Commit Graph

Select branches

Hide Pull Requests

fix-instructions

master

Mono Color

• acd4b349e7 Update cloud_init.sh Chaz Reid 2018-04-17 14:11:35 -07:00
• fb125ae9a4 Remove OSF client from snakemake install script Charles Reid 2018-04-17 13:40:23 -07:00
• b93b281d03 Fixing conda installation step Charles Reid 2018-04-17 13:31:07 -07:00
• 879f962bb6 fix vimrc typos Charles Reid 2018-04-13 13:49:10 -07:00
• 7c4a0fe5a7 Merge branch 'master' of github.com:charlesreid1/dahak-yeti Charles Reid 2018-04-13 13:37:08 -07:00
• 6262bdc7fb update vimrc to properly format snakemake files Charles Reid 2018-04-13 13:36:57 -07:00
• 307d8b41f4 get docker is a bash program Charles Reid 2018-04-09 16:35:45 -07:00
• 5437c9de56 very weak attempt to fix install snakemake. Charles Reid 2018-04-09 12:03:59 -07:00
• c16ccdbfea fix up install conda to set global version of pyenv Charles Reid 2018-04-06 13:08:29 -07:00
• a7c8e57f2e make install scripts more robust to error Charles Reid 2018-04-06 13:07:00 -07:00
• 3636eccef0 add conda installation to user init process Charles Reid 2018-04-06 12:59:40 -07:00
• 39505131bc add conda install script Charles Reid 2018-04-06 12:57:26 -07:00
• d62ba02e2c follow up the pyenv install with a conda install Charles Reid 2018-04-06 12:55:03 -07:00
• d2b5d3a053 no virtual py env for now Charles Reid 2018-04-06 12:49:15 -07:00
• 85d050e000 add raw user data file Charles Reid 2018-03-30 05:20:14 -07:00
• 371d088f2f improve checkout dir name Charles Reid 2018-03-30 05:20:06 -07:00
• 0f58aa150e make make temp executable Charles Reid 2018-03-30 04:43:30 -07:00
• a108b55212 update install pyenv, snakemake, singularity scripts using updates from taco Charles Reid 2018-03-30 04:42:02 -07:00
• 78f50f5e57 updating bash profile to use pyenv always Charles Reid 2018-03-29 17:56:53 -07:00
• f2260e8888 update bootstrap Charles Reid 2018-03-28 16:06:59 -07:00
• c622d3b7c8 add missing os package Charles Reid 2018-03-28 15:40:50 -07:00
• 997326581a make pyenv install conda non-interactive Charles Reid 2018-03-28 15:36:04 -07:00
• 5c17f8e745 moving singularity installation to sudo tasks Charles Reid 2018-03-28 15:31:13 -07:00
• 21c2d6d6af do not activate pyenv in the .bash_profile Charles Reid 2018-03-28 15:30:58 -07:00
• 5beafd3d18 add pyenv commands to .bash_profile Charles Reid 2018-03-28 15:24:15 -07:00
• 90f3bd45ff updating user init path again Charles Reid 2018-03-28 15:20:38 -07:00
• 6f3f5c1081 add -y flag to ssh key generation Charles Reid 2018-03-28 15:08:46 -07:00
• 6e822ba3a3 fix order of commands for user init Charles Reid 2018-03-28 15:03:17 -07:00
• 2ed1329315 fix sudo init location Charles Reid 2018-03-28 14:53:14 -07:00
• be2fd51fc1 fixing user init location Charles Reid 2018-03-28 14:48:48 -07:00
• 1011450b78 add fix ssh script, reorder sudo init Charles Reid 2018-03-28 14:32:10 -07:00
• 5446bd1db6 Merge branch 'master' of github.com:charlesreid1/dahak-yeti Charles Reid 2018-03-28 14:22:19 -07:00
• c1e4d2605d Moving sudo_init->tasks_sudo, user_init->tasks_user Charles Reid 2018-03-28 14:21:57 -07:00
• 07f41078fd fix key generation permissions. Charles Reid 2018-03-28 14:21:32 -07:00
• 8df87a5d26 add one-shot one-line install Chaz Reid 2018-03-28 14:11:31 -07:00
• d50ecb2fcc remove make user file from yeti sudo tasks Charles Reid 2018-03-27 17:21:35 -07:00
• 580aaeeef5 add install netdata script Charles Reid 2018-03-27 17:15:07 -07:00
• 2ed60d621d add install netdata to user init script Charles Reid 2018-03-27 16:57:45 -07:00
• b842924801 fix install snakemake script Charles Reid 2018-03-27 16:57:22 -07:00
• 82f27ae131 fix headers Charles Reid 2018-03-27 16:57:04 -07:00
• da42d29981 add user init scripts readme Charles Reid 2018-03-27 16:56:37 -07:00
• 843a148284 updating shebang and other slight fixes to install scripts Charles Reid 2018-03-22 00:45:31 -07:00
• 9b4bacfa8c minor fixes for clarity Charles Reid 2018-03-14 18:25:53 -07:00
• 68880779ec update commands in readme instructions Charles Reid 2018-03-13 18:17:21 -07:00
• 69e252f4ba use github image markup Charles Reid 2018-03-13 18:15:27 -07:00
• 0a89c5c09e which image does github want Charles Reid 2018-03-13 18:14:58 -07:00
• b7c1141389 fix image in readme Charles Reid 2018-03-13 18:13:50 -07:00
• 747af80613 ACTUALLY adding initial verison of user init scripts, plus sudo init scripts. Charles Reid 2018-03-13 18:08:34 -07:00
• 394954687a Adding initial version of user init scripts, mainly prebootstrap and install script Charles Reid 2018-03-13 18:07:18 -07:00
• 1d0973d79d adding dahak-yeti cloud init script Charles Reid 2018-03-13 17:38:10 -07:00
• e21fe8b700 add ip address aliases Charles Reid 2018-03-09 15:09:36 -08:00
• af6c9bd7bd add get docker script to dotfiles Charles Reid 2018-03-08 02:53:02 -08:00
• 203b2c4624 Adding trim information to output of kaiju2krona step Charles Reid 2018-03-08 03:07:04 +00:00
• b77ef2d1d3 tell git to stop asking about matching/simple Charles Reid 2018-03-08 01:01:40 +00:00
• be21e69ac2 nocompatible not working?? Charles Reid 2018-03-08 01:01:01 +00:00
• e62844a9ec use vim for goodness sake, why is git ignoring $EDITOR and $GIT_EDITOR both??? Charles Reid 2018-03-08 00:59:44 +00:00
• 6ce2cd4607 yikes, turn off spellcheck Charles Reid 2018-03-07 14:35:55 -08:00
• 526f6377a8 add GIT_EDITOR because git does not care about EDITOR apparently Charles Reid 2018-03-07 14:32:23 -08:00
• 7e86039567 .extras, not .extra Charles Reid 2018-03-06 03:06:21 -08:00
• 35f5ef9fa0 get down to business in vimrc Charles Reid 2018-03-06 03:05:16 -08:00
• 7c1a8fe970 undoing previous commit Charles Reid 2018-03-02 11:21:11 -08:00
• 0bf5aa6478 improve logic of output filenames Charles Reid 2018-03-02 11:20:14 -08:00
• bd9480d01e remove line breaks Charles Reid 2018-03-02 11:17:49 -08:00
• 584ad42f0b make subprocess.call() command more clear Charles Reid 2018-03-02 11:17:00 -08:00
• c76c112e51 update script description Charles Reid 2018-03-02 11:16:24 -08:00
• 24e35a6e8f Merge branch 'master' of git.charlesreid1.com:dotfiles/dahak-yeti Charles Reid 2018-02-27 11:11:54 -08:00
• 728f0cfb55 Bump kaiju version number Charles Reid 2018-02-27 11:11:22 -08:00
• b798296386 spit run commands Charles Reid 2018-02-22 13:07:11 -08:00
• c6d06d03a1 fix more formatting/indentation Charles Reid 2018-02-22 13:06:56 -08:00
• 7c2b56758a fix formatting/indentation Charles Reid 2018-02-22 13:06:20 -08:00
• c69941ab59 Split up single-line commands for reaadability Charles Reid 2018-02-22 13:05:39 -08:00
• 0dd4b27149 update on .extra file Charles Reid 2018-02-21 17:52:59 -08:00
• 95b4c9adbe add note on .extras file Charles Reid 2018-02-21 17:51:28 -08:00
• 31d392d1e0 Update README.md Chaz Reid 2018-02-21 17:41:30 -08:00
• a9f5c05be9 Switch on over to the BSD 3 license. Chaz Reid 2018-02-21 17:38:09 -08:00
• efa43cfe54 Update list of scripts in readme Charles Reid 2018-02-20 19:39:38 -08:00
• 52b4db69c4 improve line breaks Charles Reid 2018-02-20 19:39:18 -08:00
• eec75f913a Add python version of compare components Charles Reid 2018-02-20 19:27:47 -08:00
• d7ef697407 Adding shell version of visualize script Charles Reid 2018-02-20 19:21:44 -08:00
• 4faa1726ef adding shell version of kaiju2krona Charles Reid 2018-02-20 19:20:58 -08:00
• ac96648155 adding -z 4 flag Charles Reid 2018-02-20 18:59:24 -08:00
• e252ab085d bumping kaiju version Charles Reid 2018-02-20 18:59:14 -08:00
• 8dea9dd8dc Fix command line args Charles Reid 2018-02-20 18:55:13 -08:00
• bdbe4fe7ff Fix typo Charles Reid 2018-02-20 18:54:57 -08:00
• ced2f394c9 fixing dir name and adding unpack (shell version) Charles Reid 2018-02-20 18:54:37 -08:00
• 4e3a465517 function-ify get trimmed data.py Charles Reid 2018-02-20 17:16:36 -08:00
• c0ecd343b3 Merge branch 'master' of https://github.com/charlesreid1/dahak-yeti Charles Reid 2018-02-20 17:09:10 -08:00
• f19056b910 Bump kaiju version, fix indentation Charles Reid 2018-02-20 17:00:51 -08:00
• 7dd9265f5e Added 1 percent classified docker run command Charles Reid 2018-02-20 17:00:24 -08:00
• 0abb78d247 calculate signatures script now imports get_prefix Charles Reid 2018-02-20 16:48:21 -08:00
• 6098ad2222 Update unpack_kaiju.py Chaz Reid 2018-02-20 15:12:44 -08:00
• ef3b447fec Updating python scripts from yeti Charles Reid 2018-02-20 14:43:01 -08:00
• 73811b8f7f Removing old visualize krona script (misspelled) Charles Reid 2018-02-20 14:26:44 -08:00
• afeff8580a Updating run all part 2 script - everybody is python. Charles Reid 2018-02-20 14:25:42 -08:00
• 4f8f52d727 update run all part 2 to use python scripts Charles Reid 2018-02-20 14:24:06 -08:00
• 308fc01664 Separate get_prefix function into separate file (single location) Charles Reid 2018-02-20 14:23:46 -08:00
• 202f5215f0 Adding python version of krona viz script Charles Reid 2018-02-20 14:23:12 -08:00
• 7a9900750e fix flags for filter taxa Charles Reid 2018-02-20 13:58:37 -08:00
• d9011fd5f2 add python version of filter taxa script Charles Reid 2018-02-20 13:54:30 -08:00
• 1be2f9ead2 Removing old, mis-named version of script Charles Reid 2018-02-20 13:43:44 -08:00