January 2013 - galaxy-commits - lists.galaxyproject.org

commit/galaxy-central: greg: Fix for displaying an installed tool shed repository in an error state.
by Bitbucket 02 Jan '13

02 Jan '13

1 new commit in galaxy-central: https://bitbucket.org/galaxy/galaxy-central/changeset/9ee9956888d7/ changeset: 9ee9956888d7 user: greg date: 2013-01-02 22:35:02 summary: Fix for displaying an installed tool shed repository in an error state. affected #: 1 file <HgDiff 9ee9956888d7:5764598c6509 ['templates/admin/tool_shed_repository/manage_repository.mako']> Repository URL: https://bitbucket.org/galaxy/galaxy-central/ -- This is a commit notification from bitbucket.org. You are receiving this because you have the service enabled, addressing the recipient of this email.

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commit/galaxy-central: carlfeberhard: history_contents, index & show: add force_history_refresh key/value; history panel: fix broken addHdas when used via the updater, add force_history_refresh to reload the history panel when an hda/tool requests it; pack scripts
by Bitbucket 02 Jan '13

02 Jan '13

1 new commit in galaxy-central: https://bitbucket.org/galaxy/galaxy-central/changeset/5764598c6509/ changeset: 5764598c6509 user: carlfeberhard date: 2013-01-02 22:30:24 summary: history_contents, index & show: add force_history_refresh key/value; history panel: fix broken addHdas when used via the updater, add force_history_refresh to reload the history panel when an hda/tool requests it; pack scripts affected #: 5 files <HgDiff 5764598c6509:9ec94e5d6a28 ['lib/galaxy/webapps/galaxy/api/history_contents.py']><HgDiff 5764598c6509:9ec94e5d6a28 ['static/scripts/mvc/history/history-model.js']><HgDiff 5764598c6509:9ec94e5d6a28 ['static/scripts/mvc/history/history-panel.js']><HgDiff 5764598c6509:9ec94e5d6a28 ['static/scripts/packed/mvc/history/history-model.js']><HgDiff 5764598c6509:9ec94e5d6a28 ['static/scripts/packed/mvc/history/history-panel.js']> Repository URL: https://bitbucket.org/galaxy/galaxy-central/ -- This is a commit notification from bitbucket.org. You are receiving this because you have the service enabled, addressing the recipient of this email.

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commit/galaxy-central: inithello: Fix additional exception in shutdown method of LWR.
by Bitbucket 02 Jan '13

02 Jan '13

1 new commit in galaxy-central: https://bitbucket.org/galaxy/galaxy-central/changeset/9ec94e5d6a28/ changeset: 9ec94e5d6a28 user: inithello date: 2013-01-02 22:20:14 summary: Fix additional exception in shutdown method of LWR. affected #: 1 file <HgDiff 9ec94e5d6a28:4cbb80bbed37 ['lib/galaxy/jobs/runners/lwr.py']> Repository URL: https://bitbucket.org/galaxy/galaxy-central/ -- This is a commit notification from bitbucket.org. You are receiving this because you have the service enabled, addressing the recipient of this email.

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commit/galaxy-central: greg: Fixes for rendering tool dependencies and repository dependencies for tool shed repositories being installed into Galaxy.
by Bitbucket 02 Jan '13

02 Jan '13

1 new commit in galaxy-central: https://bitbucket.org/galaxy/galaxy-central/changeset/4cbb80bbed37/ changeset: 4cbb80bbed37 user: greg date: 2013-01-02 22:05:08 summary: Fixes for rendering tool dependencies and repository dependencies for tool shed repositories being installed into Galaxy. affected #: 6 files <HgDiff 4cbb80bbed37:019fd7e8a757 ['lib/galaxy/util/shed_util.py']><HgDiff 4cbb80bbed37:019fd7e8a757 ['lib/galaxy/util/shed_util_common.py']><HgDiff 4cbb80bbed37:019fd7e8a757 ['lib/galaxy/webapps/community/util/container_util.py']><HgDiff 4cbb80bbed37:019fd7e8a757 ['lib/galaxy/webapps/galaxy/controllers/admin_toolshed.py']><HgDiff 4cbb80bbed37:019fd7e8a757 ['templates/admin/tool_shed_repository/common.mako']><HgDiff 4cbb80bbed37:019fd7e8a757 ['templates/webapps/community/repository/common.mako']> Repository URL: https://bitbucket.org/galaxy/galaxy-central/ -- This is a commit notification from bitbucket.org. You are receiving this because you have the service enabled, addressing the recipient of this email.

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commit/galaxy-central: dan: When listing GenomeSpace directories in GenomeSpace export tool, if an API-discovered URL is invalid, skip gracefully.
by Bitbucket 02 Jan '13

02 Jan '13

1 new commit in galaxy-central: https://bitbucket.org/galaxy/galaxy-central/changeset/019fd7e8a757/ changeset: 019fd7e8a757 user: dan date: 2013-01-02 21:25:28 summary: When listing GenomeSpace directories in GenomeSpace export tool, if an API-discovered URL is invalid, skip gracefully. affected #: 1 file <HgDiff 019fd7e8a757:5b2b7ff11003 ['tools/genomespace/genomespace_exporter.py']> Repository URL: https://bitbucket.org/galaxy/galaxy-central/ -- This is a commit notification from bitbucket.org. You are receiving this because you have the service enabled, addressing the recipient of this email.

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commit/galaxy-central: 3 new changesets
by Bitbucket 02 Jan '13

02 Jan '13

3 new commits in galaxy-central: https://bitbucket.org/galaxy/galaxy-central/changeset/2f5544be71d1/ changeset: 2f5544be71d1 user: inithello date: 2013-01-02 21:00:21 summary: Fix exception in shutdown method of LWR. affected #: 1 file <HgDiff 2f5544be71d1:7e625a24a346 ['lib/galaxy/jobs/runners/lwr.py']> https://bitbucket.org/galaxy/galaxy-central/changeset/5f4c31fb14e4/ changeset: 5f4c31fb14e4 user: inithello date: 2013-01-02 21:00:50 summary: Fix for installing repositories with conflicting datatype definitions. affected #: 1 file <HgDiff 5f4c31fb14e4:2f5544be71d1 ['lib/galaxy/datatypes/registry.py']> https://bitbucket.org/galaxy/galaxy-central/changeset/5b2b7ff11003/ changeset: 5b2b7ff11003 user: inithello date: 2013-01-02 21:02:08 summary: Tool shed functional test enhancements - verify datatype repository install/uninstall/deactivate/reactivate. affected #: 6 files <HgDiff 5b2b7ff11003:5f4c31fb14e4 ['test/tool_shed/base/twilltestcase.py']><HgDiff 5b2b7ff11003:5f4c31fb14e4 ['test/tool_shed/functional/test_1020_install_repository_with_repository_dependencies.py']><HgDiff 5b2b7ff11003:5f4c31fb14e4 ['test/tool_shed/functional/test_1030_install_repository_with_dependency_revisions.py']><HgDiff 5b2b7ff11003:5f4c31fb14e4 ['test/tool_shed/functional/test_1220_uninstall_reinstall_repository_with_repository_dependencies.py']><HgDiff 5b2b7ff11003:5f4c31fb14e4 ['test/tool_shed/functional/test_1230_uninstall_reinstall_repository_with_dependency_revisions.py']><HgDiff 5b2b7ff11003:5f4c31fb14e4 ['test/tool_shed/functional/test_1300_reset_all_metadata.py']> Repository URL: https://bitbucket.org/galaxy/galaxy-central/ -- This is a commit notification from bitbucket.org. You are receiving this because you have the service enabled, addressing the recipient of this email.

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commit/galaxy-central: dannon: Fix tabular dataset download for cols > 50.
by Bitbucket 02 Jan '13

02 Jan '13

1 new commit in galaxy-central: https://bitbucket.org/galaxy/galaxy-central/changeset/7e625a24a346/ changeset: 7e625a24a346 user: dannon date: 2013-01-02 17:40:41 summary: Fix tabular dataset download for cols > 50. affected #: 1 file <HgDiff 7e625a24a346:41da7ccbbd4f ['lib/galaxy/datatypes/tabular.py']> Repository URL: https://bitbucket.org/galaxy/galaxy-central/ -- This is a commit notification from bitbucket.org. You are receiving this because you have the service enabled, addressing the recipient of this email.

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commit/galaxy-central: inithello: Fix for reactivating a deactivated repository that includes proprietary datatypes.
by Bitbucket 02 Jan '13

02 Jan '13

1 new commit in galaxy-central: https://bitbucket.org/galaxy/galaxy-central/changeset/41da7ccbbd4f/ changeset: 41da7ccbbd4f user: inithello date: 2013-01-02 17:24:51 summary: Fix for reactivating a deactivated repository that includes proprietary datatypes. affected #: 1 file <HgDiff 41da7ccbbd4f:c4635f9e512f ['lib/galaxy/webapps/galaxy/controllers/admin_toolshed.py']> Repository URL: https://bitbucket.org/galaxy/galaxy-central/ -- This is a commit notification from bitbucket.org. You are receiving this because you have the service enabled, addressing the recipient of this email.

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commit/galaxy-central: greg: Fix for viewing tool metadata for tools contained in repositories in the tool shed that have been reviewed by the IUC.
by Bitbucket 01 Jan '13

01 Jan '13

1 new commit in galaxy-central: https://bitbucket.org/galaxy/galaxy-central/changeset/c4635f9e512f/ changeset: c4635f9e512f user: greg date: 2013-01-01 16:07:46 summary: Fix for viewing tool metadata for tools contained in repositories in the tool shed that have been reviewed by the IUC. affected #: 2 files <HgDiff c4635f9e512f:2bef9c323948 ['lib/galaxy/webapps/community/controllers/repository.py']><HgDiff c4635f9e512f:2bef9c323948 ['lib/galaxy/webapps/community/controllers/repository_review.py']> Repository URL: https://bitbucket.org/galaxy/galaxy-central/ -- This is a commit notification from bitbucket.org. You are receiving this because you have the service enabled, addressing the recipient of this email.

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commit/galaxy-central: 2 new changesets
by Bitbucket 01 Jan '13

01 Jan '13

2 new commits in galaxy-central: https://bitbucket.org/galaxy/galaxy-central/changeset/5ea378923ad8/ changeset: 5ea378923ad8 user: kellrott date: 2013-01-01 01:26:25 summary: Fixing missing imports in page controller affected #: 1 file <HgDiff 5ea378923ad8:7117f892dea8 ['lib/galaxy/webapps/galaxy/controllers/page.py']> https://bitbucket.org/galaxy/galaxy-central/changeset/2bef9c323948/ changeset: 2bef9c323948 user: jgoecks date: 2013-01-01 02:52:07 summary: Merged in kellrott/galaxy-central (pull request #103: Fixing missing imports in page controller) affected #: 1 file <HgDiff 2bef9c323948:213219e966b4 ['lib/galaxy/webapps/galaxy/controllers/page.py']> Repository URL: https://bitbucket.org/galaxy/galaxy-central/ -- This is a commit notification from bitbucket.org. You are receiving this because you have the service enabled, addressing the recipient of this email.

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