samuel Sledzieski
4709920774 Merge pull request #34 from merterden98/main 
fix: added biopython as dependency in setup.py
 2022-06-27 15:02:36 -04:00
Mert Erden
f9fdbaab34 fix: added biopython as dependency in setup.py 2022-06-27 14:44:31 -04:00
samsledje
f588d257fa merge main into dev -- there is still clean up to do for sure 2022-06-24 20:32:07 -04:00
Samuel Sledzieski
45359ef90b Merge pull request #33 from samsledje/topsyturvy 
D-SCRIPT 0.2.0 -- Topsy-Turvy
v0.2.0 		2022-06-24 19:42:07 -04:00
Samuel Sledzieski
1b598e4762 Update glider-thresh argument help string 
"threshold beyond which GLIDER scores treated as positive edges (0 < gt < 1) (default: 0.925)"
 2022-06-24 19:33:56 -04:00
Samuel Sledzieski
7075354f38 Update CITATION.cff 2022-06-24 10:35:47 -04:00
samsledje
1334f302c2 Update README.md 2022-06-24 10:30:15 -04:00
Samuel Sledzieski
7410015298 Update requirements.txt 2022-06-24 10:28:28 -04:00
Samuel Sledzieski
a49759174f Delete docs/source/_build/html directory 2022-06-24 10:21:23 -04:00
samsledje
8e9ca922fd Update README 2022-06-24 10:17:07 -04:00
samsledje
fc7a0bb71e precommit fail fast so tests dont run if other things are broken 2022-06-23 16:08:36 -04:00
samsledje
e148390f7f load embeddings in parallel 2022-06-23 16:06:22 -04:00
samsledje
dfbc81829f use biopython for fasta io 2022-06-23 13:36:06 -04:00
samsledje
adf5bc99ee Merge remote-tracking branch 'origin/main' into topsyturvy 2022-06-23 13:05:13 -04:00
Samuel Sledzieski
ca8e92f95b Delete .github directory 2022-06-23 13:04:45 -04:00
Samuel Sledzieski
bccfb0d081 Delete codecov_workflow.yml 2022-06-23 13:04:30 -04:00
Samuel Sledzieski
9b73b1c680 Update codecov_workflow.yml 2022-06-23 13:01:25 -04:00
Samuel Sledzieski
17d5863d62 Update codecov_workflow.yml 2022-06-23 12:58:42 -04:00
samsledje
551241bfb9 Merge remote-tracking branch 'origin/main' into topsyturvy 2022-06-23 12:56:01 -04:00
Samuel Sledzieski
5af348cd01 Create codecov_workflow.yml 2022-06-23 12:55:19 -04:00
samsledje
65d20b308b update coverage 2022-06-23 12:50:38 -04:00
samsledje
bec4b6fd0e update command testing 2022-06-23 12:40:27 -04:00
samsledje
bf688400f1 update testing 2022-06-23 12:18:45 -04:00
samsledje
6000faccfb fix training script 2022-06-23 12:03:39 -04:00
samsledje
1b63b008fd testing embed, evaluate, predict 2022-06-23 11:58:23 -04:00
samsledje
ea41becbb6 update gitignore, logging, and docs 2022-06-23 11:38:08 -04:00
samsledje
e883489d03 update docs and citations 2022-06-23 10:19:16 -04:00
samsledje
78ca8aad61 clean up docs 2022-04-29 10:44:20 -04:00
samsledje
39848bb98c rtd 2022-04-29 10:36:47 -04:00
samsledje
b536e89169 fixing rtd 2022-04-29 10:35:26 -04:00
samsledje
540e6ee73f trying to fix rtd 2022-04-29 10:31:46 -04:00
samsledje
03781b3701 trying to fix rtd 2022-04-29 10:30:58 -04:00
samsledje
ceca25a2c2 update documentation 2022-04-29 10:15:04 -04:00