galaxy-commits November 2017

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[galaxyproject/galaxy] 051a31: Fix some datatype issues
by GitHub 30 Nov '17

30 Nov '17

Branch: refs/heads/dev Home: https://github.com/galaxyproject/galaxy Commit: 051a3173fcffb0fe682bc5c0d692b77855c37a53 https://github.com/galaxyproject/galaxy/commit/051a3173fcffb0fe682bc5c0d692… Author: Nicola Soranzo <nicola.soranzo(a)earlham.ac.uk> Date: 2017-11-30 (Thu, 30 Nov 2017) Changed paths: M config/datatypes_conf.xml.sample M lib/galaxy/datatypes/assembly.py M lib/galaxy/datatypes/binary.py Log Message: ----------- Fix some datatype issues - dmnd had a wrong class name - biom1, cool and postgresql shouldn't have `subclass="true"` - extension should be lowercase - add missing file_ext attribute to various datatype classes Commit: 743d5a37e8d4e35313fa872f4afe6ea616cfa36c https://github.com/galaxyproject/galaxy/commit/743d5a37e8d4e35313fa872f4afe… Author: Nicola Soranzo <nicola.soranzo(a)earlham.ac.uk> Date: 2017-11-30 (Thu, 30 Nov 2017) Changed paths: M lib/galaxy/datatypes/registry.py M lib/galaxy/datatypes/sniff.py Log Message: ----------- Fix append_to_sniff_order() `isinstance()` was leaving out e.g. the BigWig datatype because BigBed, which was added first, is a subclass of BigWig. Instead, add a datatype only if it is not already in `sniff_order`, it has a `sniff()` method and was not defined with `subclass="true"`. Commit: 0e0acb5200720cddaaff32bddf71c65f6cfe777e https://github.com/galaxyproject/galaxy/commit/0e0acb5200720cddaaff32bddf71… Author: Nicola Soranzo <nicola.soranzo(a)earlham.ac.uk> Date: 2017-11-30 (Thu, 30 Nov 2017) Changed paths: M lib/galaxy/datatypes/annotation.py M lib/galaxy/datatypes/binary.py M lib/galaxy/datatypes/constructive_solid_geometry.py M lib/galaxy/datatypes/images.py M lib/galaxy/datatypes/proteomics.py M lib/galaxy/datatypes/sequence.py M lib/galaxy/datatypes/sniff.py M lib/galaxy/datatypes/triples.py M lib/galaxy/tools/actions/upload_common.py M lib/galaxy/tools/parameters/grouping.py M lib/galaxy/util/image_util.py M tools/data_source/data_source.py M tools/data_source/upload.py Log Message: ----------- Remove is_multi_byte from upload.py Also, when sniffing binary files, sniff images together with the other formats and respect sniff order. Also remove `is_multi_byte` from: - `stream_to_open_named_file()` - `stream_to_file()` Remove the now unused `get_image_ext()` and `Binary.is_sniffable_binary()` and all the calls to `Binary.register_sniffable_binary_format()`. Commit: fea6ddeeca7ccf89f1cacf9bcf49bfa18d16ad83 https://github.com/galaxyproject/galaxy/commit/fea6ddeeca7ccf89f1cacf9bcf49… Author: Nicola Soranzo <nicola.soranzo(a)earlham.ac.uk> Date: 2017-11-30 (Thu, 30 Nov 2017) Changed paths: M lib/galaxy/dependencies/conda-environment.txt M lib/galaxy/dependencies/pinned-hashed-requirements.txt M lib/galaxy/dependencies/pinned-requirements.txt M lib/galaxy/dependencies/requirements.txt M lib/galaxy/model/__init__.py R lib/galaxy/util/multi_byte.py Log Message: ----------- Remove last remnants of is_multi_byte, drop wchartype dependency Commit: f70e6f5627bc1f1e9398b9e88d398292d8e08998 https://github.com/galaxyproject/galaxy/commit/f70e6f5627bc1f1e9398b9e88d39… Author: Björn Grüning <bjoern(a)gruenings.eu> Date: 2017-11-30 (Thu, 30 Nov 2017) Changed paths: M config/datatypes_conf.xml.sample M lib/galaxy/datatypes/annotation.py M lib/galaxy/datatypes/assembly.py M lib/galaxy/datatypes/binary.py M lib/galaxy/datatypes/constructive_solid_geometry.py M lib/galaxy/datatypes/images.py M lib/galaxy/datatypes/proteomics.py M lib/galaxy/datatypes/registry.py M lib/galaxy/datatypes/sequence.py M lib/galaxy/datatypes/sniff.py M lib/galaxy/datatypes/triples.py M lib/galaxy/dependencies/conda-environment.txt M lib/galaxy/dependencies/pinned-hashed-requirements.txt M lib/galaxy/dependencies/pinned-requirements.txt M lib/galaxy/dependencies/requirements.txt M lib/galaxy/model/__init__.py M lib/galaxy/tools/actions/upload_common.py M lib/galaxy/tools/parameters/grouping.py M lib/galaxy/util/image_util.py R lib/galaxy/util/multi_byte.py M tools/data_source/data_source.py M tools/data_source/upload.py Log Message: ----------- Merge pull request #5088 from nsoranzo/remove_wchartype_dep Remove wchartype dependency and is_multi_byte [2/2] Compare: https://github.com/galaxyproject/galaxy/compare/1b4d8e5b9a51...f70e6f5627bc

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[galaxyproject/usegalaxy-playbook] 4ae2fa: Disable HTTP/2 =( because it seems to be causing u...
by GitHub 30 Nov '17

30 Nov '17

Branch: refs/heads/master Home: https://github.com/galaxyproject/usegalaxy-playbook Commit: 4ae2fa71f5d7307db4dc9dce0840a47462d135fe https://github.com/galaxyproject/usegalaxy-playbook/commit/4ae2fa71f5d7307d… Author: Nate Coraor <nate(a)bx.psu.edu> Date: 2017-11-30 (Thu, 30 Nov 2017) Changed paths: M env/main/templates/nginx/usegalaxy.j2 M env/test/templates/nginx/galaxy_test.j2 Log Message: ----------- Disable HTTP/2 =( because it seems to be causing upload failures: 2017/11/30 14:23:27 [alert] 11002#0: *16 epoll_ctl(1, 25) failed (17: File exists), client: 128.118.201.137, server: test.galaxyproject.org, request: "POST /_upload HTTP/2.0", host: "test.galaxyproject.org", referrer: "https://test.galaxyproject.org/histories/list" 2017/11/30 14:23:27 [alert] 11002#0: *16 header already sent, client: 128.118.201.137, server: test.galaxyproject.org, request: "POST /_upload HTTP/2.0", host: "test.galaxyproject.org", referrer: "https://test.galaxyproject.org/histories/list" 2017/11/30 14:25:34 [alert] 11002#0: *16 epoll_ctl(1, 25) failed (17: File exists), client: 128.118.201.137, server: test.galaxyproject.org, request: "POST /_upload HTTP/2.0", host: "test.galaxyproject.org", referrer: "https://test.galaxyproject.org/histories/list" 2017/11/30 14:25:34 [alert] 11002#0: *16 header already sent, client: 128.118.201.137, server: test.galaxyproject.org, request: "POST /_upload HTTP/2.0", host: "test.galaxyproject.org", referrer: "https://test.galaxyproject.org/histories/list" 2017/11/30 14:25:39 [alert] 11002#0: *16 epoll_ctl(1, 25) failed (17: File exists), client: 128.118.201.137, server: test.galaxyproject.org, request: "POST /_upload HTTP/2.0", host: "test.galaxyproject.org", referrer: "https://test.galaxyproject.org/histories/list" 2017/11/30 14:25:39 [alert] 11002#0: *16 header already sent, client: 128.118.201.137, server: test.galaxyproject.org, request: "POST /_upload HTTP/2.0", host: "test.galaxyproject.org", referrer: "https://test.galaxyproject.org/histories/list" 2017/11/30 14:25:54 [alert] 11002#0: *16 aborted uploading file "1.bed" to "/galaxy-repl/test/upload/0025242369", dest file removed, client: 128.118.201.137, server: test.galaxyproject.org, request: "POST /_upload HTTP/2.0", host: "test.galaxyproject.org", referrer: "https://test.galaxyproject.org/histories/list"

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[galaxyproject/galaxy] 58b976: Fixup modal_tests.js
by GitHub 30 Nov '17

30 Nov '17

Branch: refs/heads/dev Home: https://github.com/galaxyproject/galaxy Commit: 58b9767d179cd7e877f6cc8e637f1859d8dd5138 https://github.com/galaxyproject/galaxy/commit/58b9767d179cd7e877f6cc8e637f… Author: John Chilton <jmchilton(a)gmail.com> Date: 2017-11-27 (Mon, 27 Nov 2017) Changed paths: M client/galaxy/scripts/qunit/tests/modal_tests.js M client/karma.config.js Log Message: ----------- Fixup modal_tests.js Disable jQuery FX instead of mocking time - mocking time with sinon seems to not be working :(. Tests are conceptually cleaner this way IMO anyway. Commit: 2983a04e999193c1a250b1d6aaf9ed67a40536fa https://github.com/galaxyproject/galaxy/commit/2983a04e999193c1a250b1d6aaf9… Author: John Chilton <jmchilton(a)gmail.com> Date: 2017-11-27 (Mon, 27 Nov 2017) Changed paths: M client/galaxy/scripts/qunit/tests/form_tests.js M client/karma.config.js Log Message: ----------- Re-enable form qunit tests. Commit: 2f2ee90c6c103f39db716aaabb38297f0e53d540 https://github.com/galaxyproject/galaxy/commit/2f2ee90c6c103f39db716aaabb38… Author: John Chilton <jmchilton(a)gmail.com> Date: 2017-11-27 (Mon, 27 Nov 2017) Changed paths: M client/galaxy/scripts/qunit/tests/masthead_tests.js M client/karma.config.js Log Message: ----------- Re-enable masthead tests. Commit: f0dc1e4f7a5a36bd1a01bbc938e27db97301663f https://github.com/galaxyproject/galaxy/commit/f0dc1e4f7a5a36bd1a01bbc938e2… Author: John Chilton <jmchilton(a)gmail.com> Date: 2017-11-27 (Mon, 27 Nov 2017) Changed paths: R client/galaxy/scripts/qunit/tests/galaxy-app-base.js A client/galaxy/scripts/qunit/tests/galaxy_app_base_tests.js R client/galaxy/scripts/qunit/tests/graph.js A client/galaxy/scripts/qunit/tests/graph_tests.js R client/galaxy/scripts/qunit/tests/hda-base.js A client/galaxy/scripts/qunit/tests/hda_base_tests.js R client/galaxy/scripts/qunit/tests/job-dag.js A client/galaxy/scripts/qunit/tests/job_dag_tests.js R client/galaxy/scripts/qunit/tests/list-of-pairs-collection-creator.js A client/galaxy/scripts/qunit/tests/list_of_pairs_collection_creator_tests.js R client/galaxy/scripts/qunit/tests/metrics-logger.js A client/galaxy/scripts/qunit/tests/metrics_logger_tests.js R client/galaxy/scripts/qunit/tests/utils_test.js A client/galaxy/scripts/qunit/tests/utils_tests.js M client/karma.config.js Log Message: ----------- Rename qunit test files for consistency. Commit: 364e4518a833a77b977b8b48392e86e8833fe091 https://github.com/galaxyproject/galaxy/commit/364e4518a833a77b977b8b48392e… Author: John Chilton <jmchilton(a)gmail.com> Date: 2017-11-27 (Mon, 27 Nov 2017) Changed paths: M client/galaxy/scripts/qunit/test.js Log Message: ----------- In qunit single pack mode - enumerate the files to figure out the problems. Commit: 4270a7b0e39e36a8177dc596b839355eac115035 https://github.com/galaxyproject/galaxy/commit/4270a7b0e39e36a8177dc596b839… Author: John Chilton <jmchilton(a)gmail.com> Date: 2017-11-27 (Mon, 27 Nov 2017) Changed paths: M client/galaxy/scripts/qunit/tests/list_of_pairs_collection_creator_tests.js Log Message: ----------- Fix a missing server.restore in a test case. Commit: 395a6c3a5f5f2c1ed24b17b7b6f6753625d3e4b7 https://github.com/galaxyproject/galaxy/commit/395a6c3a5f5f2c1ed24b17b7b6f6… Author: John Chilton <jmchilton(a)gmail.com> Date: 2017-11-27 (Mon, 27 Nov 2017) Changed paths: M client/package.json Log Message: ----------- Switch qunit testing to producing a single webpack bundle. I think a lot of the remaining issues stem from attempting to load multiple bundles in the same web browser window - repeatedly loading jQuery, select2, etc.... This variant is much closer to running all the tests in a seemingly more flexible order and I've never seen a select2 problem this way. Commit: 930ac1ab796a7d4414d6c573c752d9dcc07f4de2 https://github.com/galaxyproject/galaxy/commit/930ac1ab796a7d4414d6c573c752… Author: John Chilton <jmchilton(a)gmail.com> Date: 2017-11-27 (Mon, 27 Nov 2017) Changed paths: M client/galaxy/scripts/qunit/tests/form_tests.js M client/galaxy/scripts/qunit/tests/galaxy_app_base_tests.js M client/galaxy/scripts/qunit/tests/graph_tests.js M client/galaxy/scripts/qunit/tests/hda_base_tests.js M client/galaxy/scripts/qunit/tests/history_contents_model_tests.js M client/galaxy/scripts/qunit/tests/job_dag_tests.js M client/galaxy/scripts/qunit/tests/list_of_pairs_collection_creator_tests.js M client/galaxy/scripts/qunit/tests/masthead_tests.js M client/galaxy/scripts/qunit/tests/metrics_logger_tests.js M client/galaxy/scripts/qunit/tests/modal_tests.js M client/galaxy/scripts/qunit/tests/page_tests.js M client/galaxy/scripts/qunit/tests/popover_tests.js M client/galaxy/scripts/qunit/tests/ui_tests.js M client/galaxy/scripts/qunit/tests/upload_dialog_tests.js M client/galaxy/scripts/qunit/tests/utils_tests.js M client/galaxy/scripts/qunit/tests/workflow_editor_tests.js Log Message: ----------- Convert qunit tests to ES6. ... and make client-format them. Commit: 4769a98ea0db663b33465de48485f69965e39da8 https://github.com/galaxyproject/galaxy/commit/4769a98ea0db663b33465de48485… Author: John Chilton <jmchilton(a)gmail.com> Date: 2017-11-27 (Mon, 27 Nov 2017) Changed paths: M client/galaxy/scripts/qunit/test.js M client/galaxy/scripts/qunit/tests/list_of_pairs_collection_creator_tests.js Log Message: ----------- Comment out the one failing qunit test. Commit: 1b4d8e5b9a518a9116168added511a099ac1acf4 https://github.com/galaxyproject/galaxy/commit/1b4d8e5b9a518a9116168added51… Author: Dannon Baker <dannon.baker(a)gmail.com> Date: 2017-11-30 (Thu, 30 Nov 2017) Changed paths: M client/galaxy/scripts/qunit/test.js M client/galaxy/scripts/qunit/tests/form_tests.js R client/galaxy/scripts/qunit/tests/galaxy-app-base.js A client/galaxy/scripts/qunit/tests/galaxy_app_base_tests.js R client/galaxy/scripts/qunit/tests/graph.js A client/galaxy/scripts/qunit/tests/graph_tests.js R client/galaxy/scripts/qunit/tests/hda-base.js A client/galaxy/scripts/qunit/tests/hda_base_tests.js M client/galaxy/scripts/qunit/tests/history_contents_model_tests.js R client/galaxy/scripts/qunit/tests/job-dag.js A client/galaxy/scripts/qunit/tests/job_dag_tests.js R client/galaxy/scripts/qunit/tests/list-of-pairs-collection-creator.js A client/galaxy/scripts/qunit/tests/list_of_pairs_collection_creator_tests.js M client/galaxy/scripts/qunit/tests/masthead_tests.js R client/galaxy/scripts/qunit/tests/metrics-logger.js A client/galaxy/scripts/qunit/tests/metrics_logger_tests.js M client/galaxy/scripts/qunit/tests/modal_tests.js M client/galaxy/scripts/qunit/tests/page_tests.js M client/galaxy/scripts/qunit/tests/popover_tests.js M client/galaxy/scripts/qunit/tests/ui_tests.js M client/galaxy/scripts/qunit/tests/upload_dialog_tests.js R client/galaxy/scripts/qunit/tests/utils_test.js A client/galaxy/scripts/qunit/tests/utils_tests.js M client/galaxy/scripts/qunit/tests/workflow_editor_tests.js M client/karma.config.js M client/package.json Log Message: ----------- Merge pull request #5074 from jmchilton/qunit_fixes More QUnit Fixes and Enhancements Compare: https://github.com/galaxyproject/galaxy/compare/1385cf4f83ac...1b4d8e5b9a51

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[galaxyproject/galaxy] ca2eb5: Simple tool test for citations.
by GitHub 30 Nov '17

30 Nov '17

Branch: refs/heads/dev Home: https://github.com/galaxyproject/galaxy Commit: ca2eb5b2a5a3b4e9a026806dc5f228fcce681379 https://github.com/galaxyproject/galaxy/commit/ca2eb5b2a5a3b4e9a026806dc5f2… Author: John Chilton <jmchilton(a)gmail.com> Date: 2017-11-24 (Fri, 24 Nov 2017) Changed paths: M test/functional/tools/bibtex.xml M test/functional/tools/samples_tool_conf.xml M test/galaxy_selenium/navigation.yml M test/galaxy_selenium/smart_components.py M test/selenium_tests/test_tool_form.py Log Message: ----------- Simple tool test for citations. Commit: b3d06f481a5fa6c649cb1ea6709038041566b9c5 https://github.com/galaxyproject/galaxy/commit/b3d06f481a5fa6c649cb1ea67090… Author: John Chilton <jmchilton(a)gmail.com> Date: 2017-11-24 (Fri, 24 Nov 2017) Changed paths: M client/galaxy/scripts/components/citations.vue Log Message: ----------- Restore classes on citation switching buttons. Commit: 95c0ff6bf9ae19374eb660731e42370157c366c6 https://github.com/galaxyproject/galaxy/commit/95c0ff6bf9ae19374eb660731e42… Author: John Chilton <jmchilton(a)gmail.com> Date: 2017-11-24 (Fri, 24 Nov 2017) Changed paths: M static/scripts/bundled/admin.bundled.js M static/scripts/bundled/analysis.bundled.js M static/scripts/bundled/login.bundled.js M static/scripts/bundled/masthead.bundled.js M static/scripts/bundled/viz.bundled.js M static/scripts/bundled/workflow.bundled.js Log Message: ----------- Repack client. Commit: 05ddc50c1a7b0989e100e7ca817a96bad3d68ad7 https://github.com/galaxyproject/galaxy/commit/05ddc50c1a7b0989e100e7ca817a… Author: John Chilton <jmchilton(a)gmail.com> Date: 2017-11-24 (Fri, 24 Nov 2017) Changed paths: M test/selenium_tests/test_tool_form.py Log Message: ----------- Make test more robust - citations take a while to fetch from doi. Commit: bb7d06f59ed20fcbef7ad36d06a1ec138fac7e96 https://github.com/galaxyproject/galaxy/commit/bb7d06f59ed20fcbef7ad36d06a1… Author: John Chilton <jmchilton(a)gmail.com> Date: 2017-11-25 (Sat, 25 Nov 2017) Changed paths: M test/selenium_tests/test_tool_form.py Log Message: ----------- Pre-fetch citations in new test so available quickly at render time. Commit: d8fe56c670ec78bb00e70d56cf59a895a1b8418b https://github.com/galaxyproject/galaxy/commit/d8fe56c670ec78bb00e70d56cf59… Author: John Chilton <jmchilton(a)gmail.com> Date: 2017-11-27 (Mon, 27 Nov 2017) Changed paths: M test/selenium_tests/test_tool_form.py Log Message: ----------- Modify citations test to clarify some bugs. Commit: 1385cf4f83ac508b997ca0cd2a3e893c69b84408 https://github.com/galaxyproject/galaxy/commit/1385cf4f83ac508b997ca0cd2a3e… Author: Dannon Baker <dannon.baker(a)gmail.com> Date: 2017-11-30 (Thu, 30 Nov 2017) Changed paths: M client/galaxy/scripts/components/Citations.vue M static/scripts/bundled/admin.bundled.js M static/scripts/bundled/analysis.bundled.js M static/scripts/bundled/login.bundled.js M static/scripts/bundled/masthead.bundled.js M static/scripts/bundled/viz.bundled.js M static/scripts/bundled/workflow.bundled.js M test/functional/tools/bibtex.xml M test/functional/tools/samples_tool_conf.xml M test/galaxy_selenium/navigation.yml M test/selenium_tests/test_tool_form.py Log Message: ----------- Merge remote-tracking branch 'jmchilton/citations' into dev Compare: https://github.com/galaxyproject/galaxy/compare/5124c5610900...1385cf4f83ac

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[galaxyproject/galaxy] cd91e8: Fix trackster link to custom builds view
by GitHub 30 Nov '17

30 Nov '17

Branch: refs/heads/dev Home: https://github.com/galaxyproject/galaxy Commit: cd91e8d85cb98b4bbdb35c569c1a3047933439a8 https://github.com/galaxyproject/galaxy/commit/cd91e8d85cb98b4bbdb35c569c1a… Author: guerler <aysam.guerler(a)gmail.com> Date: 2017-11-30 (Thu, 30 Nov 2017) Changed paths: M client/galaxy/scripts/viz/trackster.js M static/scripts/bundled/admin.bundled.js M static/scripts/bundled/analysis.bundled.js M static/scripts/bundled/login.bundled.js M static/scripts/bundled/masthead.bundled.js M static/scripts/bundled/viz.bundled.js M static/scripts/viz/trackster.js Log Message: ----------- Fix trackster link to custom builds view Commit: 5124c561090013f84d78232218a325199215fa41 https://github.com/galaxyproject/galaxy/commit/5124c561090013f84d78232218a3… Author: Dannon Baker <dannon.baker(a)gmail.com> Date: 2017-11-30 (Thu, 30 Nov 2017) Changed paths: M client/galaxy/scripts/viz/trackster.js M static/scripts/bundled/admin.bundled.js M static/scripts/bundled/analysis.bundled.js M static/scripts/bundled/login.bundled.js M static/scripts/bundled/masthead.bundled.js M static/scripts/bundled/viz.bundled.js M static/scripts/viz/trackster.js Log Message: ----------- Merge branch 'fix_trackster_link' into dev Compare: https://github.com/galaxyproject/galaxy/compare/0c97e1158ea5...5124c5610900

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[galaxyproject/galaxy] 78df0e: Refactor populators for easier nested collection c...
by GitHub 30 Nov '17

30 Nov '17

Branch: refs/heads/dev Home: https://github.com/galaxyproject/galaxy Commit: 78df0e2cc5c1118184a64fb8ea122844cca1d402 https://github.com/galaxyproject/galaxy/commit/78df0e2cc5c1118184a64fb8ea12… Author: John Chilton <jmchilton(a)gmail.com> Date: 2017-11-30 (Thu, 30 Nov 2017) Changed paths: M test/api/test_dataset_collections.py M test/base/populators.py Log Message: ----------- Refactor populators for easier nested collection creation. Commit: d0e9a80c58d08eadafb966ce9736dd595ec2dc82 https://github.com/galaxyproject/galaxy/commit/d0e9a80c58d08eadafb966ce9736… Author: John Chilton <jmchilton(a)gmail.com> Date: 2017-11-30 (Thu, 30 Nov 2017) Changed paths: M test/galaxy_selenium/components.py M test/galaxy_selenium/has_driver.py M test/galaxy_selenium/navigates_galaxy.py M test/galaxy_selenium/navigation.yml M test/galaxy_selenium/smart_components.py M test/selenium_tests/test_history_multi_view.py M test/selenium_tests/test_history_panel_collections.py Log Message: ----------- More GUI tests for collections. Commit: 1c3d49b07a3b790cc4b7d418415d223c05956584 https://github.com/galaxyproject/galaxy/commit/1c3d49b07a3b790cc4b7d418415d… Author: John Chilton <jmchilton(a)gmail.com> Date: 2017-11-30 (Thu, 30 Nov 2017) Changed paths: M client/galaxy/scripts/mvc/collection/collection-model.js M client/galaxy/scripts/mvc/history/hdca-model.js Log Message: ----------- Refactor client collections - collapse List and Paired models. They don't have different functionality - they shouldn't be different. Commit: adef3a6a59fcc5395350519f146e010c9409a04c https://github.com/galaxyproject/galaxy/commit/adef3a6a59fcc5395350519f146e… Author: John Chilton <jmchilton(a)gmail.com> Date: 2017-11-30 (Thu, 30 Nov 2017) Changed paths: M client/galaxy/scripts/mvc/collection/collection-model.js M client/galaxy/scripts/mvc/history/hdca-model.js Log Message: ----------- Refactor client collections - rename List -> Flat at lowest level models. It represents both lists and paireds now. Commit: e70a7748565897832e20119735f5bcd38e56a15c https://github.com/galaxyproject/galaxy/commit/e70a7748565897832e20119735f5… Author: John Chilton <jmchilton(a)gmail.com> Date: 2017-11-30 (Thu, 30 Nov 2017) Changed paths: M client/galaxy/scripts/mvc/collection/collection-model.js M client/galaxy/scripts/mvc/history/hdca-model.js Log Message: ----------- Refactor client collections - collapse nested paireds model into nested lists. Commit: ba111325437473995dfd6dc5b82378d6ca8f32cd https://github.com/galaxyproject/galaxy/commit/ba111325437473995dfd6dc5b823… Author: John Chilton <jmchilton(a)gmail.com> Date: 2017-11-30 (Thu, 30 Nov 2017) Changed paths: M client/galaxy/scripts/mvc/collection/collection-model.js M client/galaxy/scripts/mvc/history/hdca-model.js Log Message: ----------- Refactor client collections - rename listoflists model to nested model. Commit: a5513a4868ca5229348189d1b0ff4a4801ef0863 https://github.com/galaxyproject/galaxy/commit/a5513a4868ca5229348189d1b0ff… Author: John Chilton <jmchilton(a)gmail.com> Date: 2017-11-30 (Thu, 30 Nov 2017) Changed paths: M client/galaxy/scripts/mvc/history/hdca-model.js M client/galaxy/scripts/mvc/history/history-contents.js Log Message: ----------- Refactor client collections - eliminate class distinction between history bound nested collections. Commit: 0c1e6e46b20222912f35380d7f45aeeb0aa75778 https://github.com/galaxyproject/galaxy/commit/0c1e6e46b20222912f35380d7f45… Author: John Chilton <jmchilton(a)gmail.com> Date: 2017-11-30 (Thu, 30 Nov 2017) Changed paths: M client/galaxy/scripts/mvc/collection/collection-view-edit.js M client/galaxy/scripts/mvc/history/hdca-li-edit.js Log Message: ----------- Refactor client collections - eliminate class distinction between flat view edit collections. Commit: 1535a0f01803c19d8db7f4035832ae1109bcbefe https://github.com/galaxyproject/galaxy/commit/1535a0f01803c19d8db7f4035832… Author: John Chilton <jmchilton(a)gmail.com> Date: 2017-11-30 (Thu, 30 Nov 2017) Changed paths: M client/galaxy/scripts/mvc/collection/collection-view-edit.js M client/galaxy/scripts/mvc/history/hdca-li-edit.js Log Message: ----------- Refactor client collections - renamed list collection edit to flat. Since it represents boths lists and paireds now. Commit: 957ff9d0269b55a16095d3f94679d8e464df9dfc https://github.com/galaxyproject/galaxy/commit/957ff9d0269b55a16095d3f94679… Author: John Chilton <jmchilton(a)gmail.com> Date: 2017-11-30 (Thu, 30 Nov 2017) Changed paths: M client/galaxy/scripts/mvc/collection/collection-view.js M client/galaxy/scripts/mvc/history/hdca-li.js Log Message: ----------- Refactor client collections - eliminate class distinction between flat view collections. Commit: dd13193fc40ade2203503a926c4dd479936a91e0 https://github.com/galaxyproject/galaxy/commit/dd13193fc40ade2203503a926c4d… Author: John Chilton <jmchilton(a)gmail.com> Date: 2017-11-30 (Thu, 30 Nov 2017) Changed paths: M client/galaxy/scripts/mvc/collection/collection-view.js M client/galaxy/scripts/mvc/history/hdca-li.js Log Message: ----------- Refactor client collections - renamed list collection to flat. Commit: b9bd5287d08f1a7a4b252af21a20e8115f216dec https://github.com/galaxyproject/galaxy/commit/b9bd5287d08f1a7a4b252af21a20… Author: John Chilton <jmchilton(a)gmail.com> Date: 2017-11-30 (Thu, 30 Nov 2017) Changed paths: M client/galaxy/scripts/mvc/collection/collection-view.js M client/galaxy/scripts/mvc/history/hdca-li.js Log Message: ----------- Refactor client collections - eliminate ListOfPairsCollectionView. Just use ListOfListsCollectionView. Commit: 897ff7e54ef6935a190de4974c7004d089477db3 https://github.com/galaxyproject/galaxy/commit/897ff7e54ef6935a190de4974c70… Author: John Chilton <jmchilton(a)gmail.com> Date: 2017-11-30 (Thu, 30 Nov 2017) Changed paths: M client/galaxy/scripts/mvc/collection/collection-view-edit.js M client/galaxy/scripts/mvc/history/hdca-li-edit.js Log Message: ----------- Refactor client collections - eliminate class distinction between nested view edit collections. Commit: fdfa725a8b70d2182acfb3c971f34fd12bdded98 https://github.com/galaxyproject/galaxy/commit/fdfa725a8b70d2182acfb3c971f3… Author: John Chilton <jmchilton(a)gmail.com> Date: 2017-11-30 (Thu, 30 Nov 2017) Changed paths: M client/galaxy/scripts/mvc/collection/collection-view-edit.js M client/galaxy/scripts/mvc/collection/collection-view.js M client/galaxy/scripts/mvc/history/hdca-li-edit.js M client/galaxy/scripts/mvc/history/hdca-li.js Log Message: ----------- Refactor client collections - rename nested collection views. Both edit and RO variants - to reflect new generality. Commit: 5a7eea6a810c15ca7175e7de86b136b355063007 https://github.com/galaxyproject/galaxy/commit/5a7eea6a810c15ca7175e7de86b1… Author: John Chilton <jmchilton(a)gmail.com> Date: 2017-11-30 (Thu, 30 Nov 2017) Changed paths: M client/galaxy/scripts/mvc/collection/collection-view-edit.js Log Message: ----------- Refactor client collections - rename NestedPairCollectionViewEdit ... to NestedCollectionElementViewEdit since it isn't just used for paired collection contents and hasn't been for some time. Commit: bcf0fb11e98a58224a33fabf1024b99f30262b89 https://github.com/galaxyproject/galaxy/commit/bcf0fb11e98a58224a33fabf1024… Author: John Chilton <jmchilton(a)gmail.com> Date: 2017-11-30 (Thu, 30 Nov 2017) Changed paths: M client/galaxy/scripts/mvc/collection/collection-model.js Log Message: ----------- Refactor client collections - eliminate incorrect comments. Commit: 1afd6e136f73db6116c6126412a80c80d35d1ea0 https://github.com/galaxyproject/galaxy/commit/1afd6e136f73db6116c6126412a8… Author: John Chilton <jmchilton(a)gmail.com> Date: 2017-11-30 (Thu, 30 Nov 2017) Changed paths: M client/galaxy/scripts/mvc/collection/collection-model.js M client/galaxy/scripts/mvc/history/hdca-model.js Log Message: ----------- Refactor client collections - eliminate Flat vs Nested dataset collection. Just dispatch on collection type to determine collection contents. Commit: 200cf96c2dda2ca5a353e78fcf54a3f1a024fcdc https://github.com/galaxyproject/galaxy/commit/200cf96c2dda2ca5a353e78fcf54… Author: John Chilton <jmchilton(a)gmail.com> Date: 2017-11-30 (Thu, 30 Nov 2017) Changed paths: M client/galaxy/scripts/mvc/collection/collection-view-edit.js M client/galaxy/scripts/mvc/collection/collection-view.js M client/galaxy/scripts/mvc/history/hdca-li-edit.js M client/galaxy/scripts/mvc/history/hdca-li.js Log Message: ----------- Refactor client collections - eliminate FlatCollectionView & FlatCollectionViewEdit. These just did the same thing as CollectionView and CollectionViewEdit. Commit: 4db301a9ab36852bd066d82bfe91f182343ec5fb https://github.com/galaxyproject/galaxy/commit/4db301a9ab36852bd066d82bfe91… Author: John Chilton <jmchilton(a)gmail.com> Date: 2017-11-30 (Thu, 30 Nov 2017) Changed paths: M client/galaxy/scripts/mvc/collection/collection-view-edit.js M client/galaxy/scripts/mvc/collection/collection-view.js M client/galaxy/scripts/mvc/history/hdca-li-edit.js M client/galaxy/scripts/mvc/history/hdca-li.js Log Message: ----------- Refactor client collections - eliminate NestedCollectionView and NestedCollectionViewEdit. They are just CollectionViews now. Commit: a3cc810e93018744607fc6120d43f71ebaa52d0e https://github.com/galaxyproject/galaxy/commit/a3cc810e93018744607fc6120d43… Author: John Chilton <jmchilton(a)gmail.com> Date: 2017-11-30 (Thu, 30 Nov 2017) Changed paths: M client/galaxy/scripts/mvc/collection/collection-model.js Log Message: ----------- Refactor client collections - eliminated another class without a distinction. Commit: ef81006c451e6e59bf23d8c9cc1c7714fae97505 https://github.com/galaxyproject/galaxy/commit/ef81006c451e6e59bf23d8c9cc1c… Author: John Chilton <jmchilton(a)gmail.com> Date: 2017-11-30 (Thu, 30 Nov 2017) Changed paths: M client/galaxy/scripts/mvc/collection/list-collection-creator.js M client/galaxy/scripts/mvc/collection/list-of-pairs-collection-creator.js M client/galaxy/scripts/mvc/collection/pair-collection-creator.js M client/galaxy/scripts/mvc/history/hdca-model.js M client/galaxy/scripts/mvc/history/history-contents.js Log Message: ----------- Refactor client collections - eliminate all history bound collection distinctions. Commit: eb735357e7b7f37b9601ef21f9c71a910c019a11 https://github.com/galaxyproject/galaxy/commit/eb735357e7b7f37b9601ef21f9c7… Author: John Chilton <jmchilton(a)gmail.com> Date: 2017-11-30 (Thu, 30 Nov 2017) Changed paths: M client/galaxy/scripts/mvc/collection/collection-view-edit.js Log Message: ----------- Refactor client collections - eliminate unneeded subclass of CollectionView. Commit: 4defaa2188993450e0aa044e7316121d664c89b7 https://github.com/galaxyproject/galaxy/commit/4defaa2188993450e0aa044e7316… Author: John Chilton <jmchilton(a)gmail.com> Date: 2017-11-30 (Thu, 30 Nov 2017) Changed paths: M client/galaxy/scripts/mvc/collection/collection-model.js M client/galaxy/scripts/mvc/collection/collection-view-edit.js M client/galaxy/scripts/mvc/collection/collection-view.js M client/galaxy/scripts/mvc/form/form-wrapper.js M client/galaxy/scripts/mvc/history/hdca-model.js Log Message: ----------- Reformat client. Commit: c6bc1538be4d06aa3c7df84066ffc3e33548ab22 https://github.com/galaxyproject/galaxy/commit/c6bc1538be4d06aa3c7df84066ff… Author: John Chilton <jmchilton(a)gmail.com> Date: 2017-11-30 (Thu, 30 Nov 2017) Changed paths: M test/selenium_tests/test_history_panel_collections.py Log Message: ----------- Mark one of the new history collection tests as @flakey. Reason noted in PR. Commit: 307d33ada15f1afe49d784df14d9fbcaf7178db1 https://github.com/galaxyproject/galaxy/commit/307d33ada15f1afe49d784df14d9… Author: John Chilton <jmchilton(a)gmail.com> Date: 2017-11-30 (Thu, 30 Nov 2017) Changed paths: M static/scripts/bundled/analysis.bundled.js M static/scripts/mvc/collection/collection-model.js M static/scripts/mvc/collection/collection-view-edit.js M static/scripts/mvc/collection/collection-view.js M static/scripts/mvc/collection/list-collection-creator.js M static/scripts/mvc/collection/pair-collection-creator.js M static/scripts/mvc/history/hdca-li-edit.js M static/scripts/mvc/history/hdca-li.js M static/scripts/mvc/history/hdca-model.js M static/scripts/mvc/history/history-contents.js Log Message: ----------- Repack. Commit: 0c97e1158ea51128c9a0277aeccebb2a397a2f16 https://github.com/galaxyproject/galaxy/commit/0c97e1158ea51128c9a0277aecce… Author: Martin Cech <marten(a)bx.psu.edu> Date: 2017-11-30 (Thu, 30 Nov 2017) Changed paths: M client/galaxy/scripts/mvc/collection/collection-model.js M client/galaxy/scripts/mvc/collection/collection-view-edit.js M client/galaxy/scripts/mvc/collection/collection-view.js M client/galaxy/scripts/mvc/collection/list-collection-creator.js M client/galaxy/scripts/mvc/collection/list-of-pairs-collection-creator.js M client/galaxy/scripts/mvc/collection/pair-collection-creator.js M client/galaxy/scripts/mvc/form/form-wrapper.js M client/galaxy/scripts/mvc/history/hdca-li-edit.js M client/galaxy/scripts/mvc/history/hdca-li.js M client/galaxy/scripts/mvc/history/hdca-model.js M client/galaxy/scripts/mvc/history/history-contents.js M static/scripts/bundled/analysis.bundled.js M static/scripts/mvc/collection/collection-model.js M static/scripts/mvc/collection/collection-view-edit.js M static/scripts/mvc/collection/collection-view.js M static/scripts/mvc/collection/list-collection-creator.js M static/scripts/mvc/collection/pair-collection-creator.js M static/scripts/mvc/history/hdca-li-edit.js M static/scripts/mvc/history/hdca-li.js M static/scripts/mvc/history/hdca-model.js M static/scripts/mvc/history/history-contents.js M test/api/test_dataset_collections.py M test/base/populators.py M test/galaxy_selenium/components.py M test/galaxy_selenium/has_driver.py M test/galaxy_selenium/navigates_galaxy.py M test/galaxy_selenium/navigation.yml M test/galaxy_selenium/smart_components.py M test/selenium_tests/test_history_multi_view.py M test/selenium_tests/test_history_panel_collections.py Log Message: ----------- Merge pull request #5038 from jmchilton/unwind_collection_client Render arbitrarily nested lists in the UI Compare: https://github.com/galaxyproject/galaxy/compare/5e17e44db533...0c97e1158ea5

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[galaxyproject/galaxy] 3c0ffb: Separate dev and production builds.
by GitHub 30 Nov '17

30 Nov '17

Branch: refs/heads/dev Home: https://github.com/galaxyproject/galaxy Commit: 3c0ffb0ce9e5cf0939abf7abed5f664e7b0b80b7 https://github.com/galaxyproject/galaxy/commit/3c0ffb0ce9e5cf0939abf7abed5f… Author: Dannon Baker <dannon.baker(a)gmail.com> Date: 2017-11-22 (Wed, 22 Nov 2017) Changed paths: M Makefile M client/gulpfile.js M client/package.json M client/webpack.config.js Log Message: ----------- Separate dev and production builds. Commit: 8a91ba848e8dab85fdf3d10716d3f7286ebc0823 https://github.com/galaxyproject/galaxy/commit/8a91ba848e8dab85fdf3d10716d3… Author: Dannon Baker <dannon.baker(a)gmail.com> Date: 2017-11-22 (Wed, 22 Nov 2017) Changed paths: R static/maps/galaxy.library.js.map R static/maps/layout/panel.js.map R static/maps/mvc/citation/citation-model.js.map R static/maps/mvc/citation/citation-view.js.map R static/maps/mvc/citations.js.map R static/maps/mvc/history/options-menu.js.map R static/maps/mvc/library/library-folderlist-view.js.map R static/maps/mvc/library/library-foldertoolbar-view.js.map R static/maps/mvc/library/library-libraryrow-view.js.map R static/maps/mvc/tool/tool-form-base.js.map R static/maps/mvc/user/user_api_keys.js.map Log Message: ----------- Strip maps left behind previously. Commit: 5e2c73801143e0cf1735bfcd15ac7746967cc0dd https://github.com/galaxyproject/galaxy/commit/5e2c73801143e0cf1735bfcd15ac… Author: Dannon Baker <dannon.baker(a)gmail.com> Date: 2017-11-22 (Wed, 22 Nov 2017) Changed paths: M client/package.json Log Message: ----------- Reapply accidentally dropped -p flag on default webpack invocation. Commit: 35f08be9c828046b62c3e6889244ff12f647c7c6 https://github.com/galaxyproject/galaxy/commit/35f08be9c828046b62c3e6889244… Author: Dannon Baker <dannon.baker(a)gmail.com> Date: 2017-11-22 (Wed, 22 Nov 2017) Changed paths: M client/package.json Log Message: ----------- Slight refactoring in package.json to standardize with 'dev' being the common, default option and 'production' being the non-default (logic being a build system should be the thing remembering extra options over the default) Commit: 06af0175cba55d64aef3bdc0f812a41cfd2dceb5 https://github.com/galaxyproject/galaxy/commit/06af0175cba55d64aef3bdc0f812… Author: Dannon Baker <dannon.baker(a)gmail.com> Date: 2017-11-22 (Wed, 22 Nov 2017) Changed paths: M client/package.json Log Message: ----------- Drop production-watch package script. Commit: 97b9eed8afef5433163859fd216d3d40c67671aa https://github.com/galaxyproject/galaxy/commit/97b9eed8afef5433163859fd216d… Author: Dannon Baker <dannon.baker(a)gmail.com> Date: 2017-11-29 (Wed, 29 Nov 2017) Changed paths: M .gitignore R static/scripts/bundled/admin.bundled.js.map R static/scripts/bundled/adminToolshed.bundled.js.map R static/scripts/bundled/analysis.bundled.js.map R static/scripts/bundled/library.bundled.js.map R static/scripts/bundled/libs.bundled.js.map R static/scripts/bundled/login.bundled.js.map R static/scripts/bundled/masthead.bundled.js.map R static/scripts/bundled/viz.bundled.js.map R static/scripts/bundled/workflow.bundled.js.map Log Message: ----------- More straggler maps (from bundles) Commit: a36542a72b12796b27be3d4c7ed57f35d8533e1a https://github.com/galaxyproject/galaxy/commit/a36542a72b12796b27be3d4c7ed5… Author: Dannon Baker <dannon.baker(a)gmail.com> Date: 2017-11-29 (Wed, 29 Nov 2017) Changed paths: M client/gulpfile.js M client/package.json M client/webpack.config.js Log Message: ----------- Add production + sourcemaps build targets. Not as granular as I want, but SourceMapDevTool has weird interactions with -p Commit: 0417699825174666bc8bb720c313c608bc4d8dbe https://github.com/galaxyproject/galaxy/commit/0417699825174666bc8bb720c313… Author: Dannon Baker <dannon.baker(a)gmail.com> Date: 2017-11-29 (Wed, 29 Nov 2017) Changed paths: M .travis.yml M Makefile M client/galaxy/scripts/apps/analysis.js M client/galaxy/scripts/apps/panels/tool-panel.js A client/galaxy/scripts/components/history-import.vue M client/galaxy/scripts/layout/menu.js M client/galaxy/scripts/mvc/form/form-wrapper.js M client/galaxy/scripts/mvc/history/options-menu.js M client/galaxy/scripts/mvc/tag.js M client/galaxy/scripts/mvc/workflow/workflow-view.js M client/galaxy/scripts/mvc/workflow/workflow.js A client/galaxy/scripts/qunit/test.js M client/galaxy/style/less/ui.less M client/karma.config.js M client/package.json M config/datatypes_conf.xml.sample M config/error_report.yml.sample M config/workflow_schedulers_conf.xml.sample M lib/galaxy/app.py M lib/galaxy/config.py M lib/galaxy/datatypes/annotation.py M lib/galaxy/datatypes/binary.py M lib/galaxy/datatypes/blast.py M lib/galaxy/datatypes/constructive_solid_geometry.py M lib/galaxy/datatypes/data.py M lib/galaxy/datatypes/genetics.py M lib/galaxy/datatypes/graph.py M lib/galaxy/datatypes/images.py M lib/galaxy/datatypes/molecules.py M lib/galaxy/datatypes/msa.py M lib/galaxy/datatypes/plant_tribes.py M lib/galaxy/datatypes/proteomics.py M lib/galaxy/datatypes/registry.py M lib/galaxy/datatypes/sequence.py M lib/galaxy/datatypes/sniff.py M lib/galaxy/datatypes/tabular.py A lib/galaxy/datatypes/test/454Score.pdf A lib/galaxy/datatypes/test/linkstudies.allegro_fparam A lib/galaxy/datatypes/test/linkstudies.alohomora_gts A lib/galaxy/datatypes/test/linkstudies.linkage_datain A lib/galaxy/datatypes/test/linkstudies.linkage_map M lib/galaxy/datatypes/text.py M lib/galaxy/datatypes/triples.py M lib/galaxy/datatypes/xml.py M lib/galaxy/jobs/__init__.py M lib/galaxy/jobs/handler.py M lib/galaxy/jobs/manager.py M lib/galaxy/jobs/runners/__init__.py M lib/galaxy/jobs/runners/state_handlers/resubmit.py M lib/galaxy/model/__init__.py M lib/galaxy/model/metadata.py M lib/galaxy/model/migrate/versions/0005_cleanup_datasets_fix.py M lib/galaxy/model/orm/scripts.py M lib/galaxy/tools/actions/__init__.py M lib/galaxy/tools/actions/history_imp_exp.py M lib/galaxy/tools/actions/metadata.py M lib/galaxy/tools/actions/model_operations.py M lib/galaxy/tools/actions/upload_common.py M lib/galaxy/tools/error_reports/plugins/sentry.py M lib/galaxy/tools/imp_exp/imp_history_from_archive.xml M lib/galaxy/tools/imp_exp/unpack_tar_gz_archive.py M lib/galaxy/tools/verify/__init__.py M lib/galaxy/util/compression_utils.py A lib/galaxy/util/facts.py M lib/galaxy/util/handlers.py M lib/galaxy/util/path/__init__.py M lib/galaxy/util/properties.py M lib/galaxy/web/form_builder.py M lib/galaxy/web/framework/webapp.py M lib/galaxy/web/stack/__init__.py A lib/galaxy/web/stack/message.py A lib/galaxy/web/stack/transport.py M lib/galaxy/webapps/galaxy/api/histories.py M lib/galaxy/webapps/galaxy/buildapp.py M lib/galaxy/webapps/galaxy/controllers/dataset.py M lib/galaxy/webapps/galaxy/controllers/history.py M lib/galaxy/webapps/galaxy/controllers/workflow.py M lib/galaxy/webapps/tool_shed/config.py M lib/galaxy/workflow/scheduling_manager.py M lib/tool_shed/galaxy_install/migrate/check.py M lib/tool_shed/util/commit_util.py M lib/tool_shed/util/tool_util.py R manage_tools.sh M run.sh M run_reports.sh M run_tool_shed.sh M scripts/common_startup_functions.sh M scripts/galaxy-main A scripts/get_uwsgi_args.py R scripts/manage_tools.py M static/scripts/bundled/admin.bundled.js M static/scripts/bundled/adminToolshed.bundled.js M static/scripts/bundled/analysis.bundled.js M static/scripts/bundled/library.bundled.js M static/scripts/bundled/libs.bundled.js M static/scripts/bundled/login.bundled.js M static/scripts/bundled/masthead.bundled.js M static/scripts/bundled/viz.bundled.js M static/scripts/bundled/workflow.bundled.js M static/scripts/layout/menu.js M static/scripts/mvc/form/form-wrapper.js M static/scripts/mvc/history/options-menu.js M static/scripts/mvc/tag.js M static/scripts/mvc/workflow/workflow-view.js M static/scripts/mvc/workflow/workflow.js M static/style/blue/base.css M test-data/1.fastqsanger M test-data/1.fastqsolexa M test-data/simple_line_alternative.txt M test-data/simple_lines_interleaved.txt M test/base/driver_util.py M test/base/integration_util.py A test/functional/tools/config_vars.xml M test/functional/tools/samples_tool_conf.xml A test/integration/test_mules_as_job_handlers.py M test/selenium_tests/test_workflow_editor.py M test/shed_functional/base/twilltestcase.py M test/shed_functional/functional_tests.py M test/unit/jobs/test_job_configuration.py M test/unit/unittest_utils/galaxy_mock.py M tools/data_source/data_source.py M tools/data_source/upload.py Log Message: ----------- Merge remote-tracking branch 'upstream/dev' into maps_for_developer_only Commit: 9626350168b6e0551506505979815de4e8d56af8 https://github.com/galaxyproject/galaxy/commit/9626350168b6e055150650597981… Author: Dannon Baker <dannon.baker(a)gmail.com> Date: 2017-11-29 (Wed, 29 Nov 2017) Changed paths: M Makefile R static/GruntFile.js.map Log Message: ----------- Makefile targets, and somehow we had a gruntfile map in the repo from ancient times. Commit: fde9f823d592db70b220e73e24305751c90c7ca7 https://github.com/galaxyproject/galaxy/commit/fde9f823d592db70b220e73e2430… Author: Dannon Baker <dannon.baker(a)gmail.com> Date: 2017-11-29 (Wed, 29 Nov 2017) Changed paths: M client/README.md Log Message: ----------- Update client README Commit: 1c30a850afe24950343266efa3120cfe0134a314 https://github.com/galaxyproject/galaxy/commit/1c30a850afe24950343266efa312… Author: Dannon Baker <dannon.baker(a)gmail.com> Date: 2017-11-29 (Wed, 29 Nov 2017) Changed paths: M Makefile Log Message: ----------- Add a better client commit warning to the Makefile. Commit: 5e17e44db533cea7be20f5f0a1455219f4de67c1 https://github.com/galaxyproject/galaxy/commit/5e17e44db533cea7be20f5f0a145… Author: Aysam Guerler <aysam.guerler(a)gmail.com> Date: 2017-11-30 (Thu, 30 Nov 2017) Changed paths: M .gitignore M Makefile M client/README.md M client/gulpfile.js M client/package.json M client/webpack.config.js R static/GruntFile.js.map R static/scripts/bundled/adminToolshed.bundled.js.map Log Message: ----------- Merge pull request #5058 from dannon/maps_for_developer_only Build endpoint separation Compare: https://github.com/galaxyproject/galaxy/compare/893e494c0275...5e17e44db533

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[galaxyproject/galaxy] 893e49: Add packed symlink back pending a deprecation cycl...
by GitHub 30 Nov '17

30 Nov '17

Branch: refs/heads/dev Home: https://github.com/galaxyproject/galaxy Commit: 893e494c0275f23d689b01065e4ca98c4bf2266f https://github.com/galaxyproject/galaxy/commit/893e494c0275f23d689b01065e4c… Author: Dannon Baker <dannon.baker(a)gmail.com> Date: 2017-11-30 (Thu, 30 Nov 2017) Changed paths: A static/scripts/packed Log Message: ----------- Add packed symlink back pending a deprecation cycle. (#5094)

1 0

[galaxyproject/galaxy]
by GitHub 30 Nov '17

30 Nov '17

Branch: refs/heads/ie Home: https://github.com/galaxyproject/galaxy

1 0

[galaxyproject/galaxy] 566f6b: Update Jupyter IE default image (#5095)
by GitHub 30 Nov '17

30 Nov '17

Branch: refs/heads/dev Home: https://github.com/galaxyproject/galaxy Commit: 566f6ba123e518a8c56a4e4f6171ac730e689b0b https://github.com/galaxyproject/galaxy/commit/566f6ba123e518a8c56a4e4f6171… Author: Enis Afgan <afgane(a)gmail.com> Date: 2017-11-30 (Thu, 30 Nov 2017) Changed paths: M config/plugins/interactive_environments/jupyter/config/allowed_images.yml.sample Log Message: ----------- Update Jupyter IE default image (#5095)

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galaxy-commits November 2017