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Merge pull request #9940 from mvdbeek/20.05_release_notes

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[20.05] Update 20.05 release notes with later PRs
This commit is contained in:
Martin Cech
2020-06-30 17:53:51 +02:00
committed by GitHub
parent c6830137e8 ba3a07a736
commit cc19fc76ef
2 changed files with 63 additions and 18 deletions
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doc/source/releases/20.05.rst
+43 -18
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@@ -62,7 +62,7 @@ Enhancements
(thanks to `@OlegZharkov <https://github.com/OlegZharkov>`__).
`Pull Request 9562`_
* Datasource tool for SRA manifest
`Pull Request 9613`_
`Pull Request 9613`_, `Pull Request 9892`_
.. enhancement_tag_viz
* Skip visualization build, if no changes were registered
@@ -175,7 +175,7 @@ Enhancements
`Pull Request 9186`_
* Full Python dependencies update
(thanks to `@nsoranzo <https://github.com/nsoranzo>`__).
`Pull Request 9188`_
`Pull Request 9188`_, `Pull Request 9402`_, `Pull Request 9529`_, `Pull Request 9697`_
* Allow mixed store_by objectstore configurations.
`Pull Request 9197`_
* implement workflow bookmark selenium test
@@ -217,9 +217,6 @@ Enhancements
`Pull Request 9390`_
* Replace editor grid image with css, add editor client unit tests
`Pull Request 9392`_
* Full Python dependencies update
(thanks to `@nsoranzo <https://github.com/nsoranzo>`__).
`Pull Request 9402`_
* Vuefy interactive tools
(thanks to `@OlegZharkov <https://github.com/OlegZharkov>`__).
`Pull Request 9409`_
@@ -254,9 +251,6 @@ Enhancements
`Pull Request 9521`_
* Rename and modify current_history_contents method
`Pull Request 9526`_
* Full Python dependencies update
(thanks to `@nsoranzo <https://github.com/nsoranzo>`__).
`Pull Request 9529`_
* Improvement to the selenium test to change password from user preferences
(thanks to `@Realjuan <https://github.com/Realjuan>`__).
`Pull Request 9545`_
@@ -306,14 +300,11 @@ Enhancements
* Feature/3937 advanced search tooltip
(thanks to `@assuntad23 <https://github.com/assuntad23>`__).
`Pull Request 9696`_
* Full Python dependencies update
(thanks to `@nsoranzo <https://github.com/nsoranzo>`__).
`Pull Request 9697`_
.. small_enhancement
* Rename function, params in ConfigSerializer
`Pull Request 9247`_
* Make `str.join()`s more efficient
* Make ``str.join()``s more efficient
(thanks to `@nsoranzo <https://github.com/nsoranzo>`__).
`Pull Request 9258`_
* Faster and cleaner set creation
@@ -338,7 +329,7 @@ Enhancements
`Pull Request 9443`_
* Move sanitize_whitelist into mutable_config_dir
`Pull Request 9455`_
* Use auto_create functionality of `get_private_user_role()`
* Use auto_create functionality of ``get_private_user_role()``
(thanks to `@nsoranzo <https://github.com/nsoranzo>`__).
`Pull Request 9509`_
* Combine selenium tests for creating and switching histories
@@ -401,6 +392,9 @@ Fixes
* extract_genomic_dna.py: import Comment, Header from bx.tabular.io instead of bx.intervals.io
(thanks to `@cat-bro <https://github.com/cat-bro>`__).
`Pull Request 9748`_
* Move some tools that no longer need galaxy on the PATH
(thanks to `@bernt-matthias <https://github.com/bernt-matthias>`__).
`Pull Request 9850`_
.. bug_tag_workflows
* Fix workflow list filtering dropdown
@@ -411,6 +405,8 @@ Fixes
`Pull Request 9676`_
* Trigger onchange event, fixes tool version changes being lost
`Pull Request 9695`_
* Input dataset module format filtering fix;
`Pull Request 9884`_
.. bug_tag_ui
* fix for python3 and GEDA, was getting "Connection closed at byte 0"
@@ -451,6 +447,8 @@ Fixes
* Migrate condor runner to jwd for job-files
(thanks to `@bgruening <https://github.com/bgruening>`__).
`Pull Request 9833`_
* Fix incorrect variable assignment
`Pull Request 9907`_
.. bug_tag_admin
* Fix vue helper in admin router, fixes toolshed installation, avoids console errors
@@ -514,7 +512,7 @@ Fixes
* Use a Galaxy root path with a space for converters and mulled tests
(thanks to `@nsoranzo <https://github.com/nsoranzo>`__).
`Pull Request 9429`_
* Fix `test_run_simple()` test broken on Python 2 by virtualenv 20.0.5
* Fix ``test_run_simple()`` test broken on Python 2 by virtualenv 20.0.5
(thanks to `@nsoranzo <https://github.com/nsoranzo>`__).
`Pull Request 9458`_
* Use browser locale over global default
@@ -575,8 +573,8 @@ Fixes
* Fix indexing script
`Pull Request 9565`_
* Assign random password in user manager if none specified
(thanks to `@nuwang <https://github.com/nuwang>`__).
`Pull Request 9587`_
(thanks to `@nuwang <https://github.com/nuwang>`__, `@nsoranzo <https://github.com/nsoranzo>`__).
`Pull Request 9587`_, `Pull Request 9851`_
* Fix removal of workflow outputs from workflow nodes in editor
`Pull Request 9606`_
* Fix ELIXIR AAI
@@ -587,7 +585,7 @@ Fixes
`Pull Request 9622`_
* Change session timeout redirect URL to login entrypoint.
`Pull Request 9626`_
* Changed CSS overflow property from scroll to hidden to make table scr…
* Changed CSS overflow property from scroll to hidden to make table scrollable
(thanks to `@assuntad23 <https://github.com/assuntad23>`__).
`Pull Request 9627`_
* fix links in Galaxy xsd docs
@@ -601,7 +599,7 @@ Fixes
* Hide "python: not found" error when Python 2 is not installed
(thanks to `@nsoranzo <https://github.com/nsoranzo>`__).
`Pull Request 9657`_
* Fix for `time.clock()` removal in Python 3.8
* Fix for ``time.clock()`` removal in Python 3.8
(thanks to `@nsoranzo <https://github.com/nsoranzo>`__).
`Pull Request 9666`_
* Fixed an issue in object store integration tests
@@ -622,6 +620,8 @@ Fixes
`Pull Request 9724`_
* Fix custos credential fetching in python3
`Pull Request 9726`_
* oidc-based authnz provider overhaul; breaking changes for keycloak
`Pull Request 9730`_
* Sort Workflow list by last updated time instead of created time
`Pull Request 9740`_
* Remove dummy tool sequence
@@ -648,6 +648,31 @@ Fixes
`Pull Request 9821`_
* Tolerate exception in container resolution
`Pull Request 9824`_
* Invalidate tool cache when tool modified outside of Galaxy
`Pull Request 9866`_
* Custos spec fixes
`Pull Request 9889`_
* Fixes for flake8 3.8 and bugbear
(thanks to `@nsoranzo <https://github.com/nsoranzo>`__).
`Pull Request 9896`_
* Fix webpack import proxy prefix
`Pull Request 9898`_
* Fix extra preference values leaking between requests
(thanks to `@nuwang <https://github.com/nuwang>`__).
`Pull Request 9913`_
* Rewrite ``check_html()`` and ``Text.count_data_lines()`` to read a chunk of each line
(thanks to `@nsoranzo <https://github.com/nsoranzo>`__).
`Pull Request 9920`_
* Make cookie handling more robust
`Pull Request 9921`_
* Enable regex validator to validate lists of values.
`Pull Request 9925`_
* oidc: fix dict_keys does not support indexing
(thanks to `@almahmoud <https://github.com/almahmoud>`__).
`Pull Request 9931`_
* Move the ``--debug`` flag after the conda subcommand
(thanks to `@nsoranzo <https://github.com/nsoranzo>`__).
`Pull Request 9932`_
.. include:: 20.05_prs.rst
doc/source/releases/20.05_prs.rst
+20
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@@ -226,6 +226,7 @@
.. _Pull Request 9719: https://github.com/galaxyproject/galaxy/pull/9719
.. _Pull Request 9724: https://github.com/galaxyproject/galaxy/pull/9724
.. _Pull Request 9726: https://github.com/galaxyproject/galaxy/pull/9726
.. _Pull Request 9730: https://github.com/galaxyproject/galaxy/pull/9730
.. _Pull Request 9731: https://github.com/galaxyproject/galaxy/pull/9731
.. _Pull Request 9733: https://github.com/galaxyproject/galaxy/pull/9733
.. _Pull Request 9734: https://github.com/galaxyproject/galaxy/pull/9734
@@ -250,3 +251,22 @@
.. _Pull Request 9824: https://github.com/galaxyproject/galaxy/pull/9824
.. _Pull Request 9833: https://github.com/galaxyproject/galaxy/pull/9833
.. _Pull Request 9835: https://github.com/galaxyproject/galaxy/pull/9835
.. _Pull Request 9838: https://github.com/galaxyproject/galaxy/pull/9838
.. _Pull Request 9850: https://github.com/galaxyproject/galaxy/pull/9850
.. _Pull Request 9851: https://github.com/galaxyproject/galaxy/pull/9851
.. _Pull Request 9866: https://github.com/galaxyproject/galaxy/pull/9866
.. _Pull Request 9870: https://github.com/galaxyproject/galaxy/pull/9870
.. _Pull Request 9878: https://github.com/galaxyproject/galaxy/pull/9878
.. _Pull Request 9884: https://github.com/galaxyproject/galaxy/pull/9884
.. _Pull Request 9889: https://github.com/galaxyproject/galaxy/pull/9889
.. _Pull Request 9892: https://github.com/galaxyproject/galaxy/pull/9892
.. _Pull Request 9894: https://github.com/galaxyproject/galaxy/pull/9894
.. _Pull Request 9896: https://github.com/galaxyproject/galaxy/pull/9896
.. _Pull Request 9898: https://github.com/galaxyproject/galaxy/pull/9898
.. _Pull Request 9907: https://github.com/galaxyproject/galaxy/pull/9907
.. _Pull Request 9913: https://github.com/galaxyproject/galaxy/pull/9913
.. _Pull Request 9920: https://github.com/galaxyproject/galaxy/pull/9920
.. _Pull Request 9921: https://github.com/galaxyproject/galaxy/pull/9921
.. _Pull Request 9925: https://github.com/galaxyproject/galaxy/pull/9925
.. _Pull Request 9931: https://github.com/galaxyproject/galaxy/pull/9931
.. _Pull Request 9932: https://github.com/galaxyproject/galaxy/pull/9932