Branch: refs/heads/dev
Home: https://github.com/galaxyproject/galaxy
Commit: 914adfcc0cd5e8b060df059da9a4f8e9b1293fde
https://github.com/galaxyproject/galaxy/commit/914adfcc0cd5e8b060df059da9a4…
Author: John Chilton <jmchilton(a)gmail.com>
Date: 2015-12-18 (Fri, 18 Dec 2015)
Changed paths:
M lib/galaxy/tools/loader_directory.py
M lib/galaxy/tools/toolbox/base.py
M lib/tool_shed/metadata/metadata_generator.py
Log Message:
-----------
Sychronize tool shed, planemo, and toolbox code for filtering out non-tool XML files.
A single abstraction will allow toolbox and planemo to deal with other kinds of tools in the future, and the stronger preconditions should eliminate some busy error logging when monitoring a tool directory.
Commit: 20b47f3ca208ded3682f68591f5801b85547efc1
https://github.com/galaxyproject/galaxy/commit/20b47f3ca208ded3682f68591f58…
Author: John Chilton <jmchilton(a)gmail.com>
Date: 2015-12-18 (Fri, 18 Dec 2015)
Changed paths:
M lib/galaxy/tools/loader_directory.py
M lib/galaxy/tools/toolbox/base.py
Log Message:
-----------
Update looks_like_a_tool to respect enable_beta_tool_formats.
Default is off obviously, so for instance the tool shed will never think unsupported beta tools are real tools.
Commit: a8ed6146e88642b17273e316c571c5a5a9f4df45
https://github.com/galaxyproject/galaxy/commit/a8ed6146e88642b17273e316c571…
Author: John Chilton <jmchilton(a)gmail.com>
Date: 2015-12-18 (Fri, 18 Dec 2015)
Changed paths:
M lib/galaxy/tools/parser/factory.py
M lib/galaxy/tools/parser/yaml.py
M lib/galaxy/util/odict.py
Log Message:
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Tweak YAML tools to use ordered dictionaries.
Order of inputs and outputs in Galaxy is important, so preserve this order if using dictionary-style (both available) for inputs and/or outputs.
Commit: b7b8f097d5a7617b2997f254b4e0229adfaae623
https://github.com/galaxyproject/galaxy/commit/b7b8f097d5a7617b2997f254b4e0…
Author: John Chilton <jmchilton(a)gmail.com>
Date: 2015-12-18 (Fri, 18 Dec 2015)
Changed paths:
M lib/galaxy/tools/parser/yaml.py
Log Message:
-----------
Enhance YAML/dictionary tool rep. to allow output collections.
Commit: f874d559b7db28c3fa7b4df6844f077da419911a
https://github.com/galaxyproject/galaxy/commit/f874d559b7db28c3fa7b4df6844f…
Author: Martin Cech <cech.marten(a)gmail.com>
Date: 2015-12-22 (Tue, 22 Dec 2015)
Changed paths:
M lib/galaxy/tools/loader_directory.py
M lib/galaxy/tools/parser/factory.py
M lib/galaxy/tools/parser/yaml.py
M lib/galaxy/tools/toolbox/base.py
M lib/galaxy/util/odict.py
M lib/tool_shed/metadata/metadata_generator.py
Log Message:
-----------
Merge pull request #1368 from jmchilton/looks_like_a_tool
Unify and Abstract Code for Checking if File Looks Like a Tool
Compare: https://github.com/galaxyproject/galaxy/compare/ae2b94824a32...f874d559b7db
Branch: refs/heads/master
Home: https://github.com/galaxyproject/usegalaxy-playbook
Commit: b77be75830614dcc86bd95c8ef544176f9909c78
https://github.com/galaxyproject/usegalaxy-playbook/commit/b77be75830614dcc…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2015-12-22 (Tue, 22 Dec 2015)
Changed paths:
M galaxy.yml
M galaxy_configs.yml
M production/group_vars/galaxyservers.yml
M stage/group_vars/galaxyservers.yml
M templates/supervisor/galaxy_installer.conf.j2
Log Message:
-----------
Split out the installer config so it can use a local temp for performance reasons.