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- ----- 2010 -----
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July 2017
- 1 participants
- 94 discussions
Branch: refs/heads/master
Home: https://github.com/galaxyproject/infrastructure-playbook
Commit: 5c5b7e5c1f7c832aa3e224a738d0fc73ccc66f51
https://github.com/galaxyproject/infrastructure-playbook/commit/5c5b7e5c1f7…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-07-18 (Tue, 18 Jul 2017)
Changed paths:
M taccenv/host_vars/galaxy-db-02.tacc.utexas.edu/vault.yml
Log Message:
-----------
Access list
1
0
Branch: refs/heads/dev
Home: https://github.com/galaxyproject/galaxy
Commit: 2f00242261247ff9f7f7149ae1bad15e3be39c66
https://github.com/galaxyproject/galaxy/commit/2f00242261247ff9f7f7149ae1ba…
Author: Caleb <caleb.easterly(a)gmail.com>
Date: 2017-07-12 (Wed, 12 Jul 2017)
Changed paths:
A config/plugins/visualizations/unipept/LICENSE
A config/plugins/visualizations/unipept/README.md
A config/plugins/visualizations/unipept/config/unipept.xml
A config/plugins/visualizations/unipept/static/style.css
A config/plugins/visualizations/unipept/static/tooltip.css
A config/plugins/visualizations/unipept/static/unipept-visualizations.es5.js
A config/plugins/visualizations/unipept/static/unipept-visualizations.es5.js.map
A config/plugins/visualizations/unipept/static/unipept-visualizations.js
A config/plugins/visualizations/unipept/static/unipept-visualizations.js.map
A config/plugins/visualizations/unipept/static/unipept-visualizations.min.js
A config/plugins/visualizations/unipept/static/unipept_viz.js
A config/plugins/visualizations/unipept/templates/glyphicons-86-repeat.png
A config/plugins/visualizations/unipept/templates/unipept.mako
Log Message:
-----------
add unipept triple visualization
Commit: 2a49f1f62a0a536d8a5eca6ab2bc92badecb82cc
https://github.com/galaxyproject/galaxy/commit/2a49f1f62a0a536d8a5eca6ab2bc…
Author: Caleb <caleb.easterly(a)gmail.com>
Date: 2017-07-12 (Wed, 12 Jul 2017)
Changed paths:
A config/plugins/visualizations/unipept/LICENSE
A config/plugins/visualizations/unipept/README.md
A config/plugins/visualizations/unipept/config/unipept.xml
A config/plugins/visualizations/unipept/static/style.css
A config/plugins/visualizations/unipept/static/tooltip.css
A config/plugins/visualizations/unipept/static/unipept-visualizations.es5.js
A config/plugins/visualizations/unipept/static/unipept-visualizations.es5.js.map
A config/plugins/visualizations/unipept/static/unipept-visualizations.js
A config/plugins/visualizations/unipept/static/unipept-visualizations.js.map
A config/plugins/visualizations/unipept/static/unipept-visualizations.min.js
A config/plugins/visualizations/unipept/static/unipept_viz.js
A config/plugins/visualizations/unipept/templates/glyphicons-86-repeat.png
A config/plugins/visualizations/unipept/templates/unipept.mako
Log Message:
-----------
add unipept triple visualization
Commit: 2044c7fa25e1d9f039f2462a90b86de505127168
https://github.com/galaxyproject/galaxy/commit/2044c7fa25e1d9f039f2462a90b8…
Author: Caleb <caleb.easterly(a)gmail.com>
Date: 2017-07-12 (Wed, 12 Jul 2017)
Log Message:
-----------
Merge branch 'dev' of https://github.com/caleb-easterly/galaxy into dev
Commit: 2f66a419a442313c952ae8386add6599947d288d
https://github.com/galaxyproject/galaxy/commit/2f66a419a442313c952ae8386add…
Author: Caleb <caleb.easterly(a)gmail.com>
Date: 2017-07-12 (Wed, 12 Jul 2017)
Changed paths:
A .gitmodules
Log Message:
-----------
submodules file
Commit: 85fc4d11f97facdf8c119f82116acc632c26708e
https://github.com/galaxyproject/galaxy/commit/85fc4d11f97facdf8c119f82116a…
Author: Caleb <caleb.easterly(a)gmail.com>
Date: 2017-07-13 (Thu, 13 Jul 2017)
Changed paths:
R .gitmodules
Log Message:
-----------
remove submodule
Commit: 2fbf9afc64e4fa41993fe400148527a773226348
https://github.com/galaxyproject/galaxy/commit/2fbf9afc64e4fa41993fe4001485…
Author: Caleb <caleb.easterly(a)gmail.com>
Date: 2017-07-13 (Thu, 13 Jul 2017)
Changed paths:
M config/plugins/visualizations/unipept/static/style.css
M config/plugins/visualizations/unipept/templates/unipept.mako
Log Message:
-----------
fix treemap being too wide
Commit: c39a82f76c4ab1cc297086d29bb7f4363c6c0aa2
https://github.com/galaxyproject/galaxy/commit/c39a82f76c4ab1cc297086d29bb7…
Author: Caleb <caleb.easterly(a)gmail.com>
Date: 2017-07-13 (Thu, 13 Jul 2017)
Changed paths:
R config/plugins/visualizations/unipept/LICENSE
Log Message:
-----------
remove license
Commit: 9445acaa6e8b06dad5602e772a01ceddc5247ef2
https://github.com/galaxyproject/galaxy/commit/9445acaa6e8b06dad5602e772a01…
Author: Caleb Easterly <caleb.easterly(a)gmail.com>
Date: 2017-07-13 (Thu, 13 Jul 2017)
Changed paths:
M config/plugins/visualizations/unipept/README.md
Log Message:
-----------
fix jj's link
Commit: 2d13f9b843589e5b33ceaf41762ba759e1e02d98
https://github.com/galaxyproject/galaxy/commit/2d13f9b843589e5b33ceaf41762b…
Author: Caleb <caleb.easterly(a)gmail.com>
Date: 2017-07-14 (Fri, 14 Jul 2017)
Changed paths:
M config/plugins/visualizations/unipept/templates/unipept.mako
Log Message:
-----------
downgrade to unipept-visualizations.es5.js for compatibility with older browsers
Commit: b2bb88a41d8e8055faa57658b3a06855f0adebe5
https://github.com/galaxyproject/galaxy/commit/b2bb88a41d8e8055faa57658b3a0…
Author: Caleb <caleb.easterly(a)gmail.com>
Date: 2017-07-17 (Mon, 17 Jul 2017)
Changed paths:
R config/plugins/visualizations/unipept/static/unipept-visualizations.js
R config/plugins/visualizations/unipept/static/unipept-visualizations.js.map
R config/plugins/visualizations/unipept/static/unipept-visualizations.min.js
Log Message:
-----------
remove extraneous js files
Commit: 7351252b21c9364640b264affef199bf1f95d480
https://github.com/galaxyproject/galaxy/commit/7351252b21c9364640b264affef1…
Author: Björn Grüning <bjoern(a)gruenings.eu>
Date: 2017-07-18 (Tue, 18 Jul 2017)
Changed paths:
A config/plugins/visualizations/unipept/README.md
A config/plugins/visualizations/unipept/config/unipept.xml
A config/plugins/visualizations/unipept/static/style.css
A config/plugins/visualizations/unipept/static/tooltip.css
A config/plugins/visualizations/unipept/static/unipept-visualizations.es5.js
A config/plugins/visualizations/unipept/static/unipept-visualizations.es5.js.map
A config/plugins/visualizations/unipept/static/unipept_viz.js
A config/plugins/visualizations/unipept/templates/glyphicons-86-repeat.png
A config/plugins/visualizations/unipept/templates/unipept.mako
Log Message:
-----------
Merge pull request #4310 from caleb-easterly/dev
Add Unipept taxonomy viewer plugin
Compare: https://github.com/galaxyproject/galaxy/compare/4ba2b9f815e5...7351252b21c9
1
0
[galaxyproject/galaxy] 19a6b4: Swap the deprecated unescape() for decodeURICompon...
by GitHub 17 Jul '17
by GitHub 17 Jul '17
17 Jul '17
Branch: refs/heads/dev
Home: https://github.com/galaxyproject/galaxy
Commit: 19a6b4f6932706e22a231c5fb156b1857d7aa7dc
https://github.com/galaxyproject/galaxy/commit/19a6b4f6932706e22a231c5fb156…
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2017-07-17 (Mon, 17 Jul 2017)
Changed paths:
M client/galaxy/scripts/apps/analysis.js
M static/scripts/bundled/analysis.bundled.js
M static/scripts/bundled/analysis.bundled.js.map
M static/scripts/bundled/libs.bundled.js.map
Log Message:
-----------
Swap the deprecated unescape() for decodeURIComponent
Commit: 4ba2b9f815e5ab2e0789a11ee203ba7e30adff51
https://github.com/galaxyproject/galaxy/commit/4ba2b9f815e5ab2e0789a11ee203…
Author: Aysam Guerler <aysam.guerler(a)gmail.com>
Date: 2017-07-17 (Mon, 17 Jul 2017)
Changed paths:
M client/galaxy/scripts/apps/analysis.js
M static/scripts/bundled/analysis.bundled.js
M static/scripts/bundled/analysis.bundled.js.map
M static/scripts/bundled/libs.bundled.js.map
Log Message:
-----------
Merge pull request #4321 from dannon/unescape_to_decodeuricomp
Swap the deprecated unescape() for decodeURIComponent
Compare: https://github.com/galaxyproject/galaxy/compare/9cbcb525ebfc...4ba2b9f815e5
1
0
[galaxyproject/galaxy] c90b94: Instead of setting the tags from a list, workflow ...
by GitHub 17 Jul '17
by GitHub 17 Jul '17
17 Jul '17
Branch: refs/heads/dev
Home: https://github.com/galaxyproject/galaxy
Commit: c90b94311e5427da95a36a9661c1d0eb19e16fc2
https://github.com/galaxyproject/galaxy/commit/c90b94311e5427da95a36a9661c1…
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2017-06-13 (Tue, 13 Jun 2017)
Changed paths:
M lib/galaxy/jobs/actions/post.py
M lib/galaxy/managers/tags.py
Log Message:
-----------
Instead of setting the tags from a list, workflow PJAs will now append tags, so propagating tags will work alongside this feature.
Commit: 01510af8f57508877dda205cb0afdc144bfa73c2
https://github.com/galaxyproject/galaxy/commit/01510af8f57508877dda205cb0af…
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2017-06-13 (Tue, 13 Jun 2017)
Changed paths:
M lib/galaxy/managers/tags.py
Log Message:
-----------
Consistent spacing (not a fan of the rule, but consistency is better)
Commit: 472ff8ce520a6327179dd54c301db763ea7e979b
https://github.com/galaxyproject/galaxy/commit/472ff8ce520a6327179dd54c301d…
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2017-06-13 (Tue, 13 Jun 2017)
Changed paths:
M lib/galaxy/managers/tags.py
Log Message:
-----------
Fix for when item.tags is undefined
Commit: 368be188d0918adaa0d7f752883c24bb79f261ec
https://github.com/galaxyproject/galaxy/commit/368be188d0918adaa0d7f752883c…
Author: guerler <aysam.guerler(a)gmail.com>
Date: 2017-06-26 (Mon, 26 Jun 2017)
Changed paths:
M client/galaxy/scripts/apps/analysis.js
M static/scripts/bundled/analysis.bundled.js
M static/scripts/bundled/analysis.bundled.js.map
M static/scripts/bundled/libs.bundled.js.map
Log Message:
-----------
Unescape tool id before parsing to tool form builder
Commit: f439fd30eb1f803daf8e1898bc1648c8cee131f8
https://github.com/galaxyproject/galaxy/commit/f439fd30eb1f803daf8e1898bc16…
Author: Andrea Bagnacani <andrea.bagnacani(a)uni-rostock.de>
Date: 2017-06-26 (Mon, 26 Jun 2017)
Changed paths:
M client/galaxy/scripts/mvc/tours.js
M static/maps/mvc/tool/tool-form-base.js.map
M static/maps/mvc/tours.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/scripts/mvc/tool/tool-form-base.js
M static/scripts/mvc/tours.js
Log Message:
-----------
conditional postclick execution onNext
Commit: fc613d2d60c126b3b37c9ebe3ddbd9cc58803643
https://github.com/galaxyproject/galaxy/commit/fc613d2d60c126b3b37c9ebe3ddb…
Author: John Chilton <jmchilton(a)gmail.com>
Date: 2017-07-05 (Wed, 05 Jul 2017)
Changed paths:
M lib/galaxy/jobs/actions/post.py
M lib/galaxy/managers/tags.py
Log Message:
-----------
Merge pull request #4188 from dannon/workflow_pja_add_not_set_tags
[17.05] Hashtags w/ workflow-defined tags fix
Commit: e58b24db6133720edf442ca85702e4bba050e9c9
https://github.com/galaxyproject/galaxy/commit/e58b24db6133720edf442ca85702…
Author: Martin Cech <marten(a)bx.psu.edu>
Date: 2017-07-10 (Mon, 10 Jul 2017)
Changed paths:
M client/galaxy/scripts/mvc/tours.js
M static/maps/mvc/tool/tool-form-base.js.map
M static/maps/mvc/tours.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/scripts/mvc/tool/tool-form-base.js
M static/scripts/mvc/tours.js
Log Message:
-----------
Merge pull request #4228 from bagnacan/release_17.05_backport_4062
[17.05] conditional postclick execution onNext
Commit: d4d558b27a09f684be8311f3cfb659b16545e167
https://github.com/galaxyproject/galaxy/commit/d4d558b27a09f684be8311f3cfb6…
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2017-07-17 (Mon, 17 Jul 2017)
Changed paths:
M client/galaxy/scripts/apps/analysis.js
M static/scripts/bundled/analysis.bundled.js
M static/scripts/bundled/analysis.bundled.js.map
M static/scripts/bundled/libs.bundled.js.map
Log Message:
-----------
Merge remote-tracking branch 'guerler/fix_id_encoding' into release_17.05
Includes client rebuild.
Commit: 9cbcb525ebfc5368f7cfeade2f1080084ee5f2de
https://github.com/galaxyproject/galaxy/commit/9cbcb525ebfc5368f7cfeade2f10…
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2017-07-17 (Mon, 17 Jul 2017)
Changed paths:
M client/galaxy/scripts/apps/analysis.js
M lib/galaxy/jobs/actions/post.py
M lib/galaxy/managers/tags.py
M static/scripts/bundled/admin.bundled.js.map
M static/scripts/bundled/analysis.bundled.js
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
Log Message:
-----------
Merge branch 'release_17.05' into dev
Compare: https://github.com/galaxyproject/galaxy/compare/ae2fe8992a87...9cbcb525ebfc
1
0
[galaxyproject/galaxy] 368be1: Unescape tool id before parsing to tool form build...
by GitHub 17 Jul '17
by GitHub 17 Jul '17
17 Jul '17
Branch: refs/heads/release_17.05
Home: https://github.com/galaxyproject/galaxy
Commit: 368be188d0918adaa0d7f752883c24bb79f261ec
https://github.com/galaxyproject/galaxy/commit/368be188d0918adaa0d7f752883c…
Author: guerler <aysam.guerler(a)gmail.com>
Date: 2017-06-26 (Mon, 26 Jun 2017)
Changed paths:
M client/galaxy/scripts/apps/analysis.js
M static/scripts/bundled/analysis.bundled.js
M static/scripts/bundled/analysis.bundled.js.map
M static/scripts/bundled/libs.bundled.js.map
Log Message:
-----------
Unescape tool id before parsing to tool form builder
Commit: d4d558b27a09f684be8311f3cfb659b16545e167
https://github.com/galaxyproject/galaxy/commit/d4d558b27a09f684be8311f3cfb6…
Author: Dannon Baker <dannon.baker(a)gmail.com>
Date: 2017-07-17 (Mon, 17 Jul 2017)
Changed paths:
M client/galaxy/scripts/apps/analysis.js
M static/scripts/bundled/analysis.bundled.js
M static/scripts/bundled/analysis.bundled.js.map
M static/scripts/bundled/libs.bundled.js.map
Log Message:
-----------
Merge remote-tracking branch 'guerler/fix_id_encoding' into release_17.05
Includes client rebuild.
Compare: https://github.com/galaxyproject/galaxy/compare/e58b24db6133...d4d558b27a09
1
0
[galaxyproject/galaxy] a69c5b: Fix for loading tools when tool.lineage is None.
by GitHub 17 Jul '17
by GitHub 17 Jul '17
17 Jul '17
Branch: refs/heads/dev
Home: https://github.com/galaxyproject/galaxy
Commit: a69c5b5c0cd86a493684fbd853f7d09c10de414e
https://github.com/galaxyproject/galaxy/commit/a69c5b5c0cd86a493684fbd853f7…
Author: Daniel Blankenberg <dan.blankenberg(a)gmail.com>
Date: 2017-07-14 (Fri, 14 Jul 2017)
Changed paths:
M lib/galaxy/tools/toolbox/base.py
Log Message:
-----------
Fix for loading tools when tool.lineage is None.
Commit: ae2fe8992a878ab92fdcf049dc2398e9cf134da6
https://github.com/galaxyproject/galaxy/commit/ae2fe8992a878ab92fdcf049dc23…
Author: Marius van den Beek <m.vandenbeek(a)gmail.com>
Date: 2017-07-17 (Mon, 17 Jul 2017)
Changed paths:
M lib/galaxy/tools/toolbox/base.py
Log Message:
-----------
Merge pull request #4317 from blankenberg/none-tool-lineage
Fix for loading tools when tool.lineage is None.
Compare: https://github.com/galaxyproject/galaxy/compare/bded7919b640...ae2fe8992a87
1
0
[galaxyproject/galaxy] cacce9: Fix for the caching of location filenames when the...
by GitHub 17 Jul '17
by GitHub 17 Jul '17
17 Jul '17
Branch: refs/heads/dev
Home: https://github.com/galaxyproject/galaxy
Commit: cacce9f1182d10e0d959ff26cde16fecf7db89e4
https://github.com/galaxyproject/galaxy/commit/cacce9f1182d10e0d959ff26cde1…
Author: Daniel Blankenberg <dan.blankenberg(a)gmail.com>
Date: 2017-07-14 (Fri, 14 Jul 2017)
Changed paths:
M lib/galaxy/tools/data/__init__.py
Log Message:
-----------
Fix for the caching of location filenames when they are broken symlinks.
Commit: bded7919b640d31b839e23e568c80bec5ee025e3
https://github.com/galaxyproject/galaxy/commit/bded7919b640d31b839e23e568c8…
Author: Marius van den Beek <m.vandenbeek(a)gmail.com>
Date: 2017-07-17 (Mon, 17 Jul 2017)
Changed paths:
M lib/galaxy/tools/data/__init__.py
Log Message:
-----------
Merge pull request #4318 from blankenberg/tool-data-table-broken-symlink
Fix for the caching of location filenames when they are broken symlinks.
Compare: https://github.com/galaxyproject/galaxy/compare/0f2fe60af44c...bded7919b640
1
0
Branch: refs/heads/master
Home: https://github.com/galaxyproject/usegalaxy-playbook
Commit: ed83ee9d3c5d3062441fb28cf02cf50fa585f4c0
https://github.com/galaxyproject/usegalaxy-playbook/commit/ed83ee9d3c5d3062…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-04-06 (Thu, 06 Apr 2017)
Changed paths:
M common_roles
M roles/galaxyprojectdotorg.galaxy/README.md
M roles/galaxyprojectdotorg.galaxy/defaults/main.yml
M roles/galaxyprojectdotorg.galaxy/files/makepyc.py
M roles/galaxyprojectdotorg.galaxy/handlers/main.yml
M roles/galaxyprojectdotorg.galaxy/meta/.galaxy_install_info
M roles/galaxyprojectdotorg.galaxy/tasks/clone.yml
M roles/galaxyprojectdotorg.galaxy/tasks/database.yml
M roles/galaxyprojectdotorg.galaxy/tasks/dependencies.yml
M roles/galaxyprojectdotorg.galaxy/tasks/download.yml
M roles/galaxyprojectdotorg.galaxy/tasks/main.yml
M roles/galaxyprojectdotorg.galaxy/tasks/mutable_setup.yml
M roles/galaxyprojectdotorg.galaxy/tasks/static_setup.yml
M roles/galaxyprojectdotorg.galaxy/tasks/virtualenv.yml
M roles/galaxyprojectdotorg.nginx/README.md
M roles/galaxyprojectdotorg.nginx/meta/.galaxy_install_info
M roles/galaxyprojectdotorg.nginx/meta/main.yml
M roles/galaxyprojectdotorg.nginx/tasks/main.yml
A roles/galaxyprojectdotorg.nginx/tasks/pkgin.yml
M roles/galaxyprojectdotorg.nginx/templates/epel-nginx.conf.j2
A roles/galaxyprojectdotorg.nginx/templates/pkgin-nginx.conf.j2
A roles/galaxyprojectdotorg.nginx/vars/pkgin.yml
M roles/galaxyprojectdotorg.postgresql/files/get_repo_rpm_release.py
M roles/galaxyprojectdotorg.postgresql/meta/.galaxy_install_info
M roles/galaxyprojectdotorg.postgresql/tasks/main.yml
M roles/galaxyprojectdotorg.postgresql/tasks/redhat.yml
M roles/galaxyprojectdotorg.postgresql/templates/archive_wal.sh.j2
M roles/galaxyprojectdotorg.postgresql/templates/backup_working_wal.sh.j2
M roles/galaxyprojectdotorg.postgresql/templates/scheduled_backup.sh.j2
M roles/natefoo.postgresql_objects/README.md
M roles/natefoo.postgresql_objects/meta/.galaxy_install_info
M roles/natefoo.postgresql_objects/tasks/main.yml
Log Message:
-----------
Update roles
Commit: 60df6e1d5c7879155576d7b98b880c9f74be94e6
https://github.com/galaxyproject/usegalaxy-playbook/commit/60df6e1d5c787915…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-04-07 (Fri, 07 Apr 2017)
Changed paths:
M production/files/interactive_environments/plugins/bam_iobio/config/bam_iobio.ini.sample
M production/files/interactive_environments/plugins/bam_iobio/static/js/bam_iobio.js
M production/files/interactive_environments/plugins/bam_iobio/templates/bam_iobio.mako
M production/files/interactive_environments/plugins/common/templates/ie.mako
R production/files/interactive_environments/plugins/ethercalc/config/allowed_images.yml.sample
R production/files/interactive_environments/plugins/ethercalc/config/ethercalc.ini.sample
R production/files/interactive_environments/plugins/ethercalc/config/ethercalc.xml
R production/files/interactive_environments/plugins/ethercalc/static/js/ethercalc.js
R production/files/interactive_environments/plugins/ethercalc/templates/ethercalc.mako
M production/files/interactive_environments/plugins/jupyter/config/allowed_images.yml.sample
M production/files/interactive_environments/plugins/jupyter/config/jupyter.ini.sample
M production/files/interactive_environments/plugins/jupyter/config/jupyter.xml
M production/files/interactive_environments/plugins/jupyter/static/js/jupyter.js
M production/files/interactive_environments/plugins/jupyter/templates/jupyter.mako
M production/files/interactive_environments/plugins/neo/config/neo.ini.sample
M production/files/interactive_environments/plugins/neo/static/js/neo.js
M production/files/interactive_environments/plugins/neo/templates/neo.mako
M production/files/interactive_environments/plugins/phinch/config/phinch.ini.sample
M production/files/interactive_environments/plugins/phinch/static/js/phinch.js
M production/files/interactive_environments/plugins/phinch/templates/phinch.mako
M production/files/interactive_environments/plugins/rstudio/config/rstudio.ini.sample
M production/files/interactive_environments/plugins/rstudio/static/js/rstudio.js
M production/files/interactive_environments/plugins/rstudio/templates/rstudio.mako
M production/files/interactive_environments/proxy/lib/mapper.js
M roles/galaxyprojectdotorg.interactive_environments/meta/.galaxy_install_info
M roles/galaxyprojectdotorg.interactive_environments/tasks/extract_component.yml
M roles/galaxyprojectdotorg.interactive_environments/tasks/synchronize_components.yml
Log Message:
-----------
Merge branch 'master' of github.com:/galaxyproject/usegalaxy-playbook into reorg
Commit: bad32b46a7af10c27f6e6889d10db1c58b8239c1
https://github.com/galaxyproject/usegalaxy-playbook/commit/bad32b46a7af10c2…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-04-12 (Wed, 12 Apr 2017)
Changed paths:
M README.md
M ansible.cfg
R common/host_vars/galaxy01.tacc.utexas.edu.yml
R common/host_vars/galaxy05.tacc.utexas.edu.yml
R common/host_vars/radegast.galaxyproject.org.yml
M common/inventory
M common_roles
A env/common/_inc_restart.yml
A env/common/_inc_snapshot.yml
A env/common/_inc_static.yml
A env/common/config.yml
A env/common/files/galaxy/config/disposable_email_blacklist.conf
A env/common/files/galaxy/config/pulsar_jetstream_actions.yml
A env/common/files/galaxy/dynamic_rules/bridges_select.py
A env/common/files/galaxy/dynamic_rules/multi_dynamic_walltime.py
A env/common/files/galaxy/dynamic_rules/nvc_dynamic_memory.py
A env/common/files/galaxy/dynamic_rules/reserved.py
A env/common/files/galaxy/error/413/index.html
A env/common/files/galaxy/error/502/index.shtml
A env/common/files/galaxy/error/content_bg.png
A env/common/files/galaxy/error/error_message_icon.png
A env/common/files/galaxy/error/masthead_bg.png
A env/common/files/galaxy/static/terms.html
A env/common/files/galaxy/static/welcome_img/201511_France.png
A env/common/files/galaxy/static/welcome_img/50PlusPublic.png
A env/common/files/galaxy/static/welcome_img/60PlusOdometer1.png
A env/common/files/galaxy/static/welcome_img/70PlusOdometer.png
A env/common/files/galaxy/static/welcome_img/80PlusOdometer.png
A env/common/files/galaxy/static/welcome_img/Ballaxy.png
A env/common/files/galaxy/static/welcome_img/Barcelona_2015.png
A env/common/files/galaxy/static/welcome_img/CARTGalaxy.png
A env/common/files/galaxy/static/welcome_img/CPTGalaxy.png
A env/common/files/galaxy/static/welcome_img/CoSSci.png
A env/common/files/galaxy/static/welcome_img/EDGW2017.jpg
A env/common/files/galaxy/static/welcome_img/ErasmusGalaxy.png
A env/common/files/galaxy/static/welcome_img/EuropeFall2014.png
A env/common/files/galaxy/static/welcome_img/EuropeFall2014_2.png
A env/common/files/galaxy/static/welcome_img/FROGGalaxy.png
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A env/common/files/galaxy/static/welcome_img/GAMe2017.png
A env/common/files/galaxy/static/welcome_img/GAMe2017RegisterNow.png
A env/common/files/galaxy/static/welcome_img/GAMe2017TalkAbstracts.png
A env/common/files/galaxy/static/welcome_img/GAT2016EarlyReg.png
A env/common/files/galaxy/static/welcome_img/GAT2016OntimeReg.png
A env/common/files/galaxy/static/welcome_img/GCC2014.png
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A env/common/files/galaxy/static/welcome_img/GCC2015SaveTheseDates.png
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A env/common/files/galaxy/static/welcome_img/GCC2016OralAbstractsDueApril8.png
A env/common/files/galaxy/static/welcome_img/GCC2016ScholarshipsDomestic.png
A env/common/files/galaxy/static/welcome_img/GCC2016ScholarshipsInternational.png
A env/common/files/galaxy/static/welcome_img/GCC2016TrNom.png
A env/common/files/galaxy/static/welcome_img/GCC2016TrVote.png
A env/common/files/galaxy/static/welcome_img/GCC2017.png
A env/common/files/galaxy/static/welcome_img/GCUKisLive.png
A env/common/files/galaxy/static/welcome_img/GTN.png
A env/common/files/galaxy/static/welcome_img/GalaxEast.png
A env/common/files/galaxy/static/welcome_img/GalaxyAdmins201502.png
A env/common/files/galaxy/static/welcome_img/GalaxyBiostar.png
A env/common/files/galaxy/static/welcome_img/GalaxyBiostarHelp.png
A env/common/files/galaxy/static/welcome_img/GalaxyCast1.png
A env/common/files/galaxy/static/welcome_img/GalaxyIFBDay2014.png
A env/common/files/galaxy/static/welcome_img/GalaxyIsHiringCascade.png
A env/common/files/galaxy/static/welcome_img/GalaxyQuest1.png
A env/common/files/galaxy/static/welcome_img/ISMB2014.png
A env/common/files/galaxy/static/welcome_img/ImmPortGalaxy.png
A env/common/files/galaxy/static/welcome_img/LookingToLearn.png
A env/common/files/galaxy/static/welcome_img/MBAC.png
A env/common/files/galaxy/static/welcome_img/MPI-HLR-Galaxy.png
A env/common/files/galaxy/static/welcome_img/MississippiGalaxy.png
A env/common/files/galaxy/static/welcome_img/PAG2017.png
A env/common/files/galaxy/static/welcome_img/PIAGalaxy.png
A env/common/files/galaxy/static/welcome_img/PRABIGalaxy.png
A env/common/files/galaxy/static/welcome_img/PreSTIGEGalaxy.png
A env/common/files/galaxy/static/welcome_img/RDF2GraphGalaxy.png
A env/common/files/galaxy/static/welcome_img/RNA-Seq-Portal.png
A env/common/files/galaxy/static/welcome_img/RepeatExplorer.png
A env/common/files/galaxy/static/welcome_img/Riboseq.png
A env/common/files/galaxy/static/welcome_img/SG2016.png
A env/common/files/galaxy/static/welcome_img/SlipStreamSlide.png
A env/common/files/galaxy/static/welcome_img/SupAgro201502.png
A env/common/files/galaxy/static/welcome_img/TACC_small.png
A env/common/files/galaxy/static/welcome_img/VSU.png
A env/common/files/galaxy/static/welcome_img/VideosAreBack.png
A env/common/files/galaxy/static/welcome_img/WST2015.png
A env/common/files/galaxy/static/welcome_img/WhaleSharkGalaxy.png
A env/common/files/galaxy/static/welcome_img/ZBIT.png
A env/common/files/galaxy/static/welcome_img/cyverse_rgb_200.png
A env/common/files/galaxy/static/welcome_img/deepTools.png
A env/common/files/galaxy/static/welcome_img/emory_logo.png
A env/common/files/galaxy/static/welcome_img/jhu_logo.png
A env/common/files/galaxy/static/welcome_img/jquery-1.10.2.min.js
A env/common/files/galaxy/static/welcome_img/jquery.cycle2.min.js
A env/common/files/galaxy/static/welcome_img/kmerSVMGalaxy.png
A env/common/files/galaxy/static/welcome_img/ohsu_logo.png
A env/common/files/galaxy/static/welcome_img/psu_logo.png
A env/common/files/galaxy/static/welcome_img/tacc_logo.png
A env/common/files/galaxy/static/welcome_img/welcome_images.001.png
A env/common/files/galaxy/static/welcome_img/welcome_images.002.png
A env/common/files/galaxy/static/welcome_img/welcome_images.003.png
A env/common/files/galaxy/static/welcome_img/widget.js
A env/common/files/pulsar/config/bridges_dependency_resolvers_conf.xml
A env/common/files/ssl/incommon_chain.pem
A env/common/files/ssl/radegast.galaxyproject.org_cert.pem
A env/common/files/ssl/usegalaxy.org_cert.pem
A env/common/files/ssl/wildcard_cert.pem
A env/common/group_vars/sslservers/vars.yml
A env/common/group_vars/sslservers/vault.yml
A env/common/group_vars/toolsheddbservers.yml
A env/common/group_vars/toolshedservers/common_vars.yml
A env/common/group_vars/toolshedservers/common_vault.yml
A env/common/group_vars/toolshedwebservers.yml
A env/common/pulsar.yml
A env/common/restart.yml
A env/common/snapshot.yml
A env/common/stack.yml
A env/common/static.yml
A env/common/templates/galaxy/config/reports.ini.j2
A env/common/templates/galaxy/static/welcome.html.j2
A env/common/templates/nginx/toolshed.j2
A env/common/templates/supervisor/galaxy.j2
A env/common/templates/supervisor/galaxy_datamanager.j2
A env/common/templates/supervisor/galaxy_gie_proxy.j2
A env/common/templates/supervisor/galaxy_group.j2
A env/common/templates/supervisor/galaxy_handler.j2
A env/common/templates/supervisor/galaxy_impersonate.j2
A env/common/templates/supervisor/galaxy_reports.j2
A env/common/templates/supervisor/toolshed.j2
A env/common/update.yml
A env/common/update_shed.yml
A env/test/_inc_config_post_tasks.yml
A env/test/_inc_restart.yml
A env/test/_inc_snapshot.yml
A env/test/_inc_static.yml
A env/test/config.yml
A env/test/files/galaxy/config/builds.txt
A env/test/files/galaxy/config/data_manager_conf.xml
A env/test/files/galaxy/config/disposable_email_blacklist.conf
A env/test/files/galaxy/config/job_metrics_conf.xml
A env/test/files/galaxy/config/job_resource_params_conf.xml
A env/test/files/galaxy/config/nagios_tool_conf.xml
A env/test/files/galaxy/config/object_store_conf.xml
A env/test/files/galaxy/config/pulsar_jetstream.yml
A env/test/files/galaxy/config/pulsar_jetstream_actions.yml
A env/test/files/galaxy/config/pulsar_stampede_actions.yml
A env/test/files/galaxy/config/tool_conf.xml
A env/test/files/galaxy/config/tool_data_table_conf.xml
A env/test/files/galaxy/config/tool_sheds_conf.xml
A env/test/files/galaxy/config/ucsc_build_sites.txt
A env/test/files/galaxy/dynamic_rules/bridges_select.py
A env/test/files/galaxy/dynamic_rules/jetstream.py
A env/test/files/galaxy/dynamic_rules/multi_dynamic_walltime.py
A env/test/files/galaxy/dynamic_rules/nvc_dynamic_memory.py
A env/test/files/galaxy/dynamic_rules/reserved.py
A env/test/files/galaxy/dynamic_rules/single_dynamic_memory.py
A env/test/files/galaxy/error
A env/test/files/galaxy/galaxy_version.yml
A env/test/files/galaxy/nagios/echo_test_bridges.xml
A env/test/files/galaxy/nagios/echo_test_cluster.xml
A env/test/files/galaxy/nagios/echo_test_handler0.xml
A env/test/files/galaxy/nagios/echo_test_handler1.xml
A env/test/files/galaxy/nagios/echo_test_jetstream_iu.xml
A env/test/files/galaxy/nagios/echo_test_jetstream_tacc.xml
A env/test/files/galaxy/nagios/echo_test_stampede.xml
A env/test/files/galaxy/static
A env/test/files/galaxy/tool_list.yaml
A env/test/files/galaxy/var/integrated_tool_panel.xml
A env/test/files/galaxy/var/migrated_tools_conf.xml
A env/test/files/galaxy/var/shed_data_manager_conf.xml
A env/test/files/galaxy/var/shed_tool_conf.xml
A env/test/files/galaxy/var/shed_tool_data_table_conf.xml
A env/test/files/interactive_environments/plugins/.ansible_ie_role_current_version
A env/test/files/interactive_environments/plugins/bam_iobio/config/bam_iobio.ini.sample
A env/test/files/interactive_environments/plugins/bam_iobio/config/bam_iobio.xml
A env/test/files/interactive_environments/plugins/bam_iobio/static/js/bam_iobio.js
A env/test/files/interactive_environments/plugins/bam_iobio/templates/bam_iobio.mako
A env/test/files/interactive_environments/plugins/common/templates/ie.mako
A env/test/files/interactive_environments/plugins/ethercalc/config/ethercalc.ini.sample
A env/test/files/interactive_environments/plugins/ethercalc/config/ethercalc.xml
A env/test/files/interactive_environments/plugins/ethercalc/static/js/ethercalc.js
A env/test/files/interactive_environments/plugins/ethercalc/templates/ethercalc.mako
A env/test/files/interactive_environments/plugins/interactive_environments.dtd
A env/test/files/interactive_environments/plugins/jupyter/config/allowed_images.yml.sample
A env/test/files/interactive_environments/plugins/jupyter/config/jupyter.ini.sample
A env/test/files/interactive_environments/plugins/jupyter/config/jupyter.xml
A env/test/files/interactive_environments/plugins/jupyter/static/js/jupyter.js
A env/test/files/interactive_environments/plugins/jupyter/templates/jupyter.mako
A env/test/files/interactive_environments/plugins/neo/config/allowed_images.yml.sample
A env/test/files/interactive_environments/plugins/neo/config/neo.ini.sample
A env/test/files/interactive_environments/plugins/neo/config/neo.xml
A env/test/files/interactive_environments/plugins/neo/static/js/neo.js
A env/test/files/interactive_environments/plugins/neo/templates/neo.mako
A env/test/files/interactive_environments/plugins/phinch/config/phinch.ini.sample
A env/test/files/interactive_environments/plugins/phinch/config/phinch.xml
A env/test/files/interactive_environments/plugins/phinch/static/js/phinch.js
A env/test/files/interactive_environments/plugins/phinch/templates/phinch.mako
A env/test/files/interactive_environments/plugins/rstudio/config/allowed_images.yml.sample
A env/test/files/interactive_environments/plugins/rstudio/config/rstudio.ini.sample
A env/test/files/interactive_environments/plugins/rstudio/config/rstudio.xml
A env/test/files/interactive_environments/plugins/rstudio/static/js/crypto/base64.js
A env/test/files/interactive_environments/plugins/rstudio/static/js/crypto/jsbn.js
A env/test/files/interactive_environments/plugins/rstudio/static/js/crypto/prng4.js
A env/test/files/interactive_environments/plugins/rstudio/static/js/crypto/rng.js
A env/test/files/interactive_environments/plugins/rstudio/static/js/crypto/rsa.js
A env/test/files/interactive_environments/plugins/rstudio/static/js/crypto/rstudio.big.js
A env/test/files/interactive_environments/plugins/rstudio/static/js/crypto/rstudio.min.js
A env/test/files/interactive_environments/plugins/rstudio/static/js/crypto/rstudio/base64.js
A env/test/files/interactive_environments/plugins/rstudio/static/js/crypto/rstudio/jsbn.js
A env/test/files/interactive_environments/plugins/rstudio/static/js/crypto/rstudio/prng4.js
A env/test/files/interactive_environments/plugins/rstudio/static/js/crypto/rstudio/rng.js
A env/test/files/interactive_environments/plugins/rstudio/static/js/crypto/rstudio/rsa.js
A env/test/files/interactive_environments/plugins/rstudio/static/js/crypto/wu/base64.js
A env/test/files/interactive_environments/plugins/rstudio/static/js/crypto/wu/jsbn.js
A env/test/files/interactive_environments/plugins/rstudio/static/js/crypto/wu/prng4.js
A env/test/files/interactive_environments/plugins/rstudio/static/js/crypto/wu/rng.js
A env/test/files/interactive_environments/plugins/rstudio/static/js/crypto/wu/rsa.js
A env/test/files/interactive_environments/plugins/rstudio/static/js/rstudio.js
A env/test/files/interactive_environments/plugins/rstudio/templates/rstudio.mako
A env/test/files/interactive_environments/proxy/.ansible_ie_role_current_version
A env/test/files/interactive_environments/proxy/Dockerfile
A env/test/files/interactive_environments/proxy/README.md
A env/test/files/interactive_environments/proxy/lib/main.js
A env/test/files/interactive_environments/proxy/lib/mapper.js
A env/test/files/interactive_environments/proxy/lib/proxy.js
A env/test/files/interactive_environments/proxy/package.json
A env/test/files/pulsar
A env/test/files/ssl
A env/test/group_vars/all.yml
A env/test/group_vars/dbservers/vars.yml
A env/test/group_vars/dbservers/vault.yml
A env/test/group_vars/ftpservers.yml
A env/test/group_vars/galaxyservers/vars.yml
A env/test/group_vars/galaxyservers/vault.yml
A env/test/group_vars/galaxyswarmmanagers/vars.yml
A env/test/group_vars/galaxyswarmmanagers/vault.yml
A env/test/group_vars/galaxywebservers.yml
A env/test/group_vars/pulsarservers/vars.yml
A env/test/group_vars/pulsarservers/vault.yml
A env/test/group_vars/sslservers
A env/test/group_vars/supervisorservers/vars.yml
A env/test/group_vars/supervisorservers/vault.yml
A env/test/group_vars/webservers/vars.yml
A env/test/group_vars/webservers/vault.yml
A env/test/host_vars/br005.bridges.psc.edu.yml
A env/test/host_vars/galaxy07.tacc.utexas.edu.yml
A env/test/host_vars/jetstream-iu0.galaxyproject.org.yml
A env/test/host_vars/jetstream-tacc0.galaxyproject.org.yml
A env/test/host_vars/login5.stampede.tacc.utexas.edu.yml
A env/test/inventory
A env/test/inventory.static
A env/test/pulsar.yml
A env/test/restart.yml
A env/test/snapshot.yml
A env/test/stack.yml
A env/test/static.yml
A env/test/templates/galaxy/config/build_sites.yml.j2
A env/test/templates/galaxy/config/galaxy.ini.j2
A env/test/templates/galaxy/config/job_conf.xml.j2
A env/test/templates/galaxy/config/reports.ini.j2
A env/test/templates/galaxy/config/uwsgi.ini.j2
A env/test/templates/galaxy/static
A env/test/templates/nginx/galaxy_test.j2
A env/test/templates/nginx/tacc_protected.j2
A env/test/templates/supervisor
A env/test/update.yml
A env/testtoolshed/files/ssl
A env/testtoolshed/group_vars/sslservers
A env/testtoolshed/group_vars/toolsheddbservers.yml
A env/testtoolshed/group_vars/toolshedservers/common_vars.yml
A env/testtoolshed/group_vars/toolshedservers/common_vault.yml
A env/testtoolshed/group_vars/toolshedservers/vars.yml
A env/testtoolshed/group_vars/toolshedservers/vault.yml
A env/testtoolshed/group_vars/toolshedwebservers.yml
A env/testtoolshed/inventory
A env/testtoolshed/stack.yml
A env/testtoolshed/templates/nginx/testtoolshed.j2
A env/testtoolshed/templates/supervisor/testtoolshed.j2
A env/testtoolshed/update.yml
R files/galaxy/test.galaxyproject.org/config/builds.txt
R files/galaxy/test.galaxyproject.org/config/data_manager_conf.xml
R files/galaxy/test.galaxyproject.org/config/disposable_email_blacklist.conf
R files/galaxy/test.galaxyproject.org/config/job_metrics_conf.xml
R files/galaxy/test.galaxyproject.org/config/job_resource_params_conf.xml
R files/galaxy/test.galaxyproject.org/config/nagios_tool_conf.xml
R files/galaxy/test.galaxyproject.org/config/object_store_conf.xml
R files/galaxy/test.galaxyproject.org/config/pulsar_jetstream.yml
R files/galaxy/test.galaxyproject.org/config/pulsar_jetstream_actions.yml
R files/galaxy/test.galaxyproject.org/config/pulsar_stampede_actions.yml
R files/galaxy/test.galaxyproject.org/config/tool_conf.xml
R files/galaxy/test.galaxyproject.org/config/tool_data_table_conf.xml
R files/galaxy/test.galaxyproject.org/config/tool_sheds_conf.xml
R files/galaxy/test.galaxyproject.org/config/ucsc_build_sites.txt
R files/galaxy/test.galaxyproject.org/dynamic_rules/bridges_select.py
R files/galaxy/test.galaxyproject.org/dynamic_rules/jetstream.py
R files/galaxy/test.galaxyproject.org/dynamic_rules/multi_dynamic_walltime.py
R files/galaxy/test.galaxyproject.org/dynamic_rules/nvc_dynamic_memory.py
R files/galaxy/test.galaxyproject.org/dynamic_rules/reserved.py
R files/galaxy/test.galaxyproject.org/dynamic_rules/single_dynamic_memory.py
R files/galaxy/test.galaxyproject.org/error
R files/galaxy/test.galaxyproject.org/nagios/echo_test_bridges.xml
R files/galaxy/test.galaxyproject.org/nagios/echo_test_cluster.xml
R files/galaxy/test.galaxyproject.org/nagios/echo_test_handler0.xml
R files/galaxy/test.galaxyproject.org/nagios/echo_test_handler1.xml
R files/galaxy/test.galaxyproject.org/nagios/echo_test_jetstream_iu.xml
R files/galaxy/test.galaxyproject.org/nagios/echo_test_jetstream_tacc.xml
R files/galaxy/test.galaxyproject.org/nagios/echo_test_stampede.xml
R files/galaxy/test.galaxyproject.org/static
R files/galaxy/test.galaxyproject.org/tool_list.yaml
R files/galaxy/test.galaxyproject.org/var/integrated_tool_panel.xml
R files/galaxy/test.galaxyproject.org/var/migrated_tools_conf.xml
R files/galaxy/test.galaxyproject.org/var/shed_data_manager_conf.xml
R files/galaxy/test.galaxyproject.org/var/shed_tool_conf.xml
R files/galaxy/test.galaxyproject.org/var/shed_tool_data_table_conf.xml
R files/pulsar/common/config/bridges_dependency_resolvers_conf.xml
R files/pulsar/test.galaxyproject.org/config/bridges_dependency_resolvers_con…
R files/toolshed/testtoolshed.g2.bx.psu.edu/error
R galaxy_configs.yml
R galaxy_infrastructure.yml
R galaxy_static.yml
R pulsar.yml
R roles/errordocs/tasks/main.yml
M roles/galaxyprojectdotorg.galaxy/README.md
M roles/galaxyprojectdotorg.galaxy/defaults/main.yml
A roles/galaxyprojectdotorg.galaxy/files/errordocs/content_bg.png
A roles/galaxyprojectdotorg.galaxy/files/errordocs/error_message_icon.png
A roles/galaxyprojectdotorg.galaxy/files/errordocs/masthead_bg.png
M roles/galaxyprojectdotorg.galaxy/meta/.galaxy_install_info
A roles/galaxyprojectdotorg.galaxy/tasks/errordocs.yml
M roles/galaxyprojectdotorg.galaxy/tasks/main.yml
A roles/galaxyprojectdotorg.galaxy/templates/errordocs/413/index.html.j2
A roles/galaxyprojectdotorg.galaxy/templates/errordocs/502/index.shtml.j2
A roles/galaxyprojectdotorg.galaxy_toolshed/README.md
M roles/galaxyprojectdotorg.galaxy_toolshed/defaults/main.yml
M roles/galaxyprojectdotorg.galaxy_toolshed/handlers/main.yml
A roles/galaxyprojectdotorg.galaxy_toolshed/meta/.galaxy_install_info
A roles/galaxyprojectdotorg.galaxy_toolshed/meta/main.yml
M roles/galaxyprojectdotorg.galaxy_toolshed/tasks/database.yml
M roles/galaxyprojectdotorg.galaxy_toolshed/tasks/main.yml
M roles/galaxyprojectdotorg.galaxy_toolshed/tasks/static_setup.yml
A roles/galaxyprojectdotorg.galaxy_toolshed/templates/user_info.xml.j2
M roles/galaxyprojectdotorg.postgresql/defaults/main.yml
M roles/galaxyprojectdotorg.postgresql/meta/.galaxy_install_info
M roles/galaxyprojectdotorg.postgresql/templates/archive_wal.sh.j2
A roles/galaxyprojectdotorg.proftpd/.travis.yml
A roles/galaxyprojectdotorg.proftpd/README.md
A roles/galaxyprojectdotorg.proftpd/defaults/main.yml
A roles/galaxyprojectdotorg.proftpd/handlers/main.yml
A roles/galaxyprojectdotorg.proftpd/meta/main.yml
A roles/galaxyprojectdotorg.proftpd/tasks/debian.yml
A roles/galaxyprojectdotorg.proftpd/tasks/galaxy_auth.yml
A roles/galaxyprojectdotorg.proftpd/tasks/main.yml
A roles/galaxyprojectdotorg.proftpd/tasks/redhat.yml
A roles/galaxyprojectdotorg.proftpd/tasks/tls.yml
A roles/galaxyprojectdotorg.proftpd/templates/galaxy_auth.conf.j2
A roles/galaxyprojectdotorg.proftpd/templates/server.conf.j2
A roles/galaxyprojectdotorg.proftpd/templates/tls.conf.j2
A roles/galaxyprojectdotorg.proftpd/tests/inventory
A roles/galaxyprojectdotorg.proftpd/tests/test.yml
A roles/galaxyprojectdotorg.proftpd/vars/debian.yml
A roles/galaxyprojectdotorg.proftpd/vars/main.yml
A roles/galaxyprojectdotorg.proftpd/vars/redhat.yml
M roles/usegalaxy/tasks/main.yml
A roles/usegalaxy/templates/galaxyctl.j2
A roles/usegalaxy/templates/supervisorctl.j2
A roles/usegalaxy/templates/supervisord.conf.j2
M roles/usegalaxy_admin/tasks/main.yml
A roles/usegalaxy_cvmfs/tasks/main.yml
A roles/usegalaxy_cvmfs/tasks/snapshot.yml
A roles/usegalaxy_cvmfs/tasks/update.yml
A roles/usegalaxy_cvmfs/tasks/wipecache.yml
M roles/usegalaxy_privileged/tasks/main.yml
M roles/usegalaxy_static/tasks/main.yml
R stage/files/interactive_environments/plugins/.ansible_ie_role_current_version
R stage/files/interactive_environments/plugins/bam_iobio/config/bam_iobio.ini.sample
R stage/files/interactive_environments/plugins/bam_iobio/config/bam_iobio.xml
R stage/files/interactive_environments/plugins/bam_iobio/static/js/bam_iobio.js
R stage/files/interactive_environments/plugins/bam_iobio/templates/bam_iobio.mako
R stage/files/interactive_environments/plugins/common/templates/ie.mako
R stage/files/interactive_environments/plugins/ethercalc/config/ethercalc.ini.sample
R stage/files/interactive_environments/plugins/ethercalc/config/ethercalc.xml
R stage/files/interactive_environments/plugins/ethercalc/static/js/ethercalc.js
R stage/files/interactive_environments/plugins/ethercalc/templates/ethercalc.mako
R stage/files/interactive_environments/plugins/interactive_environments.dtd
R stage/files/interactive_environments/plugins/jupyter/config/allowed_images.yml.sample
R stage/files/interactive_environments/plugins/jupyter/config/jupyter.ini.sample
R stage/files/interactive_environments/plugins/jupyter/config/jupyter.xml
R stage/files/interactive_environments/plugins/jupyter/static/js/jupyter.js
R stage/files/interactive_environments/plugins/jupyter/templates/jupyter.mako
R stage/files/interactive_environments/plugins/neo/config/allowed_images.yml.sample
R stage/files/interactive_environments/plugins/neo/config/neo.ini.sample
R stage/files/interactive_environments/plugins/neo/config/neo.xml
R stage/files/interactive_environments/plugins/neo/static/js/neo.js
R stage/files/interactive_environments/plugins/neo/templates/neo.mako
R stage/files/interactive_environments/plugins/phinch/config/phinch.ini.sample
R stage/files/interactive_environments/plugins/phinch/config/phinch.xml
R stage/files/interactive_environments/plugins/phinch/static/js/phinch.js
R stage/files/interactive_environments/plugins/phinch/templates/phinch.mako
R stage/files/interactive_environments/plugins/rstudio/config/allowed_images.yml.sample
R stage/files/interactive_environments/plugins/rstudio/config/rstudio.ini.sample
R stage/files/interactive_environments/plugins/rstudio/config/rstudio.xml
R stage/files/interactive_environments/plugins/rstudio/static/js/crypto/base64.js
R stage/files/interactive_environments/plugins/rstudio/static/js/crypto/jsbn.js
R stage/files/interactive_environments/plugins/rstudio/static/js/crypto/prng4.js
R stage/files/interactive_environments/plugins/rstudio/static/js/crypto/rng.js
R stage/files/interactive_environments/plugins/rstudio/static/js/crypto/rsa.js
R stage/files/interactive_environments/plugins/rstudio/static/js/crypto/rstudio.big.js
R stage/files/interactive_environments/plugins/rstudio/static/js/crypto/rstudio.min.js
R stage/files/interactive_environments/plugins/rstudio/static/js/crypto/rstudio/base64.js
R stage/files/interactive_environments/plugins/rstudio/static/js/crypto/rstudio/jsbn.js
R stage/files/interactive_environments/plugins/rstudio/static/js/crypto/rstudio/prng4.js
R stage/files/interactive_environments/plugins/rstudio/static/js/crypto/rstudio/rng.js
R stage/files/interactive_environments/plugins/rstudio/static/js/crypto/rstudio/rsa.js
R stage/files/interactive_environments/plugins/rstudio/static/js/crypto/wu/base64.js
R stage/files/interactive_environments/plugins/rstudio/static/js/crypto/wu/jsbn.js
R stage/files/interactive_environments/plugins/rstudio/static/js/crypto/wu/prng4.js
R stage/files/interactive_environments/plugins/rstudio/static/js/crypto/wu/rng.js
R stage/files/interactive_environments/plugins/rstudio/static/js/crypto/wu/rsa.js
R stage/files/interactive_environments/plugins/rstudio/static/js/rstudio.js
R stage/files/interactive_environments/plugins/rstudio/templates/rstudio.mako
R stage/files/interactive_environments/proxy/.ansible_ie_role_current_version
R stage/files/interactive_environments/proxy/Dockerfile
R stage/files/interactive_environments/proxy/README.md
R stage/files/interactive_environments/proxy/lib/main.js
R stage/files/interactive_environments/proxy/lib/mapper.js
R stage/files/interactive_environments/proxy/lib/proxy.js
R stage/files/interactive_environments/proxy/package.json
R stage/galaxy_version.yml
R stage/group_vars/all.yml
R stage/group_vars/galaxydbservers.yml
R stage/group_vars/galaxyservers.yml
R stage/group_vars/pulsarservers.yml
R stage/group_vars/toolsheddbservers.yml
R stage/group_vars/toolshedservers.yml
R stage/host_vars/br005.bridges.psc.edu.yml
R stage/host_vars/galaxy01.tacc.utexas.edu.yml
R stage/host_vars/jetstream-iu0.galaxyproject.org.yml
R stage/host_vars/jetstream-tacc0.galaxyproject.org.yml
R stage/host_vars/login5.stampede.tacc.utexas.edu.yml
R stage/secret_vars/galaxydbservers.yml
R stage/secret_vars/galaxyservers.yml
R stage/secret_vars/pulsarservers.yml
R templates/galaxy/test.galaxyproject.org/config/build_sites.yml.j2
R templates/galaxy/test.galaxyproject.org/config/job_conf.xml.j2
R templates/galaxy/test.galaxyproject.org/config/reports.ini.j2
R templates/galaxy/test.galaxyproject.org/config/uwsgi.ini.j2
R templates/galaxy/test.galaxyproject.org/static
R templates/nginx/galaxy_main_installer.j2
R templates/nginx/galaxy_test.j2
R templates/nginx/tacc_protected.j2
R templates/nginx/testtoolshed.j2
R templates/nginx/toolshed.j2
R templates/supervisor/galaxy_datamanager.j2
R templates/supervisor/galaxy_installer.j2
R templates/supervisor/testtoolshed.j2
R templates/supervisor/toolshed.j2
R toolshed.yml
Log Message:
-----------
Reorganize and update playbook for complete redeployment of Test on to a new VM. The new VM was deployed entirely with infrastructure-playbook and this playbook.
The Test Tool Shed was also reorganized due to the removal of `stage`.
Coming soon: Main
Commit: be93b172eb3ea3a4aa41e8a16b7027799a5d8533
https://github.com/galaxyproject/usegalaxy-playbook/commit/be93b172eb3ea3a4…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-04-12 (Wed, 12 Apr 2017)
Changed paths:
M env/test/files/galaxy/galaxy_version.yml
Log Message:
-----------
Update Test
Commit: 6cca389e2fa650cb6479eead5b6866b6f3f0622d
https://github.com/galaxyproject/usegalaxy-playbook/commit/6cca389e2fa650cb…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-04-17 (Mon, 17 Apr 2017)
Changed paths:
M env/common/config.yml
M env/common/templates/supervisor/galaxy.j2
M env/common/update.yml
M env/test/files/galaxy/var/integrated_tool_panel.xml
M env/test/files/interactive_environments/plugins/.ansible_ie_role_current_version
A env/test/files/interactive_environments/plugins/ethercalc/config/allowed_images.yml.sample
M env/test/files/interactive_environments/plugins/ethercalc/config/ethercalc.ini.sample
M env/test/files/interactive_environments/proxy/.ansible_ie_role_current_version
M env/test/group_vars/galaxyservers/vars.yml
M roles/galaxyprojectdotorg.galaxy/README.md
M roles/galaxyprojectdotorg.galaxy/defaults/main.yml
M roles/galaxyprojectdotorg.galaxy/meta/.galaxy_install_info
M roles/galaxyprojectdotorg.galaxy/tasks/main.yml
Log Message:
-----------
IE fixes
Commit: b56a94393f25cfc03515801c4d83256562da8e68
https://github.com/galaxyproject/usegalaxy-playbook/commit/b56a94393f25cfc0…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-04-18 (Tue, 18 Apr 2017)
Changed paths:
M env/test/templates/galaxy/config/job_conf.xml.j2
Log Message:
-----------
pylon1 -> pylon5
Commit: 86cafa4afe3c594cb25340990388f589cac0d3f6
https://github.com/galaxyproject/usegalaxy-playbook/commit/86cafa4afe3c594c…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-04-18 (Tue, 18 Apr 2017)
Changed paths:
M env/test/templates/galaxy/config/job_conf.xml.j2
Log Message:
-----------
Merge branch 'reorg' of github.com:/galaxyproject/usegalaxy-playbook into reorg
Commit: 812c4c3451e2174aa07dd1566b0365210c408eee
https://github.com/galaxyproject/usegalaxy-playbook/commit/812c4c3451e2174a…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-04-18 (Tue, 18 Apr 2017)
Changed paths:
M env/common/config.yml
M env/test/group_vars/galaxyservers/vars.yml
Log Message:
-----------
Move Test GIEs to Swarm
Commit: 8dd328d77980aaff3353f0cc554ebf76fbcb8e7f
https://github.com/galaxyproject/usegalaxy-playbook/commit/8dd328d77980aaff…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-04-18 (Tue, 18 Apr 2017)
Changed paths:
M env/common/templates/supervisor/galaxy_gie_proxy.j2
Log Message:
-----------
Fix GIE proxy port
Commit: 1a09141d4a929d05c02cfbf998efc19eee10caea
https://github.com/galaxyproject/usegalaxy-playbook/commit/1a09141d4a929d05…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-04-18 (Tue, 18 Apr 2017)
Changed paths:
M env/test/files/galaxy/galaxy_version.yml
M env/test/files/interactive_environments/plugins/.ansible_ie_role_current_version
M env/test/files/interactive_environments/proxy/.ansible_ie_role_current_version
Log Message:
-----------
Upgrade Test
Commit: 7b02be926f63742dab881d38cda7492af18d1ba6
https://github.com/galaxyproject/usegalaxy-playbook/commit/7b02be926f63742d…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-04-18 (Tue, 18 Apr 2017)
Changed paths:
M env/test/host_vars/br005.bridges.psc.edu.yml
Log Message:
-----------
pylon1 -> pylon5
Commit: 9ff176d1b0f074e93da2055e29b6decd16b09ead
https://github.com/galaxyproject/usegalaxy-playbook/commit/9ff176d1b0f074e9…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-04-24 (Mon, 24 Apr 2017)
Changed paths:
A env/common/files/pulsar/config/jetstream_dependency_resolvers_conf.xml
M env/test/host_vars/jetstream-iu0.galaxyproject.org.yml
M env/test/host_vars/jetstream-tacc0.galaxyproject.org.yml
Log Message:
-----------
Use Conda on Jetstream
Commit: 359fee70192fd94fe8c2b505e77e94909f7f7bbf
https://github.com/galaxyproject/usegalaxy-playbook/commit/359fee70192fd94f…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-04-24 (Mon, 24 Apr 2017)
Changed paths:
R env/common/files/pulsar/config/jetstream_dependency_resolvers_conf.xml
A env/common/templates/pulsar/config/jetstream_dependency_resolvers_conf.xml.j2
M env/test/host_vars/jetstream-iu0.galaxyproject.org.yml
M env/test/host_vars/jetstream-tacc0.galaxyproject.org.yml
A env/test/templates/pulsar
Log Message:
-----------
Install Conda locally on Jetstream
Commit: 7684bd4ff0f0222dbb82a16c95cc4b9dc606e9a7
https://github.com/galaxyproject/usegalaxy-playbook/commit/7684bd4ff0f0222d…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-04-28 (Fri, 28 Apr 2017)
Changed paths:
M env/test/templates/galaxy/config/uwsgi.ini.j2
Log Message:
-----------
Increase Test uWSGI buffer-size to hopefully eliminate (104: Connection reset by peer) while reading response header from upstream
Commit: d5480a5d067ba3629f8ecf2a008416c4973ec508
https://github.com/galaxyproject/usegalaxy-playbook/commit/d5480a5d067ba362…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-04-28 (Fri, 28 Apr 2017)
Changed paths:
M env/test/files/galaxy/galaxy_version.yml
Log Message:
-----------
Update Test
Commit: 9f449f0603c50a25c9c6bb697878f6095691bea6
https://github.com/galaxyproject/usegalaxy-playbook/commit/9f449f0603c50a25…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-05-01 (Mon, 01 May 2017)
Changed paths:
M env/test/group_vars/galaxyservers/vars.yml
Log Message:
-----------
Fix datamanager server name
Commit: dfe930e2290d6cbfb91bd8cb182595b4491fd7cf
https://github.com/galaxyproject/usegalaxy-playbook/commit/dfe930e2290d6cbf…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-05-02 (Tue, 02 May 2017)
Changed paths:
M env/test/files/galaxy/galaxy_version.yml
M env/test/files/interactive_environments/plugins/.ansible_ie_role_current_version
M env/test/files/interactive_environments/plugins/common/templates/ie.mako
M env/test/files/interactive_environments/plugins/ethercalc/static/js/ethercalc.js
M env/test/files/interactive_environments/plugins/ethercalc/templates/ethercalc.mako
M env/test/files/interactive_environments/plugins/jupyter/config/jupyter.ini.sample
M env/test/files/interactive_environments/plugins/jupyter/templates/jupyter.mako
M env/test/files/interactive_environments/plugins/rstudio/config/allowed_images.yml.sample
M env/test/files/interactive_environments/plugins/rstudio/config/rstudio.ini.sample
M env/test/files/interactive_environments/plugins/rstudio/static/js/rstudio.js
M env/test/files/interactive_environments/plugins/rstudio/templates/rstudio.mako
M env/test/files/interactive_environments/proxy/.ansible_ie_role_current_version
M env/test/files/interactive_environments/proxy/package.json
Log Message:
-----------
Update Test
Commit: 9fdad33717d819c7370b5d2c8413170f30fba1e7
https://github.com/galaxyproject/usegalaxy-playbook/commit/9fdad33717d819c7…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-05-02 (Tue, 02 May 2017)
Changed paths:
M env/common/files/galaxy/dynamic_rules/multi_dynamic_walltime.py
Log Message:
-----------
Override walltime in dynamic rules
Commit: 9e45cf23ef9cbc87f398b5d7b302de0bd7c814b1
https://github.com/galaxyproject/usegalaxy-playbook/commit/9e45cf23ef9cbc87…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-05-02 (Tue, 02 May 2017)
Changed paths:
M env/test/group_vars/galaxyservers/vars.yml
Log Message:
-----------
Jupyter updates for Test
Commit: 49e404c4f6d83c9870f6c666fd9eaeb698920c59
https://github.com/galaxyproject/usegalaxy-playbook/commit/49e404c4f6d83c98…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-05-03 (Wed, 03 May 2017)
Changed paths:
M env/test/group_vars/dbservers/vault.yml
Log Message:
-----------
Add grafana
Commit: 61b4ab56cf483a5398f3272d992e8106cdccd135
https://github.com/galaxyproject/usegalaxy-playbook/commit/61b4ab56cf483a53…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-05-08 (Mon, 08 May 2017)
Changed paths:
M env/test/files/galaxy/galaxy_version.yml
M env/test/files/interactive_environments/plugins/.ansible_ie_role_current_version
M env/test/files/interactive_environments/plugins/jupyter/config/allowed_images.yml.sample
M env/test/files/interactive_environments/proxy/.ansible_ie_role_current_version
M env/test/group_vars/galaxyservers/vars.yml
Log Message:
-----------
Update Test
Commit: c034a067b23940feee7d32f63abfed6e375077a0
https://github.com/galaxyproject/usegalaxy-playbook/commit/c034a067b23940fe…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-05-09 (Tue, 09 May 2017)
Changed paths:
M env/test/group_vars/ftpservers.yml
M env/test/group_vars/galaxyservers/vars.yml
M roles/galaxyprojectdotorg.proftpd/tasks/galaxy_auth.yml
M roles/galaxyprojectdotorg.proftpd/templates/galaxy_auth.conf.j2
Log Message:
-----------
Fix FTP on Test and enable PBKDF2.
Commit: 69ea530df07aec1e85d8c40e50479db9f43e1630
https://github.com/galaxyproject/usegalaxy-playbook/commit/69ea530df07aec1e…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-05-09 (Tue, 09 May 2017)
Changed paths:
M env/common/stack.yml
R env/test/group_vars/galaxyswarmmanagers/vars.yml
R env/test/group_vars/galaxyswarmmanagers/vault.yml
A env/test/group_vars/galaxyswarmscaleservers/vars.yml
A env/test/group_vars/galaxyswarmscaleservers/vault.yml
M env/test/inventory
A roles/usegalaxy_swarmscale/files/delete.yml
A roles/usegalaxy_swarmscale/files/inc_spawn.yml
A roles/usegalaxy_swarmscale/files/instance
A roles/usegalaxy_swarmscale/files/inventory.head
A roles/usegalaxy_swarmscale/files/inventory.spawn
A roles/usegalaxy_swarmscale/files/spawn.yml
A roles/usegalaxy_swarmscale/tasks/main.yml
A roles/usegalaxy_swarmscale/templates/ssh_config.jetstream.j2
Log Message:
-----------
Swarm scale
Commit: 385c2a31d7eeb02186330226e50db80919f7b2ff
https://github.com/galaxyproject/usegalaxy-playbook/commit/385c2a31d7eeb021…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-05-11 (Thu, 11 May 2017)
Changed paths:
M env/common/update.yml
R env/test/files/interactive_environments/plugins/.ansible_ie_role_current_version
R env/test/files/interactive_environments/plugins/bam_iobio/config/bam_iobio.ini.sample
R env/test/files/interactive_environments/plugins/bam_iobio/config/bam_iobio.xml
R env/test/files/interactive_environments/plugins/bam_iobio/static/js/bam_iobio.js
R env/test/files/interactive_environments/plugins/bam_iobio/templates/bam_iobio.mako
R env/test/files/interactive_environments/plugins/common/templates/ie.mako
R env/test/files/interactive_environments/plugins/ethercalc/config/allowed_images.yml.sample
R env/test/files/interactive_environments/plugins/ethercalc/config/ethercalc.ini.sample
R env/test/files/interactive_environments/plugins/ethercalc/config/ethercalc.xml
R env/test/files/interactive_environments/plugins/ethercalc/static/js/ethercalc.js
R env/test/files/interactive_environments/plugins/ethercalc/templates/ethercalc.mako
R env/test/files/interactive_environments/plugins/interactive_environments.dtd
R env/test/files/interactive_environments/plugins/jupyter/config/allowed_images.yml.sample
R env/test/files/interactive_environments/plugins/jupyter/config/jupyter.ini.sample
R env/test/files/interactive_environments/plugins/jupyter/config/jupyter.xml
R env/test/files/interactive_environments/plugins/jupyter/static/js/jupyter.js
R env/test/files/interactive_environments/plugins/jupyter/templates/jupyter.mako
R env/test/files/interactive_environments/plugins/neo/config/allowed_images.yml.sample
R env/test/files/interactive_environments/plugins/neo/config/neo.ini.sample
R env/test/files/interactive_environments/plugins/neo/config/neo.xml
R env/test/files/interactive_environments/plugins/neo/static/js/neo.js
R env/test/files/interactive_environments/plugins/neo/templates/neo.mako
R env/test/files/interactive_environments/plugins/phinch/config/phinch.ini.sample
R env/test/files/interactive_environments/plugins/phinch/config/phinch.xml
R env/test/files/interactive_environments/plugins/phinch/static/js/phinch.js
R env/test/files/interactive_environments/plugins/phinch/templates/phinch.mako
R env/test/files/interactive_environments/plugins/rstudio/config/allowed_images.yml.sample
R env/test/files/interactive_environments/plugins/rstudio/config/rstudio.ini.sample
R env/test/files/interactive_environments/plugins/rstudio/config/rstudio.xml
R env/test/files/interactive_environments/plugins/rstudio/static/js/crypto/base64.js
R env/test/files/interactive_environments/plugins/rstudio/static/js/crypto/jsbn.js
R env/test/files/interactive_environments/plugins/rstudio/static/js/crypto/prng4.js
R env/test/files/interactive_environments/plugins/rstudio/static/js/crypto/rng.js
R env/test/files/interactive_environments/plugins/rstudio/static/js/crypto/rsa.js
R env/test/files/interactive_environments/plugins/rstudio/static/js/crypto/rstudio.big.js
R env/test/files/interactive_environments/plugins/rstudio/static/js/crypto/rstudio.min.js
R env/test/files/interactive_environments/plugins/rstudio/static/js/crypto/rstudio/base64.js
R env/test/files/interactive_environments/plugins/rstudio/static/js/crypto/rstudio/jsbn.js
R env/test/files/interactive_environments/plugins/rstudio/static/js/crypto/rstudio/prng4.js
R env/test/files/interactive_environments/plugins/rstudio/static/js/crypto/rstudio/rng.js
R env/test/files/interactive_environments/plugins/rstudio/static/js/crypto/rstudio/rsa.js
R env/test/files/interactive_environments/plugins/rstudio/static/js/crypto/wu/base64.js
R env/test/files/interactive_environments/plugins/rstudio/static/js/crypto/wu/jsbn.js
R env/test/files/interactive_environments/plugins/rstudio/static/js/crypto/wu/prng4.js
R env/test/files/interactive_environments/plugins/rstudio/static/js/crypto/wu/rng.js
R env/test/files/interactive_environments/plugins/rstudio/static/js/crypto/wu/rsa.js
R env/test/files/interactive_environments/plugins/rstudio/static/js/rstudio.js
R env/test/files/interactive_environments/plugins/rstudio/templates/rstudio.mako
R env/test/files/interactive_environments/proxy/.ansible_ie_role_current_version
R env/test/files/interactive_environments/proxy/Dockerfile
R env/test/files/interactive_environments/proxy/README.md
R env/test/files/interactive_environments/proxy/lib/main.js
R env/test/files/interactive_environments/proxy/lib/mapper.js
R env/test/files/interactive_environments/proxy/lib/proxy.js
R env/test/files/interactive_environments/proxy/package.json
A roles/galaxyproject.interactive_environments/README.md
A roles/galaxyproject.interactive_environments/defaults/main.yml
A roles/galaxyproject.interactive_environments/handlers/main.yml
A roles/galaxyproject.interactive_environments/meta/.galaxy_install_info
A roles/galaxyproject.interactive_environments/meta/main.yml
A roles/galaxyproject.interactive_environments/tasks/docker_ssl.yml
A roles/galaxyproject.interactive_environments/tasks/install_dependencies.yml
A roles/galaxyproject.interactive_environments/tasks/main.yml
A roles/galaxyproject.interactive_environments/tasks/supervisor.yml
A roles/galaxyproject.interactive_environments/tasks/synchronize_components.yml
A roles/galaxyproject.interactive_environments/tasks/webserver_conf.yml
A roles/galaxyproject.interactive_environments/templates/_prefix.j2
A roles/galaxyproject.interactive_environments/templates/config.ini.j2
A roles/galaxyproject.interactive_environments/templates/generic_apache.conf.j2
A roles/galaxyproject.interactive_environments/templates/generic_nginx.conf.j2
A roles/galaxyproject.interactive_environments/templates/jupyter_apache.conf.j2
A roles/galaxyproject.interactive_environments/templates/jupyter_nginx.conf.j2
A roles/galaxyproject.interactive_environments/templates/proxy_supervisor.conf.j2
R roles/galaxyprojectdotorg.interactive_environments/README.md
R roles/galaxyprojectdotorg.interactive_environments/defaults/main.yml
R roles/galaxyprojectdotorg.interactive_environments/handlers/main.yml
R roles/galaxyprojectdotorg.interactive_environments/meta/.galaxy_install_info
R roles/galaxyprojectdotorg.interactive_environments/meta/main.yml
R roles/galaxyprojectdotorg.interactive_environments/tasks/docker_ssl.yml
R roles/galaxyprojectdotorg.interactive_environments/tasks/extract_component.yml
R roles/galaxyprojectdotorg.interactive_environments/tasks/install_dependencies.yml
R roles/galaxyprojectdotorg.interactive_environments/tasks/main.yml
R roles/galaxyprojectdotorg.interactive_environments/tasks/supervisor.yml
R roles/galaxyprojectdotorg.interactive_environments/tasks/synchronize_components.yml
R roles/galaxyprojectdotorg.interactive_environments/tasks/webserver_conf.yml
R roles/galaxyprojectdotorg.interactive_environments/templates/_prefix.j2
R roles/galaxyprojectdotorg.interactive_environments/templates/config.ini.j2
R roles/galaxyprojectdotorg.interactive_environments/templates/generic_apache.conf.j2
R roles/galaxyprojectdotorg.interactive_environments/templates/generic_nginx.conf.j2
R roles/galaxyprojectdotorg.interactive_environments/templates/jupyter_apache.conf.j2
R roles/galaxyprojectdotorg.interactive_environments/templates/jupyter_nginx.conf.j2
R roles/galaxyprojectdotorg.interactive_environments/templates/proxy_supervisor.conf.j2
Log Message:
-----------
Update the interactive_environments role and stop storing a copy of GIEs in the playbook
Commit: c318d9a95c079d27c3c8ee72333d12c6dd52c4e2
https://github.com/galaxyproject/usegalaxy-playbook/commit/c318d9a95c079d27…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-05-11 (Thu, 11 May 2017)
Changed paths:
M env/test/files/galaxy/galaxy_version.yml
Log Message:
-----------
Update Test
Commit: fbd3d5ccb119814c8a42dc6e10d2007ac203da10
https://github.com/galaxyproject/usegalaxy-playbook/commit/fbd3d5ccb119814c…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-05-11 (Thu, 11 May 2017)
Changed paths:
M env/common/config.yml
M env/common/pulsar.yml
M env/common/stack.yml
M env/common/update.yml
A roles/galaxyproject.galaxy/README.md
A roles/galaxyproject.galaxy/defaults/main.yml
A roles/galaxyproject.galaxy/files/errordocs/content_bg.png
A roles/galaxyproject.galaxy/files/errordocs/error_message_icon.png
A roles/galaxyproject.galaxy/files/errordocs/masthead_bg.png
A roles/galaxyproject.galaxy/files/makepyc.py
A roles/galaxyproject.galaxy/handlers/main.yml
A roles/galaxyproject.galaxy/meta/.galaxy_install_info
A roles/galaxyproject.galaxy/meta/main.yml
A roles/galaxyproject.galaxy/tasks/clone.yml
A roles/galaxyproject.galaxy/tasks/database.yml
A roles/galaxyproject.galaxy/tasks/dependencies.yml
A roles/galaxyproject.galaxy/tasks/download.yml
A roles/galaxyproject.galaxy/tasks/errordocs.yml
A roles/galaxyproject.galaxy/tasks/main.yml
A roles/galaxyproject.galaxy/tasks/mutable_setup.yml
A roles/galaxyproject.galaxy/tasks/static_setup.yml
A roles/galaxyproject.galaxy/tasks/virtualenv.yml
A roles/galaxyproject.galaxy/templates/errordocs/413/index.html.j2
A roles/galaxyproject.galaxy/templates/errordocs/502/index.shtml.j2
A roles/galaxyproject.galaxy/templates/galaxy.ini.j2
A roles/galaxyproject.galaxy_toolshed/README.md
A roles/galaxyproject.galaxy_toolshed/defaults/main.yml
A roles/galaxyproject.galaxy_toolshed/handlers/main.yml
A roles/galaxyproject.galaxy_toolshed/meta/.galaxy_install_info
A roles/galaxyproject.galaxy_toolshed/meta/main.yml
A roles/galaxyproject.galaxy_toolshed/tasks/database.yml
A roles/galaxyproject.galaxy_toolshed/tasks/main.yml
A roles/galaxyproject.galaxy_toolshed/tasks/static_setup.yml
A roles/galaxyproject.galaxy_toolshed/templates/tool_shed.ini.j2
A roles/galaxyproject.galaxy_toolshed/templates/user_info.xml.j2
A roles/galaxyproject.nginx/README.md
A roles/galaxyproject.nginx/defaults/main.yml
A roles/galaxyproject.nginx/handlers/main.yml
A roles/galaxyproject.nginx/meta/.galaxy_install_info
A roles/galaxyproject.nginx/meta/main.yml
A roles/galaxyproject.nginx/tasks/apt.yml
A roles/galaxyproject.nginx/tasks/main.yml
A roles/galaxyproject.nginx/tasks/pkgin.yml
A roles/galaxyproject.nginx/tasks/yum.yml
A roles/galaxyproject.nginx/templates/epel-nginx.conf.j2
A roles/galaxyproject.nginx/templates/http_options.conf.j2
A roles/galaxyproject.nginx/templates/pkgin-nginx.conf.j2
A roles/galaxyproject.nginx/templates/ssl.conf.j2
A roles/galaxyproject.nginx/templates/supervisord.conf.j2
A roles/galaxyproject.nginx/vars/pkgin.yml
A roles/galaxyproject.postgresql/.gitignore
A roles/galaxyproject.postgresql/README.md
A roles/galaxyproject.postgresql/defaults/main.yml
A roles/galaxyproject.postgresql/files/get_repo_rpm_release.py
A roles/galaxyproject.postgresql/handlers/main.yml
A roles/galaxyproject.postgresql/meta/.galaxy_install_info
A roles/galaxyproject.postgresql/meta/main.yml
A roles/galaxyproject.postgresql/tasks/backup.yml
A roles/galaxyproject.postgresql/tasks/debian.yml
A roles/galaxyproject.postgresql/tasks/main.yml
A roles/galaxyproject.postgresql/tasks/redhat.yml
A roles/galaxyproject.postgresql/templates/20ansible_backup.conf.j2
A roles/galaxyproject.postgresql/templates/25ansible_postgresql.conf.j2
A roles/galaxyproject.postgresql/templates/archive_wal.sh.j2
A roles/galaxyproject.postgresql/templates/backup_working_wal.sh.j2
A roles/galaxyproject.postgresql/templates/pg_hba.conf.debian.j2
A roles/galaxyproject.postgresql/templates/pg_hba.conf.redhat.j2
A roles/galaxyproject.postgresql/templates/scheduled_backup.sh.j2
A roles/galaxyproject.postgresql/vars/debian.yml
A roles/galaxyproject.postgresql/vars/main.yml
A roles/galaxyproject.postgresql/vars/redhat.yml
A roles/galaxyproject.proftpd/.travis.yml
A roles/galaxyproject.proftpd/README.md
A roles/galaxyproject.proftpd/defaults/main.yml
A roles/galaxyproject.proftpd/handlers/main.yml
A roles/galaxyproject.proftpd/meta/main.yml
A roles/galaxyproject.proftpd/tasks/debian.yml
A roles/galaxyproject.proftpd/tasks/galaxy_auth.yml
A roles/galaxyproject.proftpd/tasks/main.yml
A roles/galaxyproject.proftpd/tasks/redhat.yml
A roles/galaxyproject.proftpd/tasks/tls.yml
A roles/galaxyproject.proftpd/templates/galaxy_auth.conf.j2
A roles/galaxyproject.proftpd/templates/server.conf.j2
A roles/galaxyproject.proftpd/templates/tls.conf.j2
A roles/galaxyproject.proftpd/tests/inventory
A roles/galaxyproject.proftpd/tests/test.yml
A roles/galaxyproject.proftpd/vars/debian.yml
A roles/galaxyproject.proftpd/vars/main.yml
A roles/galaxyproject.proftpd/vars/redhat.yml
A roles/galaxyproject.pulsar/README.md
A roles/galaxyproject.pulsar/defaults/main.yml
A roles/galaxyproject.pulsar/meta/.galaxy_install_info
A roles/galaxyproject.pulsar/meta/main.yml
A roles/galaxyproject.pulsar/tasks/main.yml
A roles/galaxyproject.pulsar/templates/app.yml.j2
A roles/galaxyproject.pulsar/templates/job_managers.ini.j2
A roles/galaxyproject.pulsar/templates/job_metrics_conf.xml.j2
A roles/galaxyproject.pulsar/templates/local_env.sh.j2
A roles/galaxyproject.pulsar/templates/server.ini.j2
A roles/galaxyproject.tools/LICENSE
A roles/galaxyproject.tools/README.md
A roles/galaxyproject.tools/defaults/main.yml
A roles/galaxyproject.tools/files/README.md
A roles/galaxyproject.tools/files/dbkeys_list.yaml.sample
A roles/galaxyproject.tools/files/install_tool_shed_tools.py
A roles/galaxyproject.tools/files/tool_list.yaml
A roles/galaxyproject.tools/files/tool_list.yaml.sample
A roles/galaxyproject.tools/meta/.galaxy_install_info
A roles/galaxyproject.tools/meta/main.yml
A roles/galaxyproject.tools/tasks/main.yml
A roles/galaxyproject.tools/tasks/tools.yml
R roles/galaxyprojectdotorg.galaxy/README.md
R roles/galaxyprojectdotorg.galaxy/defaults/main.yml
R roles/galaxyprojectdotorg.galaxy/files/errordocs/content_bg.png
R roles/galaxyprojectdotorg.galaxy/files/errordocs/error_message_icon.png
R roles/galaxyprojectdotorg.galaxy/files/errordocs/masthead_bg.png
R roles/galaxyprojectdotorg.galaxy/files/makepyc.py
R roles/galaxyprojectdotorg.galaxy/handlers/main.yml
R roles/galaxyprojectdotorg.galaxy/meta/.galaxy_install_info
R roles/galaxyprojectdotorg.galaxy/meta/main.yml
R roles/galaxyprojectdotorg.galaxy/tasks/clone.yml
R roles/galaxyprojectdotorg.galaxy/tasks/database.yml
R roles/galaxyprojectdotorg.galaxy/tasks/dependencies.yml
R roles/galaxyprojectdotorg.galaxy/tasks/download.yml
R roles/galaxyprojectdotorg.galaxy/tasks/errordocs.yml
R roles/galaxyprojectdotorg.galaxy/tasks/main.yml
R roles/galaxyprojectdotorg.galaxy/tasks/mutable_setup.yml
R roles/galaxyprojectdotorg.galaxy/tasks/static_setup.yml
R roles/galaxyprojectdotorg.galaxy/tasks/virtualenv.yml
R roles/galaxyprojectdotorg.galaxy/templates/errordocs/413/index.html.j2
R roles/galaxyprojectdotorg.galaxy/templates/errordocs/502/index.shtml.j2
R roles/galaxyprojectdotorg.galaxy/templates/galaxy.ini.j2
R roles/galaxyprojectdotorg.galaxy_toolshed/README.md
R roles/galaxyprojectdotorg.galaxy_toolshed/defaults/main.yml
R roles/galaxyprojectdotorg.galaxy_toolshed/handlers/main.yml
R roles/galaxyprojectdotorg.galaxy_toolshed/meta/.galaxy_install_info
R roles/galaxyprojectdotorg.galaxy_toolshed/meta/main.yml
R roles/galaxyprojectdotorg.galaxy_toolshed/tasks/database.yml
R roles/galaxyprojectdotorg.galaxy_toolshed/tasks/main.yml
R roles/galaxyprojectdotorg.galaxy_toolshed/tasks/static_setup.yml
R roles/galaxyprojectdotorg.galaxy_toolshed/templates/tool_shed.ini.j2
R roles/galaxyprojectdotorg.galaxy_toolshed/templates/user_info.xml.j2
R roles/galaxyprojectdotorg.nginx/README.md
R roles/galaxyprojectdotorg.nginx/defaults/main.yml
R roles/galaxyprojectdotorg.nginx/handlers/main.yml
R roles/galaxyprojectdotorg.nginx/meta/.galaxy_install_info
R roles/galaxyprojectdotorg.nginx/meta/main.yml
R roles/galaxyprojectdotorg.nginx/tasks/apt.yml
R roles/galaxyprojectdotorg.nginx/tasks/main.yml
R roles/galaxyprojectdotorg.nginx/tasks/pkgin.yml
R roles/galaxyprojectdotorg.nginx/tasks/yum.yml
R roles/galaxyprojectdotorg.nginx/templates/epel-nginx.conf.j2
R roles/galaxyprojectdotorg.nginx/templates/http_options.conf.j2
R roles/galaxyprojectdotorg.nginx/templates/pkgin-nginx.conf.j2
R roles/galaxyprojectdotorg.nginx/templates/ssl.conf.j2
R roles/galaxyprojectdotorg.nginx/templates/supervisord.conf.j2
R roles/galaxyprojectdotorg.nginx/vars/pkgin.yml
R roles/galaxyprojectdotorg.postgresql/.gitignore
R roles/galaxyprojectdotorg.postgresql/README.md
R roles/galaxyprojectdotorg.postgresql/defaults/main.yml
R roles/galaxyprojectdotorg.postgresql/files/get_repo_rpm_release.py
R roles/galaxyprojectdotorg.postgresql/handlers/main.yml
R roles/galaxyprojectdotorg.postgresql/meta/.galaxy_install_info
R roles/galaxyprojectdotorg.postgresql/meta/main.yml
R roles/galaxyprojectdotorg.postgresql/tasks/backup.yml
R roles/galaxyprojectdotorg.postgresql/tasks/debian.yml
R roles/galaxyprojectdotorg.postgresql/tasks/main.yml
R roles/galaxyprojectdotorg.postgresql/tasks/redhat.yml
R roles/galaxyprojectdotorg.postgresql/templates/20ansible_backup.conf.j2
R roles/galaxyprojectdotorg.postgresql/templates/25ansible_postgresql.conf.j2
R roles/galaxyprojectdotorg.postgresql/templates/archive_wal.sh.j2
R roles/galaxyprojectdotorg.postgresql/templates/backup_working_wal.sh.j2
R roles/galaxyprojectdotorg.postgresql/templates/pg_hba.conf.debian.j2
R roles/galaxyprojectdotorg.postgresql/templates/pg_hba.conf.redhat.j2
R roles/galaxyprojectdotorg.postgresql/templates/scheduled_backup.sh.j2
R roles/galaxyprojectdotorg.postgresql/vars/debian.yml
R roles/galaxyprojectdotorg.postgresql/vars/main.yml
R roles/galaxyprojectdotorg.postgresql/vars/redhat.yml
R roles/galaxyprojectdotorg.proftpd/.travis.yml
R roles/galaxyprojectdotorg.proftpd/README.md
R roles/galaxyprojectdotorg.proftpd/defaults/main.yml
R roles/galaxyprojectdotorg.proftpd/handlers/main.yml
R roles/galaxyprojectdotorg.proftpd/meta/main.yml
R roles/galaxyprojectdotorg.proftpd/tasks/debian.yml
R roles/galaxyprojectdotorg.proftpd/tasks/galaxy_auth.yml
R roles/galaxyprojectdotorg.proftpd/tasks/main.yml
R roles/galaxyprojectdotorg.proftpd/tasks/redhat.yml
R roles/galaxyprojectdotorg.proftpd/tasks/tls.yml
R roles/galaxyprojectdotorg.proftpd/templates/galaxy_auth.conf.j2
R roles/galaxyprojectdotorg.proftpd/templates/server.conf.j2
R roles/galaxyprojectdotorg.proftpd/templates/tls.conf.j2
R roles/galaxyprojectdotorg.proftpd/tests/inventory
R roles/galaxyprojectdotorg.proftpd/tests/test.yml
R roles/galaxyprojectdotorg.proftpd/vars/debian.yml
R roles/galaxyprojectdotorg.proftpd/vars/main.yml
R roles/galaxyprojectdotorg.proftpd/vars/redhat.yml
R roles/galaxyprojectdotorg.pulsar/README.md
R roles/galaxyprojectdotorg.pulsar/defaults/main.yml
R roles/galaxyprojectdotorg.pulsar/meta/.galaxy_install_info
R roles/galaxyprojectdotorg.pulsar/meta/main.yml
R roles/galaxyprojectdotorg.pulsar/tasks/main.yml
R roles/galaxyprojectdotorg.pulsar/templates/app.yml.j2
R roles/galaxyprojectdotorg.pulsar/templates/job_managers.ini.j2
R roles/galaxyprojectdotorg.pulsar/templates/job_metrics_conf.xml.j2
R roles/galaxyprojectdotorg.pulsar/templates/local_env.sh.j2
R roles/galaxyprojectdotorg.pulsar/templates/server.ini.j2
R roles/galaxyprojectdotorg.tools/LICENSE
R roles/galaxyprojectdotorg.tools/README.md
R roles/galaxyprojectdotorg.tools/defaults/main.yml
R roles/galaxyprojectdotorg.tools/files/README.md
R roles/galaxyprojectdotorg.tools/files/dbkeys_list.yaml.sample
R roles/galaxyprojectdotorg.tools/files/install_tool_shed_tools.py
R roles/galaxyprojectdotorg.tools/files/tool_list.yaml
R roles/galaxyprojectdotorg.tools/files/tool_list.yaml.sample
R roles/galaxyprojectdotorg.tools/meta/.galaxy_install_info
R roles/galaxyprojectdotorg.tools/meta/main.yml
R roles/galaxyprojectdotorg.tools/tasks/main.yml
R roles/galaxyprojectdotorg.tools/tasks/tools.yml
Log Message:
-----------
Rename roles due to name change in Ansible Galaxy
Commit: d812cdd806a7032a981d7f5d8c903c3957846ae7
https://github.com/galaxyproject/usegalaxy-playbook/commit/d812cdd806a7032a…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-05-12 (Fri, 12 May 2017)
Changed paths:
M env/test/group_vars/dbservers/vault.yml
Log Message:
-----------
Update DB access list
Commit: e24a4fee0cb63c1151a583a38bbabf69afdf0e7c
https://github.com/galaxyproject/usegalaxy-playbook/commit/e24a4fee0cb63c11…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-05-12 (Fri, 12 May 2017)
Changed paths:
M README.md
R common/docker/galaxy-installer/Dockerfile.main
R common/docker/galaxy-installer/Dockerfile.test
R common/docker/galaxy-installer/run_main.sh
R common/docker/galaxy-installer/run_test.sh
R common/docker/galaxy-update/Dockerfile
R common/docker/galaxy-update/condarc
R common/group_vars/all.yml
R common/group_vars/all_debian_based_hosts.yml
R common/group_vars/redhat_dbservers.yml
R common/group_vars/webservers.yml
R common/host_vars/galaxy-db-01.tacc.utexas.edu.yml
R common/inventory
R common/secret_vars/ssl.yml
R common/secret_vars/supervisorusers.yml
R common/secret_vars/trellocardcreatorservers.yml
R common_infrastructure.yml
R ec2.yml
A env/common/files/galaxy/dynamic_rules/jetstream.py
A env/common/files/galaxy/dynamic_rules/single_dynamic_memory.py
A env/common/files/galaxy/static/welcome_img/GCC2017EarlyReg.png
A env/common/files/galaxy/static/welcome_img/ISMBECCB2017Tutorial.png
M env/common/group_vars/toolshedwebservers.yml
M env/common/templates/galaxy/static/welcome.html.j2
A env/common/tools.yml
M env/common/update_shed.yml
A env/main/_inc_config_post_tasks.yml
A env/main/_inc_restart.yml
A env/main/_inc_snapshot.yml
A env/main/_inc_static.yml
A env/main/config.yml
A env/main/files/galaxy/config/builds.txt
A env/main/files/galaxy/config/data_manager_conf.xml
A env/main/files/galaxy/config/disposable_email_blacklist.conf
A env/main/files/galaxy/config/job_metrics_conf.xml
A env/main/files/galaxy/config/job_resource_params_conf.xml
A env/main/files/galaxy/config/nagios_tool_conf.xml
A env/main/files/galaxy/config/object_store_conf.xml
A env/main/files/galaxy/config/pulsar_jetstream.yml
A env/main/files/galaxy/config/pulsar_jetstream_actions.yml
A env/main/files/galaxy/config/pulsar_stampede_actions.yml
A env/main/files/galaxy/config/tool_conf.xml
A env/main/files/galaxy/config/tool_data_table_conf.xml
A env/main/files/galaxy/config/tool_sheds_conf.xml
A env/main/files/galaxy/config/ucsc_build_sites.txt
A env/main/files/galaxy/dynamic_rules/bridges_select.py
A env/main/files/galaxy/dynamic_rules/multi_dynamic_walltime.py
A env/main/files/galaxy/dynamic_rules/nvc_dynamic_memory.py
A env/main/files/galaxy/dynamic_rules/reserved.py
A env/main/files/galaxy/error
A env/main/files/galaxy/galaxy_version.yml
A env/main/files/galaxy/nagios/echo_main_bridges.xml
A env/main/files/galaxy/nagios/echo_main_cluster.xml
A env/main/files/galaxy/nagios/echo_main_jetstream_iu.xml
A env/main/files/galaxy/nagios/echo_main_jetstream_tacc.xml
A env/main/files/galaxy/nagios/echo_main_stampede.xml
A env/main/files/galaxy/nagios/echo_main_w1_handler0.xml
A env/main/files/galaxy/nagios/echo_main_w1_handler1.xml
A env/main/files/galaxy/nagios/echo_main_w1_handler2.xml
A env/main/files/galaxy/nagios/echo_main_w2_handler0.xml
A env/main/files/galaxy/nagios/echo_main_w2_handler1.xml
A env/main/files/galaxy/nagios/echo_main_w2_handler2.xml
A env/main/files/galaxy/static
A env/main/files/galaxy/tool_list.yaml
A env/main/files/galaxy/var/integrated_tool_panel.xml
A env/main/files/galaxy/var/migrated_tools_conf.xml
A env/main/files/galaxy/var/shed_data_manager_conf.xml
A env/main/files/galaxy/var/shed_tool_conf.xml
A env/main/files/galaxy/var/shed_tool_data_table_conf.xml
A env/main/files/pulsar
A env/main/files/ssl
A env/main/group_vars/all.yml
A env/main/group_vars/dbservers/vars.yml
A env/main/group_vars/dbservers/vault.yml
A env/main/group_vars/ftpservers/vars.yml
A env/main/group_vars/ftpservers/vault.yml
A env/main/group_vars/galaxyjobservers.yml
A env/main/group_vars/galaxyservers/vars.yml
A env/main/group_vars/galaxyservers/vault.yml
A env/main/group_vars/galaxystagingservers.yml
A env/main/group_vars/galaxywebservers.yml
A env/main/group_vars/pulsarservers/vars.yml
A env/main/group_vars/pulsarservers/vault.yml
A env/main/group_vars/sslservers
A env/main/group_vars/supervisorservers/vars.yml
A env/main/group_vars/supervisorservers/vault.yml
A env/main/group_vars/webservers.yml
A env/main/host_vars/br005.bridges.psc.edu.yml
A env/main/host_vars/galaxy-web-03.tacc.utexas.edu.yml
A env/main/host_vars/galaxy-web-04.tacc.utexas.edu.yml
A env/main/host_vars/galaxy-web-05.tacc.utexas.edu.yml
A env/main/host_vars/jetstream-iu0.galaxyproject.org.yml
A env/main/host_vars/jetstream-tacc0.galaxyproject.org.yml
A env/main/host_vars/login5.stampede.tacc.utexas.edu.yml
A env/main/inventory
A env/main/pulsar.yml
A env/main/restart.yml
A env/main/snapshot.yml
A env/main/stack.yml
A env/main/static.yml
A env/main/templates/galaxy/config/build_sites.yml.j2
A env/main/templates/galaxy/config/galaxy.ini.j2
A env/main/templates/galaxy/config/job_conf.xml.j2
A env/main/templates/galaxy/config/reports.ini.j2
A env/main/templates/galaxy/config/uwsgi.ini.j2
A env/main/templates/galaxy/static
A env/main/templates/nginx/galaxy_bx.j2
A env/main/templates/nginx/usegalaxy.j2
A env/main/templates/nginx/usegalaxy_rewrites.conf.j2
A env/main/templates/nginx/usegalaxy_staging.j2
A env/main/templates/pulsar
A env/main/templates/supervisor
A env/main/update.yml
R env/test/files/galaxy/dynamic_rules/jetstream.py
R env/test/files/galaxy/dynamic_rules/single_dynamic_memory.py
M env/test/group_vars/galaxyservers/vars.yml
M env/test/group_vars/pulsarservers/vars.yml
M env/test/inventory
M env/test/templates/galaxy/config/galaxy.ini.j2
M env/test/templates/nginx/galaxy_test.j2
M env/testtoolshed/group_vars/toolshedservers/vars.yml
A env/toolshed/files/ssl
A env/toolshed/group_vars/sslservers
A env/toolshed/group_vars/toolsheddbservers.yml
A env/toolshed/group_vars/toolshedservers/common_vars.yml
A env/toolshed/group_vars/toolshedservers/common_vault.yml
A env/toolshed/group_vars/toolshedservers/vars.yml
A env/toolshed/group_vars/toolshedservers/vault.yml
A env/toolshed/group_vars/toolshedwebservers.yml
A env/toolshed/inventory
A env/toolshed/stack.yml
A env/toolshed/templates/nginx/toolshed.j2
A env/toolshed/templates/supervisor/toolshed.j2
A env/toolshed/update.yml
R files/galaxy/common/config/disposable_email_blacklist.conf
R files/galaxy/common/config/pulsar_jetstream_actions.yml
R files/galaxy/common/dynamic_rules/bridges_select.py
R files/galaxy/common/dynamic_rules/multi_dynamic_walltime.py
R files/galaxy/common/dynamic_rules/nvc_dynamic_memory.py
R files/galaxy/common/dynamic_rules/reserved.py
R files/galaxy/common/error/413/index.html
R files/galaxy/common/error/502/index.shtml
R files/galaxy/common/error/content_bg.png
R files/galaxy/common/error/error_message_icon.png
R files/galaxy/common/error/masthead_bg.png
R files/galaxy/common/static/terms.html
R files/galaxy/common/static/welcome_img/201511_France.png
R files/galaxy/common/static/welcome_img/50PlusPublic.png
R files/galaxy/common/static/welcome_img/60PlusOdometer1.png
R files/galaxy/common/static/welcome_img/70PlusOdometer.png
R files/galaxy/common/static/welcome_img/80PlusOdometer.png
R files/galaxy/common/static/welcome_img/Ballaxy.png
R files/galaxy/common/static/welcome_img/Barcelona_2015.png
R files/galaxy/common/static/welcome_img/CARTGalaxy.png
R files/galaxy/common/static/welcome_img/CPTGalaxy.png
R files/galaxy/common/static/welcome_img/CoSSci.png
R files/galaxy/common/static/welcome_img/EDGW2017.jpg
R files/galaxy/common/static/welcome_img/ErasmusGalaxy.png
R files/galaxy/common/static/welcome_img/EuropeFall2014.png
R files/galaxy/common/static/welcome_img/EuropeFall2014_2.png
R files/galaxy/common/static/welcome_img/FROGGalaxy.png
R files/galaxy/common/static/welcome_img/G3_2014_v2.png
R files/galaxy/common/static/welcome_img/GAMe2017.png
R files/galaxy/common/static/welcome_img/GAMe2017RegisterNow.png
R files/galaxy/common/static/welcome_img/GAMe2017TalkAbstracts.png
R files/galaxy/common/static/welcome_img/GAT2016EarlyReg.png
R files/galaxy/common/static/welcome_img/GAT2016OntimeReg.png
R files/galaxy/common/static/welcome_img/GCC2014.png
R files/galaxy/common/static/welcome_img/GCC2014AvoidLate.png
R files/galaxy/common/static/welcome_img/GCC2014Flag.png
R files/galaxy/common/static/welcome_img/GCC2014RegisterNow.png
R files/galaxy/common/static/welcome_img/GCC2015.png
R files/galaxy/common/static/welcome_img/GCC2015AbstractsOpen.png
R files/galaxy/common/static/welcome_img/GCC2015EarlyReg.png
R files/galaxy/common/static/welcome_img/GCC2015PostersDue.png
R files/galaxy/common/static/welcome_img/GCC2015SaveTheseDates.png
R files/galaxy/common/static/welcome_img/GCC2015Scholarships.png
R files/galaxy/common/static/welcome_img/GCC2015TrainingDayVote.png
R files/galaxy/common/static/welcome_img/GCC2016.png
R files/galaxy/common/static/welcome_img/GCC2016CUBloominton.png
R files/galaxy/common/static/welcome_img/GCC2016June4Deadlines.png
R files/galaxy/common/static/welcome_img/GCC2016May20Deadlines.png
R files/galaxy/common/static/welcome_img/GCC2016OralAbstracts.png
R files/galaxy/common/static/welcome_img/GCC2016OralAbstractsDueApril8.png
R files/galaxy/common/static/welcome_img/GCC2016ScholarshipsDomestic.png
R files/galaxy/common/static/welcome_img/GCC2016ScholarshipsInternational.png
R files/galaxy/common/static/welcome_img/GCC2016TrNom.png
R files/galaxy/common/static/welcome_img/GCC2016TrVote.png
R files/galaxy/common/static/welcome_img/GCC2017.png
R files/galaxy/common/static/welcome_img/GCUKisLive.png
R files/galaxy/common/static/welcome_img/GTN.png
R files/galaxy/common/static/welcome_img/GalaxEast.png
R files/galaxy/common/static/welcome_img/GalaxyAdmins201502.png
R files/galaxy/common/static/welcome_img/GalaxyBiostar.png
R files/galaxy/common/static/welcome_img/GalaxyBiostarHelp.png
R files/galaxy/common/static/welcome_img/GalaxyCast1.png
R files/galaxy/common/static/welcome_img/GalaxyIFBDay2014.png
R files/galaxy/common/static/welcome_img/GalaxyIsHiringCascade.png
R files/galaxy/common/static/welcome_img/GalaxyQuest1.png
R files/galaxy/common/static/welcome_img/ISMB2014.png
R files/galaxy/common/static/welcome_img/ImmPortGalaxy.png
R files/galaxy/common/static/welcome_img/LookingToLearn.png
R files/galaxy/common/static/welcome_img/MBAC.png
R files/galaxy/common/static/welcome_img/MPI-HLR-Galaxy.png
R files/galaxy/common/static/welcome_img/MississippiGalaxy.png
R files/galaxy/common/static/welcome_img/PAG2017.png
R files/galaxy/common/static/welcome_img/PIAGalaxy.png
R files/galaxy/common/static/welcome_img/PRABIGalaxy.png
R files/galaxy/common/static/welcome_img/PreSTIGEGalaxy.png
R files/galaxy/common/static/welcome_img/RDF2GraphGalaxy.png
R files/galaxy/common/static/welcome_img/RNA-Seq-Portal.png
R files/galaxy/common/static/welcome_img/RepeatExplorer.png
R files/galaxy/common/static/welcome_img/Riboseq.png
R files/galaxy/common/static/welcome_img/SG2016.png
R files/galaxy/common/static/welcome_img/SlipStreamSlide.png
R files/galaxy/common/static/welcome_img/SupAgro201502.png
R files/galaxy/common/static/welcome_img/TACC_small.png
R files/galaxy/common/static/welcome_img/VSU.png
R files/galaxy/common/static/welcome_img/VideosAreBack.png
R files/galaxy/common/static/welcome_img/WST2015.png
R files/galaxy/common/static/welcome_img/WhaleSharkGalaxy.png
R files/galaxy/common/static/welcome_img/ZBIT.png
R files/galaxy/common/static/welcome_img/cyverse_rgb_200.png
R files/galaxy/common/static/welcome_img/deepTools.png
R files/galaxy/common/static/welcome_img/emory_logo.png
R files/galaxy/common/static/welcome_img/jhu_logo.png
R files/galaxy/common/static/welcome_img/jquery-1.10.2.min.js
R files/galaxy/common/static/welcome_img/jquery.cycle2.min.js
R files/galaxy/common/static/welcome_img/kmerSVMGalaxy.png
R files/galaxy/common/static/welcome_img/ohsu_logo.png
R files/galaxy/common/static/welcome_img/psu_logo.png
R files/galaxy/common/static/welcome_img/tacc_logo.png
R files/galaxy/common/static/welcome_img/welcome_images.001.png
R files/galaxy/common/static/welcome_img/welcome_images.002.png
R files/galaxy/common/static/welcome_img/welcome_images.003.png
R files/galaxy/common/static/welcome_img/widget.js
R files/galaxy/usegalaxy.org/config/builds.txt
R files/galaxy/usegalaxy.org/config/data_manager_conf.xml
R files/galaxy/usegalaxy.org/config/disposable_email_blacklist.conf
R files/galaxy/usegalaxy.org/config/job_metrics_conf.xml
R files/galaxy/usegalaxy.org/config/job_resource_params_conf.xml
R files/galaxy/usegalaxy.org/config/nagios_tool_conf.xml
R files/galaxy/usegalaxy.org/config/object_store_conf.xml
R files/galaxy/usegalaxy.org/config/pulsar_jetstream.yml
R files/galaxy/usegalaxy.org/config/pulsar_jetstream_actions.yml
R files/galaxy/usegalaxy.org/config/pulsar_stampede_actions.yml
R files/galaxy/usegalaxy.org/config/tool_conf.xml
R files/galaxy/usegalaxy.org/config/tool_data_table_conf.xml
R files/galaxy/usegalaxy.org/config/tool_sheds_conf.xml
R files/galaxy/usegalaxy.org/config/ucsc_build_sites.txt
R files/galaxy/usegalaxy.org/dynamic_rules/bridges_select.py
R files/galaxy/usegalaxy.org/dynamic_rules/multi_dynamic_walltime.py
R files/galaxy/usegalaxy.org/dynamic_rules/nvc_dynamic_memory.py
R files/galaxy/usegalaxy.org/dynamic_rules/reserved.py
R files/galaxy/usegalaxy.org/dynamic_rules/single_dynamic_memory.py
R files/galaxy/usegalaxy.org/error
R files/galaxy/usegalaxy.org/nagios/echo_main_bridges.xml
R files/galaxy/usegalaxy.org/nagios/echo_main_cluster.xml
R files/galaxy/usegalaxy.org/nagios/echo_main_jetstream_iu.xml
R files/galaxy/usegalaxy.org/nagios/echo_main_jetstream_tacc.xml
R files/galaxy/usegalaxy.org/nagios/echo_main_stampede.xml
R files/galaxy/usegalaxy.org/nagios/echo_main_w1_handler0.xml
R files/galaxy/usegalaxy.org/nagios/echo_main_w1_handler1.xml
R files/galaxy/usegalaxy.org/nagios/echo_main_w1_handler2.xml
R files/galaxy/usegalaxy.org/nagios/echo_main_w2_handler0.xml
R files/galaxy/usegalaxy.org/nagios/echo_main_w2_handler1.xml
R files/galaxy/usegalaxy.org/nagios/echo_main_w2_handler2.xml
R files/galaxy/usegalaxy.org/static
R files/galaxy/usegalaxy.org/tool_list.yaml
R files/galaxy/usegalaxy.org/var/integrated_tool_panel.xml
R files/galaxy/usegalaxy.org/var/migrated_tools_conf.xml
R files/galaxy/usegalaxy.org/var/shed_data_manager_conf.xml
R files/galaxy/usegalaxy.org/var/shed_tool_conf.xml
R files/galaxy/usegalaxy.org/var/shed_tool_data_table_conf.xml
R files/pulsar/usegalaxy.org/config/bridges_dependency_resolvers_conf.xml
R files/ssl/radegast.galaxyproject.org_cert.pem
R files/ssl/usegalaxy.org_cert.pem
R files/ssl/wildcard_cert.pem
R files/toolshed/common/error/413/index.html
R files/toolshed/common/error/502/index.shtml
R files/toolshed/common/error/content_bg.png
R files/toolshed/common/error/error_message_icon.png
R files/toolshed/common/error/masthead_bg.png
R files/toolshed/toolshed.g2.bx.psu.edu/error
R galaxy.yml
R production/files/interactive_environments/plugins/.ansible_ie_role_current_version
R production/files/interactive_environments/plugins/bam_iobio/config/bam_iobio.ini.sample
R production/files/interactive_environments/plugins/bam_iobio/config/bam_iobio.xml
R production/files/interactive_environments/plugins/bam_iobio/static/js/bam_iobio.js
R production/files/interactive_environments/plugins/bam_iobio/templates/bam_iobio.mako
R production/files/interactive_environments/plugins/common/templates/ie.mako
R production/files/interactive_environments/plugins/interactive_environments.dtd
R production/files/interactive_environments/plugins/jupyter/config/allowed_images.yml.sample
R production/files/interactive_environments/plugins/jupyter/config/jupyter.ini.sample
R production/files/interactive_environments/plugins/jupyter/config/jupyter.xml
R production/files/interactive_environments/plugins/jupyter/static/js/jupyter.js
R production/files/interactive_environments/plugins/jupyter/templates/jupyter.mako
R production/files/interactive_environments/plugins/neo/config/allowed_images.yml.sample
R production/files/interactive_environments/plugins/neo/config/neo.ini.sample
R production/files/interactive_environments/plugins/neo/config/neo.xml
R production/files/interactive_environments/plugins/neo/static/js/neo.js
R production/files/interactive_environments/plugins/neo/templates/neo.mako
R production/files/interactive_environments/plugins/phinch/config/phinch.ini.sample
R production/files/interactive_environments/plugins/phinch/config/phinch.xml
R production/files/interactive_environments/plugins/phinch/static/js/phinch.js
R production/files/interactive_environments/plugins/phinch/templates/phinch.mako
R production/files/interactive_environments/plugins/rstudio/config/allowed_images.yml.sample
R production/files/interactive_environments/plugins/rstudio/config/rstudio.ini.sample
R production/files/interactive_environments/plugins/rstudio/config/rstudio.xml
R production/files/interactive_environments/plugins/rstudio/static/js/crypto/base64.js
R production/files/interactive_environments/plugins/rstudio/static/js/crypto/jsbn.js
R production/files/interactive_environments/plugins/rstudio/static/js/crypto/prng4.js
R production/files/interactive_environments/plugins/rstudio/static/js/crypto/rng.js
R production/files/interactive_environments/plugins/rstudio/static/js/crypto/rsa.js
R production/files/interactive_environments/plugins/rstudio/static/js/crypto/rstudio.big.js
R production/files/interactive_environments/plugins/rstudio/static/js/crypto/rstudio.min.js
R production/files/interactive_environments/plugins/rstudio/static/js/crypto/rstudio/base64.js
R production/files/interactive_environments/plugins/rstudio/static/js/crypto/rstudio/jsbn.js
R production/files/interactive_environments/plugins/rstudio/static/js/crypto/rstudio/prng4.js
R production/files/interactive_environments/plugins/rstudio/static/js/crypto/rstudio/rng.js
R production/files/interactive_environments/plugins/rstudio/static/js/crypto/rstudio/rsa.js
R production/files/interactive_environments/plugins/rstudio/static/js/crypto/wu/base64.js
R production/files/interactive_environments/plugins/rstudio/static/js/crypto/wu/jsbn.js
R production/files/interactive_environments/plugins/rstudio/static/js/crypto/wu/prng4.js
R production/files/interactive_environments/plugins/rstudio/static/js/crypto/wu/rng.js
R production/files/interactive_environments/plugins/rstudio/static/js/crypto/wu/rsa.js
R production/files/interactive_environments/plugins/rstudio/static/js/rstudio.js
R production/files/interactive_environments/plugins/rstudio/templates/rstudio.mako
R production/files/interactive_environments/proxy/.ansible_ie_role_current_version
R production/files/interactive_environments/proxy/Dockerfile
R production/files/interactive_environments/proxy/README.md
R production/files/interactive_environments/proxy/lib/main.js
R production/files/interactive_environments/proxy/lib/mapper.js
R production/files/interactive_environments/proxy/lib/proxy.js
R production/files/interactive_environments/proxy/package.json
R production/galaxy_version.yml
R production/group_vars/all.yml
R production/group_vars/galaxydbservers.yml
R production/group_vars/galaxyjobservers.yml
R production/group_vars/galaxyservers.yml
R production/group_vars/galaxystagingservers.yml
R production/group_vars/galaxywebservers.yml
R production/group_vars/pulsarservers.yml
R production/group_vars/toolsheddbservers.yml
R production/group_vars/toolshedservers.yml
R production/host_vars/br005.bridges.psc.edu.yml
R production/host_vars/galaxy-web-01.tacc.utexas.edu.yml
R production/host_vars/galaxy-web-02.tacc.utexas.edu.yml
R production/host_vars/galaxy-web-03.tacc.utexas.edu.yml
R production/host_vars/galaxy-web-04.tacc.utexas.edu.yml
R production/host_vars/jetstream-iu0.galaxyproject.org.yml
R production/host_vars/jetstream-tacc0.galaxyproject.org.yml
R production/host_vars/login5.stampede.tacc.utexas.edu.yml
R production/host_vars/radegast.galaxyproject.org.yml
R production/inventory
R production/secret_vars/galaxydbservers.yml
R production/secret_vars/galaxyservers.yml
R production/secret_vars/pulsarservers.yml
R production/secret_vars/toolshedservers.yml
R stage/host_vars/radegast.galaxyproject.org.yml
R stage/inventory
R stage/secret_vars/toolshedservers.yml
R templates/galaxy/common/config/reports.ini.j2
R templates/galaxy/common/static/welcome.html.j2
R templates/galaxy/usegalaxy.org/config/build_sites.yml.j2
R templates/galaxy/usegalaxy.org/config/job_conf.xml.j2
R templates/galaxy/usegalaxy.org/config/reports.ini.j2
R templates/galaxy/usegalaxy.org/config/uwsgi.ini.j2
R templates/galaxy/usegalaxy.org/static
R templates/nginx/galaxy_bx.j2
R templates/nginx/usegalaxy.j2
R templates/nginx/usegalaxy_rewrites.conf.j2
R templates/nginx/usegalaxy_staging.j2
R templates/supervisor/galaxy.j2
R templates/supervisor/galaxy_group.j2
R templates/supervisor/galaxy_handler.j2
R templates/supervisor/galaxy_impersonate.j2
R templates/supervisor/galaxy_reports.j2
R tools.yml
R toolshed_infrastructure.yml
Log Message:
-----------
Reorganize Main and MTS for new playbook structure. Not deployed yet.
Commit: ad99d8528a1b4eaa650edf3783ccd81cfa835e42
https://github.com/galaxyproject/usegalaxy-playbook/commit/ad99d8528a1b4eaa…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-05-16 (Tue, 16 May 2017)
Changed paths:
M README.md
M env/common/tools.yml
M env/common/update_shed.yml
M env/main/group_vars/galaxyservers/vars.yml
M env/main/group_vars/galaxystagingservers.yml
M env/main/group_vars/pulsarservers/vars.yml
M env/main/group_vars/webservers.yml
M env/test/group_vars/galaxyservers/vars.yml
M env/test/group_vars/pulsarservers/vars.yml
M env/test/group_vars/webservers/vars.yml
M env/testtoolshed/group_vars/toolshedservers/vars.yml
M env/toolshed/group_vars/toolshedservers/vars.yml
M roles/galaxyproject.galaxy/README.md
M roles/galaxyproject.galaxy/defaults/main.yml
M roles/galaxyproject.galaxy/handlers/main.yml
M roles/galaxyproject.galaxy/tasks/main.yml
M roles/galaxyproject.galaxy_toolshed/README.md
M roles/galaxyproject.galaxy_toolshed/defaults/main.yml
M roles/galaxyproject.galaxy_toolshed/handlers/main.yml
M roles/galaxyproject.galaxy_toolshed/tasks/main.yml
M roles/galaxyproject.interactive_environments/README.md
M roles/galaxyproject.interactive_environments/defaults/main.yml
M roles/galaxyproject.interactive_environments/handlers/main.yml
M roles/galaxyproject.interactive_environments/tasks/main.yml
M roles/galaxyproject.nginx/README.md
M roles/galaxyproject.nginx/defaults/main.yml
M roles/galaxyproject.nginx/handlers/main.yml
M roles/galaxyproject.nginx/tasks/main.yml
M roles/galaxyproject.proftpd/README.md
M roles/galaxyproject.proftpd/defaults/main.yml
M roles/galaxyproject.proftpd/handlers/main.yml
M roles/galaxyproject.proftpd/tasks/debian.yml
M roles/galaxyproject.proftpd/tasks/galaxy_auth.yml
M roles/galaxyproject.proftpd/tasks/main.yml
M roles/galaxyproject.proftpd/tasks/redhat.yml
M roles/galaxyproject.proftpd/tasks/tls.yml
M roles/galaxyproject.proftpd/tests/test.yml
M roles/galaxyproject.proftpd/vars/main.yml
M roles/galaxyproject.pulsar/README.md
M roles/galaxyproject.pulsar/defaults/main.yml
M roles/galaxyproject.pulsar/tasks/main.yml
Log Message:
-----------
Finish renaming galaxyprojectdotorg -> galaxyproject
Commit: eedfea43fdbb2fe0a0e31d1dd077341f632f6b87
https://github.com/galaxyproject/usegalaxy-playbook/commit/eedfea43fdbb2fe0…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-05-16 (Tue, 16 May 2017)
Changed paths:
M env/toolshed/group_vars/toolshedservers/vars.yml
Log Message:
-----------
Update MTS
Commit: 890912424aae8cc959f25fe88d70d82a5c0e5102
https://github.com/galaxyproject/usegalaxy-playbook/commit/890912424aae8cc9…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-05-17 (Wed, 17 May 2017)
Log Message:
-----------
Fixed conda env generation on Jetstream: Manually upgraded galaxy-lib from 16.7.10 to 17.5.9. No committable changes.
Commit: 376b8c62fac4419299ec0c85cf2921c8aa47da70
https://github.com/galaxyproject/usegalaxy-playbook/commit/376b8c62fac44192…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-05-17 (Wed, 17 May 2017)
Changed paths:
M env/testtoolshed/group_vars/toolshedservers/vars.yml
Log Message:
-----------
Update Test Tool Shed
Commit: 19846e3ebdd8597e9e21d9e6a4f3ec0c13b8491c
https://github.com/galaxyproject/usegalaxy-playbook/commit/19846e3ebdd8597e…
Author: Martin Cech <marten(a)bx.psu.edu>
Date: 2017-05-30 (Tue, 30 May 2017)
Changed paths:
M env/main/templates/galaxy/config/job_conf.xml.j2
Log Message:
-----------
give salmon 16gb and rna_Star 64
Commit: 9c6af8b03364613a7873fb91407893b55ce6fcb0
https://github.com/galaxyproject/usegalaxy-playbook/commit/9c6af8b03364613a…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-05-30 (Tue, 30 May 2017)
Changed paths:
M env/common/files/galaxy/dynamic_rules/multi_dynamic_walltime.py
M env/main/files/galaxy/galaxy_version.yml
M env/main/files/galaxy/var/integrated_tool_panel.xml
M env/main/files/galaxy/var/shed_data_manager_conf.xml
M env/main/files/galaxy/var/shed_tool_data_table_conf.xml
Log Message:
-----------
Fix walltime exception for align families running on local cluster and update Main
Conflicts:
production/galaxy_version.yml
Commit: 622272d426088faad13f230d765b6cb42d2aa2dd
https://github.com/galaxyproject/usegalaxy-playbook/commit/622272d426088faa…
Author: Martin Cech <marten(a)bx.psu.edu>
Date: 2017-06-01 (Thu, 01 Jun 2017)
Changed paths:
M env/main/templates/galaxy/config/job_conf.xml.j2
Log Message:
-----------
move rna_star to different destination
to dynamic_local_stampede_select_dynamic_walltime
Commit: ce7d009db5b56e7a31c37b6858418a34d9a0e8c2
https://github.com/galaxyproject/usegalaxy-playbook/commit/ce7d009db5b56e7a…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-06-01 (Thu, 01 Jun 2017)
Changed paths:
M env/main/files/galaxy/galaxy_version.yml
Log Message:
-----------
Update Main
Commit: 8f9080fbb5039af509b30a28a13c9af42f9054e8
https://github.com/galaxyproject/usegalaxy-playbook/commit/8f9080fbb5039af5…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-06-15 (Thu, 15 Jun 2017)
Changed paths:
M env/test/group_vars/galaxyservers/vars.yml
Log Message:
-----------
Disable conda copying for per-job envs since all envs are now mulled. always_symlink has also been enabled in _condarc
Commit: 1a3bfcec003a4827b75c28cc02a233fe65d952a1
https://github.com/galaxyproject/usegalaxy-playbook/commit/1a3bfcec003a4827…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-06-15 (Thu, 15 Jun 2017)
Changed paths:
M env/test/group_vars/galaxyservers/vars.yml
Log Message:
-----------
I forget why these variable names have changed but apparently I didn't finish changing them
Commit: 5b00fa5d5c55915aaac7f440b1f074216be6a148
https://github.com/galaxyproject/usegalaxy-playbook/commit/5b00fa5d5c55915a…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-06-16 (Fri, 16 Jun 2017)
Changed paths:
M env/common/templates/supervisor/galaxy_datamanager.j2
M env/test/files/galaxy/var/integrated_tool_panel.xml
M env/test/files/galaxy/var/shed_data_manager_conf.xml
M env/test/files/galaxy/var/shed_tool_conf.xml
M env/test/files/galaxy/var/shed_tool_data_table_conf.xml
M env/test/group_vars/galaxyservers/vars.yml
M env/test/templates/galaxy/config/job_conf.xml.j2
Log Message:
-----------
Fixes for Data Managers, plus allocate 128GB of memory for the RNA STAR DM
Commit: 3fbe6d1d53f295cbe7b7a877db72d4a4c706ec4c
https://github.com/galaxyproject/usegalaxy-playbook/commit/3fbe6d1d53f295cb…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-06-21 (Wed, 21 Jun 2017)
Changed paths:
M env/test/templates/galaxy/config/job_conf.xml.j2
Log Message:
-----------
Run RNA Star on multi partition on TEst
Commit: c06cee0e218843b77ca86bab23007f16cfaa106a
https://github.com/galaxyproject/usegalaxy-playbook/commit/c06cee0e218843b7…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-06-22 (Thu, 22 Jun 2017)
Changed paths:
M env/common/files/galaxy/dynamic_rules/bridges_select.py
A env/test/files/galaxy/config/pulsar_bridges_actions.yml
M env/test/group_vars/galaxyservers/vars.yml
M env/test/templates/galaxy/config/job_conf.xml.j2
Log Message:
-----------
Run RNA Star on Bridges on Test, configure data path rewrites.
Commit: 5f46d03b2050f4bdb89ca8364c3ea4a72314cd9c
https://github.com/galaxyproject/usegalaxy-playbook/commit/5f46d03b2050f4bd…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-06-22 (Thu, 22 Jun 2017)
Log Message:
-----------
Manually upgraded Test galaxy-lib on Jetstream from 16.7.7 to 17.9.1. No committable changes.
Commit: 49a63ad338ca092dd8739bc1d650d645e00bc6fd
https://github.com/galaxyproject/usegalaxy-playbook/commit/49a63ad338ca092d…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-06-22 (Thu, 22 Jun 2017)
Changed paths:
M env/common/files/galaxy/dynamic_rules/multi_dynamic_walltime.py
M env/test/files/galaxy/config/job_resource_params_conf.xml
M env/test/templates/galaxy/config/job_conf.xml.j2
Log Message:
-----------
Hack RNA STAR into the terrible One Dynamic Rule To Rule Them All
Commit: bdcfa1009eb413827f509c6c1787a6418f6cb9f3
https://github.com/galaxyproject/usegalaxy-playbook/commit/bdcfa1009eb41382…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-07-12 (Wed, 12 Jul 2017)
Changed paths:
M env/test/files/galaxy/var/integrated_tool_panel.xml
M env/test/files/galaxy/var/shed_tool_conf.xml
M env/test/group_vars/galaxyservers/vars.yml
M roles/usegalaxy_swarmscale/files/instance
M roles/usegalaxy_swarmscale/files/inventory.spawn
Log Message:
-----------
Get swarm scale / swarm manager working for Test, update Test to new GIE images (Jupyter 17.05.1)
Commit: 4dd07fe64f3d15501701f84950ea46ca82f43b03
https://github.com/galaxyproject/usegalaxy-playbook/commit/4dd07fe64f3d1550…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-07-12 (Wed, 12 Jul 2017)
Changed paths:
M env/test/group_vars/galaxyservers/vars.yml
Log Message:
-----------
Update Jupyter version in Galaxy config for Test
Commit: 437643a11e6b5dfc33099a6fdf8864fa620b3326
https://github.com/galaxyproject/usegalaxy-playbook/commit/437643a11e6b5dfc…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-07-12 (Wed, 12 Jul 2017)
Changed paths:
M roles/usegalaxy_swarmscale/files/instance
Log Message:
-----------
Return node names on swarm scale destruction
Commit: 001e2190f319f928f6858f540072bc264d0f849c
https://github.com/galaxyproject/usegalaxy-playbook/commit/001e2190f319f928…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-07-13 (Thu, 13 Jul 2017)
Changed paths:
M env/test/group_vars/galaxyservers/vars.yml
M roles/usegalaxy_swarmscale/files/inc_spawn.yml
M roles/usegalaxy_swarmscale/files/inventory.spawn
Log Message:
-----------
Swarm GIE fixes
Commit: 6d6da7427592691795bc94efed9441f278369338
https://github.com/galaxyproject/usegalaxy-playbook/commit/6d6da74275926917…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-07-16 (Sun, 16 Jul 2017)
Changed paths:
M common_roles
M env/common/templates/supervisor/galaxy_group.j2
M env/main/group_vars/dbservers/vault.yml
M env/main/group_vars/ftpservers/vars.yml
M env/main/group_vars/galaxyservers/vars.yml
M env/main/group_vars/galaxywebservers.yml
M env/main/inventory
M env/test/group_vars/galaxyservers/vars.yml
Log Message:
-----------
Supervisor and GIE path fixes
Commit: 4c72ad524957ea08ac8157f977ef0bb8c967278b
https://github.com/galaxyproject/usegalaxy-playbook/commit/4c72ad524957ea08…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-07-16 (Sun, 16 Jul 2017)
Changed paths:
M env/common/files/galaxy/dynamic_rules/multi_dynamic_walltime.py
M env/main/files/galaxy/config/job_resource_params_conf.xml
A env/main/files/galaxy/config/pulsar_bridges_actions.yml
M env/main/files/galaxy/config/tool_data_table_conf.xml
M env/main/files/galaxy/var/integrated_tool_panel.xml
M env/main/files/galaxy/var/shed_tool_data_table_conf.xml
M env/main/group_vars/dbservers/vault.yml
M env/main/group_vars/galaxyservers/vars.yml
M env/main/group_vars/galaxywebservers.yml
M env/main/templates/galaxy/config/job_conf.xml.j2
M env/test/group_vars/galaxyservers/vars.yml
Log Message:
-----------
Merge branch 'master' into reorg
Conflicts:
common/host_vars/galaxy-db-01.tacc.utexas.edu.yml
env/common/files/galaxy/dynamic_rules/multi_dynamic_walltime.py
env/main/files/galaxy/galaxy_version.yml
env/main/files/galaxy/var/integrated_tool_panel.xml
env/main/files/galaxy/var/shed_tool_data_table_conf.xml
env/main/group_vars/galaxyservers/vars.yml
env/main/host_vars/jetstream-iu0.galaxyproject.org.yml
env/main/host_vars/jetstream-tacc0.galaxyproject.org.yml
env/main/templates/galaxy/config/job_conf.xml.j2
env/main/templates/nginx/usegalaxy.j2
env/test/host_vars/br005.bridges.psc.edu.yml
env/testtoolshed/group_vars/toolshedservers/vars.yml
files/galaxy/usegalaxy.org/var/shed_data_manager_conf.xml
production/files/interactive_environments/plugins/.ansible_ie_role_current_version
production/files/interactive_environments/plugins/bam_iobio/config/bam_iobio.ini.sample
production/files/interactive_environments/plugins/bam_iobio/static/js/bam_iobio.js
production/files/interactive_environments/plugins/bam_iobio/templates/bam_iobio.mako
production/files/interactive_environments/plugins/common/templates/ie.mako
production/files/interactive_environments/plugins/jupyter/config/allowed_images.yml.sample
production/files/interactive_environments/plugins/jupyter/config/jupyter.ini.sample
production/files/interactive_environments/plugins/jupyter/config/jupyter.xml
production/files/interactive_environments/plugins/jupyter/static/js/jupyter.js
production/files/interactive_environments/plugins/jupyter/templates/jupyter.mako
production/files/interactive_environments/plugins/neo/config/neo.ini.sample
production/files/interactive_environments/plugins/neo/static/js/neo.js
production/files/interactive_environments/plugins/neo/templates/neo.mako
production/files/interactive_environments/plugins/phinch/config/phinch.ini.sample
production/files/interactive_environments/plugins/phinch/static/js/phinch.js
production/files/interactive_environments/plugins/phinch/templates/phinch.mako
production/files/interactive_environments/plugins/rstudio/config/allowed_images.yml.sample
production/files/interactive_environments/plugins/rstudio/config/rstudio.ini.sample
production/files/interactive_environments/plugins/rstudio/static/js/rstudio.js
production/files/interactive_environments/plugins/rstudio/templates/rstudio.mako
production/files/interactive_environments/proxy/.ansible_ie_role_current_version
production/files/interactive_environments/proxy/lib/mapper.js
production/files/interactive_environments/proxy/package.json
production/galaxy_version.yml
production/group_vars/all.yml
production/group_vars/galaxydbservers.yml
production/group_vars/galaxywebservers.yml
production/secret_vars/galaxydbservers.yml
stage/inventory
Commit: 00d29581d31378bb0c56277950aeef63641316b6
https://github.com/galaxyproject/usegalaxy-playbook/commit/00d29581d31378bb…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-07-16 (Sun, 16 Jul 2017)
Changed paths:
M env/test/group_vars/galaxyservers/vars.yml
Log Message:
-----------
Remove duplicate definition
Compare: https://github.com/galaxyproject/usegalaxy-playbook/compare/0638aacc35f6...…
1
0
16 Jul '17
Branch: refs/heads/master
Home: https://github.com/galaxyproject/infrastructure-playbook
Commit: abab646b5ada9b7ab9a9ff603fd3e3d987ed47bd
https://github.com/galaxyproject/infrastructure-playbook/commit/abab646b5ad…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-07-16 (Sun, 16 Jul 2017)
Changed paths:
M jetstreamdockerenv/group_vars/imageinstances.yml
Log Message:
-----------
Bump Jupyter image to latest
1
0
Branch: refs/heads/reorg
Home: https://github.com/galaxyproject/usegalaxy-playbook
Commit: ccadc26f89c4d2cdeaacb9a1dd940cc067bdac7c
https://github.com/galaxyproject/usegalaxy-playbook/commit/ccadc26f89c4d2cd…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-04-18 (Tue, 18 Apr 2017)
Changed paths:
M templates/galaxy/usegalaxy.org/config/job_conf.xml.j2
Log Message:
-----------
pylon1 -> pylon5
Commit: 9ae7ebd5030a611879af50da0123089c621c73ad
https://github.com/galaxyproject/usegalaxy-playbook/commit/9ae7ebd5030a6118…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-04-18 (Tue, 18 Apr 2017)
Changed paths:
M production/files/interactive_environments/plugins/bam_iobio/config/bam_iobio.ini.sample
M production/files/interactive_environments/plugins/bam_iobio/static/js/bam_iobio.js
M production/files/interactive_environments/plugins/bam_iobio/templates/bam_iobio.mako
M production/files/interactive_environments/plugins/common/templates/ie.mako
R production/files/interactive_environments/plugins/ethercalc/config/allowed_images.yml.sample
R production/files/interactive_environments/plugins/ethercalc/config/ethercalc.ini.sample
R production/files/interactive_environments/plugins/ethercalc/config/ethercalc.xml
R production/files/interactive_environments/plugins/ethercalc/static/js/ethercalc.js
R production/files/interactive_environments/plugins/ethercalc/templates/ethercalc.mako
M production/files/interactive_environments/plugins/jupyter/config/allowed_images.yml.sample
M production/files/interactive_environments/plugins/jupyter/config/jupyter.ini.sample
M production/files/interactive_environments/plugins/jupyter/config/jupyter.xml
M production/files/interactive_environments/plugins/jupyter/static/js/jupyter.js
M production/files/interactive_environments/plugins/jupyter/templates/jupyter.mako
M production/files/interactive_environments/plugins/neo/config/neo.ini.sample
M production/files/interactive_environments/plugins/neo/static/js/neo.js
M production/files/interactive_environments/plugins/neo/templates/neo.mako
M production/files/interactive_environments/plugins/phinch/config/phinch.ini.sample
M production/files/interactive_environments/plugins/phinch/static/js/phinch.js
M production/files/interactive_environments/plugins/phinch/templates/phinch.mako
M production/files/interactive_environments/plugins/rstudio/config/rstudio.ini.sample
M production/files/interactive_environments/plugins/rstudio/static/js/rstudio.js
M production/files/interactive_environments/plugins/rstudio/templates/rstudio.mako
M production/files/interactive_environments/proxy/lib/mapper.js
M roles/galaxyprojectdotorg.interactive_environments/meta/.galaxy_install_info
M roles/galaxyprojectdotorg.interactive_environments/tasks/extract_component.yml
M roles/galaxyprojectdotorg.interactive_environments/tasks/synchronize_components.yml
M templates/galaxy/usegalaxy.org/config/job_conf.xml.j2
Log Message:
-----------
Merge branch 'master' of github.com:/galaxyproject/usegalaxy-playbook
Commit: 0b9825782968350d7b888360a2941fffcadc9793
https://github.com/galaxyproject/usegalaxy-playbook/commit/0b9825782968350d…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-04-18 (Tue, 18 Apr 2017)
Changed paths:
M production/host_vars/br005.bridges.psc.edu.yml
Log Message:
-----------
pylon1 -> pylon5
Commit: 89fb31b48a37fd54891c99eb4117dbcf8d2d3dbe
https://github.com/galaxyproject/usegalaxy-playbook/commit/89fb31b48a37fd54…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-04-19 (Wed, 19 Apr 2017)
Changed paths:
M files/galaxy/usegalaxy.org/var/integrated_tool_panel.xml
M files/galaxy/usegalaxy.org/var/shed_tool_data_table_conf.xml
Log Message:
-----------
Main mutable config updates
Commit: 448253e6cd22b4ac0bba5266aec3d4a376374810
https://github.com/galaxyproject/usegalaxy-playbook/commit/448253e6cd22b4ac…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-04-24 (Mon, 24 Apr 2017)
Changed paths:
A files/pulsar/usegalaxy.org/config/jetstream_dependency_resolvers_conf.xml
M production/host_vars/jetstream-iu0.galaxyproject.org.yml
M production/host_vars/jetstream-tacc0.galaxyproject.org.yml
Log Message:
-----------
Enable Conda on Main Jetstream
Commit: f5c0310b009c6bf2f94335486d753c1a2bc6aa33
https://github.com/galaxyproject/usegalaxy-playbook/commit/f5c0310b009c6bf2…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-04-24 (Mon, 24 Apr 2017)
Changed paths:
M production/group_vars/pulsarservers.yml
Log Message:
-----------
Upgrade Main Pulsar
Commit: 9c8d4734f98ae8731096cbe9bf96f5b379fcc15f
https://github.com/galaxyproject/usegalaxy-playbook/commit/9c8d4734f98ae873…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-04-24 (Mon, 24 Apr 2017)
Changed paths:
R files/pulsar/usegalaxy.org/config/jetstream_dependency_resolvers_conf.xml
M production/host_vars/jetstream-iu0.galaxyproject.org.yml
M production/host_vars/jetstream-tacc0.galaxyproject.org.yml
A templates/pulsar/usegalaxy.org/config/jetstream_dependency_resolvers_conf.x…
Log Message:
-----------
Install Conda locally on Jetstream
Commit: 55280cc37e5906cc0f2cb74caca0c293fe5d2bd6
https://github.com/galaxyproject/usegalaxy-playbook/commit/55280cc37e5906cc…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-04-28 (Fri, 28 Apr 2017)
Changed paths:
M files/galaxy/usegalaxy.org/var/integrated_tool_panel.xml
M files/galaxy/usegalaxy.org/var/shed_tool_data_table_conf.xml
Log Message:
-----------
Main mutable configs
Commit: dc487e2a2f585554dc5140660c2536e505eedca9
https://github.com/galaxyproject/usegalaxy-playbook/commit/dc487e2a2f585554…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-04-28 (Fri, 28 Apr 2017)
Changed paths:
M templates/galaxy/usegalaxy.org/config/uwsgi.ini.j2
Log Message:
-----------
Increase Main uWSGI buffer-size to hopefully eliminate (104: Connection reset by peer) while reading response header from upstream
Commit: 3dcc0653c2816126d10fbdbcf518c192eb20c279
https://github.com/galaxyproject/usegalaxy-playbook/commit/3dcc0653c2816126…
Author: Martin Cech <marten(a)bx.psu.edu>
Date: 2017-04-30 (Sun, 30 Apr 2017)
Changed paths:
M stage/group_vars/toolshedservers.yml
Log Message:
-----------
update TTS
Commit: e765f7f020a92885a9fb74cc125bd9ddf53cdc23
https://github.com/galaxyproject/usegalaxy-playbook/commit/e765f7f020a92885…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-05-02 (Tue, 02 May 2017)
Changed paths:
M files/galaxy/common/dynamic_rules/multi_dynamic_walltime.py
Log Message:
-----------
Allow overriding the walltime on a per-tool basis
Commit: ccd062f81075a8399f2b0a1be627dc69bf2d0be6
https://github.com/galaxyproject/usegalaxy-playbook/commit/ccd062f81075a839…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-05-03 (Wed, 03 May 2017)
Changed paths:
M common/host_vars/galaxy-db-01.tacc.utexas.edu.yml
M production/group_vars/galaxydbservers.yml
M production/secret_vars/galaxydbservers.yml
Log Message:
-----------
Add grafana for Main
Commit: d32bb89ae9efc13ae94a2ab9b4cba90d62f574eb
https://github.com/galaxyproject/usegalaxy-playbook/commit/d32bb89ae9efc13a…
Author: tnabtaf <clements(a)galaxyproject.org>
Date: 2017-05-04 (Thu, 04 May 2017)
Changed paths:
A files/galaxy/common/static/welcome_img/GCC2017EarlyReg.png
A files/galaxy/common/static/welcome_img/ISMBECCB2017Tutorial.png
M templates/galaxy/common/static/welcome.html.j2
Log Message:
-----------
Updated slide show on landing page.
Commit: 2c06456c007e38670d343967f1d601bb28923db6
https://github.com/galaxyproject/usegalaxy-playbook/commit/2c06456c007e3867…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-05-08 (Mon, 08 May 2017)
Changed paths:
M production/files/interactive_environments/plugins/.ansible_ie_role_current_version
M production/files/interactive_environments/plugins/bam_iobio/config/bam_iobio.ini.sample
M production/files/interactive_environments/plugins/bam_iobio/static/js/bam_iobio.js
M production/files/interactive_environments/plugins/bam_iobio/templates/bam_iobio.mako
M production/files/interactive_environments/plugins/common/templates/ie.mako
A production/files/interactive_environments/plugins/ethercalc/config/allowed_images.yml.sample
A production/files/interactive_environments/plugins/ethercalc/config/ethercalc.ini.sample
A production/files/interactive_environments/plugins/ethercalc/config/ethercalc.xml
A production/files/interactive_environments/plugins/ethercalc/static/js/ethercalc.js
A production/files/interactive_environments/plugins/ethercalc/templates/ethercalc.mako
M production/files/interactive_environments/plugins/jupyter/config/allowed_images.yml.sample
M production/files/interactive_environments/plugins/jupyter/config/jupyter.ini.sample
M production/files/interactive_environments/plugins/jupyter/config/jupyter.xml
M production/files/interactive_environments/plugins/jupyter/static/js/jupyter.js
M production/files/interactive_environments/plugins/jupyter/templates/jupyter.mako
M production/files/interactive_environments/plugins/neo/config/neo.ini.sample
M production/files/interactive_environments/plugins/neo/static/js/neo.js
M production/files/interactive_environments/plugins/neo/templates/neo.mako
M production/files/interactive_environments/plugins/phinch/config/phinch.ini.sample
M production/files/interactive_environments/plugins/phinch/static/js/phinch.js
M production/files/interactive_environments/plugins/phinch/templates/phinch.mako
M production/files/interactive_environments/plugins/rstudio/config/allowed_images.yml.sample
M production/files/interactive_environments/plugins/rstudio/config/rstudio.ini.sample
M production/files/interactive_environments/plugins/rstudio/static/js/rstudio.js
M production/files/interactive_environments/plugins/rstudio/templates/rstudio.mako
M production/files/interactive_environments/proxy/.ansible_ie_role_current_version
M production/files/interactive_environments/proxy/lib/mapper.js
M production/files/interactive_environments/proxy/package.json
M production/galaxy_version.yml
M production/group_vars/all.yml
Log Message:
-----------
Update Main to 17.05
Commit: dd1df620bf43bfa0cb0c83258f93bd20eea621ba
https://github.com/galaxyproject/usegalaxy-playbook/commit/dd1df620bf43bfa0…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-05-09 (Tue, 09 May 2017)
Changed paths:
M files/galaxy/usegalaxy.org/var/integrated_tool_panel.xml
M templates/galaxy/usegalaxy.org/config/job_conf.xml.j2
Log Message:
-----------
Increase extract maf blocks to 16GB
Commit: 10512706c236c3dcacbbd14c5ea96c4ed357c591
https://github.com/galaxyproject/usegalaxy-playbook/commit/10512706c236c3dc…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-05-09 (Tue, 09 May 2017)
Changed paths:
M production/group_vars/galaxywebservers.yml
M templates/nginx/usegalaxy.j2
Log Message:
-----------
17.05 fixes for Jupyter on Main
Commit: d982b0e86e073930f362ef28f0660d69d5ccac22
https://github.com/galaxyproject/usegalaxy-playbook/commit/d982b0e86e073930…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-05-09 (Tue, 09 May 2017)
Changed paths:
M production/group_vars/galaxyservers.yml
Log Message:
-----------
Message for Main
Commit: 00ff306a13bd25f59670a51a432a1b8711b3dfc4
https://github.com/galaxyproject/usegalaxy-playbook/commit/00ff306a13bd25f5…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-05-10 (Wed, 10 May 2017)
Changed paths:
M files/galaxy/usegalaxy.org/var/integrated_tool_panel.xml
M production/group_vars/galaxyservers.yml
Log Message:
-----------
Remove message
Commit: ee705bc05e7db9bf730bc94fbbad9dbbf4f92dbf
https://github.com/galaxyproject/usegalaxy-playbook/commit/ee705bc05e7db9bf…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-05-11 (Thu, 11 May 2017)
Changed paths:
M production/files/interactive_environments/plugins/.ansible_ie_role_current_version
M production/files/interactive_environments/proxy/.ansible_ie_role_current_version
M production/galaxy_version.yml
Log Message:
-----------
Update Main
Commit: 07c13f0094d292a15b5c8a930304bc9914fd2062
https://github.com/galaxyproject/usegalaxy-playbook/commit/07c13f0094d292a1…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-05-25 (Thu, 25 May 2017)
Changed paths:
A env/main/files/galaxy/galaxy_version.yml
Log Message:
-----------
Update Main
Commit: 1283e77813b20b31ee19271f289e01a149dc94cd
https://github.com/galaxyproject/usegalaxy-playbook/commit/1283e77813b20b31…
Author: Martin Cech <marten(a)bx.psu.edu>
Date: 2017-05-25 (Thu, 25 May 2017)
Changed paths:
M templates/galaxy/usegalaxy.org/config/job_conf.xml.j2
Log Message:
-----------
give salmon 16gb and rna_Star 64
Commit: 4de1718bc260a36bc13be6d3c049a83231077e75
https://github.com/galaxyproject/usegalaxy-playbook/commit/4de1718bc260a36b…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-05-30 (Tue, 30 May 2017)
Changed paths:
M templates/galaxy/usegalaxy.org/config/job_conf.xml.j2
Log Message:
-----------
Merge pull request #28 from galaxyproject/martenson-patch-1
give salmon 16gb and rna_Star 64
Commit: dc7efc2de746b58812b8e318ed6bad54c175e515
https://github.com/galaxyproject/usegalaxy-playbook/commit/dc7efc2de746b588…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-05-30 (Tue, 30 May 2017)
Changed paths:
M files/galaxy/common/dynamic_rules/multi_dynamic_walltime.py
M files/galaxy/usegalaxy.org/var/integrated_tool_panel.xml
M files/galaxy/usegalaxy.org/var/shed_data_manager_conf.xml
M files/galaxy/usegalaxy.org/var/shed_tool_data_table_conf.xml
M production/galaxy_version.yml
Log Message:
-----------
Fix walltime exception for align families running on local cluster and update Main
Commit: 9b34d3babc373b9324722a4647fd3dd2d821a2f4
https://github.com/galaxyproject/usegalaxy-playbook/commit/9b34d3babc373b93…
Author: Martin Cech <marten(a)bx.psu.edu>
Date: 2017-06-01 (Thu, 01 Jun 2017)
Changed paths:
M templates/galaxy/usegalaxy.org/config/job_conf.xml.j2
Log Message:
-----------
move rna_star to different destination
to dynamic_local_stampede_select_dynamic_walltime
Commit: 5d772ebe86f5c12dcd2947f9105e857af9b07a0f
https://github.com/galaxyproject/usegalaxy-playbook/commit/5d772ebe86f5c12d…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-06-01 (Thu, 01 Jun 2017)
Changed paths:
M production/files/interactive_environments/plugins/.ansible_ie_role_current_version
M production/files/interactive_environments/proxy/.ansible_ie_role_current_version
Log Message:
-----------
IE version update missed w/ last Main update commit
Commit: b19102b88cc335eacb6d45368d605c9af614334c
https://github.com/galaxyproject/usegalaxy-playbook/commit/b19102b88cc335ea…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-06-01 (Thu, 01 Jun 2017)
Changed paths:
M stage/inventory
Log Message:
-----------
Prevent accidental attempts to run the playbook on Test/TTS
Commit: 2fd3b1fc1cb22a423496f2ddf34b95911eed5a6f
https://github.com/galaxyproject/usegalaxy-playbook/commit/2fd3b1fc1cb22a42…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-06-01 (Thu, 01 Jun 2017)
Changed paths:
M production/files/interactive_environments/plugins/.ansible_ie_role_current_version
M production/files/interactive_environments/proxy/.ansible_ie_role_current_version
M production/galaxy_version.yml
Log Message:
-----------
Update Main
Commit: 8ae4c0768d9e012e329cc71bd0d64eadba174a8b
https://github.com/galaxyproject/usegalaxy-playbook/commit/8ae4c0768d9e012e…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-06-22 (Thu, 22 Jun 2017)
Changed paths:
A files/galaxy/usegalaxy.org/config/pulsar_bridges_actions.yml
M files/galaxy/usegalaxy.org/var/integrated_tool_panel.xml
M files/galaxy/usegalaxy.org/var/shed_tool_data_table_conf.xml
M production/group_vars/galaxyservers.yml
Log Message:
-----------
Data rewrites for Bridges on Main
Commit: c3f315583d3449bd6269f0d6edbdd64300ca0efb
https://github.com/galaxyproject/usegalaxy-playbook/commit/c3f315583d3449bd…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-06-23 (Fri, 23 Jun 2017)
Changed paths:
M files/galaxy/common/dynamic_rules/multi_dynamic_walltime.py
M files/galaxy/usegalaxy.org/config/job_resource_params_conf.xml
M templates/galaxy/usegalaxy.org/config/job_conf.xml.j2
Log Message:
-----------
Quick and dirty dynamic rule changes for RNA STAR
Commit: d3d2a4733f1fe844089a077bf029a703e159ec67
https://github.com/galaxyproject/usegalaxy-playbook/commit/d3d2a4733f1fe844…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-06-23 (Fri, 23 Jun 2017)
Changed paths:
M files/galaxy/usegalaxy.org/var/integrated_tool_panel.xml
M files/galaxy/usegalaxy.org/var/shed_tool_data_table_conf.xml
Log Message:
-----------
Main mutable configs
Commit: 067433f547f67b848f2e4597274a379f06da04b2
https://github.com/galaxyproject/usegalaxy-playbook/commit/067433f547f67b84…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-06-27 (Tue, 27 Jun 2017)
Changed paths:
M files/galaxy/usegalaxy.org/config/tool_data_table_conf.xml
Log Message:
-----------
Add missing twobit data table to by-hand tool_data_table_conf.xml for Main
Commit: cedb92eef64b06c061ee831e3686f0e09a45e592
https://github.com/galaxyproject/usegalaxy-playbook/commit/cedb92eef64b06c0…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-07-12 (Wed, 12 Jul 2017)
Changed paths:
M production/group_vars/galaxywebservers.yml
Log Message:
-----------
Switch Main to Jupyter 17.05.1 image
Commit: 33366949a7e2a5eae219a108899a305670dab73d
https://github.com/galaxyproject/usegalaxy-playbook/commit/33366949a7e2a5ea…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-07-12 (Wed, 12 Jul 2017)
Changed paths:
M production/group_vars/galaxywebservers.yml
Log Message:
-----------
Instruct GIE launcher not to attempt to use volumes
Commit: 9028505708ccd65ae43ad2e01e694a8ca066b48b
https://github.com/galaxyproject/usegalaxy-playbook/commit/9028505708ccd65a…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-07-12 (Wed, 12 Jul 2017)
Changed paths:
M production/group_vars/galaxyservers.yml
Log Message:
-----------
Downtime banner
Commit: dc510da0597fd42462ad3a4197706b47a786fc92
https://github.com/galaxyproject/usegalaxy-playbook/commit/dc510da0597fd424…
Author: Enis Afgan <afgane(a)gmail.com>
Date: 2017-07-13 (Thu, 13 Jul 2017)
Changed paths:
M production/group_vars/galaxydbservers.yml
Log Message:
-----------
Update psql user list
Commit: f9e62c1e6a0d3fa24f45a0c3a8ee5110d8639aee
https://github.com/galaxyproject/usegalaxy-playbook/commit/f9e62c1e6a0d3fa2…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-07-14 (Fri, 14 Jul 2017)
Changed paths:
M production/secret_vars/galaxydbservers.yml
Log Message:
-----------
Update access list
Commit: 0638aacc35f69f09d956f1c87c839770f622ac5a
https://github.com/galaxyproject/usegalaxy-playbook/commit/0638aacc35f69f09…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-07-14 (Fri, 14 Jul 2017)
Changed paths:
M templates/galaxy/usegalaxy.org/config/job_conf.xml.j2
Log Message:
-----------
Temporarily bump Interval2Maf1 to 32GB for Wilfried
Commit: 4c72ad524957ea08ac8157f977ef0bb8c967278b
https://github.com/galaxyproject/usegalaxy-playbook/commit/4c72ad524957ea08…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-07-16 (Sun, 16 Jul 2017)
Changed paths:
M env/common/files/galaxy/dynamic_rules/multi_dynamic_walltime.py
M env/main/files/galaxy/config/job_resource_params_conf.xml
A env/main/files/galaxy/config/pulsar_bridges_actions.yml
M env/main/files/galaxy/config/tool_data_table_conf.xml
M env/main/files/galaxy/var/integrated_tool_panel.xml
M env/main/files/galaxy/var/shed_tool_data_table_conf.xml
M env/main/group_vars/dbservers/vault.yml
M env/main/group_vars/galaxyservers/vars.yml
M env/main/group_vars/galaxywebservers.yml
M env/main/templates/galaxy/config/job_conf.xml.j2
M env/test/group_vars/galaxyservers/vars.yml
Log Message:
-----------
Merge branch 'master' into reorg
Conflicts:
common/host_vars/galaxy-db-01.tacc.utexas.edu.yml
env/common/files/galaxy/dynamic_rules/multi_dynamic_walltime.py
env/main/files/galaxy/galaxy_version.yml
env/main/files/galaxy/var/integrated_tool_panel.xml
env/main/files/galaxy/var/shed_tool_data_table_conf.xml
env/main/group_vars/galaxyservers/vars.yml
env/main/host_vars/jetstream-iu0.galaxyproject.org.yml
env/main/host_vars/jetstream-tacc0.galaxyproject.org.yml
env/main/templates/galaxy/config/job_conf.xml.j2
env/main/templates/nginx/usegalaxy.j2
env/test/host_vars/br005.bridges.psc.edu.yml
env/testtoolshed/group_vars/toolshedservers/vars.yml
files/galaxy/usegalaxy.org/var/shed_data_manager_conf.xml
production/files/interactive_environments/plugins/.ansible_ie_role_current_version
production/files/interactive_environments/plugins/bam_iobio/config/bam_iobio.ini.sample
production/files/interactive_environments/plugins/bam_iobio/static/js/bam_iobio.js
production/files/interactive_environments/plugins/bam_iobio/templates/bam_iobio.mako
production/files/interactive_environments/plugins/common/templates/ie.mako
production/files/interactive_environments/plugins/jupyter/config/allowed_images.yml.sample
production/files/interactive_environments/plugins/jupyter/config/jupyter.ini.sample
production/files/interactive_environments/plugins/jupyter/config/jupyter.xml
production/files/interactive_environments/plugins/jupyter/static/js/jupyter.js
production/files/interactive_environments/plugins/jupyter/templates/jupyter.mako
production/files/interactive_environments/plugins/neo/config/neo.ini.sample
production/files/interactive_environments/plugins/neo/static/js/neo.js
production/files/interactive_environments/plugins/neo/templates/neo.mako
production/files/interactive_environments/plugins/phinch/config/phinch.ini.sample
production/files/interactive_environments/plugins/phinch/static/js/phinch.js
production/files/interactive_environments/plugins/phinch/templates/phinch.mako
production/files/interactive_environments/plugins/rstudio/config/allowed_images.yml.sample
production/files/interactive_environments/plugins/rstudio/config/rstudio.ini.sample
production/files/interactive_environments/plugins/rstudio/static/js/rstudio.js
production/files/interactive_environments/plugins/rstudio/templates/rstudio.mako
production/files/interactive_environments/proxy/.ansible_ie_role_current_version
production/files/interactive_environments/proxy/lib/mapper.js
production/files/interactive_environments/proxy/package.json
production/galaxy_version.yml
production/group_vars/all.yml
production/group_vars/galaxydbservers.yml
production/group_vars/galaxywebservers.yml
production/secret_vars/galaxydbservers.yml
stage/inventory
Commit: 00d29581d31378bb0c56277950aeef63641316b6
https://github.com/galaxyproject/usegalaxy-playbook/commit/00d29581d31378bb…
Author: Nate Coraor <nate(a)bx.psu.edu>
Date: 2017-07-16 (Sun, 16 Jul 2017)
Changed paths:
M env/test/group_vars/galaxyservers/vars.yml
Log Message:
-----------
Remove duplicate definition
Compare: https://github.com/galaxyproject/usegalaxy-playbook/compare/6d6da7427592...…
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