March 2017 - galaxy-commits - lists.galaxyproject.org

[galaxyproject/usegalaxy-playbook] 5ae3db: Update Test
by GitHub 15 Mar '17

15 Mar '17

Branch: refs/heads/master Home: https://github.com/galaxyproject/usegalaxy-playbook Commit: 5ae3db0c8c016c89fbbab1daad793d9f9fa6cd37 https://github.com/galaxyproject/usegalaxy-playbook/commit/5ae3db0c8c016c89… Author: Martin Cech <marten(a)bx.psu.edu> Date: 2017-03-15 (Wed, 15 Mar 2017) Changed paths: M stage/galaxy_version.yml Log Message: ----------- Update Test

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[galaxyproject/galaxy] d505fc: New Authentication section of the docs.
by GitHub 15 Mar '17

15 Mar '17

Branch: refs/heads/dev Home: https://github.com/galaxyproject/galaxy Commit: d505fcf26027fd908b0a0fa1a6e1cb814c56b6ce https://github.com/galaxyproject/galaxy/commit/d505fcf26027fd908b0a0fa1a6e1… Author: John Chilton <jmchilton(a)gmail.com> Date: 2017-03-14 (Tue, 14 Mar 2017) Changed paths: A doc/source/admin/authentication.md M doc/source/admin/index.rst Log Message: ----------- New Authentication section of the docs. I pulled in this doc https://galaxyproject.org/develop/authentication/ which was very dated and somewhat incorrect and I filled it out with more details, updated configuration information, and a whole new section on the authentication framework. I also pulled in this doc https://galaxyproject.org/admin/user-accounts/ which was pretty good and I left it largely unchanged. Rebased to fix index inclusion and with edits suggested by :eagle::eyes:. Commit: 460d876fc4814ab10badb859b64a05225b04e952 https://github.com/galaxyproject/galaxy/commit/460d876fc4814ab10badb859b64a… Author: Martin Cech <marten(a)bx.psu.edu> Date: 2017-03-15 (Wed, 15 Mar 2017) Changed paths: A doc/source/admin/authentication.md M doc/source/admin/index.rst Log Message: ----------- Merge pull request #3751 from jmchilton/auth_docs New Authentication section of the docs. Compare: https://github.com/galaxyproject/galaxy/compare/27cb4fbedca6...460d876fc481

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[galaxyproject/infrastructure-playbook] d805ba: Attempt to preserve URLS for redirects without a m...
by GitHub 15 Mar '17

15 Mar '17

Branch: refs/heads/master Home: https://github.com/galaxyproject/infrastructure-playbook Commit: d805ba004c5786336d56d5b095624f66e0190b26 https://github.com/galaxyproject/infrastructure-playbook/commit/d805ba004c5… Author: Dannon Baker <dannon.baker(a)gmail.com> Date: 2017-03-15 (Wed, 15 Mar 2017) Changed paths: M galaxyenv/templates/nginx/wiki_hub_rewrites.conf.j2 Log Message: ----------- Attempt to preserve URLS for redirects without a mapping.

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[galaxyproject/galaxy] 66a02b: modify our docs in preparation for restructuring
by GitHub 15 Mar '17

15 Mar '17

Branch: refs/heads/dev Home: https://github.com/galaxyproject/galaxy Commit: 66a02b6af192c78f53ad2901f55515cd9f712ab7 https://github.com/galaxyproject/galaxy/commit/66a02b6af192c78f53ad2901f555… Author: Martin Cech <marten(a)bx.psu.edu> Date: 2017-03-10 (Fri, 10 Mar 2017) Changed paths: M doc/source/admin/index.rst A doc/source/admin/tool_panel.rst M doc/source/conf.py M doc/source/dev/index.rst M doc/source/dev/interactive_environments.rst M doc/source/index.rst M doc/source/project/issues.rst Log Message: ----------- modify our docs in preparation for restructuring start moving admin content from old wiki Commit: 817a9db1f7bca855fe8f35c4b188c10a5c3a6653 https://github.com/galaxyproject/galaxy/commit/817a9db1f7bca855fe8f35c4b188… Author: Martin Cech <marten(a)bx.psu.edu> Date: 2017-03-10 (Fri, 10 Mar 2017) Changed paths: R doc/source/admin/chat-0.png R doc/source/admin/chat-1.png R doc/source/admin/chat-2.png R doc/source/admin/chat-3.png R doc/source/admin/chat-4.png R doc/source/admin/chat.rst R doc/source/admin/communication_server.png R doc/source/admin/communication_server_rooms.png R doc/source/admin/grt.rst M doc/source/admin/index.rst R doc/source/admin/interactive_environments.png R doc/source/admin/interactive_environments.rst R doc/source/admin/interactive_environments.svg R doc/source/admin/mulled_containers.rst A doc/source/admin/special_topics/chat-0.png A doc/source/admin/special_topics/chat-1.png A doc/source/admin/special_topics/chat-2.png A doc/source/admin/special_topics/chat-3.png A doc/source/admin/special_topics/chat-4.png A doc/source/admin/special_topics/chat.rst A doc/source/admin/special_topics/communication_server.png A doc/source/admin/special_topics/communication_server_rooms.png A doc/source/admin/special_topics/grt.rst A doc/source/admin/special_topics/index.rst A doc/source/admin/special_topics/interactive_environments.png A doc/source/admin/special_topics/interactive_environments.rst A doc/source/admin/special_topics/interactive_environments.svg A doc/source/admin/special_topics/mulled_containers.rst A doc/source/admin/special_topics/webhooks.rst R doc/source/admin/webhooks.rst M doc/source/index.rst Log Message: ----------- move some admin docs to separate special topics section Commit: 6f8deb6f4a07bd57493d24cd90a9862dbf7e6d0c https://github.com/galaxyproject/galaxy/commit/6f8deb6f4a07bd57493d24cd90a9… Author: Martin Cech <marten(a)bx.psu.edu> Date: 2017-03-14 (Tue, 14 Mar 2017) Changed paths: R doc/source/admin/images_webhooks/history-menu.png R doc/source/admin/images_webhooks/masthead.png R doc/source/admin/images_webhooks/masthead_trans_object.png R doc/source/admin/images_webhooks/tool.png R doc/source/admin/images_webhooks/workflow.png A doc/source/admin/special_topics/images_webhooks/history-menu.png A doc/source/admin/special_topics/images_webhooks/masthead.png A doc/source/admin/special_topics/images_webhooks/masthead_trans_object.png A doc/source/admin/special_topics/images_webhooks/tool.png A doc/source/admin/special_topics/images_webhooks/workflow.png Log Message: ----------- move webhooks images where they belong Commit: 4b6373f042ad98f4f3ac664911ab35611280f204 https://github.com/galaxyproject/galaxy/commit/4b6373f042ad98f4f3ac664911ab… Author: Martin Cech <marten(a)bx.psu.edu> Date: 2017-03-14 (Tue, 14 Mar 2017) Changed paths: M doc/source/admin/index.rst Log Message: ----------- fix outdated links Commit: 3d092d683efef26bde2d2d453c07caa8a8c4322e https://github.com/galaxyproject/galaxy/commit/3d092d683efef26bde2d2d453c07… Author: Martin Cech <marten(a)bx.psu.edu> Date: 2017-03-15 (Wed, 15 Mar 2017) Changed paths: M client/galaxy/scripts/apps/analysis.js M client/galaxy/scripts/galaxy.interactive_environments.js M client/galaxy/scripts/layout/menu.js M client/galaxy/scripts/mvc/dataset/dataset-li-edit.js M client/galaxy/scripts/mvc/grid/grid-template.js M client/galaxy/scripts/mvc/grid/grid-view.js M client/galaxy/scripts/mvc/tool/tools.js M client/galaxy/scripts/mvc/user/user-preferences.js M config/datatypes_conf.xml.sample M config/dependency_resolvers_conf.xml.sample M config/galaxy.ini.sample M config/plugins/interactive_environments/bam_iobio/static/js/bam_iobio.js M config/plugins/interactive_environments/bam_iobio/templates/bam_iobio.mako M config/plugins/interactive_environments/common/templates/ie.mako M config/plugins/interactive_environments/jupyter/static/js/jupyter.js M config/plugins/interactive_environments/jupyter/templates/jupyter.mako M config/plugins/interactive_environments/neo/static/js/neo.js M config/plugins/interactive_environments/neo/templates/neo.mako M config/plugins/interactive_environments/phinch/static/js/phinch.js M config/plugins/interactive_environments/phinch/templates/phinch.mako M config/plugins/interactive_environments/rstudio/static/js/rstudio.js M config/plugins/interactive_environments/rstudio/templates/rstudio.mako A config/plugins/webhooks/demo/search/config/searchover.yaml A config/plugins/webhooks/demo/search/static/script.js A config/plugins/webhooks/demo/search/static/styles.css A config/swarm_manager_conf.yml.sample R cron/clean_docker_swarm_mode_services.sh M doc/source/admin/dependency_resolvers.rst M doc/source/admin/special_topics/interactive_environments.rst M lib/galaxy/config.py A lib/galaxy/container/__init__.py A lib/galaxy/container/docker_swarm.py M lib/galaxy/dependencies/pinned-hashed-requirements.txt M lib/galaxy/dependencies/pinned-requirements.txt M lib/galaxy/model/__init__.py M lib/galaxy/queue_worker.py M lib/galaxy/tools/deps/__init__.py M lib/galaxy/tools/deps/conda_util.py M lib/galaxy/tools/deps/resolvers/__init__.py M lib/galaxy/tools/deps/resolvers/conda.py M lib/galaxy/tools/deps/views.py M lib/galaxy/tools/parameters/basic.py M lib/galaxy/tools/xsd/galaxy.xsd M lib/galaxy/util/json.py M lib/galaxy/web/base/controllers/admin.py M lib/galaxy/web/base/interactive_environments.py M lib/galaxy/web/framework/base.py M lib/galaxy/web/framework/helpers/grids.py M lib/galaxy/web/proxy/__init__.py M lib/galaxy/web/proxy/js/lib/mapper.js M lib/galaxy/webapps/galaxy/api/tool_dependencies.py M lib/galaxy/webapps/galaxy/api/tools.py M lib/galaxy/webapps/galaxy/buildapp.py M lib/galaxy/webapps/galaxy/controllers/admin.py M lib/galaxy/webapps/galaxy/controllers/dataset.py M lib/galaxy/webapps/galaxy/controllers/history.py A lib/galaxy/webapps/galaxy/controllers/interactive_environments.py M lib/galaxy/webapps/galaxy/controllers/user.py M lib/galaxy/webapps/galaxy/controllers/visualization.py M lib/galaxy/workflow/steps.py M lib/tool_shed/galaxy_install/grids/admin_toolshed_grids.py M static/maps/galaxy.interactive_environments.js.map M static/maps/layout/menu.js.map M static/maps/mvc/dataset/dataset-li-edit.js.map M static/maps/mvc/grid/grid-template.js.map M static/maps/mvc/grid/grid-view.js.map M static/maps/mvc/tool/tools.js.map M static/maps/mvc/user/user-preferences.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/galaxy.interactive_environments.js M static/scripts/layout/menu.js M static/scripts/mvc/dataset/dataset-li-edit.js M static/scripts/mvc/grid/grid-template.js M static/scripts/mvc/grid/grid-view.js M static/scripts/mvc/tool/tools.js M static/scripts/mvc/user/user-preferences.js M templates/grid_base.mako M templates/webapps/galaxy/admin/index.mako A templates/webapps/galaxy/admin/manage_dependencies.mako R templates/webapps/galaxy/user/manage_info.mako M templates/webapps/tool_shed/repository/common.mako M test/integration/test_resolvers.py Log Message: ----------- Merge branch 'dev' into admin-docs-from-hub Commit: 27cb4fbedca6ab44ecc5a154e3102462bd0a09af https://github.com/galaxyproject/galaxy/commit/27cb4fbedca6ab44ecc5a154e310… Author: John Chilton <jmchilton(a)gmail.com> Date: 2017-03-15 (Wed, 15 Mar 2017) Changed paths: R doc/source/admin/chat-0.png R doc/source/admin/chat-1.png R doc/source/admin/chat-2.png R doc/source/admin/chat-3.png R doc/source/admin/chat-4.png R doc/source/admin/chat.rst R doc/source/admin/communication_server.png R doc/source/admin/communication_server_rooms.png R doc/source/admin/grt.rst R doc/source/admin/images_webhooks/history-menu.png R doc/source/admin/images_webhooks/masthead.png R doc/source/admin/images_webhooks/masthead_trans_object.png R doc/source/admin/images_webhooks/tool.png R doc/source/admin/images_webhooks/workflow.png M doc/source/admin/index.rst R doc/source/admin/interactive_environments.png R doc/source/admin/interactive_environments.rst R doc/source/admin/interactive_environments.svg R doc/source/admin/mulled_containers.rst A doc/source/admin/special_topics/chat-0.png A doc/source/admin/special_topics/chat-1.png A doc/source/admin/special_topics/chat-2.png A doc/source/admin/special_topics/chat-3.png A doc/source/admin/special_topics/chat-4.png A doc/source/admin/special_topics/chat.rst A doc/source/admin/special_topics/communication_server.png A doc/source/admin/special_topics/communication_server_rooms.png A doc/source/admin/special_topics/grt.rst A doc/source/admin/special_topics/images_webhooks/history-menu.png A doc/source/admin/special_topics/images_webhooks/masthead.png A doc/source/admin/special_topics/images_webhooks/masthead_trans_object.png A doc/source/admin/special_topics/images_webhooks/tool.png A doc/source/admin/special_topics/images_webhooks/workflow.png A doc/source/admin/special_topics/index.rst A doc/source/admin/special_topics/interactive_environments.png A doc/source/admin/special_topics/interactive_environments.rst A doc/source/admin/special_topics/interactive_environments.svg A doc/source/admin/special_topics/mulled_containers.rst A doc/source/admin/special_topics/webhooks.rst A doc/source/admin/tool_panel.rst R doc/source/admin/webhooks.rst M doc/source/conf.py M doc/source/dev/index.rst M doc/source/dev/interactive_environments.rst M doc/source/index.rst M doc/source/project/issues.rst Log Message: ----------- Merge pull request #3738 from martenson/admin-docs-from-hub modify our docs in preparation for restructuring Compare: https://github.com/galaxyproject/galaxy/compare/0498c7f833fa...27cb4fbedca6

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[galaxyproject/infrastructure-playbook] 730bc6: 403->404 for galaxyproject.org; this happens when ...
by GitHub 15 Mar '17

15 Mar '17

Branch: refs/heads/master Home: https://github.com/galaxyproject/infrastructure-playbook Commit: 730bc6b7b1e3321d1ff52397fb5415e036124c1a https://github.com/galaxyproject/infrastructure-playbook/commit/730bc6b7b1e… Author: Dannon Baker <dannon.baker(a)gmail.com> Date: 2017-03-15 (Wed, 15 Mar 2017) Changed paths: M galaxyenv/templates/nginx/galaxyproject.j2 Log Message: ----------- 403->404 for galaxyproject.org; this happens when a directory listing is attempted, and we want a 404/page-not-found there.

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[galaxyproject/infrastructure-playbook] 2ae26b: Use hub's page-not-found as the 404 errorpage.
by GitHub 15 Mar '17

15 Mar '17

Branch: refs/heads/master Home: https://github.com/galaxyproject/infrastructure-playbook Commit: 2ae26b1b96eaf131b9b23967b9565dc5e52393a1 https://github.com/galaxyproject/infrastructure-playbook/commit/2ae26b1b96e… Author: Dannon Baker <dannon.baker(a)gmail.com> Date: 2017-03-15 (Wed, 15 Mar 2017) Changed paths: M galaxyenv/templates/nginx/galaxyproject.j2 Log Message: ----------- Use hub's page-not-found as the 404 errorpage.

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[galaxyproject/galaxy] 2c4977: Separate condensed user preference form into three...
by GitHub 15 Mar '17

15 Mar '17

Branch: refs/heads/dev Home: https://github.com/galaxyproject/galaxy Commit: 2c49779d81b8eb2eae1e9f4dd74de7e01647f675 https://github.com/galaxyproject/galaxy/commit/2c49779d81b8eb2eae1e9f4dd74d… Author: guerler <aysam.guerler(a)gmail.com> Date: 2017-02-23 (Thu, 23 Feb 2017) Changed paths: M client/galaxy/scripts/apps/analysis.js M client/galaxy/scripts/mvc/user/user-preferences.js M lib/galaxy/webapps/galaxy/buildapp.py M static/maps/mvc/user/user-preferences.js.map M static/scripts/bundled/analysis.bundled.js M static/scripts/bundled/analysis.bundled.js.map M static/scripts/bundled/libs.bundled.js.map M static/scripts/mvc/user/user-preferences.js Log Message: ----------- Separate condensed user preference form into three components, improve route handling Commit: 84f9d3c5c9dc27af1d121e9b84504109d9291ff0 https://github.com/galaxyproject/galaxy/commit/84f9d3c5c9dc27af1d121e9b8450… Author: guerler <aysam.guerler(a)gmail.com> Date: 2017-02-23 (Thu, 23 Feb 2017) Changed paths: M client/galaxy/scripts/mvc/user/user-preferences.js M static/maps/mvc/user/user-preferences.js.map M static/scripts/bundled/analysis.bundled.js M static/scripts/bundled/analysis.bundled.js.map M static/scripts/bundled/libs.bundled.js.map M static/scripts/mvc/user/user-preferences.js Log Message: ----------- Fix basic routing between main preference panel and individual user forms Commit: 3c31cbd21ed222060c31400eb0e0d0ea90b33ec0 https://github.com/galaxyproject/galaxy/commit/3c31cbd21ed222060c31400eb0e0… Author: guerler <aysam.guerler(a)gmail.com> Date: 2017-02-23 (Thu, 23 Feb 2017) Changed paths: M client/galaxy/scripts/mvc/user/user-preferences.js M static/maps/mvc/user/user-preferences.js.map M static/scripts/bundled/analysis.bundled.js M static/scripts/bundled/analysis.bundled.js.map M static/scripts/bundled/libs.bundled.js.map M static/scripts/mvc/user/user-preferences.js Log Message: ----------- Fix error message Commit: 88b4b7a7182fb48904d587b7a049e099169c7ccf https://github.com/galaxyproject/galaxy/commit/88b4b7a7182fb48904d587b7a049… Author: guerler <aysam.guerler(a)gmail.com> Date: 2017-02-23 (Thu, 23 Feb 2017) Changed paths: M client/galaxy/scripts/mvc/user/user-preferences.js M static/maps/mvc/user/user-preferences.js.map M static/scripts/bundled/analysis.bundled.js M static/scripts/bundled/analysis.bundled.js.map M static/scripts/bundled/libs.bundled.js.map M static/scripts/mvc/user/user-preferences.js Log Message: ----------- Properly handle openid redirect and sign out feature Commit: ceb11577bde43e6ee61ee1c89e6c002037039510 https://github.com/galaxyproject/galaxy/commit/ceb11577bde43e6ee61ee1c89e6c… Author: guerler <aysam.guerler(a)gmail.com> Date: 2017-02-23 (Thu, 23 Feb 2017) Changed paths: M client/galaxy/scripts/mvc/user/user-preferences.js M static/maps/mvc/user/user-preferences.js.map M static/scripts/bundled/analysis.bundled.js M static/scripts/bundled/analysis.bundled.js.map M static/scripts/bundled/libs.bundled.js.map M static/scripts/mvc/user/user-preferences.js Log Message: ----------- Place row template into separate function Commit: 365c56f77f6b57c8930641864924ec9a67fdf174 https://github.com/galaxyproject/galaxy/commit/365c56f77f6b57c8930641864924… Author: guerler <aysam.guerler(a)gmail.com> Date: 2017-02-23 (Thu, 23 Feb 2017) Changed paths: M client/galaxy/scripts/apps/analysis.js M client/galaxy/scripts/mvc/user/user-preferences.js M lib/galaxy/web/base/controllers/admin.py M static/maps/mvc/user/user-preferences.js.map M static/scripts/bundled/analysis.bundled.js M static/scripts/bundled/analysis.bundled.js.map M static/scripts/bundled/libs.bundled.js.map M static/scripts/mvc/user/user-preferences.js Log Message: ----------- Redirect admin user manager route to js-based preference forms Commit: efa856dbb91766dbf80c447c241dd37e1a5401ca https://github.com/galaxyproject/galaxy/commit/efa856dbb91766dbf80c447c241d… Author: guerler <aysam.guerler(a)gmail.com> Date: 2017-02-24 (Fri, 24 Feb 2017) Changed paths: M client/galaxy/scripts/mvc/grid/grid-template.js M client/galaxy/scripts/mvc/grid/grid-view.js M lib/galaxy/web/framework/helpers/grids.py M lib/galaxy/webapps/galaxy/controllers/dataset.py M lib/galaxy/webapps/galaxy/controllers/history.py M lib/galaxy/webapps/galaxy/controllers/visualization.py M lib/tool_shed/galaxy_install/grids/admin_toolshed_grids.py M templates/grid_base.mako Log Message: ----------- Attempt to fix grid routing options Commit: 8a8603be7f697c065382d61fb0539552d15d1f3f https://github.com/galaxyproject/galaxy/commit/8a8603be7f697c065382d61fb053… Author: guerler <aysam.guerler(a)gmail.com> Date: 2017-02-24 (Fri, 24 Feb 2017) Changed paths: M client/galaxy/scripts/mvc/grid/grid-template.js M client/galaxy/scripts/mvc/grid/grid-view.js M lib/galaxy/webapps/galaxy/controllers/admin.py M static/maps/mvc/grid/grid-template.js.map M static/maps/mvc/grid/grid-view.js.map M static/scripts/mvc/grid/grid-template.js M static/scripts/mvc/grid/grid-view.js M templates/grid_base.mako Log Message: ----------- Enhance grid target handling for links Commit: cc6fa6a4c8607c0c2f33b2271a963da54756334f https://github.com/galaxyproject/galaxy/commit/cc6fa6a4c8607c0c2f33b2271a96… Author: guerler <aysam.guerler(a)gmail.com> Date: 2017-03-01 (Wed, 01 Mar 2017) Changed paths: M .ci/flake8_blacklist.txt M client/galaxy/scripts/mvc/grid/grid-view.js M config/datatypes_conf.xml.sample M config/plugins/interactive_environments/jupyter/config/allowed_images.yml.sample M doc/source/releases/17.01_announce.rst M lib/galaxy/auth/providers/ldap_ad.py M lib/galaxy/datatypes/proteomics.py M lib/galaxy/jobs/__init__.py M lib/galaxy/model/orm/engine_factory.py M lib/galaxy/queue_worker.py M lib/galaxy/tools/search/__init__.py M lib/galaxy/visualization/plugins/plugin.py M lib/galaxy/webapps/galaxy/controllers/history.py M lib/galaxy/webapps/galaxy/controllers/user.py M scripts/bootstrap_history.py M static/maps/mvc/grid/grid-view.js.map M static/scripts/mvc/grid/grid-view.js M templates/grid_base.mako A templates/webapps/galaxy/user/manage_info.mako M tools/data_source/upload.py Log Message: ----------- Merge branch 'dev' into ui_pref_routing Commit: f0b03a59b51bd02a07b591900147d0e9a79053f7 https://github.com/galaxyproject/galaxy/commit/f0b03a59b51bd02a07b591900147… Author: guerler <aysam.guerler(a)gmail.com> Date: 2017-03-01 (Wed, 01 Mar 2017) Changed paths: M lib/galaxy/webapps/galaxy/controllers/user.py R templates/webapps/galaxy/user/manage_info.mako Log Message: ----------- Strip old user manager mako Commit: c281dd87ed83934ffe2654130d8c709892796142 https://github.com/galaxyproject/galaxy/commit/c281dd87ed83934ffe2654130d8c… Author: guerler <aysam.guerler(a)gmail.com> Date: 2017-03-01 (Wed, 01 Mar 2017) Changed paths: M client/galaxy/scripts/mvc/form/form-input.js M client/galaxy/scripts/mvc/form/form-section.js M client/galaxy/scripts/mvc/tool/tool-form-composite.js R client/galaxy/scripts/mvc/tool/tool-form-workflow.js A client/galaxy/scripts/mvc/workflow/workflow-forms.js M client/galaxy/scripts/mvc/workflow/workflow-view.js M lib/galaxy/managers/workflows.py M lib/galaxy/webapps/galaxy/api/workflows.py M lib/galaxy/workflow/modules.py M static/maps/mvc/form/form-input.js.map M static/maps/mvc/form/form-section.js.map M static/maps/mvc/tool/tool-form-composite.js.map R static/maps/mvc/tool/tool-form-workflow.js.map A static/maps/mvc/workflow/workflow-forms.js.map M static/maps/mvc/workflow/workflow-view.js.map R static/maps/mvc/workflow/workflow.js.map M static/scripts/bundled/analysis.bundled.js M static/scripts/bundled/analysis.bundled.js.map M static/scripts/bundled/libs.bundled.js.map M static/scripts/mvc/form/form-input.js M static/scripts/mvc/form/form-section.js M static/scripts/mvc/tool/tool-form-composite.js R static/scripts/mvc/tool/tool-form-workflow.js A static/scripts/mvc/workflow/workflow-forms.js M static/scripts/mvc/workflow/workflow-view.js M test/unit/workflows/test_modules.py Log Message: ----------- Merge branch 'dev' into ui_pref_routing Commit: fa1f81cbcf5ac4c026bb624ee003f56405ef358e https://github.com/galaxyproject/galaxy/commit/fa1f81cbcf5ac4c026bb624ee003… Author: Dannon Baker <dannon.baker(a)gmail.com> Date: 2017-03-02 (Thu, 02 Mar 2017) Changed paths: M client/galaxy/scripts/apps/analysis.js M client/galaxy/scripts/mvc/user/user-preferences.js M lib/galaxy/webapps/galaxy/buildapp.py M static/maps/mvc/user/user-preferences.js.map M static/scripts/bundled/analysis.bundled.js M static/scripts/bundled/analysis.bundled.js.map M static/scripts/bundled/libs.bundled.js.map M static/scripts/mvc/user/user-preferences.js Log Message: ----------- Users -> user in menu/interface usage. Commit: 42c090cb20e82bee50b8931aeeedca4e735f766b https://github.com/galaxyproject/galaxy/commit/42c090cb20e82bee50b8931aeeed… Author: Dannon Baker <dannon.baker(a)gmail.com> Date: 2017-03-02 (Thu, 02 Mar 2017) Changed paths: M client/galaxy/scripts/layout/menu.js M static/maps/layout/menu.js.map M static/scripts/bundled/libs.bundled.js M static/scripts/bundled/libs.bundled.js.map M static/scripts/layout/menu.js Log Message: ----------- Update users->user in the menu as well Commit: 2ee81a3faaef38547295f9a47f9f063423b40394 https://github.com/galaxyproject/galaxy/commit/2ee81a3faaef38547295f9a47f9f… Author: Dannon Baker <dannon.baker(a)gmail.com> Date: 2017-03-03 (Fri, 03 Mar 2017) Changed paths: M lib/galaxy/webapps/galaxy/buildapp.py Log Message: ----------- Client route priority is *last* Commit: b00dfc8a7b7bc739a84c5a229c161a917601d68a https://github.com/galaxyproject/galaxy/commit/b00dfc8a7b7bc739a84c5a229c16… Author: Dannon Baker <dannon.baker(a)gmail.com> Date: 2017-03-03 (Fri, 03 Mar 2017) Changed paths: M lib/galaxy/webapps/galaxy/buildapp.py Log Message: ----------- Remove extra empty line. Commit: 0fb9fbc3885eb11b7e49f97f6a129f9c0343e780 https://github.com/galaxyproject/galaxy/commit/0fb9fbc3885eb11b7e49f97f6a12… Author: Aysam Guerler <aysam.guerler(a)gmail.com> Date: 2017-03-03 (Fri, 03 Mar 2017) Changed paths: M client/galaxy/scripts/apps/analysis.js M client/galaxy/scripts/layout/menu.js M client/galaxy/scripts/mvc/user/user-preferences.js M lib/galaxy/webapps/galaxy/buildapp.py M static/maps/layout/menu.js.map M static/maps/mvc/user/user-preferences.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/layout/menu.js M static/scripts/mvc/user/user-preferences.js Log Message: ----------- Merge pull request #18 from dannon/ui_pref_routing User->Users Commit: 6e32b0f7c119ca6c3d54a761e64f49fe6a7f8280 https://github.com/galaxyproject/galaxy/commit/6e32b0f7c119ca6c3d54a761e64f… Author: guerler <aysam.guerler(a)gmail.com> Date: 2017-03-09 (Thu, 09 Mar 2017) Changed paths: M client/galaxy/scripts/apps/analysis.js M client/galaxy/scripts/mvc/dataset/dataset-li-edit.js M client/galaxy/scripts/mvc/tool/tools.js M static/maps/mvc/dataset/dataset-li-edit.js.map M static/maps/mvc/tool/tools.js.map M static/scripts/bundled/analysis.bundled.js M static/scripts/bundled/analysis.bundled.js.map M static/scripts/bundled/libs.bundled.js.map M static/scripts/mvc/dataset/dataset-li-edit.js M static/scripts/mvc/tool/tools.js Log Message: ----------- Use routing helper to navigate to tool form Commit: 5df0187d42d19c5a930bf067a52a2ef4cf9d3ec8 https://github.com/galaxyproject/galaxy/commit/5df0187d42d19c5a930bf067a52a… Author: guerler <aysam.guerler(a)gmail.com> Date: 2017-03-09 (Thu, 09 Mar 2017) Changed paths: M client/galaxy/scripts/mvc/history/hda-li.js M client/galaxy/scripts/mvc/ui/ui-select-content.js M client/galaxy/scripts/mvc/ui/ui-select-default.js M client/galaxy/scripts/mvc/upload/upload-ftp.js M client/galaxy/scripts/onload.js M client/galaxy/style/less/history.less M client/galaxy/style/less/ui.less M config/datatypes_conf.xml.sample M config/galaxy.ini.sample M config/plugins/interactive_environments/bam_iobio/config/bam_iobio.ini.sample M config/plugins/interactive_environments/jupyter/config/jupyter.ini.sample M config/plugins/interactive_environments/neo/config/neo.ini.sample M config/plugins/interactive_environments/phinch/config/phinch.ini.sample M config/plugins/interactive_environments/rstudio/config/rstudio.ini.sample A config/plugins/webhooks/demo/search/config/searchover.yaml A config/plugins/webhooks/demo/search/static/script.js A config/plugins/webhooks/demo/search/static/styles.css A cron/clean_docker_swarm_mode_services.sh M doc/source/admin/interactive_environments.rst M lib/galaxy/config.py M lib/galaxy/datatypes/mothur.py M lib/galaxy/datatypes/text.py M lib/galaxy/managers/hdas.py M lib/galaxy/managers/workflows.py M lib/galaxy/model/__init__.py M lib/galaxy/queue_worker.py M lib/galaxy/tools/actions/__init__.py M lib/galaxy/tools/deps/conda_util.py M lib/galaxy/tools/deps/resolvers/conda.py M lib/galaxy/tools/parameters/basic.py M lib/galaxy/util/json.py M lib/galaxy/web/base/controllers/admin.py M lib/galaxy/web/base/interactive_environments.py M lib/galaxy/workflow/steps.py M run_tests.sh A static/maps/analysis.js.map A static/maps/app.js.map A static/maps/app/analysis.js.map M static/maps/mvc/history/hda-li.js.map M static/maps/mvc/ui/ui-select-content.js.map M static/maps/mvc/ui/ui-select-default.js.map M static/maps/mvc/upload/upload-ftp.js.map M static/maps/onload.js.map A static/scripts/analysis.js A static/scripts/app.js A static/scripts/app/analysis.js 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 M static/scripts/bundled/login.bundled.js.map M static/scripts/mvc/history/hda-li.js M static/scripts/mvc/ui/ui-select-content.js M static/scripts/mvc/ui/ui-select-default.js M static/scripts/mvc/upload/upload-ftp.js M static/scripts/onload.js M static/style/blue/base.css M templates/webapps/galaxy/admin/index.mako A templates/webapps/galaxy/admin/manage_dependencies.mako M templates/webapps/tool_shed/repository/common.mako M test/TESTING.md M test/api/test_workflows.py M test/galaxy_selenium/has_driver.py M test/galaxy_selenium/navigates_galaxy.py M test/galaxy_selenium/navigation-data.yml A test/selenium_tests/test_collection_builders.py M test/unit/tools/test_data_parameters.py Log Message: ----------- Merge branch 'dev' into ui_pref_routing Commit: 9f498f9c4be7d1ba6cfba38a2cc8993f732c013b https://github.com/galaxyproject/galaxy/commit/9f498f9c4be7d1ba6cfba38a2cc8… Author: Dannon Baker <dannon.baker(a)gmail.com> Date: 2017-03-09 (Thu, 09 Mar 2017) Changed paths: M lib/galaxy/web/framework/base.py Log Message: ----------- Avoid reusing 'map' builtin Commit: 3ef22d2e6728bf890f14ef6465e88f757bd88b94 https://github.com/galaxyproject/galaxy/commit/3ef22d2e6728bf890f14ef6465e8… Author: Dannon Baker <dannon.baker(a)gmail.com> Date: 2017-03-09 (Thu, 09 Mar 2017) Changed paths: M lib/galaxy/web/framework/base.py Log Message: ----------- Slightly more accurate check to verify we have a controller match Commit: 675c375cad69affacda74521d7e88f5227160cb6 https://github.com/galaxyproject/galaxy/commit/675c375cad69affacda74521d7e8… Author: Dannon Baker <dannon.baker(a)gmail.com> Date: 2017-03-09 (Thu, 09 Mar 2017) Changed paths: M lib/galaxy/web/framework/base.py Log Message: ----------- A try at two layer routing with failthrough to clientside routes. Commit: 036d35ac643ace26f1bad289d1989d3db8971ff2 https://github.com/galaxyproject/galaxy/commit/036d35ac643ace26f1bad289d198… Author: Dannon Baker <dannon.baker(a)gmail.com> Date: 2017-03-09 (Thu, 09 Mar 2017) Changed paths: M lib/galaxy/web/framework/base.py Log Message: ----------- Slight refactoring to reduce duplication in map matching Commit: 66e6be890bedbf59f98b1d10a54146175524df8a https://github.com/galaxyproject/galaxy/commit/66e6be890bedbf59f98b1d10a541… Author: Dannon Baker <dannon.baker(a)gmail.com> Date: 2017-03-09 (Thu, 09 Mar 2017) Changed paths: M lib/galaxy/web/framework/base.py Log Message: ----------- No need to check API routes against clientside mapper, catch specific exception Commit: bf88e891977da140d36ba9a627ffebf19178b290 https://github.com/galaxyproject/galaxy/commit/bf88e891977da140d36ba9a627ff… Author: Aysam Guerler <aysam.guerler(a)gmail.com> Date: 2017-03-10 (Fri, 10 Mar 2017) Changed paths: M lib/galaxy/web/framework/base.py Log Message: ----------- Merge pull request #20 from dannon/ui_pref_routing Ui pref routing Commit: df73622becc820017a1873db00f64fdcbb6de27a https://github.com/galaxyproject/galaxy/commit/df73622becc820017a1873db00f6… Author: guerler <aysam.guerler(a)gmail.com> Date: 2017-03-10 (Fri, 10 Mar 2017) Changed paths: M lib/galaxy/web/base/controllers/admin.py Log Message: ----------- Fix route used in admin controller Commit: 05a689e2adf455f461556fa1aa9229cf4f0454ff https://github.com/galaxyproject/galaxy/commit/05a689e2adf455f461556fa1aa92… Author: guerler <aysam.guerler(a)gmail.com> Date: 2017-03-10 (Fri, 10 Mar 2017) Changed paths: M client/galaxy/scripts/onload.js M config/plugins/webhooks/demo/search/static/script.js M lib/galaxy/model/__init__.py M lib/galaxy/queue_worker.py M lib/galaxy/webapps/galaxy/controllers/admin.py M static/maps/onload.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 M static/scripts/bundled/login.bundled.js.map M static/scripts/onload.js Log Message: ----------- Merge branch 'dev' into ui_pref_routing Commit: 20916c16a9861cf1f491173cbded2bac0b61f378 https://github.com/galaxyproject/galaxy/commit/20916c16a9861cf1f491173cbded… Author: guerler <aysam.guerler(a)gmail.com> Date: 2017-03-10 (Fri, 10 Mar 2017) Changed paths: M client/galaxy/scripts/layout/menu.js M client/galaxy/scripts/mvc/user/user-preferences.js M static/maps/layout/menu.js.map M static/maps/mvc/user/user-preferences.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/layout/menu.js M static/scripts/mvc/user/user-preferences.js Log Message: ----------- Remove back button to simplify routing, avoid failing returns Commit: 7523ff6983bd6511725509ae4f4d744b36223b97 https://github.com/galaxyproject/galaxy/commit/7523ff6983bd6511725509ae4f4d… Author: guerler <aysam.guerler(a)gmail.com> Date: 2017-03-10 (Fri, 10 Mar 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: ----------- Add random identifier to request url in order to allow proper reload upon multiple navigation requests Commit: 38336e7e94b15b1580e32e4d0b4321836791db9b https://github.com/galaxyproject/galaxy/commit/38336e7e94b15b1580e32e4d0b43… Author: guerler <aysam.guerler(a)gmail.com> Date: 2017-03-13 (Mon, 13 Mar 2017) Changed paths: M config/dependency_resolvers_conf.xml.sample M doc/source/admin/dependency_resolvers.rst M lib/galaxy/tools/deps/__init__.py M lib/galaxy/tools/deps/conda_util.py M lib/galaxy/tools/deps/resolvers/__init__.py M lib/galaxy/tools/deps/resolvers/conda.py M lib/galaxy/tools/deps/views.py M lib/galaxy/web/base/controllers/admin.py M lib/galaxy/webapps/galaxy/api/tools.py M lib/galaxy/webapps/galaxy/buildapp.py M templates/webapps/galaxy/admin/manage_dependencies.mako M test/integration/test_resolvers.py Log Message: ----------- Merge branch 'dev' into ui_pref_routing Commit: e9c98e46ed580463a4f7a4ed989d11f7714ac13f https://github.com/galaxyproject/galaxy/commit/e9c98e46ed580463a4f7a4ed989d… Author: Dannon Baker <dannon.baker(a)gmail.com> Date: 2017-03-14 (Tue, 14 Mar 2017) Changed paths: M lib/galaxy/web/framework/base.py Log Message: ----------- Don't have the clientside mapper register itself Commit: 3b0be252e3485b413d7978a91b14242b589702c5 https://github.com/galaxyproject/galaxy/commit/3b0be252e3485b413d7978a91b14… Author: Dannon Baker <dannon.baker(a)gmail.com> Date: 2017-03-14 (Tue, 14 Mar 2017) Changed paths: M lib/galaxy/web/framework/base.py Log Message: ----------- Remove old deprecated option (explicit is defined at mapper instantiation, and we wat the default Commit: 93c2286442bbb27e9dd3db708064e6f3deb45287 https://github.com/galaxyproject/galaxy/commit/93c2286442bbb27e9dd3db708064… Author: Dannon Baker <dannon.baker(a)gmail.com> Date: 2017-03-14 (Tue, 14 Mar 2017) Changed paths: M lib/galaxy/web/framework/base.py Log Message: ----------- Initialize clientside_routes regexes. Commit: 061b7d78f26d4aa1298a3a072fcc420d214d4f7b https://github.com/galaxyproject/galaxy/commit/061b7d78f26d4aa1298a3a072fcc… Author: Dannon Baker <dannon.baker(a)gmail.com> Date: 2017-03-14 (Tue, 14 Mar 2017) Changed paths: M lib/galaxy/web/framework/base.py Log Message: ----------- Refactor failthrough mapping logic Commit: 550bc423af0cb036d1a870c0c419533f25517bbf https://github.com/galaxyproject/galaxy/commit/550bc423af0cb036d1a870c0c419… Author: Dannon Baker <dannon.baker(a)gmail.com> Date: 2017-03-14 (Tue, 14 Mar 2017) Changed paths: M lib/galaxy/web/framework/base.py Log Message: ----------- Rename parameter, make it a bit more clear what this failthrough logic is doing. Commit: 44fd8aa9bbc77680083eb71d30840a41ce1f79ee https://github.com/galaxyproject/galaxy/commit/44fd8aa9bbc77680083eb71d3084… Author: Aysam Guerler <aysam.guerler(a)gmail.com> Date: 2017-03-14 (Tue, 14 Mar 2017) Changed paths: M lib/galaxy/web/framework/base.py Log Message: ----------- Merge pull request #21 from dannon/ui_pref_routing Don't have the clientside mapper register itself Commit: 0498c7f833fad513e2ca878843938e378475202b https://github.com/galaxyproject/galaxy/commit/0498c7f833fad513e2ca87884393… Author: Dannon Baker <dannon.baker(a)gmail.com> Date: 2017-03-15 (Wed, 15 Mar 2017) Changed paths: M client/galaxy/scripts/apps/analysis.js M client/galaxy/scripts/layout/menu.js M client/galaxy/scripts/mvc/dataset/dataset-li-edit.js M client/galaxy/scripts/mvc/grid/grid-template.js M client/galaxy/scripts/mvc/grid/grid-view.js M client/galaxy/scripts/mvc/tool/tools.js M client/galaxy/scripts/mvc/user/user-preferences.js M lib/galaxy/web/base/controllers/admin.py M lib/galaxy/web/framework/base.py M lib/galaxy/web/framework/helpers/grids.py M lib/galaxy/webapps/galaxy/buildapp.py M lib/galaxy/webapps/galaxy/controllers/admin.py M lib/galaxy/webapps/galaxy/controllers/dataset.py M lib/galaxy/webapps/galaxy/controllers/history.py M lib/galaxy/webapps/galaxy/controllers/user.py M lib/galaxy/webapps/galaxy/controllers/visualization.py M lib/tool_shed/galaxy_install/grids/admin_toolshed_grids.py M static/maps/layout/menu.js.map M static/maps/mvc/dataset/dataset-li-edit.js.map M static/maps/mvc/grid/grid-template.js.map M static/maps/mvc/grid/grid-view.js.map M static/maps/mvc/tool/tools.js.map M static/maps/mvc/user/user-preferences.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/layout/menu.js M static/scripts/mvc/dataset/dataset-li-edit.js M static/scripts/mvc/grid/grid-template.js M static/scripts/mvc/grid/grid-view.js M static/scripts/mvc/tool/tools.js M static/scripts/mvc/user/user-preferences.js M templates/grid_base.mako R templates/webapps/galaxy/user/manage_info.mako Log Message: ----------- Merge pull request #3446 from guerler/ui_pref_routing Improve routing for user preference views Compare: https://github.com/galaxyproject/galaxy/compare/149bbf87e3d5...0498c7f833fa

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[galaxyproject/galaxy] 08f66a: GIE container waiting and swarm management.
by GitHub 15 Mar '17

15 Mar '17

Branch: refs/heads/dev Home: https://github.com/galaxyproject/galaxy Commit: 08f66a924b8a46d673fc6237dec3a4e8fcb34f21 https://github.com/galaxyproject/galaxy/commit/08f66a924b8a46d673fc6237dec3… Author: Nate Coraor <nate(a)bx.psu.edu> Date: 2017-03-13 (Mon, 13 Mar 2017) Changed paths: M client/galaxy/scripts/galaxy.interactive_environments.js M config/galaxy.ini.sample M config/plugins/interactive_environments/bam_iobio/static/js/bam_iobio.js M config/plugins/interactive_environments/bam_iobio/templates/bam_iobio.mako M config/plugins/interactive_environments/common/templates/ie.mako M config/plugins/interactive_environments/jupyter/static/js/jupyter.js M config/plugins/interactive_environments/jupyter/templates/jupyter.mako M config/plugins/interactive_environments/neo/static/js/neo.js M config/plugins/interactive_environments/neo/templates/neo.mako M config/plugins/interactive_environments/phinch/static/js/phinch.js M config/plugins/interactive_environments/phinch/templates/phinch.mako M config/plugins/interactive_environments/rstudio/static/js/rstudio.js M config/plugins/interactive_environments/rstudio/templates/rstudio.mako A config/swarm_manager_conf.yml.sample R cron/clean_docker_swarm_mode_services.sh M doc/source/admin/interactive_environments.rst M lib/galaxy/config.py A lib/galaxy/container/__init__.py A lib/galaxy/container/docker_swarm.py M lib/galaxy/web/base/interactive_environments.py M lib/galaxy/web/proxy/__init__.py M lib/galaxy/web/proxy/js/lib/mapper.js A lib/galaxy/webapps/galaxy/controllers/interactive_environments.py M static/maps/galaxy.interactive_environments.js.map M static/scripts/galaxy.interactive_environments.js Log Message: ----------- GIE container waiting and swarm management. 1. Create a new API endpoint and client spin to wait for GIE containers to become ready. IEs are not required to use it, but usage does require a slight change to their `load_notebook()` functions. 2. Add a Docker swarm manager daemon that runs automatically to add nodes when services are waiting, clean up exited services, and remove idle nodes. Shuts down automatically when there's nothing to do. The format of the GIE proxy session database has changed, if GIEs are running when you restart Galaxy, they will be interrupted. If you run the GIE proxy separate from Galaxy, you should restart it after upgrading. Commit: 149bbf87e3d57ffe22c51c283a94fbec33542f05 https://github.com/galaxyproject/galaxy/commit/149bbf87e3d57ffe22c51c283a94… Author: John Chilton <jmchilton(a)gmail.com> Date: 2017-03-15 (Wed, 15 Mar 2017) Changed paths: M client/galaxy/scripts/galaxy.interactive_environments.js M config/galaxy.ini.sample M config/plugins/interactive_environments/bam_iobio/static/js/bam_iobio.js M config/plugins/interactive_environments/bam_iobio/templates/bam_iobio.mako M config/plugins/interactive_environments/common/templates/ie.mako M config/plugins/interactive_environments/jupyter/static/js/jupyter.js M config/plugins/interactive_environments/jupyter/templates/jupyter.mako M config/plugins/interactive_environments/neo/static/js/neo.js M config/plugins/interactive_environments/neo/templates/neo.mako M config/plugins/interactive_environments/phinch/static/js/phinch.js M config/plugins/interactive_environments/phinch/templates/phinch.mako M config/plugins/interactive_environments/rstudio/static/js/rstudio.js M config/plugins/interactive_environments/rstudio/templates/rstudio.mako A config/swarm_manager_conf.yml.sample R cron/clean_docker_swarm_mode_services.sh M doc/source/admin/interactive_environments.rst M lib/galaxy/config.py A lib/galaxy/container/__init__.py A lib/galaxy/container/docker_swarm.py M lib/galaxy/web/base/interactive_environments.py M lib/galaxy/web/proxy/__init__.py M lib/galaxy/web/proxy/js/lib/mapper.js A lib/galaxy/webapps/galaxy/controllers/interactive_environments.py M static/maps/galaxy.interactive_environments.js.map M static/scripts/galaxy.interactive_environments.js Log Message: ----------- Merge pull request #3740 from natefoo/docker-swarm-mode-wait Interactive Environment container waiting and swarm management Compare: https://github.com/galaxyproject/galaxy/compare/aaa28071b3ac...149bbf87e3d5

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[galaxyproject/galaxy] 88fb86: Bump routes to 2.4.1, fix (newly?) broken archive ...
by GitHub 15 Mar '17

15 Mar '17

Branch: refs/heads/dev Home: https://github.com/galaxyproject/galaxy Commit: 88fb8650b9699a50348ddece8d336797aacd03c5 https://github.com/galaxyproject/galaxy/commit/88fb8650b9699a50348ddece8d33… Author: Dannon Baker <dannon.baker(a)gmail.com> Date: 2017-03-14 (Tue, 14 Mar 2017) Changed paths: M lib/galaxy/dependencies/pinned-requirements.txt M lib/galaxy/webapps/galaxy/buildapp.py Log Message: ----------- Bump routes to 2.4.1, fix (newly?) broken archive route. Commit: 6700c08a96467d322e917347a63f1ec8c932700e https://github.com/galaxyproject/galaxy/commit/6700c08a96467d322e917347a63f… Author: Dannon Baker <dannon.baker(a)gmail.com> Date: 2017-03-14 (Tue, 14 Mar 2017) Changed paths: M lib/galaxy/dependencies/pinned-hashed-requirements.txt Log Message: ----------- Update Routes 2.4.1 hash Commit: aaa28071b3acaad514157dae856cb2f5a4895eef https://github.com/galaxyproject/galaxy/commit/aaa28071b3acaad514157dae856c… Author: John Chilton <jmchilton(a)gmail.com> Date: 2017-03-15 (Wed, 15 Mar 2017) Changed paths: M lib/galaxy/dependencies/pinned-hashed-requirements.txt M lib/galaxy/dependencies/pinned-requirements.txt M lib/galaxy/webapps/galaxy/buildapp.py Log Message: ----------- Merge pull request #3752 from dannon/routes-bump Bump routes to 2.4.1 Compare: https://github.com/galaxyproject/galaxy/compare/4f27240ef760...aaa28071b3ac

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[galaxyproject/galaxy] 01e1bc: Added percolator proteomics datatypes for input an...
by GitHub 15 Mar '17

15 Mar '17

Branch: refs/heads/dev Home: https://github.com/galaxyproject/galaxy Commit: 01e1bc6f3007aff1234e518977115c97bd20e1eb https://github.com/galaxyproject/galaxy/commit/01e1bc6f3007aff1234e51897711… Author: Jorrit Boekel <jorrit.boekel(a)scilifelab.se> Date: 2017-03-10 (Fri, 10 Mar 2017) Changed paths: M config/datatypes_conf.xml.sample Log Message: ----------- Added percolator proteomics datatypes for input and output Commit: 4f27240ef760446743b7b774404f159b713ae3ce https://github.com/galaxyproject/galaxy/commit/4f27240ef760446743b7b774404f… Author: John Chilton <jmchilton(a)gmail.com> Date: 2017-03-15 (Wed, 15 Mar 2017) Changed paths: M config/datatypes_conf.xml.sample Log Message: ----------- Merge pull request #3737 from glormph/percolator_datatypes Percolator out datatypes Compare: https://github.com/galaxyproject/galaxy/compare/65e7ee0c78e5...4f27240ef760

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