Nate Coraor 1e312faccd Make Galaxy installable the Pythonic way via setup.py. Incomplete, but ...

if you install it and then run `galaxy` from the root of a Galaxy clone,
after installing all the dependencies (see the end of
./scripts/common_startup.sh), it should start.

2016-07-07 13:49:27 -04:00

..

api

Python3:script/api/

2016-06-25 20:49:06 -04:00

auth

Clean up pam auth helper.

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

cleanup_datasets

Python3: small fixes to previous commits

2016-06-26 02:43:57 -04:00

data_libraries

Python3: small fixes to previous commits

2016-06-26 02:43:57 -04:00

loc_files

Fix the remaining 1334 flake8 errors in scripts/ . Close #391.

2016-02-18 15:45:15 +00:00

metagenomics

Partially lint scripts/ .

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

microbes

Fix more E203 flake8 errors

2016-05-17 23:53:16 +01:00

migrate_tools

Use __file__ when adding paths to sys.path instead of os.getcwd() .

2016-02-18 15:45:15 +00:00

others

Python 3: use "as" instead of comma in except clause

2016-05-17 23:53:16 +01:00

taxonomy

Tweaks to taxonomy tools

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

tool_shed

Fix more E203 flake8 errors

2016-05-17 23:53:16 +01:00

tools

Python 3: use "as" instead of comma in except clause

2016-05-17 23:53:16 +01:00

__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

Python3: small fixes to previous commits

2016-06-26 02:43:57 -04:00

build_toolbox.py

Python3: scripts/cleanup_datasets scripts/data_libraries

2016-06-25 21:49:25 -04:00

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

Python3: scripts/cleanup_datasets scripts/data_libraries

2016-06-25 21:49:25 -04:00

check_python.py

Python3: scripts/cleanup_datasets scripts/data_libraries

2016-06-25 21:49:25 -04:00

common_startup.sh

Remove unused $GXPIP_VERSION

2016-05-20 09:44:55 -04:00

create_db.py

Use __file__ when adding paths to sys.path instead of os.getcwd() .

2016-02-18 15:45:15 +00:00

db_shell.py

Python3: small fixes to previous commits

2016-06-26 02:43:57 -04:00

drmaa_external_killer.py

Python 3: use "as" instead of comma in except clause

2016-05-17 23:53:16 +01:00

drmaa_external_runner.py

Python3: scripts/cleanup_datasets scripts/data_libraries

2016-06-25 21:49:25 -04:00

edam_mapping.py

Use __file__ when adding paths to sys.path instead of os.getcwd() .

2016-02-18 15:45:15 +00:00

external_chown_script.py

Partially lint scripts/ .

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

extract_dataset_part.py

Python 3: use "as" instead of comma in except clause

2016-05-17 23:53:16 +01:00

extract_toolbox_sections.py

Partially lint scripts/ .

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

fetch_eggs.py

Python3: scripts/cleanup_datasets scripts/data_libraries

2016-06-25 21:49:25 -04:00

functional_tests.py

Implement IntegrationTestCase and EmbeddedPulsarTestCase.

2016-04-04 20:08:55 -04:00

galaxy

Make Galaxy installable the Pythonic way via setup.py. Incomplete, but

2016-07-07 13:49:27 -04:00

galaxy-main

Fix the remaining 1334 flake8 errors in scripts/ . Close #391.

2016-02-18 15:45:15 +00:00

get_platforms.py

Fix the remaining 1334 flake8 errors in scripts/ . Close #391.

2016-02-18 15:45:15 +00:00

helper.py

Use __file__ when adding paths to sys.path instead of os.getcwd() .

2016-02-18 15:45:15 +00:00

manage_db.py

Use __file__ when adding paths to sys.path instead of os.getcwd() .

2016-02-18 15:45:15 +00:00

manage_tools.py

Use __file__ when adding paths to sys.path instead of os.getcwd() .

2016-02-18 15:45:15 +00:00

nosetests.py

Fix additional lint errors created by modifying stuff in scripts/

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

paster.py

Use __file__ when adding paths to sys.path instead of os.getcwd() .

2016-02-18 15:45:15 +00:00

patch.sh

Add the script I used to create security patches

2016-02-24 16:54:30 -05:00

rst2html.py

…

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

Fix more E203 flake8 errors

2016-05-17 23:53:16 +01:00

set_dataset_sizes.py

Initialize objectstore for fix_set_dataset_sizes script (otherwise it doesn't currently run successfully)

2016-06-25 19:04:44 -04:00

set_user_disk_usage.py

Use __file__ when adding paths to sys.path instead of os.getcwd() .

2016-02-18 15:45:15 +00:00

summarize_timings.py

Improvements to workflow scaling performance testing scripts.

2016-03-21 01:39:45 +00:00

sync_reports_config.py

Changed reports_wsgi.ini to reports.ini

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

transfer.py

Python 3: use "as" instead of comma in except clause

2016-05-17 23:53:16 +01:00

update_shed_config_path.py

Use __file__ when adding paths to sys.path instead of os.getcwd() .

2016-02-18 15:45:15 +00:00