Branch: refs/heads/dev
Home: https://github.com/galaxyproject/galaxy
Commit: c42ea4d9c5e38bc365b54d97f51c96def0f3def7
https://github.com/galaxyproject/galaxy/commit/c42ea4d9c5e38bc365b54d97f51c…
Author: Mason <nerdinacan(a)gmail.com>
Date: 2018-11-05 (Mon, 05 Nov 2018)
Changed paths:
M client/galaxy/scripts/onload/index.js
M client/galaxy/scripts/qunit/test.js
M client/galaxy/scripts/qunit/tests/page_tests.js
M client/galaxy/scripts/utils/installMonitor.js
M client/webpack.config.js
M client/yarn.lock
Log Message:
-----------
Fixed monitor Proxy set function
Commit: 9b7b6ab04d4f0eaa6500cabacf632ef45acf5bcf
https://github.com/galaxyproject/galaxy/commit/9b7b6ab04d4f0eaa6500cabacf63…
Author: Mason <nerdinacan(a)gmail.com>
Date: 2018-11-05 (Mon, 05 Nov 2018)
Changed paths:
A client/galaxy/scripts/libs/jquery.custom.js
Log Message:
-----------
Added jquery.custom.js to lib folder
Commit: eb57469eef96f7225192128bd846237443e9b437
https://github.com/galaxyproject/galaxy/commit/eb57469eef96f7225192128bd846…
Author: Dannon <dannon.baker(a)gmail.com>
Date: 2018-11-06 (Tue, 06 Nov 2018)
Changed paths:
A client/galaxy/scripts/libs/jquery.custom.js
M client/galaxy/scripts/onload/index.js
M client/galaxy/scripts/qunit/test.js
M client/galaxy/scripts/qunit/tests/page_tests.js
M client/galaxy/scripts/utils/installMonitor.js
M client/webpack.config.js
M client/yarn.lock
Log Message:
-----------
Merge pull request #6970 from Nerdinacan/jquery_bundle
Normalized jquery bundle
Compare: https://github.com/galaxyproject/galaxy/compare/a4f21fca773c...eb57469eef96
**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: 443170e9128cd785dcfc24f73bddc5bcc1035fa3
https://github.com/galaxyproject/galaxy/commit/443170e9128cd785dcfc24f73bdd…
Author: Bjoern Gruening <bjoern.gruening(a)gmail.com>
Date: 2018-11-06 (Tue, 06 Nov 2018)
Changed paths:
M client/galaxy/images/Armitagep_manhattan.png
M client/galaxy/images/Armitagep_qqplot.png
M client/galaxy/images/add_icon.png
M client/galaxy/images/add_icon_dark.png
M client/galaxy/images/aggregate_history1.png
M client/galaxy/images/aggregate_history2.png
M client/galaxy/images/bar_chart.png
M client/galaxy/images/bed_warn.png
M client/galaxy/images/closebox.png
M client/galaxy/images/dat_points_table_brows_1.png
M client/galaxy/images/data_empty.png
M client/galaxy/images/data_error.png
M client/galaxy/images/data_ok.png
M client/galaxy/images/data_queued.png
M client/galaxy/images/ddarrowsplit.png
M client/galaxy/images/delete_tag_icon_gray.png
M client/galaxy/images/delete_tag_icon_white.png
M client/galaxy/images/documents-stack-faded.png
M client/galaxy/images/dropdownarrow.png
M client/galaxy/images/error_large.png
M client/galaxy/images/error_small.png
M client/galaxy/images/fetchTax.png
M client/galaxy/images/form_body_bg.png
M client/galaxy/images/fugue.png
M client/galaxy/images/hatch-023858.png
M client/galaxy/images/histogram.png
M client/galaxy/images/histogram2.png
M client/galaxy/images/history-buttons.png
M client/galaxy/images/history-states.png
M client/galaxy/images/info_large.png
M client/galaxy/images/info_small.png
M client/galaxy/images/kendall.png
M client/galaxy/images/mag_glass.png
M client/galaxy/images/masthead_bg.png
M client/galaxy/images/mutation_visualization_example.png
M client/galaxy/images/ok_large.png
M client/galaxy/images/ok_small.png
M client/galaxy/images/overview_arrows.png
M client/galaxy/images/question-octagon-frame.png
M client/galaxy/images/scatter.png
M client/galaxy/images/scatterplot.png
M client/galaxy/images/solid_qual.png
M client/galaxy/images/sprite-fugue.png
M client/galaxy/images/sprite-history-buttons.png
M client/galaxy/images/sprite-history-states.png
M client/galaxy/images/thumbtack_icon.png
M client/galaxy/images/thumbtack_icon_dark.png
M client/galaxy/images/wait_large.png
M client/galaxy/images/wait_small.png
Log Message:
-----------
optimize images with optipng
Commit: a4f21fca773c91032e11804e4a4c71646c213da0
https://github.com/galaxyproject/galaxy/commit/a4f21fca773c91032e11804e4a4c…
Author: Dannon <dannon.baker(a)gmail.com>
Date: 2018-11-06 (Tue, 06 Nov 2018)
Changed paths:
M client/galaxy/images/Armitagep_manhattan.png
M client/galaxy/images/Armitagep_qqplot.png
M client/galaxy/images/add_icon.png
M client/galaxy/images/add_icon_dark.png
M client/galaxy/images/aggregate_history1.png
M client/galaxy/images/aggregate_history2.png
M client/galaxy/images/bar_chart.png
M client/galaxy/images/bed_warn.png
M client/galaxy/images/closebox.png
M client/galaxy/images/dat_points_table_brows_1.png
M client/galaxy/images/data_empty.png
M client/galaxy/images/data_error.png
M client/galaxy/images/data_ok.png
M client/galaxy/images/data_queued.png
M client/galaxy/images/ddarrowsplit.png
M client/galaxy/images/delete_tag_icon_gray.png
M client/galaxy/images/delete_tag_icon_white.png
M client/galaxy/images/documents-stack-faded.png
M client/galaxy/images/dropdownarrow.png
M client/galaxy/images/error_large.png
M client/galaxy/images/error_small.png
M client/galaxy/images/fetchTax.png
M client/galaxy/images/form_body_bg.png
M client/galaxy/images/fugue.png
M client/galaxy/images/hatch-023858.png
M client/galaxy/images/histogram.png
M client/galaxy/images/histogram2.png
M client/galaxy/images/history-buttons.png
M client/galaxy/images/history-states.png
M client/galaxy/images/info_large.png
M client/galaxy/images/info_small.png
M client/galaxy/images/kendall.png
M client/galaxy/images/mag_glass.png
M client/galaxy/images/masthead_bg.png
M client/galaxy/images/mutation_visualization_example.png
M client/galaxy/images/ok_large.png
M client/galaxy/images/ok_small.png
M client/galaxy/images/overview_arrows.png
M client/galaxy/images/question-octagon-frame.png
M client/galaxy/images/scatter.png
M client/galaxy/images/scatterplot.png
M client/galaxy/images/solid_qual.png
M client/galaxy/images/sprite-fugue.png
M client/galaxy/images/sprite-history-buttons.png
M client/galaxy/images/sprite-history-states.png
M client/galaxy/images/thumbtack_icon.png
M client/galaxy/images/thumbtack_icon_dark.png
M client/galaxy/images/wait_large.png
M client/galaxy/images/wait_small.png
Log Message:
-----------
Merge pull request #6980 from bgruening/optipng
optimize images with optipng
Compare: https://github.com/galaxyproject/galaxy/compare/b7c8bd47c907...a4f21fca773c
**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/release_18.09
Home: https://github.com/galaxyproject/galaxy
Commit: dc9128213fbf4fd1d479fc94ace5b2416a5face5
https://github.com/galaxyproject/galaxy/commit/dc9128213fbf4fd1d479fc94ace5…
Author: Nicola Soranzo <nicola.soranzo(a)earlham.ac.uk>
Date: 2018-11-06 (Tue, 06 Nov 2018)
Changed paths:
M lib/galaxy/dependencies/pipfiles/default/pinned-requirements.txt
Log Message:
-----------
Fix traceback when starting under Python3 with ``galaxy.ini``
Update `paste` requirement to 3.0.4 to include:
https://github.com/cdent/paste/pull/14
to fix the following traceback:
```
Starting server in PID 6792.
Traceback (most recent call last):
File "./scripts/paster.py", line 27, in <module>
serve.run()
File "/opt/galaxy/lib/galaxy/util/pastescript/serve.py", line 1055, in run
invoke(command, command_name, options, args[1:])
File "/opt/galaxy/lib/galaxy/util/pastescript/serve.py", line 1061, in invoke
exit_code = runner.run(args)
File "/opt/galaxy/lib/galaxy/util/pastescript/serve.py", line 226, in run
result = self.command()
File "/opt/galaxy/lib/galaxy/util/pastescript/serve.py", line 676, in command
serve()
File "/opt/galaxy/lib/galaxy/util/pastescript/serve.py", line 653, in serve
server(app)
File "/opt/galaxy/lib/galaxy/util/pastescript/loadwsgi.py", line 232, in server_wrapper
**context.local_conf)
File "/opt/galaxy/lib/galaxy/util/pastescript/loadwsgi.py", line 90, in fix_call
val = callable(*args, **kw)
File "/opt/galaxy/.venv3/lib/python3.5/site-packages/paste/httpserver.py", line 1358, in server_runner
for name, value in kwargs.items():
RuntimeError: dictionary changed size during iteration
galaxy.app DEBUG 2018-11-05 13:38:00,059 Shutting down
```
Commit: 6487d52d513b6351bd3e3e44e74e79c8f949919a
https://github.com/galaxyproject/galaxy/commit/6487d52d513b6351bd3e3e44e74e…
Author: Dannon <dannon.baker(a)gmail.com>
Date: 2018-11-06 (Tue, 06 Nov 2018)
Changed paths:
M lib/galaxy/dependencies/pipfiles/default/pinned-requirements.txt
Log Message:
-----------
Merge pull request #6978 from nsoranzo/release_18.09_paste
[18.09] Fix traceback when starting under Python3 with ``galaxy.ini``
Compare: https://github.com/galaxyproject/galaxy/compare/9029b95e6979...6487d52d513b
**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/master
Home: https://github.com/galaxyproject/galaxy
Commit: 9c81089ed1c9d5c434ecb991be8fd542bbe3c75e
https://github.com/galaxyproject/galaxy/commit/9c81089ed1c9d5c434ecb991be8f…
Author: Luca Pireddu <pireddu(a)crs4.it>
Date: 2018-10-17 (Wed, 17 Oct 2018)
Changed paths:
M lib/galaxy/jobs/runners/kubernetes.py
Log Message:
-----------
Catch IOErrors when the k8s runner tries to collect job logs
This commit should fix cases where successful job can't be marked as
done by Galaxy because the logs have gone missing.
Commit: ac7c2d0473d09e8a3b4b39734527a383835478ab
https://github.com/galaxyproject/galaxy/commit/ac7c2d0473d09e8a3b4b39734527…
Author: Luca Pireddu <pireddu(a)crs4.it>
Date: 2018-10-17 (Wed, 17 Oct 2018)
Changed paths:
M lib/galaxy/jobs/runners/kubernetes.py
Log Message:
-----------
Print full job object to the DEBUG log if k8s runner finds it in an unrecognized state
Commit: cd6c4d4db8bcb72ae931797c216b9829313850cf
https://github.com/galaxyproject/galaxy/commit/cd6c4d4db8bcb72ae931797c216b…
Author: Luca Pireddu <pireddu(a)crs4.it>
Date: 2018-10-22 (Mon, 22 Oct 2018)
Changed paths:
M lib/galaxy/jobs/runners/kubernetes.py
Log Message:
-----------
Add job id to missing k8s log text
Commit: c434c271598d95130439ac86c8b9060f42455e9a
https://github.com/galaxyproject/galaxy/commit/c434c271598d95130439ac86c8b9…
Author: Luca Pireddu <pireddu(a)gmail.com>
Date: 2018-10-26 (Fri, 26 Oct 2018)
Changed paths:
M lib/galaxy/jobs/runners/kubernetes.py
Log Message:
-----------
Improve k8s runner debug log message
Commit: e235343f7674a5b74a707a693e94b80633d1ca2b
https://github.com/galaxyproject/galaxy/commit/e235343f7674a5b74a707a693e94…
Author: Luca Pireddu <pireddu(a)crs4.it>
Date: 2018-10-26 (Fri, 26 Oct 2018)
Changed paths:
M lib/galaxy/jobs/runners/kubernetes.py
Log Message:
-----------
Push k8s log IOError handling into `__produce_log_file`
Handling the IOError within the function should result in other call
sites within the kubernets.py module properly setting the job state even
if the job directory has been removed.
Commit: cf02c9812759505d61f284d6d33ee9ce2dc994e8
https://github.com/galaxyproject/galaxy/commit/cf02c9812759505d61f284d6d33e…
Author: Luca Pireddu <pireddu(a)crs4.it>
Date: 2018-10-26 (Fri, 26 Oct 2018)
Changed paths:
M lib/galaxy/jobs/runners/kubernetes.py
Log Message:
-----------
Prefer `with open` syntax within kubernetes.py
Commit: c13da94fd75d4b0010e4e3284649366c213a205d
https://github.com/galaxyproject/galaxy/commit/c13da94fd75d4b0010e4e3284649…
Author: Luca Pireddu <pireddu(a)crs4.it>
Date: 2018-10-26 (Fri, 26 Oct 2018)
Changed paths:
M lib/galaxy/jobs/runners/kubernetes.py
Log Message:
-----------
Fix inverted log message arguments
Thanks @pcm32!
Commit: 1482cacee51a9fd91f65d54704c7bc36120f3a34
https://github.com/galaxyproject/galaxy/commit/1482cacee51a9fd91f65d54704c7…
Author: Marius van den Beek <m.vandenbeek(a)gmail.com>
Date: 2018-10-30 (Tue, 30 Oct 2018)
Changed paths:
M lib/galaxy/jobs/runners/kubernetes.py
Log Message:
-----------
Merge pull request #6886 from ilveroluca/fix/k8s_error_handling
Improve k8s job error handling
Commit: 49d9409f007dfe6288de4d6a2c0e15a4b45af022
https://github.com/galaxyproject/galaxy/commit/49d9409f007dfe6288de4d6a2c0e…
Author: mvdbeek <m.vandenbeek(a)gmail.com>
Date: 2018-10-30 (Tue, 30 Oct 2018)
Changed paths:
M lib/galaxy/datatypes/binary.py
Log Message:
-----------
Bam index is only available for coordinate sorted bam files
Commit: 4c7ba6f0fe4a99c1324f70785d27b655ac8b5538
https://github.com/galaxyproject/galaxy/commit/4c7ba6f0fe4a99c1324f70785d27…
Author: John Chilton <jmchilton(a)gmail.com>
Date: 2018-10-30 (Tue, 30 Oct 2018)
Changed paths:
M lib/galaxy/datatypes/binary.py
Log Message:
-----------
Merge pull request #6946 from mvdbeek/bam_index_for_coordinate_sorted_only
[18.09] Make Bam index only available for coordinate sorted bam files
Commit: 717605af96bcb5fb9a5193295c9941d0d4632a93
https://github.com/galaxyproject/galaxy/commit/717605af96bcb5fb9a5193295c99…
Author: M Bernt <m.bernt(a)ufz.de>
Date: 2018-10-31 (Wed, 31 Oct 2018)
Changed paths:
M test/functional/tools/output_filter.xml
Log Message:
-----------
added test
Commit: 20cecd2a68527015d8b98a430367b8fcdf9a364d
https://github.com/galaxyproject/galaxy/commit/20cecd2a68527015d8b98a430367…
Author: M Bernt <m.bernt(a)ufz.de>
Date: 2018-10-31 (Wed, 31 Oct 2018)
Changed paths:
M lib/galaxy/tools/verify/interactor.py
Log Message:
-----------
galaxy test needs to count data sets and collection outputs
Commit: 30aaa296dd50471001323cc9895560219a33ce71
https://github.com/galaxyproject/galaxy/commit/30aaa296dd50471001323cc98955…
Author: mvdbeek <m.vandenbeek(a)gmail.com>
Date: 2018-11-01 (Thu, 01 Nov 2018)
Changed paths:
M lib/galaxy/datatypes/binary.py
A lib/galaxy/datatypes/test/1.qname_sorted.bam
Log Message:
-----------
Fix sniffing of readname sorted BAM files
This fixes https://github.com/galaxyproject/galaxy/issues/6949.
The problem is that `super` would fall back to the BamInputSorted
sniffer, which prevents sniffing. Includes a test file for the new
datatype upload testing framework.
Commit: 4e098c5d5291209f4760010ff8bebd919ba19479
https://github.com/galaxyproject/galaxy/commit/4e098c5d5291209f4760010ff8be…
Author: M Bernt <m.bernt(a)ufz.de>
Date: 2018-11-01 (Thu, 01 Nov 2018)
Changed paths:
M test/api/test_workflows.py
Log Message:
-----------
tests: add parameter to output_filter
Commit: 03eac8315d64e05df74f1f6fb286cff29e75f6b2
https://github.com/galaxyproject/galaxy/commit/03eac8315d64e05df74f1f6fb286…
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-11-01 (Thu, 01 Nov 2018)
Changed paths:
M client/galaxy/scripts/mvc/workflow/workflow-view.js
Log Message:
-----------
Fix for workflow parameter collection in workflows view.
Commit: 18644f91cf59265c1473d806845baffbf7a8132f
https://github.com/galaxyproject/galaxy/commit/18644f91cf59265c1473d806845b…
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-11-01 (Thu, 01 Nov 2018)
Changed paths:
M client/galaxy/scripts/mvc/workflow/workflow-view.js
Log Message:
-----------
Avoid using var; let.
Commit: 69b447169fb96048ea492a1d99d653585571c15b
https://github.com/galaxyproject/galaxy/commit/69b447169fb96048ea492a1d99d6…
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-11-01 (Thu, 01 Nov 2018)
Changed paths:
M client/galaxy/scripts/mvc/collection/collection-model.js
M lib/galaxy/datatypes/data.py
Log Message:
-----------
Allow deferring 'to_ext' extension to the server, implement for collections.
Commit: 6b5f0a2ad1f21bbda92b06ff2700c961c34e84ea
https://github.com/galaxyproject/galaxy/commit/6b5f0a2ad1f21bbda92b06ff2700…
Author: Nicola Soranzo <nicola.soranzo(a)earlham.ac.uk>
Date: 2018-11-02 (Fri, 02 Nov 2018)
Changed paths:
M config/datatypes_conf.xml.sample
Log Message:
-----------
Allow upload for ``rdata.sce`` format
Commit: 6da5157181a085d183c099645216893fe512a1f9
https://github.com/galaxyproject/galaxy/commit/6da5157181a085d183c099645216…
Author: Martin Cech <marten(a)bx.psu.edu>
Date: 2018-11-02 (Fri, 02 Nov 2018)
Changed paths:
M config/datatypes_conf.xml.sample
Log Message:
-----------
Merge pull request #6963 from nsoranzo/release_18.05_allow_rdata.sce_upload
[18.05] Allow upload for ``rdata.sce`` format
Commit: 357e2f39c77026c81c56ed30ffae9f1905d2d82a
https://github.com/galaxyproject/galaxy/commit/357e2f39c77026c81c56ed30ffae…
Author: Nicola Soranzo <nicola.soranzo(a)earlham.ac.uk>
Date: 2018-11-02 (Fri, 02 Nov 2018)
Changed paths:
M config/datatypes_conf.xml.sample
Log Message:
-----------
Merge branch 'release_18.05' into release_18.09
Commit: 3d91738a697ff57047bc3cd505d5afc75de38f45
https://github.com/galaxyproject/galaxy/commit/3d91738a697ff57047bc3cd505d5…
Author: Björn Grüning <bjoern(a)gruenings.eu>
Date: 2018-11-04 (Sun, 04 Nov 2018)
Changed paths:
M client/galaxy/scripts/mvc/workflow/workflow-view.js
Log Message:
-----------
Merge pull request #6955 from dannon/wf_param_fix
[18.09] Fix for workflow parameter collection in workflows view.
Commit: 3be8d66d71bcdb3eccde2d1a37731442ed1aa63a
https://github.com/galaxyproject/galaxy/commit/3be8d66d71bcdb3eccde2d1a3773…
Author: mvdbeek <m.vandenbeek(a)gmail.com>
Date: 2018-11-05 (Mon, 05 Nov 2018)
Changed paths:
M lib/galaxy/datatypes/binary.py
M lib/galaxy/datatypes/data.py
M lib/galaxy/datatypes/molecules.py
M lib/galaxy/datatypes/neo4j.py
Log Message:
-----------
Remove unncecessary implementations of display_data
These were not updated to use `_download_filename`,
and so this fixes the download name for collection elements
to include the element identifier.
Note that the Data class should handle composite data just
fine.
Commit: f8b160535c5f9363e85c6c1d041b69ce5c3e9cc2
https://github.com/galaxyproject/galaxy/commit/f8b160535c5f9363e85c6c1d041b…
Author: mvdbeek <m.vandenbeek(a)gmail.com>
Date: 2018-11-05 (Mon, 05 Nov 2018)
Changed paths:
M lib/galaxy/datatypes/blast.py
Log Message:
-----------
Some minor fixes for the blast datatype
The signature for Data.display_data wasn't quite correct,
and the description of display_data was also a little misleading.
Commit: 9b42032098edaae076f5f88c48f135d8035a9ad6
https://github.com/galaxyproject/galaxy/commit/9b42032098edaae076f5f88c48f1…
Author: mvdbeek <m.vandenbeek(a)gmail.com>
Date: 2018-11-05 (Mon, 05 Nov 2018)
Changed paths:
M test/api/test_workflows.py
Log Message:
-----------
Fill in default state for test_optional_workflow_output
Commit: 2deb302ae7be93924a8bdcaff17a43caa0b5e3b4
https://github.com/galaxyproject/galaxy/commit/2deb302ae7be93924a8bdcaff17a…
Author: Nicola Soranzo <nicola.soranzo(a)gmail.com>
Date: 2018-11-05 (Mon, 05 Nov 2018)
Changed paths:
M lib/galaxy/tools/verify/interactor.py
M test/api/test_workflows.py
M test/functional/tools/output_filter.xml
Log Message:
-----------
Merge pull request #6951 from bernt-matthias/topic/test-colouts-backport
[18.09] Backport: tests need to count data sets and collections
Commit: 61bda3d11a1d608ac8e1a731faf144ff989affc9
https://github.com/galaxyproject/galaxy/commit/61bda3d11a1d608ac8e1a731faf1…
Author: Martin Cech <marten(a)bx.psu.edu>
Date: 2018-11-05 (Mon, 05 Nov 2018)
Changed paths:
M client/galaxy/scripts/mvc/collection/collection-model.js
M lib/galaxy/datatypes/binary.py
M lib/galaxy/datatypes/blast.py
M lib/galaxy/datatypes/data.py
M lib/galaxy/datatypes/molecules.py
M lib/galaxy/datatypes/neo4j.py
Log Message:
-----------
Merge pull request #6960 from dannon/collection_ext_dl
[18.09] Allow deferring 'to_ext' extension to the server
Commit: dbf5ef33604aae1a7294abf7bd5303504e8a4d2a
https://github.com/galaxyproject/galaxy/commit/dbf5ef33604aae1a7294abf7bd53…
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-11-06 (Tue, 06 Nov 2018)
Changed paths:
M client/galaxy/scripts/nls/zh/locale.js
Log Message:
-----------
Merge pull request #6974 from istevenshen/patch-2
Update locale.js
Commit: fefa132cd741779a9c6a4bd03c44f473036a462a
https://github.com/galaxyproject/galaxy/commit/fefa132cd741779a9c6a4bd03c44…
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-11-06 (Tue, 06 Nov 2018)
Changed paths:
M client/galaxy/scripts/mvc/collection/collection-model.js
M client/galaxy/scripts/mvc/workflow/workflow-view.js
M config/datatypes_conf.xml.sample
M lib/galaxy/datatypes/binary.py
M lib/galaxy/datatypes/blast.py
M lib/galaxy/datatypes/data.py
M lib/galaxy/datatypes/molecules.py
M lib/galaxy/datatypes/neo4j.py
A lib/galaxy/datatypes/test/1.qname_sorted.bam
M lib/galaxy/jobs/runners/kubernetes.py
M lib/galaxy/tools/verify/interactor.py
M test/api/test_workflows.py
M test/functional/tools/output_filter.xml
Log Message:
-----------
Merge remote-tracking branch 'upstream/release_18.09'
Compare: https://github.com/galaxyproject/galaxy/compare/315ca74305f1...fefa132cd741
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