- galaxy-commits - lists.galaxyproject.org

[galaxyproject/galaxy] 95c64c: Rebuild as a part of merging from 16.01.
by GitHub 20 Jul '16

20 Jul '16

Branch: refs/heads/release_16.04 Home: https://github.com/galaxyproject/galaxy Commit: 95c64c0ba917bfbc5d04ff603ec3ca2a58f6c54f https://github.com/galaxyproject/galaxy/commit/95c64c0ba917bfbc5d04ff603ec3… Author: Dannon Baker <dannon.baker(a)gmail.com> Date: 2016-07-19 (Tue, 19 Jul 2016) Changed paths: M static/scripts/bundled/libs.bundled.js.map Log Message: ----------- Rebuild as a part of merging from 16.01.

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[galaxyproject/galaxy] bc79e9: UI, history: replace copy dialog on grid refresh
by GitHub 20 Jul '16

20 Jul '16

Branch: refs/heads/release_16.04 Home: https://github.com/galaxyproject/galaxy Commit: bc79e9cc4a0f5597d6243f946e034f88106141d1 https://github.com/galaxyproject/galaxy/commit/bc79e9cc4a0f5597d6243f946e03… Author: carlfeberhard <carlfeberhard(a)gmail.com> Date: 2016-07-19 (Tue, 19 Jul 2016) Changed paths: M templates/webapps/galaxy/history/grid.mako Log Message: ----------- UI, history: replace copy dialog on grid refresh Fixes #2624 init_grid is called from update_grid to rebuild the grid. This patches that call to replace the copy links with the dialog. Note: - related to #1303 which was an effort to make a single code path for copying histories. - Uses monkey patching to keep from porting build artifacts. Commit: 5f24afb1b3eebb7e30cee3958015b972b0bf2b1d https://github.com/galaxyproject/galaxy/commit/5f24afb1b3eebb7e30cee3958015… Author: Eric Enns <eric.enns(a)phac-aspc.gc.ca> Date: 2016-07-19 (Tue, 19 Jul 2016) Changed paths: M lib/galaxy/datatypes/data.py Log Message: ----------- Fix off by one error, causing only first line of file to be rendered in peek. Commit: 09b9339569d688e89b6f6fb9abc32b8e2b465e28 https://github.com/galaxyproject/galaxy/commit/09b9339569d688e89b6f6fb9abc3… Author: Eric Enns <eric.enns(a)phac-aspc.gc.ca> Date: 2016-07-19 (Tue, 19 Jul 2016) Changed paths: M lib/galaxy/datatypes/data.py A test/unit/datatypes/test_data.py Log Message: ----------- Fixed to only line_count not line_count + 1 lines and added in really basic test Commit: 7e389c7d54da91298c4b5970314c7e5040902952 https://github.com/galaxyproject/galaxy/commit/7e389c7d54da91298c4b5970314c… Author: Eric Enns <eric.enns(a)phac-aspc.gc.ca> Date: 2016-07-19 (Tue, 19 Jul 2016) Changed paths: M lib/galaxy/datatypes/data.py Log Message: ----------- Fixed E226 Commit: 85671bd466e8bfca0dc22c8fbdc6385a3e9dcf1e https://github.com/galaxyproject/galaxy/commit/85671bd466e8bfca0dc22c8fbdc6… Author: Eric Enns <eric.enns(a)phac-aspc.gc.ca> Date: 2016-07-19 (Tue, 19 Jul 2016) Changed paths: M test/unit/datatypes/test_data.py Log Message: ----------- Fixed E302 Commit: f4631d2e59af6596afbf571e5cb983e5ce734115 https://github.com/galaxyproject/galaxy/commit/f4631d2e59af6596afbf571e5cb9… Author: Dannon Baker <dannon.baker(a)gmail.com> Date: 2016-07-19 (Tue, 19 Jul 2016) Changed paths: M templates/webapps/galaxy/history/grid.mako Log Message: ----------- Merge pull request #2629 from carlfeberhard/fix.saved-copy [16.01] UI, history: replace copy dialog on grid refresh Commit: ac64c0162ef5f9c68529ee730326c985f4430280 https://github.com/galaxyproject/galaxy/commit/ac64c0162ef5f9c68529ee730326… Author: Dannon Baker <dannon.baker(a)gmail.com> Date: 2016-07-19 (Tue, 19 Jul 2016) Changed paths: M templates/webapps/galaxy/history/grid.mako Log Message: ----------- Merge branch 'release_16.01' into release_16.04 Compare: https://github.com/galaxyproject/galaxy/compare/10ac6ee13264...ac64c0162ef5

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[galaxyproject/galaxy] bc79e9: UI, history: replace copy dialog on grid refresh
by GitHub 20 Jul '16

20 Jul '16

Branch: refs/heads/release_16.01 Home: https://github.com/galaxyproject/galaxy Commit: bc79e9cc4a0f5597d6243f946e034f88106141d1 https://github.com/galaxyproject/galaxy/commit/bc79e9cc4a0f5597d6243f946e03… Author: carlfeberhard <carlfeberhard(a)gmail.com> Date: 2016-07-19 (Tue, 19 Jul 2016) Changed paths: M templates/webapps/galaxy/history/grid.mako Log Message: ----------- UI, history: replace copy dialog on grid refresh Fixes #2624 init_grid is called from update_grid to rebuild the grid. This patches that call to replace the copy links with the dialog. Note: - related to #1303 which was an effort to make a single code path for copying histories. - Uses monkey patching to keep from porting build artifacts. Commit: f4631d2e59af6596afbf571e5cb983e5ce734115 https://github.com/galaxyproject/galaxy/commit/f4631d2e59af6596afbf571e5cb9… Author: Dannon Baker <dannon.baker(a)gmail.com> Date: 2016-07-19 (Tue, 19 Jul 2016) Changed paths: M templates/webapps/galaxy/history/grid.mako Log Message: ----------- Merge pull request #2629 from carlfeberhard/fix.saved-copy [16.01] UI, history: replace copy dialog on grid refresh Compare: https://github.com/galaxyproject/galaxy/compare/85671bd466e8...f4631d2e59af

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[galaxyproject/galaxy] 5f24af: Fix off by one error, causing only first line of f...
by GitHub 19 Jul '16

19 Jul '16

Branch: refs/heads/release_16.01 Home: https://github.com/galaxyproject/galaxy Commit: 5f24afb1b3eebb7e30cee3958015b972b0bf2b1d https://github.com/galaxyproject/galaxy/commit/5f24afb1b3eebb7e30cee3958015… Author: Eric Enns <eric.enns(a)phac-aspc.gc.ca> Date: 2016-07-19 (Tue, 19 Jul 2016) Changed paths: M lib/galaxy/datatypes/data.py Log Message: ----------- Fix off by one error, causing only first line of file to be rendered in peek. Commit: 09b9339569d688e89b6f6fb9abc32b8e2b465e28 https://github.com/galaxyproject/galaxy/commit/09b9339569d688e89b6f6fb9abc3… Author: Eric Enns <eric.enns(a)phac-aspc.gc.ca> Date: 2016-07-19 (Tue, 19 Jul 2016) Changed paths: M lib/galaxy/datatypes/data.py A test/unit/datatypes/test_data.py Log Message: ----------- Fixed to only line_count not line_count + 1 lines and added in really basic test Commit: 7e389c7d54da91298c4b5970314c7e5040902952 https://github.com/galaxyproject/galaxy/commit/7e389c7d54da91298c4b5970314c… Author: Eric Enns <eric.enns(a)phac-aspc.gc.ca> Date: 2016-07-19 (Tue, 19 Jul 2016) Changed paths: M lib/galaxy/datatypes/data.py Log Message: ----------- Fixed E226 Commit: 85671bd466e8bfca0dc22c8fbdc6385a3e9dcf1e https://github.com/galaxyproject/galaxy/commit/85671bd466e8bfca0dc22c8fbdc6… Author: Eric Enns <eric.enns(a)phac-aspc.gc.ca> Date: 2016-07-19 (Tue, 19 Jul 2016) Changed paths: M test/unit/datatypes/test_data.py Log Message: ----------- Fixed E302 Compare: https://github.com/galaxyproject/galaxy/compare/67c4df712a0d...85671bd466e8

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[galaxyproject/galaxy]
by GitHub 19 Jul '16

19 Jul '16

Branch: refs/heads/16.04 Home: https://github.com/galaxyproject/galaxy

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[galaxyproject/galaxy]
by GitHub 19 Jul '16

19 Jul '16

Branch: refs/heads/16.04 Home: https://github.com/galaxyproject/galaxy

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[galaxyproject/galaxy] b713ff: Fix off by one error, causing only first line of f...
by GitHub 19 Jul '16

19 Jul '16

Branch: refs/heads/dev Home: https://github.com/galaxyproject/galaxy Commit: b713fff00d7c1a6c50e72f69647a6b5cbe3629dd https://github.com/galaxyproject/galaxy/commit/b713fff00d7c1a6c50e72f69647a… Author: Eric Enns <eric.enns(a)phac-aspc.gc.ca> Date: 2016-06-26 (Sun, 26 Jun 2016) Changed paths: M lib/galaxy/datatypes/data.py Log Message: ----------- Fix off by one error, causing only first line of file to be rendered in peek. Commit: 997fa1577b19d9daa31768731e7cd5f4a19db1e6 https://github.com/galaxyproject/galaxy/commit/997fa1577b19d9daa31768731e7c… Author: Eric Enns <eric.enns(a)phac-aspc.gc.ca> Date: 2016-06-26 (Sun, 26 Jun 2016) Changed paths: M lib/galaxy/datatypes/data.py A test/unit/datatypes/test_data.py Log Message: ----------- Fixed to only line_count not line_count + 1 lines and added in really basic test Commit: 157da746d8c5da8985d71fee578ba68dc104a11f https://github.com/galaxyproject/galaxy/commit/157da746d8c5da8985d71fee578b… Author: Eric Enns <eric.enns(a)phac-aspc.gc.ca> Date: 2016-06-26 (Sun, 26 Jun 2016) Changed paths: M lib/galaxy/datatypes/data.py Log Message: ----------- Fixed E226 Commit: a68381777df3e6c8165f5b9bdc4d4abf9bee41db https://github.com/galaxyproject/galaxy/commit/a68381777df3e6c8165f5b9bdc4d… Author: Eric Enns <eric.enns(a)phac-aspc.gc.ca> Date: 2016-06-26 (Sun, 26 Jun 2016) Changed paths: M test/unit/datatypes/test_data.py Log Message: ----------- Fixed E302 Commit: 10ac6ee132642e19b8bf0bd60903a85336337571 https://github.com/galaxyproject/galaxy/commit/10ac6ee132642e19b8bf0bd60903… Author: Carl Eberhard <carlfeberhard(a)users.noreply.github.com> Date: 2016-07-19 (Tue, 19 Jul 2016) Changed paths: M lib/galaxy/datatypes/data.py A test/unit/datatypes/test_data.py Log Message: ----------- Merge pull request #2556 from ericenns/fix-2461-dataset-peek [16.04] Fix off by one error, causing only first line of file to be rendered … Commit: 1e36eba631b2d5bb697dac8b2a7aae375dbe1fe3 https://github.com/galaxyproject/galaxy/commit/1e36eba631b2d5bb697dac8b2a7a… Author: carlfeberhard <carlfeberhard(a)gmail.com> Date: 2016-07-19 (Tue, 19 Jul 2016) Changed paths: M lib/galaxy/datatypes/data.py A test/unit/datatypes/test_data.py Log Message: ----------- Merge branch 'release_16.04' into dev Compare: https://github.com/galaxyproject/galaxy/compare/e1e0a3ba10a9...1e36eba631b2

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[galaxyproject/galaxy] b713ff: Fix off by one error, causing only first line of f...
by GitHub 19 Jul '16

19 Jul '16

Branch: refs/heads/release_16.04 Home: https://github.com/galaxyproject/galaxy Commit: b713fff00d7c1a6c50e72f69647a6b5cbe3629dd https://github.com/galaxyproject/galaxy/commit/b713fff00d7c1a6c50e72f69647a… Author: Eric Enns <eric.enns(a)phac-aspc.gc.ca> Date: 2016-06-26 (Sun, 26 Jun 2016) Changed paths: M lib/galaxy/datatypes/data.py Log Message: ----------- Fix off by one error, causing only first line of file to be rendered in peek. Commit: 997fa1577b19d9daa31768731e7cd5f4a19db1e6 https://github.com/galaxyproject/galaxy/commit/997fa1577b19d9daa31768731e7c… Author: Eric Enns <eric.enns(a)phac-aspc.gc.ca> Date: 2016-06-26 (Sun, 26 Jun 2016) Changed paths: M lib/galaxy/datatypes/data.py A test/unit/datatypes/test_data.py Log Message: ----------- Fixed to only line_count not line_count + 1 lines and added in really basic test Commit: 157da746d8c5da8985d71fee578ba68dc104a11f https://github.com/galaxyproject/galaxy/commit/157da746d8c5da8985d71fee578b… Author: Eric Enns <eric.enns(a)phac-aspc.gc.ca> Date: 2016-06-26 (Sun, 26 Jun 2016) Changed paths: M lib/galaxy/datatypes/data.py Log Message: ----------- Fixed E226 Commit: a68381777df3e6c8165f5b9bdc4d4abf9bee41db https://github.com/galaxyproject/galaxy/commit/a68381777df3e6c8165f5b9bdc4d… Author: Eric Enns <eric.enns(a)phac-aspc.gc.ca> Date: 2016-06-26 (Sun, 26 Jun 2016) Changed paths: M test/unit/datatypes/test_data.py Log Message: ----------- Fixed E302 Commit: 10ac6ee132642e19b8bf0bd60903a85336337571 https://github.com/galaxyproject/galaxy/commit/10ac6ee132642e19b8bf0bd60903… Author: Carl Eberhard <carlfeberhard(a)users.noreply.github.com> Date: 2016-07-19 (Tue, 19 Jul 2016) Changed paths: M lib/galaxy/datatypes/data.py A test/unit/datatypes/test_data.py Log Message: ----------- Merge pull request #2556 from ericenns/fix-2461-dataset-peek [16.04] Fix off by one error, causing only first line of file to be rendered … Compare: https://github.com/galaxyproject/galaxy/compare/8a5042d15b5b...10ac6ee13264

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[galaxyproject/galaxy] aa7ead: Strip whitespaces when processing <url_template> c...
by GitHub 19 Jul '16

19 Jul '16

Branch: refs/heads/dev Home: https://github.com/galaxyproject/galaxy Commit: aa7ead6dccd2c80152664c31bbf9b27f2f463799 https://github.com/galaxyproject/galaxy/commit/aa7ead6dccd2c80152664c31bbf9… Author: Nicola Soranzo <nicola.soranzo(a)tgac.ac.uk> Date: 2016-07-14 (Thu, 14 Jul 2016) Changed paths: M lib/tool_shed/galaxy_install/tool_dependencies/recipe/step_handler.py Log Message: ----------- Strip whitespaces when processing <url_template> content Otherwise download_binary action tries to save the file to an invalid filename. Reported by @remimarenco on IRC. Fix typo. Commit: 8c59d1c953c61b6d73d9bef5c4dda8a8056240b7 https://github.com/galaxyproject/galaxy/commit/8c59d1c953c61b6d73d9bef5c4dd… Author: Björn Grüning <bjoern(a)gruenings.eu> Date: 2016-07-15 (Fri, 15 Jul 2016) Changed paths: M lib/tool_shed/galaxy_install/tool_dependencies/recipe/step_handler.py Log Message: ----------- Merge pull request #2618 from nsoranzo/release_16.04_fix_download_binary [16.04] Strip whitespaces when processing <url_template> content Commit: dfce1a973012d430823a3dfad6edad08a31df747 https://github.com/galaxyproject/galaxy/commit/dfce1a973012d430823a3dfad6ed… Author: Dannon Baker <dannon.baker(a)gmail.com> Date: 2016-07-18 (Mon, 18 Jul 2016) Changed paths: M lib/galaxy/jobs/actions/post.py Log Message: ----------- This is an extra hammer swing at #1531 / #1542, which @rmarenco encountered. He said this resolves it. Commit: f9416573325139c6449d9a8959a138d5681d00d8 https://github.com/galaxyproject/galaxy/commit/f9416573325139c6449d9a8959a1… Author: Dannon Baker <dannon.baker(a)gmail.com> Date: 2016-07-19 (Tue, 19 Jul 2016) Changed paths: M lib/galaxy/jobs/actions/post.py Log Message: ----------- Extra debugging to hopefully shed light on the PJA Async issue with delete intermediates action and new(ish) workflow scheduling. Clarified a few vars. Commit: 8a5042d15b5b94fb804a1b1488375939dd88c3d2 https://github.com/galaxyproject/galaxy/commit/8a5042d15b5b94fb804a1b148837… Author: Martin Cech <cech.marten(a)gmail.com> Date: 2016-07-19 (Tue, 19 Jul 2016) Changed paths: M lib/galaxy/jobs/actions/post.py Log Message: ----------- Merge pull request #2626 from dannon/backport_hammerthrow [16.04] Backport workflow fix Commit: e1e0a3ba10a9572051fa352760fab03baf4004d2 https://github.com/galaxyproject/galaxy/commit/e1e0a3ba10a9572051fa352760fa… Author: Dannon Baker <dannon.baker(a)gmail.com> Date: 2016-07-19 (Tue, 19 Jul 2016) Changed paths: M lib/galaxy/jobs/actions/post.py M lib/tool_shed/galaxy_install/tool_dependencies/recipe/step_handler.py Log Message: ----------- Merge branch 'release_16.04' into dev Compare: https://github.com/galaxyproject/galaxy/compare/d351121d126f...e1e0a3ba10a9

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[galaxyproject/galaxy] dfce1a: This is an extra hammer swing at #1531 / #1542, wh...
by GitHub 19 Jul '16

19 Jul '16

Branch: refs/heads/release_16.04 Home: https://github.com/galaxyproject/galaxy Commit: dfce1a973012d430823a3dfad6edad08a31df747 https://github.com/galaxyproject/galaxy/commit/dfce1a973012d430823a3dfad6ed… Author: Dannon Baker <dannon.baker(a)gmail.com> Date: 2016-07-18 (Mon, 18 Jul 2016) Changed paths: M lib/galaxy/jobs/actions/post.py Log Message: ----------- This is an extra hammer swing at #1531 / #1542, which @rmarenco encountered. He said this resolves it. Commit: f9416573325139c6449d9a8959a138d5681d00d8 https://github.com/galaxyproject/galaxy/commit/f9416573325139c6449d9a8959a1… Author: Dannon Baker <dannon.baker(a)gmail.com> Date: 2016-07-19 (Tue, 19 Jul 2016) Changed paths: M lib/galaxy/jobs/actions/post.py Log Message: ----------- Extra debugging to hopefully shed light on the PJA Async issue with delete intermediates action and new(ish) workflow scheduling. Clarified a few vars. Commit: 8a5042d15b5b94fb804a1b1488375939dd88c3d2 https://github.com/galaxyproject/galaxy/commit/8a5042d15b5b94fb804a1b148837… Author: Martin Cech <cech.marten(a)gmail.com> Date: 2016-07-19 (Tue, 19 Jul 2016) Changed paths: M lib/galaxy/jobs/actions/post.py Log Message: ----------- Merge pull request #2626 from dannon/backport_hammerthrow [16.04] Backport workflow fix Compare: https://github.com/galaxyproject/galaxy/compare/8c59d1c953c6...8a5042d15b5b

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