Martin Cech db1bb2f191 Merge pull request #1556 from jmchilton/datatype_imports ...

Code design and legacy cleanup of datatypes and metadata.

2016-02-09 12:44:59 -05:00

..

api

Merge branch 'dev' of https://github.com/galaxyproject/galaxy into smash_eggs

2015-10-20 18:59:06 -04:00

auth

Clean up pam auth helper.

2015-07-17 08:06:04 -04:00

cleanup_datasets

Address W503 and E721 errors now enforced by pep8 1.7.

2016-01-13 10:41:27 -05:00

data_libraries

Remove egg cruft from scripts/

2015-09-21 15:55:07 -04:00

loc_files

Convert everything from elementtree to stdlib xml module.

2015-01-29 16:10:56 -05:00

metagenomics

Partially lint scripts/ .

2015-07-13 20:13:28 +01:00

microbes

Fix all E712 errors. Standardize sqlalchemy imports.

2015-07-14 20:49:34 +01:00

migrate_tools

Partially lint scripts/ .

2015-07-13 20:13:28 +01:00

others

Remove egg cruft from scripts/

2015-09-21 15:55:07 -04:00

taxonomy

Tweaks to taxonomy tools

2010-11-15 15:04:59 -05:00

tool_shed

Remove egg cruft from scripts/

2015-09-21 15:55:07 -04:00

tools

Remove remaining references to galaxy.eggs . flake8 some files in tools/ .

2015-10-26 19:29:13 +00:00

__init__.py

Adding db_shell.py that can be used to simplify writing command line

2012-03-05 12:11:53 -06:00

binary_compatibility.py

Add the scientific platform (Scientific Linux) as binary compatible

2016-02-03 13:33:42 -05:00

bootstrap_history_announce_template.rst

Fixup end of release items for release notes.

2015-08-27 13:04:17 +01:00

bootstrap_history.py

Adapt release notes boot strap to new issues.

2016-01-26 10:03:08 +00:00

build_toolbox.py

Partially lint scripts/ .

2015-07-13 20:13:28 +01:00

build_universe_config.py

Partially lint scripts/ .

2015-07-13 20:13:28 +01:00

check_eggs.py

Add stub fetch_eggs.py/check_eggs.py for people whose build/test/run

2015-11-06 11:06:11 -05:00

check_galaxy.py

Remove egg cruft from scripts/

2015-09-21 15:55:07 -04:00

check_python.py

Partially lint scripts/ .

2015-07-13 20:13:28 +01:00

common_startup.sh

Always use the python hashlib for verifying the virtualenv download in

2016-02-03 13:16:27 -05:00

create_db.py

Rename universe_wsgi.ini -> galaxy.ini everywhere.

2014-09-15 16:43:51 -04:00

db_shell.py

Remove egg cruft from scripts/

2015-09-21 15:55:07 -04:00

drmaa_external_killer.py

Remove egg cruft from scripts/

2015-09-21 15:55:07 -04:00

drmaa_external_runner.py

Remove egg cruft from scripts/

2015-09-21 15:55:07 -04:00

edam_mapping.py

Use os.pardir everywhere instead of '..' .

2015-07-14 16:20:29 +01:00

external_chown_script.py

Partially lint scripts/ .

2015-07-13 20:13:28 +01:00

extract_dataset_part.py

Partially lint scripts/ .

2015-07-13 20:13:28 +01:00

extract_toolbox_sections.py

Partially lint scripts/ .

2015-07-13 20:13:28 +01:00

fetch_eggs.py

Add stub fetch_eggs.py/check_eggs.py for people whose build/test/run

2015-11-06 11:06:11 -05:00

functional_tests.py

Do not check for tool migrations when running tests.

2015-11-25 15:19:30 +00:00

galaxy-main

Rename lib/galaxy/main.py to scripts/galaxy-main since that makes more

2015-10-27 16:03:33 -04:00

get_platforms.py

Use os.pardir everywhere instead of '..' .

2015-07-14 16:20:29 +01:00

helper.py

Use os.pardir everywhere instead of '..' .

2015-07-14 16:20:29 +01:00

manage_db.py

Remove egg cruft from scripts/

2015-09-21 15:55:07 -04:00

manage_tools.py

Remove egg cruft from scripts/

2015-09-21 15:55:07 -04:00

nosetests.py

Fix additional lint errors created by modifying stuff in scripts/

2015-09-21 16:01:22 -04:00

paster.py

Remove egg cruft from scripts/

2015-09-21 15:55:07 -04:00

rst2html.py

Cleaning up modules. Still a few stragglers that can't be easily eggified.

2006-11-15 18:27:21 +00:00

run_selenium_tests.sh

Adding workflow tests using Selenium. These actually drive the web browser to test the Javascript UI effectively. Currently can't run under buildbot.

2009-03-27 18:55:00 -04:00

runtime_stats.py

Partially lint scripts/ .

2015-07-13 20:13:28 +01:00

set_dataset_sizes.py

Use os.pardir everywhere instead of '..' .

2015-07-14 16:20:29 +01:00

set_user_disk_usage.py

Use os.pardir everywhere instead of '..' .

2015-07-14 16:20:29 +01:00

summarize_timings.py

Fix additional lint errors created by modifying stuff in scripts/

2015-09-21 16:01:22 -04:00

sync_reports_config.py

Changed reports_wsgi.ini to reports.ini

2015-11-27 23:50:46 +05:30

transfer.py

Remove egg cruft from scripts/

2015-09-21 15:55:07 -04:00

update_shed_config_path.py

Remove egg cruft from scripts/

2015-09-21 15:55:07 -04:00