Branch: refs/heads/dev
Home: https://github.com/galaxyproject/galaxy
Commit: 23762f48a3385ffbf08112eb95739672a4656db7
https://github.com/galaxyproject/galaxy/commit/23762f48a3385ffbf08112eb9573…
Author: John Chilton <jmchilton(a)gmail.com>
Date: 2018-05-01 (Tue, 01 May 2018)
Changed paths:
M .ci/jenkins/selenium/run_tests.sh
M run_tests.sh
M test/docker/base/Dockerfile
M test/docker/base/ansible_vars.yml
M test/docker/base/run_test_wrapper.sh
Log Message:
-----------
Docker fixes - release 18.05 edition.
- Rev to new container with 18.05 dependencies pre-installed.
- Enable caching of Yarn stuffs to enable
- Redo fix for git not working in node container - was mounting /etc/passwd but that wasn't compat. with Mac OS X, setting these environment variables are.
- Rearrange startup script a bit to make it load faster (wait for Selenium right before the tests not before waiting for DB).
- Fix random error in logs related to Selenium trying to read something in /root by passing -H to set the Selenium user's home directory.
Commit: b84de1e82b36ae94be33ca4bf6e85e4c3ed748d2
https://github.com/galaxyproject/galaxy/commit/b84de1e82b36ae94be33ca4bf6e8…
Author: John Chilton <jmchilton(a)gmail.com>
Date: 2018-05-02 (Wed, 02 May 2018)
Changed paths:
M client/galaxy/scripts/components/RuleCollectionBuilder.vue
Log Message:
-----------
Remove on-focus tooltips from rule builder.
Commit: db8d7e65fedab9795cf41ef6b498358180c727dc
https://github.com/galaxyproject/galaxy/commit/db8d7e65fedab9795cf41ef6b498…
Author: John Chilton <jmchilton(a)gmail.com>
Date: 2018-05-02 (Wed, 02 May 2018)
Changed paths:
M client/galaxy/scripts/mvc/rules/rule-definitions.js
Log Message:
-----------
Fix #6038.
Commit: cb38b2495d9e42ee3e0e8acc13fc60214334c75f
https://github.com/galaxyproject/galaxy/commit/cb38b2495d9e42ee3e0e8acc13fc…
Author: Martin Cech <marten(a)bx.psu.edu>
Date: 2018-05-02 (Wed, 02 May 2018)
Changed paths:
M client/galaxy/scripts/components/RuleCollectionBuilder.vue
M client/galaxy/scripts/mvc/rules/rule-definitions.js
Log Message:
-----------
Merge pull request #6040 from jmchilton/remove_focus_tooltip
[18.05] Two more rule builder fixes.
Commit: b8e5893b0d4efee3d2b256bf08b95906a2fd370e
https://github.com/galaxyproject/galaxy/commit/b8e5893b0d4efee3d2b256bf08b9…
Author: John Chilton <jmchilton(a)gmail.com>
Date: 2018-05-02 (Wed, 02 May 2018)
Changed paths:
M client/galaxy/scripts/components/RuleCollectionBuilder.vue
Log Message:
-----------
Fix for building doubly nested collections.
The late addition of validation code added for identifier uniqueness checking broke this I think.
Commit: 618de018b9507a58945c318a4ac49447ff30023b
https://github.com/galaxyproject/galaxy/commit/618de018b9507a58945c318a4ac4…
Author: Martin Cech <marten(a)bx.psu.edu>
Date: 2018-05-02 (Wed, 02 May 2018)
Changed paths:
M .ci/jenkins/selenium/run_tests.sh
M run_tests.sh
M test/docker/base/Dockerfile
M test/docker/base/ansible_vars.yml
M test/docker/base/run_test_wrapper.sh
Log Message:
-----------
Merge pull request #6029 from jmchilton/release_18.05_broken_tests
[18.05] Docker fixes - release 18.05 edition.
Commit: e11da5fba90d3ce4823481334888a602e229b588
https://github.com/galaxyproject/galaxy/commit/e11da5fba90d3ce4823481334888…
Author: guerler <aysam.guerler(a)gmail.com>
Date: 2018-05-02 (Wed, 02 May 2018)
Changed paths:
M client/galaxy/scripts/mvc/visualization/chart/utilities/series.js
M config/plugins/visualizations/heatmap/heatmap_default/src/script.js
M config/plugins/visualizations/heatmap/heatmap_default/static/script.js
M config/plugins/visualizations/jqplot/jqplot_bar/src/script.js
M config/plugins/visualizations/jqplot/jqplot_bar/static/script.css
M config/plugins/visualizations/jqplot/jqplot_bar/static/script.js
M config/plugins/visualizations/nvd3/nvd3_histogram/config/nvd3_histogram.xml
M config/plugins/visualizations/nvd3/nvd3_histogram_discrete/config/nvd3_histogram_discrete.xml
Log Message:
-----------
Fix jqplot: boxplot, histogram
Fix heatmap clustering
Fix nvd3 tool based types
Remove global d3 object from heatmap and jqplot
Commit: a8fe9a73942fd09a5e65ee51d7407952b362f6d4
https://github.com/galaxyproject/galaxy/commit/a8fe9a73942fd09a5e65ee51d740…
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-05-03 (Thu, 03 May 2018)
Changed paths:
M lib/galaxy/tools/errors.py
Log Message:
-----------
The link for specific individual history view has changed, but wasn't updated here in the error report.
Commit: 6a2c678dcedf426319b77a24f686807ceff0b603
https://github.com/galaxyproject/galaxy/commit/6a2c678dcedf426319b77a24f686…
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-05-03 (Thu, 03 May 2018)
Changed paths:
M client/package.json
M client/yarn.lock
M static/style/blue/base.css
Log Message:
-----------
Bump bootstrap from 4.1.0 to 4.1.1 -- has a few bugfixes and hides the chatty and irrelevant (for us) deprecation warning on client build.
Commit: ba6c3e6c625c8f2f024408541ad2196efdd5b1e4
https://github.com/galaxyproject/galaxy/commit/ba6c3e6c625c8f2f024408541ad2…
Author: Martin Cech <marten(a)bx.psu.edu>
Date: 2018-05-03 (Thu, 03 May 2018)
Changed paths:
M client/galaxy/scripts/mvc/visualization/chart/utilities/series.js
M config/plugins/visualizations/heatmap/heatmap_default/src/script.js
M config/plugins/visualizations/heatmap/heatmap_default/static/script.js
M config/plugins/visualizations/jqplot/jqplot_bar/src/script.js
M config/plugins/visualizations/jqplot/jqplot_bar/static/script.css
M config/plugins/visualizations/jqplot/jqplot_bar/static/script.js
M config/plugins/visualizations/nvd3/nvd3_histogram/config/nvd3_histogram.xml
M config/plugins/visualizations/nvd3/nvd3_histogram_discrete/config/nvd3_histogram_discrete.xml
Log Message:
-----------
Merge pull request #6047 from guerler/fix_charts
[18.05] Fix and repack chart tool-based visualizations
Commit: 666fec9f7b005676b1dd14e4a01a9a3df3861968
https://github.com/galaxyproject/galaxy/commit/666fec9f7b005676b1dd14e4a01a…
Author: Martin Cech <marten(a)bx.psu.edu>
Date: 2018-05-03 (Thu, 03 May 2018)
Changed paths:
M client/package.json
M client/yarn.lock
M static/style/blue/base.css
Log Message:
-----------
Merge pull request #6052 from dannon/bs4_411
[18.05] Bump bootstrap from 4.1.0 to 4.1.1
Commit: 3829b0727d4ef05bdc1680f38babac7ac152350d
https://github.com/galaxyproject/galaxy/commit/3829b0727d4ef05bdc1680f38bab…
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2018-05-03 (Thu, 03 May 2018)
Changed paths:
M templates/display_common.mako
Log Message:
-----------
Fix one more use of histories/view
Commit: 8b733df8953431f16b2bd12e4cdd49090115e082
https://github.com/galaxyproject/galaxy/commit/8b733df8953431f16b2bd12e4cdd…
Author: Martin Cech <marten(a)bx.psu.edu>
Date: 2018-05-03 (Thu, 03 May 2018)
Changed paths:
M lib/galaxy/tools/errors.py
M templates/display_common.mako
Log Message:
-----------
Merge pull request #6051 from dannon/fix_tool_error_report
[18.05] Fix tool error report history view link
Commit: 3292445872d9333753728828528947dc802a30be
https://github.com/galaxyproject/galaxy/commit/3292445872d93337537288285289…
Author: Martin Cech <marten(a)bx.psu.edu>
Date: 2018-05-03 (Thu, 03 May 2018)
Changed paths:
M client/galaxy/scripts/components/RuleCollectionBuilder.vue
Log Message:
-----------
Merge pull request #6045 from jmchilton/remove_focus_tooltip
[18.05] Fix for building doubly nested collections.
Commit: 3e49e31707fc0539b859fb11bbfd841fb38dda44
https://github.com/galaxyproject/galaxy/commit/3e49e31707fc0539b859fb11bbfd…
Author: Martin Cech <marten(a)bx.psu.edu>
Date: 2018-05-03 (Thu, 03 May 2018)
Changed paths:
M .ci/jenkins/selenium/run_tests.sh
M client/galaxy/scripts/components/RuleCollectionBuilder.vue
M client/galaxy/scripts/mvc/rules/rule-definitions.js
M client/galaxy/scripts/mvc/visualization/chart/utilities/series.js
M client/package.json
M client/yarn.lock
M config/plugins/visualizations/heatmap/heatmap_default/src/script.js
M config/plugins/visualizations/heatmap/heatmap_default/static/script.js
M config/plugins/visualizations/jqplot/jqplot_bar/src/script.js
M config/plugins/visualizations/jqplot/jqplot_bar/static/script.css
M config/plugins/visualizations/jqplot/jqplot_bar/static/script.js
M config/plugins/visualizations/nvd3/nvd3_histogram/config/nvd3_histogram.xml
M config/plugins/visualizations/nvd3/nvd3_histogram_discrete/config/nvd3_histogram_discrete.xml
M lib/galaxy/tools/errors.py
M run_tests.sh
M static/style/blue/base.css
M templates/display_common.mako
M test/docker/base/Dockerfile
M test/docker/base/ansible_vars.yml
M test/docker/base/run_test_wrapper.sh
Log Message:
-----------
Merge branch 'release_18.05' into dev
Compare: https://github.com/galaxyproject/galaxy/compare/459384b060e1...3e49e31707fc
**NOTE:** This service 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_18.05
Home: https://github.com/galaxyproject/galaxy
Commit: e11da5fba90d3ce4823481334888a602e229b588
https://github.com/galaxyproject/galaxy/commit/e11da5fba90d3ce4823481334888…
Author: guerler <aysam.guerler(a)gmail.com>
Date: 2018-05-02 (Wed, 02 May 2018)
Changed paths:
M client/galaxy/scripts/mvc/visualization/chart/utilities/series.js
M config/plugins/visualizations/heatmap/heatmap_default/src/script.js
M config/plugins/visualizations/heatmap/heatmap_default/static/script.js
M config/plugins/visualizations/jqplot/jqplot_bar/src/script.js
M config/plugins/visualizations/jqplot/jqplot_bar/static/script.css
M config/plugins/visualizations/jqplot/jqplot_bar/static/script.js
M config/plugins/visualizations/nvd3/nvd3_histogram/config/nvd3_histogram.xml
M config/plugins/visualizations/nvd3/nvd3_histogram_discrete/config/nvd3_histogram_discrete.xml
Log Message:
-----------
Fix jqplot: boxplot, histogram
Fix heatmap clustering
Fix nvd3 tool based types
Remove global d3 object from heatmap and jqplot
Commit: ba6c3e6c625c8f2f024408541ad2196efdd5b1e4
https://github.com/galaxyproject/galaxy/commit/ba6c3e6c625c8f2f024408541ad2…
Author: Martin Cech <marten(a)bx.psu.edu>
Date: 2018-05-03 (Thu, 03 May 2018)
Changed paths:
M client/galaxy/scripts/mvc/visualization/chart/utilities/series.js
M config/plugins/visualizations/heatmap/heatmap_default/src/script.js
M config/plugins/visualizations/heatmap/heatmap_default/static/script.js
M config/plugins/visualizations/jqplot/jqplot_bar/src/script.js
M config/plugins/visualizations/jqplot/jqplot_bar/static/script.css
M config/plugins/visualizations/jqplot/jqplot_bar/static/script.js
M config/plugins/visualizations/nvd3/nvd3_histogram/config/nvd3_histogram.xml
M config/plugins/visualizations/nvd3/nvd3_histogram_discrete/config/nvd3_histogram_discrete.xml
Log Message:
-----------
Merge pull request #6047 from guerler/fix_charts
[18.05] Fix and repack chart tool-based visualizations
Compare: https://github.com/galaxyproject/galaxy/compare/618de018b950...ba6c3e6c625c
**NOTE:** This service 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: f8606a81db718ba19d9ecc3ae05e63d629da5ad7
https://github.com/galaxyproject/galaxy/commit/f8606a81db718ba19d9ecc3ae05e…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2018-05-03 (Thu, 03 May 2018)
Changed paths:
M lib/galaxy/model/__init__.py
A lib/galaxy/model/migrate/versions/0142_change_numeric_metric_precision.py
Log Message:
-----------
Increase precision of metric_value on job_metric_numeric to 26.
Commit: ab8542a24c55271b08c356b3c242a0dbe729a360
https://github.com/galaxyproject/galaxy/commit/ab8542a24c55271b08c356b3c242…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2018-05-03 (Thu, 03 May 2018)
Changed paths:
M config/job_metrics_conf.xml.sample
M lib/galaxy/jobs/metrics/instrumenters/cgroup.py
Log Message:
-----------
Allow selection of specific cgroup params for cgroup metrics plugin
Commit: a543b62fd3b966352030a24c7b6dbf0ce4f96146
https://github.com/galaxyproject/galaxy/commit/a543b62fd3b966352030a24c7b6d…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2018-05-03 (Thu, 03 May 2018)
Changed paths:
M lib/galaxy/model/__init__.py
Log Message:
-----------
Add a note that metrics column sizes can't be changed simply by changing
their constants in model
Commit: 459384b060e131d897f3d6d5dce6e9f64c45d18d
https://github.com/galaxyproject/galaxy/commit/459384b060e131d897f3d6d5dce6…
Author: Dannon <dannon.baker(a)gmail.com>
Date: 2018-05-03 (Thu, 03 May 2018)
Changed paths:
M config/job_metrics_conf.xml.sample
M lib/galaxy/jobs/metrics/instrumenters/cgroup.py
M lib/galaxy/model/__init__.py
A lib/galaxy/model/migrate/versions/0142_change_numeric_metric_precision.py
Log Message:
-----------
Merge pull request #5993 from natefoo/cgroup-metric-enhancements
Minor enhancements for cgroup metrics
Compare: https://github.com/galaxyproject/galaxy/compare/6006d9bfcad1...459384b060e1
**NOTE:** This service 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_18.05
Home: https://github.com/galaxyproject/galaxy
Commit: 23762f48a3385ffbf08112eb95739672a4656db7
https://github.com/galaxyproject/galaxy/commit/23762f48a3385ffbf08112eb9573…
Author: John Chilton <jmchilton(a)gmail.com>
Date: 2018-05-01 (Tue, 01 May 2018)
Changed paths:
M .ci/jenkins/selenium/run_tests.sh
M run_tests.sh
M test/docker/base/Dockerfile
M test/docker/base/ansible_vars.yml
M test/docker/base/run_test_wrapper.sh
Log Message:
-----------
Docker fixes - release 18.05 edition.
- Rev to new container with 18.05 dependencies pre-installed.
- Enable caching of Yarn stuffs to enable
- Redo fix for git not working in node container - was mounting /etc/passwd but that wasn't compat. with Mac OS X, setting these environment variables are.
- Rearrange startup script a bit to make it load faster (wait for Selenium right before the tests not before waiting for DB).
- Fix random error in logs related to Selenium trying to read something in /root by passing -H to set the Selenium user's home directory.
Commit: 618de018b9507a58945c318a4ac49447ff30023b
https://github.com/galaxyproject/galaxy/commit/618de018b9507a58945c318a4ac4…
Author: Martin Cech <marten(a)bx.psu.edu>
Date: 2018-05-02 (Wed, 02 May 2018)
Changed paths:
M .ci/jenkins/selenium/run_tests.sh
M run_tests.sh
M test/docker/base/Dockerfile
M test/docker/base/ansible_vars.yml
M test/docker/base/run_test_wrapper.sh
Log Message:
-----------
Merge pull request #6029 from jmchilton/release_18.05_broken_tests
[18.05] Docker fixes - release 18.05 edition.
Compare: https://github.com/galaxyproject/galaxy/compare/cb38b2495d9e...618de018b950
**NOTE:** This service 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.