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https://github.com/biocore/American-Gut
22 April 2021, 04:54:23 UTC
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Revision Author Date Message Commit Date
68fd6d4 Daniel McDonald 17 March 2017, 17:29:27 UTC Merge pull request #217 from ElDeveloper/conflict-fix Remove merge conflict strings 17 March 2017, 17:29:27 UTC
fc2b88d Yoshiki Vázquez Baeza 17 March 2017, 17:17:38 UTC Remove merge conflict strings 17 March 2017, 17:17:38 UTC
436c1b8 Embriette Hyde 18 August 2016, 16:38:35 UTC Merge pull request #213 from wasade/sparcc Methods for running sparcc 18 August 2016, 16:38:35 UTC
f48e642 Embriette Hyde 18 August 2016, 15:56:06 UTC Merge pull request #200 from jwdebelius/readme_updated Readme updated 18 August 2016, 15:56:06 UTC
c7532f6 Daniel McDonald 17 August 2016, 20:05:49 UTC STY: flake8 17 August 2016, 20:05:49 UTC
d6f4c88 J W Debelius 17 August 2016, 19:11:35 UTC Merge remote-tracking branch 'biocore/master' into readme_updated # Conflicts: # README.md 17 August 2016, 19:11:35 UTC
9781d1f Justine Debelius 17 August 2016, 17:23:52 UTC Merge pull request #201 from jladau/master Create readme.md 17 August 2016, 17:23:52 UTC
8adff2d Embriette Hyde 01 August 2016, 15:01:50 UTC Merge pull request #214 from josenavas/adding-unspecified Adding unspecified to the list of unspecified body site 01 August 2016, 15:01:50 UTC
c77549a Jose Navas 31 July 2016, 21:56:30 UTC Adding unspecified to the list of unspecified body site 31 July 2016, 21:56:30 UTC
8995f36 Daniel McDonald 28 July 2016, 17:17:55 UTC address @mortonjt 28 July 2016, 17:17:55 UTC
c1146db Daniel McDonald 28 July 2016, 16:36:54 UTC Methods for running sparcc 28 July 2016, 16:36:54 UTC
3e5dee7 Daniel McDonald 23 May 2016, 13:23:21 UTC Merge pull request #211 from iugrina/pip_debian Improved the README file and pip_requirements 23 May 2016, 13:23:21 UTC
ef1c64a Ivo Ugrina 19 May 2016, 10:40:41 UTC improve README 19 May 2016, 10:40:41 UTC
2dff243 Ivo Ugrina 19 May 2016, 08:35:48 UTC resolve some typos in README 19 May 2016, 08:35:48 UTC
b5597b2 Ivo Ugrina 18 May 2016, 18:11:13 UTC Merge branch 'master' into pip_debian 18 May 2016, 18:11:13 UTC
3847ba9 Embriette Hyde 10 May 2016, 16:02:53 UTC Merge pull request #208 from biocore/generate-taxa-by-summary Generate taxa by summary data 10 May 2016, 16:02:53 UTC
5dab310 Joshua Shorenstein 09 May 2016, 15:33:43 UTC simplofy collapse_full 09 May 2016, 15:33:43 UTC
1eb39c8 Joshua Shorenstein 04 May 2016, 20:47:40 UTC directories in test 04 May 2016, 20:47:40 UTC
1e6aa1e Joshua Shorenstein 04 May 2016, 19:27:02 UTC add test 04 May 2016, 19:27:02 UTC
5c2da8a Joshua Shorenstein 02 May 2016, 20:09:13 UTC add test 02 May 2016, 20:09:13 UTC
a8254bf Joshua Shorenstein 02 May 2016, 18:09:59 UTC address comments 02 May 2016, 18:09:59 UTC
284613d Joshua Shorenstein 20 April 2016, 17:30:57 UTC downgrade setuptools 20 April 2016, 17:30:57 UTC
553f777 Joshua Shorenstein 20 April 2016, 16:58:55 UTC upgrade setuptools 20 April 2016, 16:58:55 UTC
face672 Joshua Shorenstein 20 April 2016, 06:05:58 UTC flake8 20 April 2016, 06:05:58 UTC
9a7d6d8 Joshua Shorenstein 20 April 2016, 05:53:48 UTC fix imports 20 April 2016, 05:53:48 UTC
216b413 Joshua Shorenstein 20 April 2016, 05:15:18 UTC add taxa summary by category generation 20 April 2016, 05:15:18 UTC
f731cef Joshua Shorenstein 20 April 2016, 04:36:09 UTC add helper functions 20 April 2016, 04:36:09 UTC
5c7bcf5 Embriette Hyde 15 March 2016, 22:56:05 UTC Merge pull request #205 from JWDebelius/alpha_serial Converts alpha diversity to serial 15 March 2016, 22:56:05 UTC
3de2a76 Ivo Ugrina 14 March 2016, 13:18:30 UTC README typo 14 March 2016, 13:18:30 UTC
9105bb0 Ivo Ugrina 13 March 2016, 18:00:05 UTC improve README 13 March 2016, 18:00:05 UTC
732a452 Ivo Ugrina 13 March 2016, 11:46:05 UTC update README 13 March 2016, 11:46:05 UTC
7afd95a Ivo Ugrina 13 March 2016, 10:59:28 UTC improve README with additional info about INSTALL 13 March 2016, 10:59:28 UTC
e7df864 J W Debelius 11 March 2016, 21:57:21 UTC Converts alpha diversity to serial 11 March 2016, 21:57:21 UTC
c76803a Ivo Ugrina 10 March 2016, 10:52:45 UTC improve pip_requirements.txt 10 March 2016, 10:52:45 UTC
d2204df Joshua Ladau 26 February 2016, 17:26:42 UTC Create readme.md 26 February 2016, 17:26:42 UTC
95e6be7 Jamie Morton 11 February 2016, 23:23:37 UTC Merge pull request #197 from JWDebelius/alpha_format_fix Makes alpha diveristy images PNGs 11 February 2016, 23:23:37 UTC
60c00a3 J W Debelius 11 February 2016, 22:39:35 UTC Addresses notes on readme 11 February 2016, 22:39:35 UTC
1cf6e6e Daniel McDonald 11 February 2016, 18:04:24 UTC Update CREDITS.md 11 February 2016, 18:04:24 UTC
b317baa J W Debelius 11 February 2016, 07:00:02 UTC Updates readme to point to new data 11 February 2016, 07:00:02 UTC
e62f2eb J W Debelius 05 February 2016, 22:56:20 UTC Saves images as pngs 05 February 2016, 22:56:20 UTC
ed2479a JWDebelius 22 January 2016, 00:15:32 UTC Revert "Notebook generating table 1 for the AG paper" This reverts commit 1313d59c9800106db2fc925c77c114617c34fafa. 22 January 2016, 00:15:32 UTC
1313d59 JWDebelius 22 January 2016, 00:10:16 UTC Notebook generating table 1 for the AG paper summarizes data by bodysite Now featuring spell checking! 22 January 2016, 00:10:16 UTC
02e451c mortonjt 20 January 2016, 02:43:56 UTC Merge pull request #185 from JWDebelius/per-sample-alpha-plots Per sample alpha plots 20 January 2016, 02:43:56 UTC
32f7917 JWDebelius 19 January 2016, 23:41:41 UTC for want of a hyphen Testing locally is hard 19 January 2016, 23:41:41 UTC
49bbd30 JWDebelius 19 January 2016, 22:51:06 UTC Removes test 19 January 2016, 22:51:06 UTC
1bc8699 JWDebelius 19 January 2016, 21:40:18 UTC Updates test files 19 January 2016, 21:40:18 UTC
e2519c2 JWDebelius 19 January 2016, 21:37:12 UTC Moves trim label into the alpha path 19 January 2016, 21:37:12 UTC
6c9b4a6 JWDebelius 19 January 2016, 21:36:58 UTC Updates to address reviewer comments 19 January 2016, 21:36:58 UTC
8abd119 J W Debelius 19 January 2016, 20:59:00 UTC Merge pull request #187 from wasade/unboundlocalbug Unboundlocalbug 19 January 2016, 20:59:00 UTC
40ca447 Daniel McDonald 19 January 2016, 19:20:33 UTC BUG: unboundlocalerror 19 January 2016, 19:20:33 UTC
57c8512 Daniel McDonald 19 January 2016, 19:20:00 UTC Revert "BUG: unboundlocalerror" This reverts commit 362416ab6a1db6318d04c8aa72b88fe941713a62. 19 January 2016, 19:20:00 UTC
362416a Daniel McDonald 19 January 2016, 19:06:02 UTC BUG: unboundlocalerror 19 January 2016, 19:06:02 UTC
560dbdc JWDebelius 19 January 2016, 17:26:57 UTC fixes test imports 19 January 2016, 17:26:57 UTC
f74ae60 JWDebelius 19 January 2016, 17:18:12 UTC ignores pep8 error 19 January 2016, 17:18:12 UTC
1e5351c JWDebelius 19 January 2016, 07:59:19 UTC Fixes a bunch of stuff * Gets parallel back to printing one line * I dunno what I did to per_sample but it works on my machine (yay!) * updates test to test the plotting which works! * adds documentation! * I really hope this works because Im getting desperate 19 January 2016, 07:59:19 UTC
9c89abe JWDebelius 16 January 2016, 01:05:05 UTC Updates to remove latex call Also brings back parallel processing??? 16 January 2016, 01:05:05 UTC
0655859 JWDebelius 15 January 2016, 23:55:52 UTC trying latex-extra 15 January 2016, 23:55:52 UTC
32b5875 JWDebelius 15 January 2016, 23:17:25 UTC Tries to use the textlive package manager 15 January 2016, 23:17:25 UTC
5691e6d JWDebelius 15 January 2016, 23:12:59 UTC more travis modifications because we also need latex on the new build 15 January 2016, 23:12:59 UTC
1fdcc40 JWDebelius 15 January 2016, 22:25:44 UTC updates travis 15 January 2016, 22:25:44 UTC
c212163 JWDebelius 15 January 2016, 22:13:33 UTC plays with imports 15 January 2016, 22:13:33 UTC
1120c9b JWDebelius 15 January 2016, 19:39:18 UTC moves matplotlib backend call 15 January 2016, 19:39:18 UTC
0c8a970 JWDebelius 15 January 2016, 09:06:31 UTC Adjusts matplotlib to use agg 15 January 2016, 09:06:31 UTC
10d426d JWDebelius 15 January 2016, 08:12:57 UTC Adds backend specification 15 January 2016, 08:12:57 UTC
dbcd8ef JWDebelius 15 January 2016, 08:11:33 UTC Removes troubleshooting prints Also test object that is no longer relevant 15 January 2016, 08:11:33 UTC
fbc0de0 JWDebelius 15 January 2016, 06:59:40 UTC Notebook clean up 15 January 2016, 06:59:40 UTC
00e78a8 JWDebelius 15 January 2016, 06:59:16 UTC Moves alpha_plots into per sample Because pool and pickle don’t play nicely with functions 15 January 2016, 06:59:16 UTC
ff4c532 JWDebelius 14 January 2016, 18:41:41 UTC Notebook in progress 14 January 2016, 18:41:41 UTC
ce6c9e8 JWDebelius 14 January 2016, 18:41:30 UTC fixes per sample 14 January 2016, 18:41:30 UTC
19a36eb JWDebelius 10 January 2016, 20:51:40 UTC fixes pep8/flake8 Because I get really excite and forget formatting 10 January 2016, 20:51:40 UTC
bf9b929 JWDebelius 10 January 2016, 20:19:55 UTC Merge branch 'master' of http://github.com/biocore/American-Gut into per-sample-alpha-plots 10 January 2016, 20:19:55 UTC
c0234bc JWDebelius 10 January 2016, 20:19:42 UTC removes an import for later 10 January 2016, 20:19:42 UTC
bab84d0 Embriette Hyde 08 January 2016, 21:05:11 UTC Merge pull request #182 from JWDebelius/analysis-partition Introduces the single bodysite notebook 08 January 2016, 21:05:11 UTC
f5bc976 JWDebelius 08 January 2016, 19:18:26 UTC Checking sync again 08 January 2016, 19:18:26 UTC
3612fc5 JWDebelius 08 January 2016, 19:12:55 UTC Checks sync 08 January 2016, 19:12:55 UTC
f4dea3a JWDebelius 07 January 2016, 18:15:21 UTC Consolidates path into datasets also brings back unrarefied paths because they got cut in some previous purge 07 January 2016, 18:15:21 UTC
f2c1c6d JWDebelius 07 January 2016, 03:31:08 UTC Jamie's minor fixes 07 January 2016, 03:31:08 UTC
a5be4d3 JWDebelius 30 December 2015, 08:00:57 UTC Adds alpha plots to the pipeline 30 December 2015, 08:00:57 UTC
014f2ee JWDebelius 30 December 2015, 06:36:56 UTC Removes the test file for a non-click command 30 December 2015, 06:36:56 UTC
e208140 JWDebelius 30 December 2015, 06:33:58 UTC Adds click command to ag_alpha_plots 30 December 2015, 06:33:58 UTC
0de875d JWDebelius 30 December 2015, 06:33:47 UTC Updates collapse to include alpha diversity 30 December 2015, 06:33:47 UTC
4878f0c JWDebelius 28 December 2015, 20:06:28 UTC adds assertion 28 December 2015, 20:06:28 UTC
855ab5e JWDebelius 28 December 2015, 18:28:04 UTC reverts setup.py 28 December 2015, 18:28:04 UTC
bd68cfb JWDebelius 22 December 2015, 21:44:05 UTC Code to create alpha diversity plots Initial code, makes a simple distribution by body site with the average and per-sample value text. Outline color is blue, line color is gray. 22 December 2015, 21:44:05 UTC
557f4d1 JWDebelius 22 December 2015, 00:44:41 UTC fixes flake8 22 December 2015, 00:44:41 UTC
95ec519 JWDebelius 21 December 2015, 22:35:36 UTC fixes issue with partition notebook 21 December 2015, 22:35:36 UTC
5d79f7a JWDebelius 21 December 2015, 20:13:21 UTC Merge branch 'master' of http://github.com/biocore/American-Gut into analysis-partition I did something really stupid. 21 December 2015, 20:13:21 UTC
ff41399 Jose Navas 17 December 2015, 18:54:50 UTC Merge pull request #184 from EmbrietteH/fix-unknown-in-bodysite-list add Unknown to unspecified body site list 17 December 2015, 18:54:50 UTC
a27a5ec EmbrietteH 15 December 2015, 17:28:23 UTC add Unknown to unspecified body site list 15 December 2015, 17:28:23 UTC
8aaddf0 Jose Navas 15 December 2015, 16:44:01 UTC Merge pull request #181 from EmbrietteH/fix-raretaxa-latex Fix font size for rare taxa list 15 December 2015, 16:44:01 UTC
70ac576 EmbrietteH 15 December 2015, 15:15:07 UTC Merge branch 'master' of https://github.com/biocore/American-Gut into fix-raretaxa-latex 15 December 2015, 15:15:07 UTC
4f101a8 JWDebelius 11 December 2015, 21:25:21 UTC Fixes path update 11 December 2015, 21:25:21 UTC
4188017 JWDebelius 11 December 2015, 17:55:15 UTC Updates travis with the merge with master 11 December 2015, 17:55:15 UTC
02fb930 Joshua Shorenstein 11 December 2015, 01:44:32 UTC Merge pull request #183 from mortonjt/travis_alpha BLD: Updating travis.yml to allow for longer run times 11 December 2015, 01:44:32 UTC
e3146c6 Jamie Morton 11 December 2015, 00:35:59 UTC BLD: Updating travis.yml to allow for longer run times 11 December 2015, 00:35:59 UTC
ef0f328 JWDebelius 10 December 2015, 22:50:09 UTC Fixes changes made to the alpha diversity notebook 10 December 2015, 22:50:09 UTC
d9cf1ec JWDebelius 10 December 2015, 22:42:27 UTC Addresses comments in comments in PRs 10 December 2015, 22:42:27 UTC
90b7e74 JWDebelius 10 December 2015, 21:12:59 UTC Fixes the pep8 on the notebook_enviroment 10 December 2015, 21:12:59 UTC
ff6eb66 JWDebelius 10 December 2015, 19:57:34 UTC Introduces the single bodysite notebook 10 December 2015, 19:57:34 UTC
33494df EmbrietteH 06 December 2015, 02:57:40 UTC Fix font size for rare taxa list 06 December 2015, 02:57:40 UTC
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