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176 Commits
Author SHA1 Message Date
Dannon Baker 928612ac04 Bump nose to 1.3.6 -- this enables lots of nice new out-of-the-box plugins and other features. 2015-04-24 16:40:45 -04:00
Dannon Baker ea6ac6d303 Bump sqlalchemy again for the 1.0.1 bugfix release 2015-04-24 11:56:02 -04:00
Dannon Baker 2c490cf7cc Bump sqlalchemy-migrate to 0.9.6 2015-04-20 12:20:39 -04:00
Martin Cech 269adc7d99 Merge pull request #129 from dannon/sqlalchemy100 
Upgrade sqlalchemy to 1.0.0 (hooray!)
 2015-04-17 14:15:43 -04:00
Dannon Baker d725aab54e Upgrade sqlalchemy to 1.0.0 (hooray!) 2015-04-16 17:18:08 -04:00
Dannon Baker e09761eb80 Bump amqp to 1.4.6 2015-04-16 14:53:37 -04:00
Dannon Baker 8d3c53141d Bump kombu to 3.0.24 2015-04-16 14:53:08 -04:00
Dannon Baker 61decad8c3 Bump SQLAlchemy all the way to 0.9.8 2015-02-16 15:09:42 -05:00
Dannon Baker d3c2771dae Initial update of SQLAlchemy to 0.8.7. Definitely still needs testing. 2015-02-14 10:16:13 -05:00
Nate Coraor 18ecd47b67 Remove GeneTrack tag from eggs.ini as well. 2015-02-02 13:42:29 -05:00
Martin Cech c34eddacef degrade Whoosh egg to 2.4.1, adjust util fnc for pretty intervals 
remove debugs
 2015-01-30 13:21:35 -05:00
Dannon Baker dba89dff83 Convert everything from elementtree to stdlib xml module. 2015-01-29 16:10:56 -05:00
Nate Coraor 29dda3e11a Remove GeneTrack remnants. 2015-01-28 16:29:21 -05:00
Nate Coraor 23f3e479be Remove memdump, which probably has not worked for many years. 2015-01-28 16:20:30 -05:00
Dannon Baker 88bd4475ad Add (new) repoze.lru dependency of Routes 2.1. 2015-01-21 11:08:07 -05:00
Dannon Baker 666a2b58ab merge. 2015-01-21 10:46:39 -05:00
Dannon Baker ddbe00c532 Update Routes egg to 2.1. This is an attempt to fix the intermittent url_for issues seen on main. 2015-01-21 10:46:06 -05:00
Martin Cech 045da43e46 update whoosh; this most probably breaks data library whoosh search 
the issue will be addressed subsequently
 2015-01-20 10:27:39 -05:00
Dannon Baker 3298c40649 Add six egg for John. It'll be in use soon. 2015-01-15 12:23:33 -05:00
Dannon Baker 953a2ecf86 Bump bioblend to 0.5.2. The egg no longer depends on mock, which is sort of a bandaid fix for the startup eggs dependency bug not fetching it correctly. TODO: followup on that bug. 2015-01-15 11:59:20 -05:00
Dave Bouvier a9acbd6df5 Upgrade mercurial egg to 3.2.4. 2015-01-07 13:48:17 -05:00
Dan Blanchard 6f53287193 Update DRMAA Python version in eggs.ini to 0.7.6. 
This version has better string handling and supports Python 3.
 2014-06-16 13:27:38 +00:00
Nate Coraor 4768c9de15 Drop threadframe for heartbeat (its functionality was integrated in sys in Python 2.5...) 2014-06-12 09:51:45 -04:00
Nate Coraor 5a460288df Upgrade kombu/amqp to fix ssl disconnect on consumer timeout bug: https://github.com/celery/py-amqp/pull/38 2014-06-05 10:07:39 -04:00
Dannon Baker fceadaf1f2 Kombu also requires ordereddict backport to support python2.6, more eggs. 2014-05-19 18:58:13 -04:00
Dannon Baker c05bef0908 Add conditional requirement of importlib for python 2.6/kombu. 2014-05-19 18:11:52 -04:00
Dannon Baker 87131537f9 Add simplejson back again until 'anyjson' changes are pushed through bioblend. 2014-04-24 11:03:23 -04:00
Dannon Baker fb10c696a8 Add mock, poster eggs. Both may go away depending on which way bioblend goes w/ deps, but it keeps things working for now. 2014-04-23 17:07:39 -04:00
Dannon Baker a329745571 Merge. 2014-04-21 17:10:48 -04:00
Dannon Baker e5052df2a4 Convert cloudlaunch over to bioblend egg/launching, unifying the two approaches. The bioblend codebase will be where improvements (vpc, etc) happen moving forward. 2014-04-21 17:10:23 -04:00
Nate Coraor f82e997a8f Update bx-python to 0.7.2 2014-04-15 13:32:31 -04:00
Nicola Soranzo f73d5fba6c Fix old wiki links. 2014-04-10 20:00:45 +02:00
John Chilton 9ca58431e3 Add dependency on requests 2.2.1. 
Will improve and fix bugs in API testing and API driven tests of tools.
 2014-03-20 10:43:24 -05:00
Dannon Baker 72f2a1b5bd Update boto to 2.27.0 -- thirequired update to support VPC support that worked incorrectly in previous versions. 2014-03-18 11:04:55 -04:00
Dannon Baker cc03a9b144 Add PyYAML 3.10 egg. 2014-02-20 13:10:00 -05:00
Nate Coraor 38f36eb88f Remove obsolete DRMAA_python egg from eggs.ini. 2014-02-20 10:51:42 -05:00
Dannon Baker c6d9b53ce5 Update boto to 2.25.0 in anticipation of supporting VPC 2014-02-19 19:33:27 -05:00
Dannon Baker 7474579310 Swap amqplib for amqp. This was mostly a drop-in replacement, since it's a currently-maintained fork of amqplib, with slight updates to work with amqp 0-9-1. 2014-02-19 14:27:10 -05:00
Dannon Baker 31a190424a Add kombu, amqp, anyjson eggs. 2014-02-18 11:47:23 -05:00
Dannon Baker a48f25f397 Update guppy egg to 0.1.10. This resolves issues encountered on particular platforms (http://sourceforge.net/p/guppy-pe/bugs/10/) 2014-01-31 09:29:24 -05:00
Dannon Baker 2ad0bfae20 Add pytz egg. 2014-01-31 09:26:07 -05:00
Dannon Baker f257a11448 Upgrade Babel egg from 0.9.4 to 1.3. This resolves several known issues with utf-8 for particular distributions. 2014-01-31 07:43:28 -05:00
Dannon Baker 2c7b758b32 Eliminate simplejson for real this time. Update WebHelpers to v 1.3 (no longer requires simplejson), fix deprecated methods. 2014-01-13 10:54:20 -05:00
Dannon Baker d85edddba1 Temporarily add simplejson back until webhelpers is updated 2014-01-10 14:22:03 -05:00
Dannon Baker 559ecb4ec8 Remove dependency on simplejson; convert everything over to using the json module in the python standard library. 2014-01-10 07:29:05 -05:00
Nate Coraor e36ec9b5e8 Upgrade psycopg2 to 2.5.1 (statically linked to PostgreSQL 9.2.4). 2013-09-23 18:45:58 -04:00
Nate Coraor 2dae23f29c Update drmaa to 0.6 2013-09-23 15:08:34 -04:00
Dave Bouvier 1011312308 Add paramiko egg, which fabric 1.7 depends on. 2013-09-23 11:43:06 -04:00
Dave Bouvier 2dc4bad29b Upgrade Fabric egg to 1.7.0. 2013-09-23 11:04:52 -04:00
Nate Coraor 126c02eb71 Experimental/alpha/in-development/incomplete object store plugin for iRODS. This plugin will probably set your iRODS instance on fire: do not use except in development/testing. 2013-08-28 16:20:19 -04:00