John Chilton 09fdac513d Fix extra index URL call in common startup. ...

- Use it for dev requirements also.
- Use more correct API target that supports older versions of dependencies on PyPI.

xref https://gist.github.com/jmchilton/ad8f180f5ac1eb5f689f815b04f603fa

2017-10-30 10:49:29 -04:00

..

api

Fix E127 errors introduced by previous commit

2017-08-17 11:35:39 +01:00

auth

Fixes for pycodestyle 2.2.0

2016-11-15 16:56:50 +00:00

cleanup_datasets

Remove container config log message from cleanup scripts logs

2017-08-18 12:35:04 +01:00

communication

Fix import order and Python3 compatibility

2017-08-18 12:35:04 +01:00

data_libraries

Backport of hardening fixes to 17.09

2017-10-18 13:03:49 -04:00

grt

Backport of hardening fixes to 17.09

2017-10-18 13:03:49 -04:00

loc_files

Fix E127 errors introduced by previous commit

2017-08-17 11:35:39 +01:00

metagenomics

Partially lint scripts/ .

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

microbes

Backport of hardening fixes to 17.09

2017-10-18 13:03:49 -04:00

migrate_tools

Fix all E201 and E202 style errors

2017-08-17 11:35:39 +01:00

others

Fix E127 errors introduced by previous commit

2017-08-17 11:35:39 +01:00

slideshow

Align architecture slides with training-material remarkjs template.

2017-02-10 15:32:58 -05:00

taxonomy

Tweaks to taxonomy tools

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

tool_shed

Backport of hardening fixes to 17.09

2017-10-18 13:03:49 -04:00

tools

Fix all E201 and E202 style errors

2017-08-17 11:35:39 +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.py

Fix all E201 and E202 style errors

2017-08-17 11:35:39 +01:00

build_toolbox.py

Fix I201 errors from flake8-import-order

2016-11-23 18:31:04 +00:00

build_universe_config.py

Fixes for pycodestyle 2.2.0

2016-11-15 16:56:50 +00:00

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

Fix all E201 and E202 style errors

2017-08-17 11:35:39 +01:00

check_python.py

Fix all E201 and E202 style errors

2017-08-17 11:35:39 +01:00

common_startup_functions.sh

Centralize launching server for reports and tool shed.

2017-08-10 13:14:55 -04:00

common_startup.sh

Fix extra index URL call in common startup.

2017-10-30 10:49:29 -04:00

config_sample_to_kwalify.py

Scripts to manage configuration infrastructure.

2017-08-10 13:14:55 -04:00

create_db.py

Fixes for pycodestyle 2.2.0

2016-11-15 16:56:50 +00:00

db_shell.py

Fix all E201 and E202 style errors

2017-08-17 11:35:39 +01:00

drmaa_external_killer.py

Fix all E201 and E202 style errors

2017-08-17 11:35:39 +01:00

drmaa_external_runner.py

Fix E127 errors introduced by previous commit

2017-08-17 11:35:39 +01:00

dump_tour.py

PEP-8 fix as pointed out by @nsoranzo.

2016-12-01 15:58:12 -05:00

edam_mapping.py

Backport of hardening fixes to 17.09

2017-10-18 13:03:49 -04:00

external_chown_script.py

Fix all E201 and E202 style errors

2017-08-17 11:35:39 +01:00

extract_dataset_part.py

Fix all E201 and E202 style errors

2017-08-17 11:35:39 +01:00

extract_toolbox_sections.py

Fix E127 errors introduced by previous commit

2017-08-17 11:35:39 +01:00

fetch_eggs.py

Python3: scripts/cleanup_datasets scripts/data_libraries

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

functional_tests.py

Fix all E201 and E202 style errors

2017-08-17 11:35:39 +01:00

galaxy-main

Fix a bunch of errors reported by Sphinx

2016-10-24 19:42:19 +01:00

get_platforms.py

Fix all E201 and E202 style errors

2017-08-17 11:35:39 +01:00

helper.py

Fix E127 errors introduced by previous commit

2017-08-17 11:35:39 +01:00

manage_db.py

Fix all E201 and E202 style errors

2017-08-17 11:35:39 +01:00

manage_tool_dependencies.py

Fix all E201 and E202 style errors

2017-08-17 11:35:39 +01:00

manage_tools.py

Fix all E201 and E202 style errors

2017-08-17 11:35:39 +01:00

nosetests.py

Fix all E201 and E202 style errors

2017-08-17 11:35:39 +01:00

paster.py

Fix all E201 and E202 style errors

2017-08-17 11:35:39 +01:00

patch.sh

Add the script I used to create security patches

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

rst2html.py

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

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

runtime_stats.py

Fix all E201 and E202 style errors

2017-08-17 11:35:39 +01:00

secret_decoder_ring.py

Fix import order and Python3 compatibility

2017-08-18 12:35:04 +01:00

set_dataset_sizes.py

Fix E127 errors introduced by previous commit

2017-08-17 11:35:39 +01:00

set_user_disk_usage.py

Fix E127 errors introduced by previous commit

2017-08-17 11:35:39 +01:00

summarize_timings.py

Fixes for pycodestyle 2.2.0

2016-11-15 16:56:50 +00:00

sync_reports_config.py

Fixes for pycodestyle 2.2.0

2016-11-15 16:56:50 +00:00

transfer.py

Backport of hardening fixes to 17.09

2017-10-18 13:03:49 -04:00

update_shed_config_path.py

Fix all E201 and E202 style errors

2017-08-17 11:35:39 +01:00

validate_tools.sh

Refactor most of tool validation for CI into a standalone script.

2016-09-16 15:07:42 -04:00