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18 Commits
Author SHA1 Message Date
Dannon Baker 623a5e165a Apply black formatting. 
Apply isort.
 2022-02-03 07:42:20 -05:00
Nicola Soranzo 9d74bba7fb Drop support for retired Python 3.5 
Upgrade syntax using `pyupgrade --py36-plus` .

Manually drop several `six` imports.

Also:
- Remove broken pr_cache in scripts/bootstrap_history.py
- Fix broken prefix removal in lib/galaxy/tool_util/deps/mulled/mulled_build.py
 2020-10-07 11:52:13 +01:00
Nicola Soranzo 9b1832abb1 Fix import order for cron/, scripts/ and test/ 2017-09-25 23:44:39 +01:00
Junzhou Wang f68a8198da Python3: scripts/cleanup_datasets scripts/data_libraries 2016-06-25 21:49:25 -04:00
Nate Coraor dc10ac7e3e Add stub fetch_eggs.py/check_eggs.py for people whose build/test/run 
pipelines may have been running these by hand. Print hopefully helpful
information and return 1. Fixes #1030
 2015-11-06 11:06:11 -05:00
Nate Coraor 633061f3e0 WIP: Stop using eggs, start using prebuilt wheels. 2015-07-04 15:18:50 -04:00
Dannon Baker de1cd01954 Fix path manipulation during fetch_eggs. This getting an external version of pkg_resources (and not ours in lib/) is what is causing the weird egg fetching errors. Newer versions of pkg_resources create a mangled distribution string for some eggs with nonstandard version identifiers. 2015-02-12 08:28:37 -05:00
John Chilton 01a9e91f39 Another fix for galaxy.ini being conditionally existent. 
Update scripts/check_eggs.py and scripts/fetch_eggs.py with logic to find the correct config file. These files should be refactored so they can share some of this code the way I refactored the database management scripts I guess.
 2014-10-03 01:34:42 -04:00
Nate Coraor 8fadc6392b Rename universe_wsgi.ini -> galaxy.ini everywhere. 2014-09-15 16:43:51 -04:00
Carl Eberhard d97ada4bb5 minor docstring adds in /scripts 2012-08-03 13:31:48 -04:00
Nate Coraor 758e13ac28 Remove hardcoding of universe_wsgi.ini, fixes issue #358 (except for the sample cleanup scripts which, as samples, are expected to be modified by the site anyway). 2011-06-08 12:10:51 -04:00
Nate Coraor a114889c4a Fix the platform argument to fetch_eggs.py and create an egg packager for easing the installation/updating of Galaxy on systems without a direct connection to the internet. 2010-08-30 11:31:58 -04:00
Nate Coraor 006716f53a Egg support overhaul, introduces a number of fixes to the ABI recognition, better build scripts, a rewrite of the eggs library and eliminition of the need for python -ES 2010-03-01 15:41:30 -05:00
Nate Coraor d0769e236a Add the GeneTrack egg. Also includes some enhancements and cleanup of the eggs/fetch/scramble code. 2009-11-04 12:58:48 -05:00
Nate Coraor dd2ba78f45 Add fetch_eggs option to pull for other platforms (e.g. cluster nodes) 2009-01-30 11:37:18 -05:00
Nate Coraor 7560751dc8 Separate framework and tool environments. 
Whether running locally or via PBS, $PATH should now be handled in your
user's environment.

This also fixes problems like PYTHONPATH on the new blast nodes being
wrong (because they are x86_64 and the frontends are i686).

Note that you can actually start Galaxy without having an eggs dir now.
 2008-04-11 20:11:21 +00:00
Nate Coraor 5f189e45c3 The enormous eggs-out-of-svn commit. More details at: 
http://g2.trac.bx.psu.edu/wiki/GalaxyEggs
 2008-03-27 19:27:05 +00:00
Nate Coraor 7d8656b55c First draft of the fetch_eggs.py script, this will download eggs from a 
distribution point and copy them to Galaxy's eggs/ directory.

fetch_eggs_tarball.py and check_python_platform.py are mostly for offline
systems.  fetch_eggs_tarball.py fetches eggs for your platform (or a
specified platform) and then tars them up, for copying to another system.
check_python_platform.py returns the string for your platform/interpreter
that will be used to download from the egg distribution site.
 2008-01-25 18:39:00 +00:00