Branch: refs/heads/dev
Home: https://github.com/galaxyproject/galaxy
Commit: c2a49de6cee056d6cd942e3b392ffbd15961fb42
https://github.com/galaxyproject/galaxy/commit/c2a49de6cee056d6cd942e3b392f…
Author: John Chilton <jmchilton(a)gmail.com>
Date: 2018-10-24 (Wed, 24 Oct 2018)
Changed paths:
M config/datatypes_conf.xml.sample
A lib/galaxy/datatypes/converters/tar_to_directory.xml
M lib/galaxy/datatypes/data.py
M lib/galaxy/tools/__init__.py
M test/functional/tools/sample_datatypes_conf.xml
M test/integration/test_upload_configuration_options.py
Log Message:
-----------
Directory datatype for Galaxy.
Commit: dd6b185ab82b7e251ba7ad3b69abbda7ab4018b9
https://github.com/galaxyproject/galaxy/commit/dd6b185ab82b7e251ba7ad3b69ab…
Author: John Chilton <jmchilton(a)gmail.com>
Date: 2018-10-24 (Wed, 24 Oct 2018)
Changed paths:
M lib/galaxy/tools/parameters/grouping.py
M lib/galaxy/util/compression_utils.py
M test/api/test_tools.py
M test/api/test_tools_upload.py
M tools/data_source/upload.py
M tools/data_source/upload.xml
Log Message:
-----------
Implement composite uploads on arbitrary datatypes.
Prior to this, composite uploads were only allowed for select data types. As far as I can tell, the framework itself allows arbitrary datatypes to have extra files. This allows the upload API to take in extra files for datatypes that aren't explicitly annotated has having extra files.
These may be specified one at a time or in directory structures via tar files.
Commit: e3bc005a8602a47e542129b5be53aa6316525e90
https://github.com/galaxyproject/galaxy/commit/e3bc005a8602a47e542129b5be53…
Author: John Chilton <jmchilton(a)gmail.com>
Date: 2018-10-24 (Wed, 24 Oct 2018)
Changed paths:
M lib/galaxy/webapps/galaxy/api/datasets.py
M lib/galaxy/webapps/galaxy/buildapp.py
M test/api/test_tools.py
M test/base/populators.py
Log Message:
-----------
Implement API endpoint for indexing extra files in a dataset.
Commit: f035d642ceb2a4835d774996f3b3d78588318834
https://github.com/galaxyproject/galaxy/commit/f035d642ceb2a4835d774996f3b3…
Author: John Chilton <jmchilton(a)gmail.com>
Date: 2018-11-01 (Thu, 01 Nov 2018)
Changed paths:
M config/datatypes_conf.xml.sample
A lib/galaxy/datatypes/converters/tar_to_directory.xml
M lib/galaxy/datatypes/data.py
M lib/galaxy/tools/__init__.py
M lib/galaxy/tools/parameters/grouping.py
M lib/galaxy/util/compression_utils.py
M lib/galaxy/webapps/galaxy/api/datasets.py
M lib/galaxy/webapps/galaxy/buildapp.py
M test/api/test_tools.py
M test/api/test_tools_upload.py
M test/base/populators.py
M test/functional/tools/sample_datatypes_conf.xml
M test/integration/test_upload_configuration_options.py
M tools/data_source/upload.py
M tools/data_source/upload.xml
Log Message:
-----------
Merge pull request #6844 from jmchilton/compressed_types_and_extra_files
Infrastructure/API Support for Composite Uploads/Downloads
Compare: https://github.com/galaxyproject/galaxy/compare/c312c1014d0e...f035d642ceb2
**NOTE:** This service has been marked for deprecation: https://developer.github.com/changes/2018-04-25-github-services-deprecation/
Functionality will be removed from GitHub.com on January 31st, 2019.
Branch: refs/heads/dev
Home: https://github.com/galaxyproject/galaxy
Commit: c3dfdb0dc73bbc5339e285500dcaf345e5c67d60
https://github.com/galaxyproject/galaxy/commit/c3dfdb0dc73bbc5339e285500dca…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2018-10-29 (Mon, 29 Oct 2018)
Changed paths:
M config/migrated_tools_conf.xml.sample
M config/shed_tool_conf.xml.sample
M doc/source/admin/tool_panel.rst
M lib/galaxy/webapps/galaxy/api/tool_shed_repositories.py
M lib/galaxy/webapps/galaxy/controllers/admin_toolshed.py
M lib/tool_shed/galaxy_install/migrate/check.py
M lib/tool_shed/util/common_util.py
Log Message:
-----------
Default shed tool installation to database/shed_tools instead of
../shed_tools
Commit: c312c1014d0e85920f630bf3d3e02e508c636b84
https://github.com/galaxyproject/galaxy/commit/c312c1014d0e85920f630bf3d3e0…
Author: John Chilton <jmchilton(a)gmail.com>
Date: 2018-11-01 (Thu, 01 Nov 2018)
Changed paths:
M config/migrated_tools_conf.xml.sample
M config/shed_tool_conf.xml.sample
M doc/source/admin/tool_panel.rst
M lib/galaxy/webapps/galaxy/api/tool_shed_repositories.py
M lib/galaxy/webapps/galaxy/controllers/admin_toolshed.py
M lib/tool_shed/galaxy_install/migrate/check.py
M lib/tool_shed/util/common_util.py
Log Message:
-----------
Merge pull request #6937 from natefoo/shed-tools-relocate
Default shed tool installation to database/shed_tools
Compare: https://github.com/galaxyproject/galaxy/compare/3108bd3b3729...c312c1014d0e
**NOTE:** This service has been marked for deprecation: https://developer.github.com/changes/2018-04-25-github-services-deprecation/
Functionality will be removed from GitHub.com on January 31st, 2019.