Branch: refs/heads/release_17.05
Home: https://github.com/galaxyproject/galaxy
Commit: 3ef39b390c8d2f66ff890a29b712f785b6376601
https://github.com/galaxyproject/galaxy/commit/3ef39b390c8d2f66ff890a29b712…
Author: guerler <aysam.guerler(a)gmail.com>
Date: 2017-08-25 (Fri, 25 Aug 2017)
Changed paths:
M client/galaxy/scripts/mvc/ui/ui-select-content.js
M static/maps/mvc/ui/ui-select-content.js.map
M static/scripts/bundled/analysis.bundled.js
M static/scripts/bundled/analysis.bundled.js.map
M static/scripts/bundled/libs.bundled.js.map
M static/scripts/mvc/ui/ui-select-content.js
Log Message:
-----------
Fix drag and drop from history for firefox
Commit: cf897795fe8b544bc4cb5899585b1be2ee0063e6
https://github.com/galaxyproject/galaxy/commit/cf897795fe8b544bc4cb5899585b…
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2017-08-25 (Fri, 25 Aug 2017)
Changed paths:
M client/galaxy/scripts/mvc/ui/ui-select-content.js
M static/maps/mvc/ui/ui-select-content.js.map
M static/scripts/bundled/analysis.bundled.js
M static/scripts/bundled/analysis.bundled.js.map
M static/scripts/bundled/libs.bundled.js.map
M static/scripts/mvc/ui/ui-select-content.js
Log Message:
-----------
Merge pull request #4496 from guerler/fix_drag_drop_firefox
[17.05] Fix drag and drop from history for Firefox
Compare: https://github.com/galaxyproject/galaxy/compare/685b9de09bca...cf897795fe8b
Branch: refs/heads/dev
Home: https://github.com/galaxyproject/galaxy
Commit: da5b72a030d8d07c663566527fc64560e067eb54
https://github.com/galaxyproject/galaxy/commit/da5b72a030d8d07c663566527fc6…
Author: Nicola Soranzo <nicola.soranzo(a)earlham.ac.uk>
Date: 2017-08-22 (Tue, 22 Aug 2017)
Changed paths:
M config/datatypes_conf.xml.sample
M lib/galaxy/datatypes/binary.py
R lib/galaxy/datatypes/converters/bcf_bgzip_to_bcf_converter.py
R lib/galaxy/datatypes/converters/bcf_bgzip_to_bcf_converter.xml
R lib/galaxy/datatypes/converters/bcf_to_bcf_bgzip_converter.py
R lib/galaxy/datatypes/converters/bcf_to_bcf_bgzip_converter.xml
A lib/galaxy/datatypes/converters/bcf_to_bcf_uncompressed_converter.xml
A lib/galaxy/datatypes/converters/bcf_uncompressed_to_bcf_converter.xml
A lib/galaxy/datatypes/test/1.bcf
A lib/galaxy/datatypes/test/1.bcf_uncompressed
Log Message:
-----------
Alias `bcf_bgzip` datatype to `bcf`. Add `bcf_uncompressed` and converters
Since https://bitbucket.org/galaxy/galaxy-central/pull-requests/353
(only) compressed BCF files have been sniffed as `bcf`, so the `bcf_bgzip`
datatype (introduced 2 years later in
https://github.com/galaxyproject/galaxy/pull/1148 ) is an unused duplicate.
This adds also a distinct `bcf_uncompressed` datatype (and converters) for
the rare cases when it may be useful.
Commit: 8dc0e697d3f8841270f6d934d19b271cf23b219e
https://github.com/galaxyproject/galaxy/commit/8dc0e697d3f8841270f6d934d19b…
Author: Nicola Soranzo <nicola.soranzo(a)earlham.ac.uk>
Date: 2017-08-22 (Tue, 22 Aug 2017)
Changed paths:
M config/datatypes_conf.xml.sample
M lib/galaxy/datatypes/tabular.py
M test/functional/tools/sample_datatypes_conf.xml
Log Message:
-----------
Fix `vcf_bgzip` datatype
In https://github.com/galaxyproject/galaxy/pull/4254 `vcf_bgzip` was made
a proper datatype with the introduction of the `VcfGz` class, but was
still described as a subclass in `datatypes_conf.xml` .
Also fix `file_ext` attribute in `BaseVcf` and subclasses.
Commit: a63af63b41e81a104dc177cb13dc2f6f3b4e9e6d
https://github.com/galaxyproject/galaxy/commit/a63af63b41e81a104dc177cb13dc…
Author: Nicola Soranzo <nicola.soranzo(a)earlham.ac.uk>
Date: 2017-08-22 (Tue, 22 Aug 2017)
Changed paths:
M lib/galaxy/datatypes/set_metadata_tool.xml
Log Message:
-----------
Add requirement for bcftools to set_metadata tool
The `bcftools` binary is used by the `set_meta()` method of the `Bcf`
datatype class. Having a `<requirement>` for it in the set_metadata tool
makes it possible to use conda to resolve the dependency instead of
forcing the admin to install `bcftools` on the PATH of the Galaxy user.
This will also fix errors like
https://travis-ci.org/galaxyproject/tools-iuc/jobs/266923024#L1994
when running
```
planemo test --conda_dependency_resolution --conda_auto_install
```
Commit: c89233c7cbbe263d3670fd5d4066a83f537ee173
https://github.com/galaxyproject/galaxy/commit/c89233c7cbbe263d3670fd5d4066…
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2017-08-24 (Thu, 24 Aug 2017)
Changed paths:
M config/datatypes_conf.xml.sample
M lib/galaxy/datatypes/binary.py
R lib/galaxy/datatypes/converters/bcf_bgzip_to_bcf_converter.py
R lib/galaxy/datatypes/converters/bcf_bgzip_to_bcf_converter.xml
R lib/galaxy/datatypes/converters/bcf_to_bcf_bgzip_converter.py
R lib/galaxy/datatypes/converters/bcf_to_bcf_bgzip_converter.xml
A lib/galaxy/datatypes/converters/bcf_to_bcf_uncompressed_converter.xml
A lib/galaxy/datatypes/converters/bcf_uncompressed_to_bcf_converter.xml
M lib/galaxy/datatypes/set_metadata_tool.xml
M lib/galaxy/datatypes/tabular.py
A lib/galaxy/datatypes/test/1.bcf
A lib/galaxy/datatypes/test/1.bcf_uncompressed
M test/functional/tools/sample_datatypes_conf.xml
Log Message:
-----------
Merge pull request #4477 from nsoranzo/vcf_bcf_fixes
Fixes for VCF/BCF datatypes
Compare: https://github.com/galaxyproject/galaxy/compare/1426225a78d0...c89233c7cbbe
Branch: refs/heads/dev
Home: https://github.com/galaxyproject/galaxy
Commit: b80ee79b4302bd208ce5aa1fb86fb58e2b89a0c7
https://github.com/galaxyproject/galaxy/commit/b80ee79b4302bd208ce5aa1fb86f…
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2017-08-24 (Thu, 24 Aug 2017)
Changed paths:
R lib/galaxy/webapps/galaxy/controllers/mobile.py
R templates/webapps/galaxy/mobile/dataset/detail.mako
R templates/webapps/galaxy/mobile/dataset/peek.mako
R templates/webapps/galaxy/mobile/form.mako
R templates/webapps/galaxy/mobile/history/detail.mako
R templates/webapps/galaxy/mobile/history/list.mako
R templates/webapps/galaxy/mobile/index.mako
R templates/webapps/galaxy/mobile/manage_library.mako
R templates/webapps/galaxy/mobile/settings.mako
Log Message:
-----------
Remove /mobile and associated templates. It has been deactivated for almost three years now.
Commit: e542c47872881964c9c5fd0220904caee16f868a
https://github.com/galaxyproject/galaxy/commit/e542c47872881964c9c5fd022090…
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2017-08-24 (Thu, 24 Aug 2017)
Changed paths:
R client/galaxy/style/less/iphone.less
M client/grunt-tasks/style.js
M static/scripts/bundled/admin.bundled.js.map
M static/scripts/bundled/analysis.bundled.js.map
M static/scripts/bundled/libs.bundled.js
M static/scripts/bundled/libs.bundled.js.map
M static/scripts/bundled/login.bundled.js.map
R static/style/blue/iphone.css
Log Message:
-----------
Remove ancient 'iphone' styling that is unused (and missing assets)
Commit: 4c14de6955a6c2fef489fd9603aec4e88df65539
https://github.com/galaxyproject/galaxy/commit/4c14de6955a6c2fef489fd9603ae…
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2017-08-24 (Thu, 24 Aug 2017)
Changed paths:
M client/bower.json
R client/galaxy/scripts/libs/jquery/jqtouch.js
M client/grunt-tasks/install-libs.js
R static/jqtouch/img/backButton.png
R static/jqtouch/img/back_button.png
R static/jqtouch/img/back_button_clicked.png
R static/jqtouch/img/bg_row.gif
R static/jqtouch/img/bg_row_select.gif
R static/jqtouch/img/blueButton.png
R static/jqtouch/img/button.png
R static/jqtouch/img/button_clicked.png
R static/jqtouch/img/cancel.png
R static/jqtouch/img/chevron.png
R static/jqtouch/img/chevron_select.png
R static/jqtouch/img/grayButton.png
R static/jqtouch/img/header.gif
R static/jqtouch/img/listGroup.png
R static/jqtouch/img/loading.gif
R static/jqtouch/img/pinstripes.png
R static/jqtouch/img/selection.png
R static/jqtouch/img/thumb.png
R static/jqtouch/img/toggle.png
R static/jqtouch/img/toggleOn.png
R static/jqtouch/img/toolButton.png
R static/jqtouch/img/toolbar.gif
R static/jqtouch/img/toolbar.png
R static/jqtouch/img/whiteButton.png
R static/jqtouch/jqtouch.css
Log Message:
-----------
strip jqtouch
Commit: 1426225a78d0adc7a024d33f314bdfa613eabe5d
https://github.com/galaxyproject/galaxy/commit/1426225a78d0adc7a024d33f314b…
Author: Martin Cech <marten(a)bx.psu.edu>
Date: 2017-08-24 (Thu, 24 Aug 2017)
Changed paths:
M client/bower.json
R client/galaxy/scripts/libs/jquery/jqtouch.js
R client/galaxy/style/less/iphone.less
M client/grunt-tasks/install-libs.js
M client/grunt-tasks/style.js
R lib/galaxy/webapps/galaxy/controllers/mobile.py
R static/jqtouch/img/backButton.png
R static/jqtouch/img/back_button.png
R static/jqtouch/img/back_button_clicked.png
R static/jqtouch/img/bg_row.gif
R static/jqtouch/img/bg_row_select.gif
R static/jqtouch/img/blueButton.png
R static/jqtouch/img/button.png
R static/jqtouch/img/button_clicked.png
R static/jqtouch/img/cancel.png
R static/jqtouch/img/chevron.png
R static/jqtouch/img/chevron_select.png
R static/jqtouch/img/grayButton.png
R static/jqtouch/img/header.gif
R static/jqtouch/img/listGroup.png
R static/jqtouch/img/loading.gif
R static/jqtouch/img/pinstripes.png
R static/jqtouch/img/selection.png
R static/jqtouch/img/thumb.png
R static/jqtouch/img/toggle.png
R static/jqtouch/img/toggleOn.png
R static/jqtouch/img/toolButton.png
R static/jqtouch/img/toolbar.gif
R static/jqtouch/img/toolbar.png
R static/jqtouch/img/whiteButton.png
R static/jqtouch/jqtouch.css
M static/scripts/bundled/admin.bundled.js.map
M static/scripts/bundled/analysis.bundled.js.map
M static/scripts/bundled/libs.bundled.js
M static/scripts/bundled/libs.bundled.js.map
M static/scripts/bundled/login.bundled.js.map
R static/style/blue/iphone.css
R templates/webapps/galaxy/mobile/dataset/detail.mako
R templates/webapps/galaxy/mobile/dataset/peek.mako
R templates/webapps/galaxy/mobile/form.mako
R templates/webapps/galaxy/mobile/history/detail.mako
R templates/webapps/galaxy/mobile/history/list.mako
R templates/webapps/galaxy/mobile/index.mako
R templates/webapps/galaxy/mobile/manage_library.mako
R templates/webapps/galaxy/mobile/settings.mako
Log Message:
-----------
Merge pull request #4494 from dannon/no_mobile
Remove /mobile and associated templates
Compare: https://github.com/galaxyproject/galaxy/compare/5ae1446970ec...1426225a78d0
Branch: refs/heads/dev
Home: https://github.com/galaxyproject/galaxy
Commit: a6632f31338911176052db99257aa8f825286008
https://github.com/galaxyproject/galaxy/commit/a6632f31338911176052db99257a…
Author: Martin Cech <marten(a)bx.psu.edu>
Date: 2017-08-23 (Wed, 23 Aug 2017)
Changed paths:
M client/galaxy/style/less/dataset.less
M static/scripts/bundled/admin.bundled.js.map
M static/scripts/bundled/analysis.bundled.js.map
M static/scripts/bundled/libs.bundled.js
M static/scripts/bundled/libs.bundled.js.map
M static/scripts/bundled/login.bundled.js.map
M static/style/blue/base.css
Log Message:
-----------
replace exclamation with a clock icon
Commit: 27bd71332a66195f66536825d6da05ed505330f1
https://github.com/galaxyproject/galaxy/commit/27bd71332a66195f66536825d6da…
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2017-08-23 (Wed, 23 Aug 2017)
Changed paths:
M client/galaxy/style/less/dataset.less
M static/scripts/bundled/admin.bundled.js.map
M static/scripts/bundled/analysis.bundled.js.map
M static/scripts/bundled/libs.bundled.js
M static/scripts/bundled/libs.bundled.js.map
M static/scripts/bundled/login.bundled.js.map
M static/style/blue/base.css
Log Message:
-----------
Merge pull request #4485 from martenson/remove-exclamation
replace exclamation with a clock icon
Compare: https://github.com/galaxyproject/galaxy/compare/63d1d428a1d9...27bd71332a66