galaxy

api

Fix for example workflow api script failing when the requested library doesn't exist and an attempt is made to create it.

2011-03-15 15:39:35 -04:00

cleanup_datasets

Another patch from Assaf Gordon for the cleanup_datasets.py script.

2011-07-14 15:58:06 -04:00

data_libraries

Brad Chapman's patch for fixing an issue where the current user roles were not passed to a template.

2011-02-01 13:11:24 -05:00

galaxy_messaging

1. Add support for manual file transfer from external services to a Galaxy data library using scp. This is currently enabled via the enable_beta_job_managers flag. This should not currently be used because it hits the db significantly to determine if dererred jobs are queued for running. The plan is to use messaging for this, but that approach is not yet implemented. Rabbit mq is still being used to enable manual file transfer to Galaxy data libraries when the enable_beta_job_managers flag is not set.

2011-04-13 13:52:05 -04:00

loc_files

Added a sample loc file listing all fasta files and a script to generate the file given a base genome directory.

2010-11-08 00:43:02 -05:00

metagenomics

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microbes

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others

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scramble

Testing Python 2.7.

2011-06-08 23:50:07 -04:00

taxonomy

Tweaks to taxonomy tools

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

tool_shed

Commit versions of tools from the last_gen tool shed in order of oldest -> newest in the next-gen tool shed. Fixes issue # 578.

2011-06-07 11:32:11 -04:00

tools

Fix minor typo in 5233:b5f4df8c3956

2011-03-18 13:40:58 -04:00

build_toolbox.py

* Remove Todo's that have been done

2011-04-14 14:07:36 +02:00

check_eggs.py

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

check_galaxy.py

Bugfix for check_galaxy (monitor script) since dataset deletion moved to the dataset controller.

2011-08-04 11:01:22 -04:00

check_python.py

Testing Python 2.7.

2011-06-08 23:50:07 -04:00

dist-scramble.py

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

egg_packager_template.py

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extract_toolbox_sections.py

introduction of toolboxposition elements

2011-04-14 15:09:00 +02:00

fetch_eggs.py

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

functional_tests.py

Changes to allow all test outputs generated by twill to be saved to a folder pointed to by

2011-04-14 08:09:48 -04:00

get_platforms.py

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make_egg_packager.py

Bugfix for the offline egg packaging script.

2011-08-03 10:13:01 -04:00

manage_db.py

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

nosetests.py

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paster.py

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rst2html.py

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run_selenium_tests.sh

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scramble.py

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

set_dataset_sizes.py

Disk space usage accounting: Users can see how much disk a history is consuming. Disk used is also a column on the history grid. Users can also forcibly purge a dataset from their history. Included is a script (scripts/set_dataset_sizes.py) which will set the value of the new total_size column on the dataset table (includes the contents of the extra_files_path and metadata files).

2011-06-14 12:43:42 -04:00

set_metadata.py

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set_user_disk_usage.py

Move a number of dataset-related methods from the root controller to the dataset controller and encode their ids. Also add user disk usage accounting.

2011-07-26 13:30:07 -04:00

test_dist_egg.py

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transfer.py

1. Add support for manual file transfer from external services to a Galaxy data library using scp. This is currently enabled via the enable_beta_job_managers flag. This should not currently be used because it hits the db significantly to determine if dererred jobs are queued for running. The plan is to use messaging for this, but that approach is not yet implemented. Rabbit mq is still being used to enable manual file transfer to Galaxy data libraries when the enable_beta_job_managers flag is not set.

2011-04-13 13:52:05 -04:00

yuicompressor.jar

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