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Add #5643 to release notes
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nsoranzo committed Mar 9, 2018
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33 changes: 18 additions & 15 deletions doc/source/releases/18.01.rst
Original file line number Diff line number Diff line change
Expand Up @@ -41,7 +41,7 @@ Enhancements
* Tool-based annotation of out of memory errors.
`Pull Request 5196`_
* Added support for recursively discovering output datasets
(thanks to `@nuwang <https://github.com/nuwang>`__). TODO: fix author
(thanks to `@nuwang <https://github.com/nuwang>`__).
`Pull Request 5240`_
* Add an API endpoint that allows admins to decode galaxy object IDs.
`Pull Request 5018`_
Expand Down Expand Up @@ -411,7 +411,7 @@ Fixes
(thanks to `@mvdbeek <https://github.com/mvdbeek>`__).
`Pull Request 4645`_
* Pass job output file unqualified names to Pulsar so that it can create them
before running the job
before running the job.
`Pull Request 4662`_
* Fix transiently failing saved histories due to success message disappearing.
`Pull Request 4669`_
Expand Down Expand Up @@ -513,21 +513,21 @@ Fixes
* Cleanup SA objects between workflow invocation scheduling attempts.
`Pull Request 5045`_
* Safely handle possible ``None`` value encountered in processing and execution of
post-job action arguments.
post-job action arguments
(thanks to `@erasche <https://github.com/erasche>`__).
`Pull Request 5050`_
* Restore admin form routes.
`Pull Request 5065`_
* Fixes galaxy startup when ``LC_TYPE=UTF-8`` on os-x
* Fixes galaxy startup when ``LC_TYPE=UTF-8`` on OS X
(thanks to `@mvdbeek <https://github.com/mvdbeek>`__).
`Pull Request 5070`_
* Ignore ``OSError`` when chmod'ing integrated_tool_panel_conf.xml
(thanks to `@mvdbeek <https://github.com/mvdbeek>`__).
`Pull Request 5071`_
* Fix metadata setting for ``otu`` datatypes.
* Fix metadata setting for ``otu`` datatypes
(thanks to `@mvdbeek <https://github.com/mvdbeek>`__).
`Pull Request 5072`_
* Fix exception in admin panel.
* Fix exception in admin panel
(thanks to `@mvdbeek <https://github.com/mvdbeek>`__).
`Pull Request 5079`_
* Always fill ``message`` to avoid ``KeyError`` for sentry ``ERROR_TEMPLATE``
Expand Down Expand Up @@ -563,7 +563,7 @@ Fixes
`Pull Request 5166`_
* Provide UI collection output information for subworkflows.
`Pull Request 5172`_
* Remove legacy request controller from reports app
* Remove legacy request controller from reports app.
`Pull Request 5182`_
* Fixes genome decode handling.
`Pull Request 5198`_
Expand Down Expand Up @@ -624,7 +624,7 @@ Fixes
* Prevent reloading when data table is being modified
(thanks to `@mvdbeek <https://github.com/mvdbeek>`__).
`Pull Request 5331`_
* Work around (temporarily) wrong getsize() output
* Work around (temporarily) wrong ``getsize()`` output
(thanks to `@mvdbeek <https://github.com/mvdbeek>`__).
`Pull Request 5335`_
* Disable galaxy tour 'path' navigation.
Expand All @@ -638,10 +638,10 @@ Fixes
* Fix dataset purging, dataset cleanup script and db_shell script
(thanks to `@mvdbeek <https://github.com/mvdbeek>`__).
`Pull Request 5346`_
* Fix bam conversion test tool
* Fix BAM conversion test tool
(thanks to `@mvdbeek <https://github.com/mvdbeek>`__).
`Pull Request 5351`_
* Remove charlimit for fetching urls.
* Remove charlimit for fetching URLs.
`Pull Request 5353`_
* Use ``print()`` function in common_startup.sh
(thanks to `@mvdbeek <https://github.com/mvdbeek>`__).
Expand All @@ -657,9 +657,9 @@ Fixes
`Pull Request 5367`_
* Workflow tool menu fix for deleted workflows.
`Pull Request 5368`_
* Bump conditional Pygments version to 2.2.0 so it matches the dev
* Bump conditional ``Pygments`` version to 2.2.0 so it matches the dev.
`Pull Request 5376`_
* Fix ``make docs`` when the virtualenv is not .venv
* Fix ``make docs`` when the virtualenv is not ``.venv`` .
`Pull Request 5377`_
* Force a fixed node image version when building client for Jenkins.
`Pull Request 5382`_
Expand All @@ -669,15 +669,15 @@ Fixes
* Fix for subworkflow creation
(thanks to `@mvdbeek <https://github.com/mvdbeek>`__).
`Pull Request 5398`_
* Follow IUC and drop r channel from default Conda channels
* Follow IUC and drop ``r`` channel from the default Conda channels
(thanks to `@mvdbeek <https://github.com/mvdbeek>`__).
`Pull Request 5406`_
* Implement workaround for extra metadata revision creation.
`Pull Request 5433`_
* Don't silently fail rest of multi-action queue when attempting to purge a
collection.
`Pull Request 5443`_
* Ensure jobStateSummariesCollection exists.
* Ensure ``jobStateSummariesCollection`` exists.
`Pull Request 5444`_
* Fix ``server_name`` when config is a ``dict``.
`Pull Request 5447`_
Expand Down Expand Up @@ -720,7 +720,7 @@ Fixes
galaxy to be importable
(thanks to `@mvdbeek <https://github.com/mvdbeek>`__).
`Pull Request 5626`_
* Changed GenomeSpace token handling to use manual OpenID association only
* Changed GenomeSpace token handling to use manual OpenID association only.
`Pull Request 5631`_
* Use sample file path when adding missing indexes
(thanks to `@mvdbeek <https://github.com/mvdbeek>`__).
Expand All @@ -737,6 +737,8 @@ Fixes
* Show error message if history structure can't be shown
(thanks to `@mvdbeek <https://github.com/mvdbeek>`__).
`Pull Request 5665`_
* Consistent sniffing regardless of in_place.
`Pull Request 5643`_

.. github_links
.. _Pull Request 4178: https://github.com/galaxyproject/galaxy/pull/4178
Expand Down Expand Up @@ -1156,6 +1158,7 @@ Fixes
.. _Pull Request 5631: https://github.com/galaxyproject/galaxy/pull/5631
.. _Pull Request 5634: https://github.com/galaxyproject/galaxy/pull/5634
.. _Pull Request 5635: https://github.com/galaxyproject/galaxy/pull/5635
.. _Pull Request 5643: https://github.com/galaxyproject/galaxy/pull/5643
.. _Pull Request 5644: https://github.com/galaxyproject/galaxy/pull/5644
.. _Pull Request 5650: https://github.com/galaxyproject/galaxy/pull/5650
.. _Pull Request 5662: https://github.com/galaxyproject/galaxy/pull/5662
Expand Down

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