Branch: refs/heads/dev Home: https://github.com/galaxyproject/galaxy Commit: 778aa301e344b2755714a318e7f4db8599b4444f https://github.com/galaxyproject/galaxy/commit/778aa301e344b2755714a318e7f4d... Author: guerler <aysam.guerler@gmail.com> Date: 2018-12-05 (Wed, 05 Dec 2018) Changed paths: M client/galaxy/scripts/apps/admin.js Log Message: ----------- Add registration routes to admin app Commit: 8b76d7e8075d2aa777e2e5af4585df4e0f672557 https://github.com/galaxyproject/galaxy/commit/8b76d7e8075d2aa777e2e5af4585d... Author: guerler <aysam.guerler@gmail.com> Date: 2018-12-05 (Wed, 05 Dec 2018) Changed paths: A client/galaxy/scripts/components/login/Index.vue Log Message: ----------- Add shared login/registration vue Commit: 63db28c853a19506f9dcc28e5f5ad7083418ad71 https://github.com/galaxyproject/galaxy/commit/63db28c853a19506f9dcc28e5f5ad... Author: guerler <aysam.guerler@gmail.com> Date: 2018-12-05 (Wed, 05 Dec 2018) Changed paths: A client/galaxy/scripts/components/login/Register.vue Log Message: ----------- Add registration vue Commit: 68165da79f5e1cdcc59d8c53e2fea6ef6b7ab82b https://github.com/galaxyproject/galaxy/commit/68165da79f5e1cdcc59d8c53e2fea... Author: guerler <aysam.guerler@gmail.com> Date: 2018-12-05 (Wed, 05 Dec 2018) Changed paths: M client/galaxy/scripts/layout/menu.js Log Message: ----------- Adjust masthead to new registration route Commit: 9ed6b9dadb8b6aba796265e5c1dce0d3ff31c239 https://github.com/galaxyproject/galaxy/commit/9ed6b9dadb8b6aba796265e5c1dce... Author: guerler <aysam.guerler@gmail.com> Date: 2018-12-05 (Wed, 05 Dec 2018) Changed paths: M lib/galaxy/managers/configuration.py Log Message: ----------- Add required configuration attributes to serializer Commit: 487fbdace397d9b3a8a487449e4f82e82f76b910 https://github.com/galaxyproject/galaxy/commit/487fbdace397d9b3a8a487449e4f8... Author: guerler <aysam.guerler@gmail.com> Date: 2018-12-05 (Wed, 05 Dec 2018) Changed paths: M lib/galaxy/managers/users.py Log Message: ----------- Add registration features to user manager Commit: e49d03a68d92cc1fa26d79c249e3e17fe903c06a https://github.com/galaxyproject/galaxy/commit/e49d03a68d92cc1fa26d79c249e3e... Author: guerler <aysam.guerler@gmail.com> Date: 2018-12-05 (Wed, 05 Dec 2018) Changed paths: M lib/galaxy/webapps/galaxy/buildapp.py M lib/galaxy/webapps/galaxy/controllers/admin.py Log Message: ----------- Augment admin controller Commit: 3a29c9b3f2020328bcab617db9090f68b1fae94d https://github.com/galaxyproject/galaxy/commit/3a29c9b3f2020328bcab617db9090... Author: guerler <aysam.guerler@gmail.com> Date: 2018-12-05 (Wed, 05 Dec 2018) Changed paths: M lib/galaxy/webapps/galaxy/controllers/user.py Log Message: ----------- Use user managers registration feature in user controller Commit: f256dff7a39747e1f44c3848de0cd95f81b36893 https://github.com/galaxyproject/galaxy/commit/f256dff7a39747e1f44c3848de0cd... Author: guerler <aysam.guerler@gmail.com> Date: 2018-12-05 (Wed, 05 Dec 2018) Changed paths: R templates/user/register.mako A templates/webapps/tool_shed/user/register.mako Log Message: ----------- Move unused register mako to toolshed Commit: 323df2a81d33bd1eb6b626bc294c23a18b0bf1d8 https://github.com/galaxyproject/galaxy/commit/323df2a81d33bd1eb6b626bc294c2... Author: guerler <aysam.guerler@gmail.com> Date: 2018-12-05 (Wed, 05 Dec 2018) Changed paths: M templates/webapps/tool_shed/user/register.mako Log Message: ----------- Revise registration mako Commit: 63597b2faa3ef32d278ab88ab66ac49e91026c50 https://github.com/galaxyproject/galaxy/commit/63597b2faa3ef32d278ab88ab66ac... Author: guerler <aysam.guerler@gmail.com> Date: 2018-12-05 (Wed, 05 Dec 2018) Changed paths: M client/galaxy/scripts/apps/login.js Log Message: ----------- Adjust login app Commit: 15fe780ba6dd3b3a26c7c9777e1fe19570662099 https://github.com/galaxyproject/galaxy/commit/15fe780ba6dd3b3a26c7c9777e1fe... Author: guerler <aysam.guerler@gmail.com> Date: 2018-12-07 (Fri, 07 Dec 2018) Changed paths: M lib/galaxy/webapps/galaxy/controllers/user.py M lib/galaxy/webapps/tool_shed/controllers/user.py Log Message: ----------- Move legacy registration features to toolshed Commit: 0b0ec5b806e982cfce2db6bd5bbd327140e8f9c6 https://github.com/galaxyproject/galaxy/commit/0b0ec5b806e982cfce2db6bd5bbd3... Author: guerler <aysam.guerler@gmail.com> Date: 2018-12-07 (Fri, 07 Dec 2018) Changed paths: M lib/galaxy/webapps/tool_shed/controllers/user.py M templates/webapps/tool_shed/user/login.mako M test/shed_functional/base/twilltestcase.py Log Message: ----------- Restore legacy toolshed login form styles Commit: 754b6a7e074349b5b5246177f90f1bba37211e5b https://github.com/galaxyproject/galaxy/commit/754b6a7e074349b5b5246177f90f1... Author: guerler <aysam.guerler@gmail.com> Date: 2018-12-08 (Sat, 08 Dec 2018) Changed paths: M client/galaxy/scripts/components/login/Login.vue M client/galaxy/scripts/components/login/Register.vue M test/galaxy_selenium/navigates_galaxy.py M test/galaxy_selenium/navigation.yml M test/selenium_tests/test_registration.py Log Message: ----------- Fix selenium tests Commit: fdc6557ab67e3621e3fa37bb5a19412d992b5069 https://github.com/galaxyproject/galaxy/commit/fdc6557ab67e3621e3fa37bb5a194... 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scripts/galaxy-main M scripts/grt/export.py M scripts/grt/grt.yml.sample M static/welcome.html.sample R templates/admin/tool_errors.mako M templates/admin/tool_shed_repository/common.mako M templates/admin/tool_shed_repository/manage_repository.mako M templates/base.mako M templates/base/base_panels.mako M templates/display_base.mako M templates/galaxy_client_app.mako M templates/js-app.mako M templates/legacy/grid_base.mako M templates/message.mako M templates/no_access.mako M templates/refresh_frames.mako M templates/slug_editing_js.mako M templates/tagging_common.mako A templates/user/index.mako M templates/user/logout.mako R templates/webapps/galaxy/admin/view_display_applications.mako M templates/webapps/galaxy/base_panels.mako M templates/webapps/galaxy/dataset/copy_view.mako M templates/webapps/galaxy/dataset/display.mako M templates/webapps/galaxy/dataset/tabular_chunked.mako M templates/webapps/galaxy/galaxy.masthead.mako M templates/webapps/galaxy/galaxy.panels.mako M 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tools/filters/changeCase.xml M tools/filters/fileGrep.xml M tools/filters/fixedValueColumn.xml M tools/filters/gff/gff_filter_by_attribute.xml M tools/filters/gff/gff_filter_by_feature_count.xml M tools/filters/grep.xml M tools/filters/headWrapper.xml M tools/filters/randomlines.xml M tools/filters/remove_beginning.xml M tools/filters/tailWrapper.xml M tools/filters/uniq.xml M tools/filters/wig_to_bigwig.xml M tools/maf/vcf_to_maf_customtrack.xml M tools/metag_tools/blat_wrapper.xml M tools/metag_tools/shrimp_color_wrapper.xml M tools/metag_tools/shrimp_wrapper.xml M tools/plotting/bar_chart.xml M tools/plotting/boxplot.xml M tools/solid_tools/maq_cs_wrapper.xml M tools/sr_mapping/PerM.xml M tools/sr_mapping/bfast_wrapper.xml M tools/stats/filtering.xml M tools/stats/grouping.py M tools/stats/grouping.xml M tools/stats/gsummary.xml M tools/stats/gsummary.xml.groups M tox.ini Log Message: ----------- Merge branch 'dev' into registration_mako Commit: 4ef0575840c5bfff53fa4ad6fe582aa17eaca77d https://github.com/galaxyproject/galaxy/commit/4ef0575840c5bfff53fa4ad6fe582... Author: guerler <aysam.guerler@gmail.com> Date: 2019-01-18 (Fri, 18 Jan 2019) Changed paths: M client/galaxy/scripts/components/login/Index.vue Log Message: ----------- Strip openid legacy from registration Commit: 142f8aa9c699e249740ff0f5b60aaaaf89e49537 https://github.com/galaxyproject/galaxy/commit/142f8aa9c699e249740ff0f5b60aa... Author: guerler <aysam.guerler@gmail.com> Date: 2019-01-18 (Fri, 18 Jan 2019) Changed paths: M client/galaxy/scripts/components/login/Index.vue Log Message: ----------- Remove unused axios import in login index vue Commit: 29fa76c74ff73cbc09107924160426470fbdb6c0 https://github.com/galaxyproject/galaxy/commit/29fa76c74ff73cbc0910792416042... Author: guerler <aysam.guerler@gmail.com> Date: 2019-01-18 (Fri, 18 Jan 2019) Changed paths: M client/galaxy/scripts/components/login/Index.vue M client/galaxy/scripts/components/login/Register.vue Log Message: ----------- Fix access to galaxy root in registration vue Commit: e3edd7a6c194e6d09c0aa9bafe8f0e21d470c53d https://github.com/galaxyproject/galaxy/commit/e3edd7a6c194e6d09c0aa9bafe8f0... Author: guerler <aysam.guerler@gmail.com> Date: 2019-01-18 (Fri, 18 Jan 2019) Changed paths: M lib/galaxy/managers/users.py Log Message: ----------- Fix activation link submission order Commit: c906f84654977928051c9135bd628c0a1c518383 https://github.com/galaxyproject/galaxy/commit/c906f84654977928051c9135bd628... Author: guerler <aysam.guerler@gmail.com> Date: 2019-01-18 (Fri, 18 Jan 2019) Changed paths: M lib/galaxy/managers/users.py Log Message: ----------- Allow users to register and login if initial activation email submission fails Commit: d8cc0336b2c5aba9552c417de2fc1845d459cfe2 https://github.com/galaxyproject/galaxy/commit/d8cc0336b2c5aba9552c417de2fc1... Author: guerler <aysam.guerler@gmail.com> Date: 2019-01-22 (Tue, 22 Jan 2019) Changed paths: M client/galaxy/scripts/mvc/history/history-view-edit.js M client/galaxy/scripts/mvc/workflow/workflow-manager.js M lib/galaxy/actions/library.py M lib/galaxy/datatypes/data.py M lib/galaxy/datatypes/genetics.py M lib/galaxy/datatypes/interval.py M lib/galaxy/datatypes/sniff.py M lib/galaxy/datatypes/tabular.py M lib/galaxy/exceptions/__init__.py M lib/galaxy/managers/workflows.py M lib/galaxy/webapps/galaxy/api/library_contents.py M lib/galaxy/webapps/galaxy/api/library_datasets.py M lib/galaxy/webapps/galaxy/controllers/admin_toolshed.py M lib/galaxy/webapps/galaxy/controllers/dataset.py M lib/galaxy/webapps/galaxy/controllers/root.py M lib/galaxy/webapps/galaxy/controllers/workflow.py M lib/galaxy/webapps/tool_shed/controllers/repository.py M lib/galaxy/workflow/modules.py M tools/data_source/data_source.py Log Message: ----------- Merge branch 'dev' into registration_mako Commit: 31d511b5269a2f848c600c702109b2d10fb3c7f3 https://github.com/galaxyproject/galaxy/commit/31d511b5269a2f848c600c702109b... Author: guerler <aysam.guerler@gmail.com> Date: 2019-01-29 (Tue, 29 Jan 2019) Changed paths: M .ci/jenkins/selenium-py3/run_tests.sh M .ci/jenkins/selenium/run_tests.sh M .gitignore M client/galaxy/scripts/components/RuleCollectionBuilder.vue M client/galaxy/scripts/layout/menu.js M client/galaxy/scripts/mvc/dataset/dataset-edit-attributes.js M client/galaxy/scripts/mvc/dataset/dataset-error.js M client/galaxy/scripts/mvc/library/library-dataset-view.js M client/galaxy/scripts/mvc/library/library-folderrow-view.js M client/galaxy/scripts/mvc/library/library-foldertoolbar-view.js M client/galaxy/scripts/mvc/library/library-libraryrow-view.js M client/galaxy/scripts/mvc/library/library-librarytoolbar-view.js M client/galaxy/scripts/mvc/rules/rule-definitions.js M client/galaxy/scripts/toolshed/groups/group-detail-view.js M config/galaxy.yml.sample M config/tool_shed.yml.sample M doc/source/admin/authentication.md M doc/source/admin/config.rst M doc/source/admin/galaxy_options.rst R doc/source/lib/galaxy.openid.rst M doc/source/lib/galaxy.rst M doc/source/lib/galaxy.web.framework.rst M lib/galaxy/config.py M lib/galaxy/datatypes/isa.py M lib/galaxy/dependencies/__init__.py M lib/galaxy/dependencies/conditional-requirements.txt M lib/galaxy/dependencies/pipfiles/default/pinned-requirements.txt M lib/galaxy/jobs/runners/drmaa.py M lib/galaxy/managers/datasets.py M lib/galaxy/managers/jobs.py M lib/galaxy/model/__init__.py M lib/galaxy/util/__init__.py M lib/galaxy/util/filelock.py M lib/galaxy/webapps/galaxy/api/authenticate.py M lib/galaxy/webapps/galaxy/api/libraries.py M lib/galaxy/webapps/galaxy/api/library_datasets.py M lib/galaxy/webapps/galaxy/config_schema.yml M lib/galaxy/webapps/galaxy/controllers/admin_toolshed.py M lib/galaxy/workflow/modules.py M run_tests.sh M templates/user/logout.mako M test/api/test_histories.py M test/unit/test_utils.py M tools/filters/sff_extract.py Log Message: ----------- Merge branch 'dev' into registration_mako Commit: 4a155c7cbf2fdc2684237595764f013a2caac30c https://github.com/galaxyproject/galaxy/commit/4a155c7cbf2fdc2684237595764f0... Author: guerler <aysam.guerler@gmail.com> Date: 2019-01-29 (Tue, 29 Jan 2019) Changed paths: M test/selenium_tests/test_registration.py Log Message: ----------- Fix registration error message content Commit: a618905b7c626a8c0a42d1f4768844c1c9f7565c https://github.com/galaxyproject/galaxy/commit/a618905b7c626a8c0a42d1f476884... Author: guerler <aysam.guerler@gmail.com> Date: 2019-02-04 (Mon, 04 Feb 2019) Changed paths: M .travis.yml M config/datatypes_conf.xml.sample M cron/add_manual_builds.py M doc/source/admin/cluster.md M lib/galaxy/actions/library.py M lib/galaxy/dependencies/pipfiles/default/pinned-dev-requirements.txt M lib/galaxy/dependencies/pipfiles/default/pinned-requirements.txt M lib/galaxy/dependencies/pipfiles/flake8/pinned-requirements.txt M lib/galaxy/jobs/dynamic_tool_destination.py M lib/galaxy/jobs/runners/pulsar.py M lib/galaxy/managers/jobs.py M lib/galaxy/tools/imp_exp/__init__.py M lib/galaxy/tools/parameters/basic.py M lib/galaxy/tools/parameters/meta.py M lib/galaxy/tools/verify/__init__.py M lib/galaxy/tools/verify/interactor.py M lib/galaxy/util/hash_util.py M lib/galaxy/webapps/galaxy/api/toolshed.py M scripts/check_python.py M templates/webapps/galaxy/workflow/display.mako M test/api/test_workflows.py M test/functional/test_toolbox.py M test/galaxy_selenium/cli.py M test/galaxy_selenium/driver_factory.py M test/galaxy_selenium/navigates_galaxy.py M test/selenium_tests/framework.py M tools/maf/maf_to_bed.py M tools/phenotype_association/senatag.py M tools/stats/gsummary.py M tox.ini Log Message: ----------- Merge branch 'dev' into registration_mako Commit: 60d9592bcaddefbcd824933ac09d123994785a50 https://github.com/galaxyproject/galaxy/commit/60d9592bcaddefbcd824933ac09d1... Author: Dannon Baker <dannon.baker@gmail.com> Date: 2019-02-05 (Tue, 05 Feb 2019) Changed paths: M client/galaxy/scripts/components/login/Index.vue M client/galaxy/scripts/components/login/Register.vue M client/galaxy/scripts/entry/admin/AdminRouter.js M client/galaxy/scripts/layout/menu.js M client/galaxy/scripts/mvc/upload/collection/collection-view.js M client/galaxy/scripts/mvc/upload/composite/composite-row.js M client/galaxy/scripts/mvc/upload/composite/composite-view.js Log Message: ----------- Client format sync. Commit: de886ef3c64d08338016d524fe8157b3651fb391 https://github.com/galaxyproject/galaxy/commit/de886ef3c64d08338016d524fe815... Author: Dannon Baker <dannon.baker@gmail.com> Date: 2019-02-05 (Tue, 05 Feb 2019) Changed paths: M client/galaxy/scripts/components/login/Register.vue Log Message: ----------- Constrain registration form to match the login form's sizing (looks much better this way) Commit: 948ecfadf1236db0953c8b6926bff6e1d7537ccb https://github.com/galaxyproject/galaxy/commit/948ecfadf1236db0953c8b6926bff... Author: Dannon Baker <dannon.baker@gmail.com> Date: 2019-02-06 (Wed, 06 Feb 2019) Changed paths: M client/galaxy/scripts/components/login/Index.vue M client/galaxy/scripts/components/login/Login.vue M client/galaxy/scripts/components/login/Register.vue Log Message: ----------- Swap from tabs to a toggle with some ushering text. Commit: a960d0086b29ecc746247e2d77c74a375d8e4d0e https://github.com/galaxyproject/galaxy/commit/a960d0086b29ecc746247e2d77c74... Author: Dannon Baker <dannon.baker@gmail.com> Date: 2019-02-06 (Wed, 06 Feb 2019) Changed paths: M client/galaxy/scripts/components/login/Login.vue M client/galaxy/scripts/components/login/Register.vue Log Message: ----------- Fix link highlights in footer, slightly modify header for register card. Commit: f8d9dee591a9a1a2b5a203fa97bd0de4710c3ac6 https://github.com/galaxyproject/galaxy/commit/f8d9dee591a9a1a2b5a203fa97bd0... Author: Dannon Baker <dannon.baker@gmail.com> Date: 2019-02-06 (Wed, 06 Feb 2019) Changed paths: M client/galaxy/scripts/components/login/Login.vue M client/galaxy/scripts/components/login/Register.vue Log Message: ----------- Since we're not using the router yet for swapping (we will, instead of toggling as was done here), use click.prevent. Commit: 9da2367a023e057c8f3ab3f9685fdcfcf93ec215 https://github.com/galaxyproject/galaxy/commit/9da2367a023e057c8f3ab3f9685fd... Author: Dannon Baker <dannon.baker@gmail.com> Date: 2019-02-06 (Wed, 06 Feb 2019) Changed paths: M client/galaxy/scripts/components/login/Index.vue Log Message: ----------- Drop unused debug Commit: 5524805800ca4847a40b277d61daa8be7f784605 https://github.com/galaxyproject/galaxy/commit/5524805800ca4847a40b277d61daa... Author: Dannon Baker <dannon.baker@gmail.com> Date: 2019-02-06 (Wed, 06 Feb 2019) Changed paths: M client/galaxy/scripts/components/login/Login.vue M client/galaxy/scripts/components/login/Register.vue M test/galaxy_selenium/navigates_galaxy.py M test/galaxy_selenium/navigation.yml Log Message: ----------- Fix login/register selenium navigation targets. Commit: a74376abec87fb85200db674124842d788117208 https://github.com/galaxyproject/galaxy/commit/a74376abec87fb85200db67412484... Author: Dannon <dannon.baker@gmail.com> Date: 2019-02-06 (Wed, 06 Feb 2019) Changed paths: A client/galaxy/scripts/components/login/Index.vue M client/galaxy/scripts/components/login/Login.vue A client/galaxy/scripts/components/login/Register.vue M client/galaxy/scripts/entry/admin/AdminRouter.js M client/galaxy/scripts/entry/login/index.js M client/galaxy/scripts/layout/menu.js M client/galaxy/scripts/mvc/upload/collection/collection-view.js M client/galaxy/scripts/mvc/upload/composite/composite-row.js M client/galaxy/scripts/mvc/upload/composite/composite-view.js M lib/galaxy/managers/configuration.py M lib/galaxy/managers/users.py M lib/galaxy/webapps/galaxy/buildapp.py M lib/galaxy/webapps/galaxy/controllers/admin.py M lib/galaxy/webapps/galaxy/controllers/user.py M lib/galaxy/webapps/tool_shed/controllers/user.py R templates/user/register.mako M templates/webapps/tool_shed/user/login.mako A templates/webapps/tool_shed/user/register.mako M test/galaxy_selenium/navigates_galaxy.py M test/galaxy_selenium/navigation.yml M test/selenium_tests/test_registration.py M test/shed_functional/base/twilltestcase.py Log Message: ----------- Merge pull request #6621 from guerler/registration_mako Replace registration mako with vue component Compare: https://github.com/galaxyproject/galaxy/compare/415444d31028...a74376abec87