galaxy

api

Drop support for retired Python 3.5

2020-10-07 11:52:13 +01:00

auth

Drop support for retired Python 3.5

2020-10-07 11:52:13 +01:00

cleanup_datasets

Drop support for retired Python 3.5

2020-10-07 11:52:13 +01:00

grt

Drop support for retired Python 3.5

2020-10-07 11:52:13 +01:00

interactivetools

Fix interactivetool python 3 support and tests

2020-01-09 14:40:48 +01:00

loc_files

Drop support for retired Python 3.5

2020-10-07 11:52:13 +01:00

metagenomics

Drop support for retired Python 3.5

2020-10-07 11:52:13 +01:00

microbes

Drop support for retired Python 3.5

2020-10-07 11:52:13 +01:00

objectstore

Drop support for retired Python 3.5

2020-10-07 11:52:13 +01:00

slideshow

Drop support for retired Python 3.5

2020-10-07 11:52:13 +01:00

taxonomy

…

tool_shed

Drop support for retired Python 3.5

2020-10-07 11:52:13 +01:00

tools

Drop support for retired Python 3.5

2020-10-07 11:52:13 +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

apply_tags.py

Drop support for retired Python 3.5

2020-10-07 11:52:13 +01:00

bootstrap_history.py

Drop support for retired Python 3.5

2020-10-07 11:52:13 +01:00

build_toolbox.py

Drop support for retired Python 3.5

2020-10-07 11:52:13 +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_model.py

Let get_config() handle env override

2020-10-04 23:25:23 -04:00

check_python.py

Drop support for retired Python 3.5

2020-10-07 11:52:13 +01:00

common_startup_functions.sh

Hide "python: not found" error when Python 2 is not installed

2020-04-27 02:32:06 +01:00

common_startup.sh

Create Python3 virtualenv by default

2020-02-26 10:53:43 +01:00

config_sample_to_kwalify.py

Drop support for retired Python 3.5

2020-10-07 11:52:13 +01:00

create_db.py

Refactor tool_shed webapp out of Galaxy.

2019-11-11 12:32:19 -05:00

db_shell.py

Drop support for retired Python 3.5

2020-10-07 11:52:13 +01:00

docker_swarm_manager.py

Drop support for retired Python 3.5

2020-10-07 11:52:13 +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

Drop support for retired Python 3.5

2020-10-07 11:52:13 +01:00

dump_library_paths.py

Add a script for dumping library file paths for backup

2018-02-01 13:05:16 -05:00

edam_mapping.py

Drop support for retired Python 3.5

2020-10-07 11:52:13 +01:00

external_chown_script.py

Fix all E201 and E202 style errors

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

extract_dataset_part.py

Drop support for retired Python 3.5

2020-10-07 11:52:13 +01:00

extract_toolbox_sections.py

Drop support for retired Python 3.5

2020-10-07 11:52:13 +01:00

fapi.py

Add FastAPI roles controller, de-duplicate app initialization for FastAPI.

2020-12-22 11:18:31 +01:00

fetch_eggs.py

Drop support for retired Python 3.5

2020-10-07 11:52:13 +01:00

functional_tests.py

Decouple API and Selenium tests from galaxy-test-driver (and the whole app!)

2020-07-06 13:57:48 -04:00

galaxy

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

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

galaxy_main.py

Adjust galaxy-main script so we can import from it for easy app setup

2020-12-22 11:18:00 +01:00

galaxy-main

Adjust galaxy-main script so we can import from it for easy app setup

2020-12-22 11:18:00 +01:00

get_platforms.py

Drop support for retired Python 3.5

2020-10-07 11:52:13 +01:00

get_uwsgi_args.py

Set uwsgi's honor-stdin when in debug mode

2020-10-28 14:08:25 -04:00

helper.py

Drop support for retired Python 3.5

2020-10-07 11:52:13 +01:00

maintenance.sh

Fix issues reported by ShellCheck

2019-06-13 12:53:26 +01:00

manage_db.py

Enable on-screen logging for create_db.py and manage_db.py

2019-08-18 11:17:34 +01:00

manage_tool_dependencies.py

Rework config locating logic (it was reading the sample again).

2019-07-08 11:28:31 +02:00

nosetests.py

Fix all E201 and E202 style errors

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

pages_identifier_conversion.py

clean-fix-page-api - move page revision creation to manager.

2019-05-29 13:43:49 -04:00

paster.py

Drop support for retired Python 3.5

2020-10-07 11:52:13 +01:00

patch.sh

Add the script I used to create security patches

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

plugin_staging.py

Drop support for retired Python 3.5

2020-10-07 11:52:13 +01:00

release-diff.py

Upgrade syntax using pyupgrade --py36-plus

2020-11-18 16:16:46 +00:00

rst2html.py

Fix all E722 errors and ignore E741

2017-10-24 11:29:09 +01:00

runtime_stats.py

Drop support for retired Python 3.5

2020-10-07 11:52:13 +01:00

secret_decoder_ring.py

Refactor galaxy.web.security into galaxy.security.idencoding.

2019-03-19 14:28:31 -04:00

set_dataset_sizes.py

Drop support for retired Python 3.5

2020-10-07 11:52:13 +01:00

set_user_disk_usage.py

Drop support for retired Python 3.5

2020-10-07 11:52:13 +01:00

summarize_timings.py

Drop support for retired Python 3.5

2020-10-07 11:52:13 +01:00

update_shed_config_path.py

Drop support for retired Python 3.5

2020-10-07 11:52:13 +01:00

validate_tools.sh

Switch to lxml for xml parsing

2020-05-12 15:00:27 +02:00