May 2016 - galaxy-commits - lists.galaxyproject.org

[galaxyproject/galaxy] 214e75: Only scan the last 16 MB of a job's stderr for slu...
by GitHub 31 May '16

31 May '16

Branch: refs/heads/release_16.04 Home: https://github.com/galaxyproject/galaxy Commit: 214e757d81623e9c12d171f3dcfc516c7dcc5e32 https://github.com/galaxyproject/galaxy/commit/214e757d81623e9c12d171f3dcfc… Author: Nate Coraor <nate(a)bx.psu.edu> Date: 2016-05-31 (Tue, 31 May 2016) Changed paths: M lib/galaxy/jobs/runners/slurm.py Log Message: ----------- Only scan the last 16 MB of a job's stderr for slurm memory warning messages. Commit: dcb28e095012fef3be769f677fa572f13d4ed88a https://github.com/galaxyproject/galaxy/commit/dcb28e095012fef3be769f677fa5… Author: Nate Coraor <nate(a)bx.psu.edu> Date: 2016-05-31 (Tue, 31 May 2016) Changed paths: M lib/galaxy/jobs/runners/slurm.py Log Message: ----------- Fix linting error Commit: ceb825bea8b28c8908c8a719919b9167bedabe55 https://github.com/galaxyproject/galaxy/commit/ceb825bea8b28c8908c8a719919b… Author: Dannon Baker <dannon.baker(a)gmail.com> Date: 2016-05-31 (Tue, 31 May 2016) Changed paths: M lib/galaxy/jobs/runners/slurm.py Log Message: ----------- Merge pull request #2432 from natefoo/job-output-memory-fix [16.04] Only scan the last 16 MB of a job's stderr for slurm memory warning messages Compare: https://github.com/galaxyproject/galaxy/compare/6094990e43f6...ceb825bea8b2

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[galaxyproject/galaxy] 24451e: add and/or correct missing EDAM formats/data to da...
by GitHub 30 May '16

30 May '16

Branch: refs/heads/dev Home: https://github.com/galaxyproject/galaxy Commit: 24451e75d422d5d063c674cee353b6b80a0503e6 https://github.com/galaxyproject/galaxy/commit/24451e75d422d5d063c674cee353… Author: Hervé Ménager <hmenager(a)pasteur.fr> Date: 2016-05-30 (Mon, 30 May 2016) Changed paths: M lib/galaxy/datatypes/binary.py M lib/galaxy/datatypes/sequence.py M lib/galaxy/datatypes/tabular.py Log Message: ----------- add and/or correct missing EDAM formats/data to datatypes. Commit: c450763e137e528392afdf17ad51c92426c267cf https://github.com/galaxyproject/galaxy/commit/c450763e137e528392afdf17ad51… Author: Hervé Ménager <hmenager(a)pasteur.fr> Date: 2016-05-30 (Mon, 30 May 2016) Changed paths: M client/galaxy/scripts/layout/scratchbook.js M client/galaxy/scripts/mvc/history/history-model.js M client/galaxy/scripts/mvc/tool/tool-form-composite.js M client/galaxy/scripts/mvc/ui/ui-frames.js M client/galaxy/style/less/frame.less M doc/source/dev/faq.rst M lib/galaxy/auth/providers/ldap_ad.py M lib/galaxy/datatypes/binary.py A lib/galaxy/datatypes/checkers.py M lib/galaxy/datatypes/mothur.py M lib/galaxy/datatypes/registry.py M lib/galaxy/datatypes/text.py M lib/galaxy/external_services/actions.py M lib/galaxy/external_services/parameters.py M lib/galaxy/external_services/service.py M lib/galaxy/forms/forms.py M lib/galaxy/jobs/metrics/collectl/processes.py M lib/galaxy/jobs/runners/condor.py M lib/galaxy/jobs/runners/local.py M lib/galaxy/jobs/runners/pulsar.py M lib/galaxy/jobs/runners/slurm.py M lib/galaxy/managers/citations.py M lib/galaxy/managers/histories.py M lib/galaxy/managers/tags.py M lib/galaxy/model/__init__.py M lib/galaxy/model/migrate/versions/0005_cleanup_datasets_fix.py M lib/galaxy/model/migrate/versions/0041_workflow_invocation.py M lib/galaxy/model/migrate/versions/0046_post_job_actions.py M lib/galaxy/model/migrate/versions/0056_workflow_outputs.py M lib/galaxy/model/migrate/versions/0061_tasks.py M lib/galaxy/security/__init__.py M lib/galaxy/tools/__init__.py M lib/galaxy/tools/actions/__init__.py M lib/galaxy/tools/data/__init__.py M lib/galaxy/tools/deps/__init__.py M lib/galaxy/tools/deps/commands.py M lib/galaxy/tools/deps/conda_util.py M lib/galaxy/tools/deps/docker_util.py M lib/galaxy/tools/deps/resolvers/conda.py M lib/galaxy/tools/deps/resolvers/galaxy_packages.py M lib/galaxy/tools/deps/resolvers/modules.py M lib/galaxy/tools/execute.py M lib/galaxy/tools/loader_directory.py M lib/galaxy/tools/parameters/dynamic_options.py M lib/galaxy/tools/parser/xml.py M lib/galaxy/tools/parser/yaml.py M lib/galaxy/tools/toolbox/watcher.py A lib/galaxy/tools/verify/__init__.py A lib/galaxy/tools/verify/asserts/__init__.py A lib/galaxy/tools/verify/asserts/tabular.py A lib/galaxy/tools/verify/asserts/text.py A lib/galaxy/tools/verify/asserts/xml.py A lib/galaxy/tools/verify/test_data.py M lib/galaxy/util/__init__.py M lib/galaxy/util/checkers.py M lib/galaxy/visualization/data_providers/genome.py M lib/galaxy/visualization/plugins/config_parser.py M lib/galaxy/visualization/plugins/registry.py M lib/galaxy/visualization/plugins/resource_parser.py M lib/galaxy/web/base/controller.py M lib/galaxy/web/base/pluginframework.py M lib/galaxy/webapps/galaxy/controllers/dataset.py M lib/galaxy/webapps/galaxy/controllers/external_services.py M lib/galaxy/webapps/galaxy/controllers/history.py M lib/galaxy/webapps/tool_shed/security/__init__.py M lib/galaxy/workflow/extract.py M lib/tool_shed/galaxy_install/install_manager.py M lib/tool_shed/galaxy_install/tool_dependencies/recipe/install_environment.py M lib/tool_shed/galaxy_install/tool_dependencies/recipe/step_handler.py M lib/tool_shed/galaxy_install/tool_dependencies/recipe/tag_handler.py M lib/tool_shed/repository_types/metadata.py M lib/tool_shed/util/common_util.py M lib/tool_shed/util/tool_dependency_util.py M static/maps/layout/scratchbook.js.map M static/maps/mvc/history/history-model.js.map M static/maps/mvc/tool/tool-form-composite.js.map M static/maps/mvc/ui/ui-frames.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/scratchbook.js M static/scripts/mvc/history/history-model.js M static/scripts/mvc/tool/tool-form-composite.js M static/scripts/mvc/ui/ui-frames.js M static/style/blue/base.css M templates/show_params.mako M templates/webapps/galaxy/workflow/run.mako M test/api/test_tools.py M test/api/test_workflows.py R test/base/asserts/__init__.py R test/base/asserts/tabular.py R test/base/asserts/text.py R test/base/asserts/xml.py R test/base/test_data.py M test/base/twilltestcase.py M test/functional/test_toolbox.py A test/functional/tools/composite_output_tests.xml M test/functional/tools/samples_tool_conf.xml M test/functional/tools/simple_constructs.yml M test/shed_functional/base/twilltestcase.py M test/unit/managers/test_HistoryManager.py M tools/filters/axt_to_lav.py M tools/stats/gsummary.xml Log Message: ----------- Merge branch 'dev' of https://github.com/galaxyproject/galaxy into dev Commit: 835797c4bacfdc8b4a95c67a342181c78c17af25 https://github.com/galaxyproject/galaxy/commit/835797c4bacfdc8b4a95c67a3421… Author: Björn Grüning <bjoern(a)gruenings.eu> Date: 2016-05-30 (Mon, 30 May 2016) Changed paths: M lib/galaxy/datatypes/binary.py M lib/galaxy/datatypes/sequence.py M lib/galaxy/datatypes/tabular.py Log Message: ----------- Merge pull request #2428 from hmenager/dev Correct various EDAM data/format annotations in datatypes Compare: https://github.com/galaxyproject/galaxy/compare/eefc73abae11...835797c4bacf

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[galaxyproject/galaxy] 8aa629: Updates and fixes of the run workflow ui elements ...
by GitHub 28 May '16

28 May '16

Branch: refs/heads/dev Home: https://github.com/galaxyproject/galaxy Commit: 8aa629a98290876c7beab374d703b8d9ab24c576 https://github.com/galaxyproject/galaxy/commit/8aa629a98290876c7beab374d703… Author: guerler <aysam.guerler(a)gmail.com> Date: 2016-05-26 (Thu, 26 May 2016) Changed paths: M client/galaxy/scripts/mvc/tool/tool-form-composite.js M static/maps/mvc/tool/tool-form-composite.js.map M static/scripts/mvc/tool/tool-form-composite.js M templates/webapps/galaxy/workflow/run.mako Log Message: ----------- Updates and fixes of the run workflow ui elements and views Commit: eefc73abae119f4e190af064905072aee9c0edca https://github.com/galaxyproject/galaxy/commit/eefc73abae119f4e190af0649050… Author: John Chilton <jmchilton(a)gmail.com> Date: 2016-05-28 (Sat, 28 May 2016) Changed paths: M client/galaxy/scripts/mvc/tool/tool-form-composite.js M static/maps/mvc/tool/tool-form-composite.js.map M static/scripts/mvc/tool/tool-form-composite.js M templates/webapps/galaxy/workflow/run.mako Log Message: ----------- Merge pull request #2416 from guerler/tool_composite_000 Updates and fixes for the run workflow ui elements Compare: https://github.com/galaxyproject/galaxy/compare/3b73bb30382a...eefc73abae11

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[galaxyproject/galaxy] 3afe31: minor docs touch
by GitHub 27 May '16

27 May '16

Branch: refs/heads/dev Home: https://github.com/galaxyproject/galaxy Commit: 3afe31649fd64a9f5641584ec5f3a75e12b72e09 https://github.com/galaxyproject/galaxy/commit/3afe31649fd64a9f5641584ec5f3… Author: Martin Cech <cech.marten(a)gmail.com> Date: 2016-05-27 (Fri, 27 May 2016) Changed paths: M doc/source/dev/faq.rst Log Message: ----------- minor docs touch Commit: 3b73bb30382a19ee69632efe76815b575fb1cb40 https://github.com/galaxyproject/galaxy/commit/3b73bb30382a19ee69632efe7681… Author: Dannon Baker <dannon.baker(a)gmail.com> Date: 2016-05-27 (Fri, 27 May 2016) Changed paths: M doc/source/dev/faq.rst Log Message: ----------- Merge pull request #2427 from martenson/minor-docs minor docs touch Compare: https://github.com/galaxyproject/galaxy/compare/26ea3404cec5...3b73bb30382a

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[galaxyproject/galaxy] a27e86: wrap bare str raises with generic Exception()
by GitHub 26 May '16

26 May '16

Branch: refs/heads/release_16.04 Home: https://github.com/galaxyproject/galaxy Commit: a27e86786ad031eafcbfeb39ffdadf71d80dcfad https://github.com/galaxyproject/galaxy/commit/a27e86786ad031eafcbfeb39ffda… Author: Martin Cech <cech.marten(a)gmail.com> Date: 2016-05-26 (Thu, 26 May 2016) Changed paths: M lib/galaxy/external_services/actions.py M lib/galaxy/external_services/parameters.py M lib/galaxy/external_services/service.py M lib/galaxy/forms/forms.py M lib/galaxy/model/__init__.py M lib/galaxy/model/migrate/versions/0005_cleanup_datasets_fix.py M lib/galaxy/security/__init__.py M lib/galaxy/tools/actions/__init__.py M lib/galaxy/visualization/data_providers/genome.py M lib/galaxy/webapps/galaxy/controllers/external_services.py M lib/galaxy/webapps/tool_shed/security/__init__.py M lib/tool_shed/galaxy_install/tool_dependencies/recipe/step_handler.py M lib/tool_shed/galaxy_install/tool_dependencies/recipe/tag_handler.py M lib/tool_shed/repository_types/metadata.py M tools/filters/axt_to_lav.py Log Message: ----------- wrap bare str raises with generic Exception() as Pyton 2.7 does not support bare str Commit: fe64a8198bca75f2e535efc7c3813d24810904ab https://github.com/galaxyproject/galaxy/commit/fe64a8198bca75f2e535efc7c381… Author: Martin Cech <cech.marten(a)gmail.com> Date: 2016-05-26 (Thu, 26 May 2016) Changed paths: M lib/galaxy/security/__init__.py Log Message: ----------- fix the mess made with mass edit Commit: 6094990e43f6510833395885d234a2264e7d44f1 https://github.com/galaxyproject/galaxy/commit/6094990e43f6510833395885d234… Author: John Chilton <jmchilton(a)gmail.com> Date: 2016-05-26 (Thu, 26 May 2016) Changed paths: M lib/galaxy/external_services/actions.py M lib/galaxy/external_services/parameters.py M lib/galaxy/external_services/service.py M lib/galaxy/forms/forms.py M lib/galaxy/model/__init__.py M lib/galaxy/model/migrate/versions/0005_cleanup_datasets_fix.py M lib/galaxy/security/__init__.py M lib/galaxy/tools/actions/__init__.py M lib/galaxy/visualization/data_providers/genome.py M lib/galaxy/webapps/galaxy/controllers/external_services.py M lib/galaxy/webapps/tool_shed/security/__init__.py M lib/tool_shed/galaxy_install/tool_dependencies/recipe/step_handler.py M lib/tool_shed/galaxy_install/tool_dependencies/recipe/tag_handler.py M lib/tool_shed/repository_types/metadata.py M tools/filters/axt_to_lav.py Log Message: ----------- Merge pull request #2424 from martenson/port-exceptionwrap-16.04 [16.04] wrap bare str exceptions Compare: https://github.com/galaxyproject/galaxy/compare/c63bf911bc9c...6094990e43f6

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[galaxyproject/galaxy] 939a10: Fix to 4a61a4c: add hids for dataset inputs
by GitHub 26 May '16

26 May '16

Branch: refs/heads/dev Home: https://github.com/galaxyproject/galaxy Commit: 939a107f37aabe18bf42265c1469da846bfcaee8 https://github.com/galaxyproject/galaxy/commit/939a107f37aabe18bf42265c1469… Author: carlfeberhard <carlfeberhard(a)gmail.com> Date: 2016-05-25 (Wed, 25 May 2016) Changed paths: M templates/show_params.mako Log Message: ----------- Fix to 4a61a4c: add hids for dataset inputs Commit: 26ea3404cec55c882a7064774ced31ed5a5514ad https://github.com/galaxyproject/galaxy/commit/26ea3404cec55c882a7064774ced… Author: Dannon Baker <dannon.baker(a)gmail.com> Date: 2016-05-26 (Thu, 26 May 2016) Changed paths: M templates/show_params.mako Log Message: ----------- Merge pull request #2415 from carlfeberhard/fix.show-params-hid Fix to 4a61a4c: add hids for dataset inputs Compare: https://github.com/galaxyproject/galaxy/compare/ef417464c7cf...26ea3404cec5

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[galaxyproject/galaxy] d72eee: wrap bare str raises with generic Exception()
by GitHub 26 May '16

26 May '16

Branch: refs/heads/dev Home: https://github.com/galaxyproject/galaxy Commit: d72eee3d4a136e99ff3bb1927bb3a4ad1a3e4b0e https://github.com/galaxyproject/galaxy/commit/d72eee3d4a136e99ff3bb1927bb3… Author: Martin Cech <cech.marten(a)gmail.com> Date: 2016-05-26 (Thu, 26 May 2016) Changed paths: M lib/galaxy/external_services/actions.py M lib/galaxy/external_services/parameters.py M lib/galaxy/external_services/service.py M lib/galaxy/forms/forms.py M lib/galaxy/model/__init__.py M lib/galaxy/model/migrate/versions/0005_cleanup_datasets_fix.py M lib/galaxy/security/__init__.py M lib/galaxy/tools/actions/__init__.py M lib/galaxy/visualization/data_providers/genome.py M lib/galaxy/webapps/galaxy/controllers/external_services.py M lib/galaxy/webapps/tool_shed/security/__init__.py M lib/tool_shed/galaxy_install/tool_dependencies/recipe/step_handler.py M lib/tool_shed/galaxy_install/tool_dependencies/recipe/tag_handler.py M lib/tool_shed/repository_types/metadata.py M tools/filters/axt_to_lav.py Log Message: ----------- wrap bare str raises with generic Exception() as Pyton 2.7 does not support bare str Commit: 125453707588cab9157aba497803f89f700971e5 https://github.com/galaxyproject/galaxy/commit/125453707588cab9157aba497803… Author: Martin Cech <cech.marten(a)gmail.com> Date: 2016-05-26 (Thu, 26 May 2016) Changed paths: M lib/galaxy/security/__init__.py Log Message: ----------- fix the mess made with mass edit Commit: ef417464c7cf25b5c9a4526ed31817d80553420a https://github.com/galaxyproject/galaxy/commit/ef417464c7cf25b5c9a4526ed318… Author: Dannon Baker <dannon.baker(a)gmail.com> Date: 2016-05-26 (Thu, 26 May 2016) Changed paths: M lib/galaxy/external_services/actions.py M lib/galaxy/external_services/parameters.py M lib/galaxy/external_services/service.py M lib/galaxy/forms/forms.py M lib/galaxy/model/__init__.py M lib/galaxy/model/migrate/versions/0005_cleanup_datasets_fix.py M lib/galaxy/security/__init__.py M lib/galaxy/tools/actions/__init__.py M lib/galaxy/visualization/data_providers/genome.py M lib/galaxy/webapps/galaxy/controllers/external_services.py M lib/galaxy/webapps/tool_shed/security/__init__.py M lib/tool_shed/galaxy_install/tool_dependencies/recipe/step_handler.py M lib/tool_shed/galaxy_install/tool_dependencies/recipe/tag_handler.py M lib/tool_shed/repository_types/metadata.py M tools/filters/axt_to_lav.py Log Message: ----------- Merge pull request #2421 from martenson/wrap-str-raises wrap bare str raises with generic Exception() Compare: https://github.com/galaxyproject/galaxy/compare/35da049d4299...ef417464c7cf

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[galaxyproject/galaxy] 03a92a: Python3: use log.warning() instead of deprecated l...
by GitHub 26 May '16

26 May '16

Branch: refs/heads/dev Home: https://github.com/galaxyproject/galaxy Commit: 03a92abdb65a040b0feaf4ef8979ff24b9537bd6 https://github.com/galaxyproject/galaxy/commit/03a92abdb65a040b0feaf4ef8979… Author: Nicola Soranzo <nicola.soranzo(a)tgac.ac.uk> Date: 2016-05-26 (Thu, 26 May 2016) Changed paths: M lib/galaxy/auth/providers/ldap_ad.py M lib/galaxy/datatypes/binary.py M lib/galaxy/datatypes/mothur.py M lib/galaxy/datatypes/registry.py M lib/galaxy/datatypes/text.py M lib/galaxy/jobs/metrics/collectl/processes.py M lib/galaxy/jobs/runners/local.py M lib/galaxy/jobs/runners/pulsar.py M lib/galaxy/managers/citations.py M lib/galaxy/managers/tags.py M lib/galaxy/model/migrate/versions/0041_workflow_invocation.py M lib/galaxy/model/migrate/versions/0046_post_job_actions.py M lib/galaxy/model/migrate/versions/0056_workflow_outputs.py M lib/galaxy/model/migrate/versions/0061_tasks.py M lib/galaxy/tools/__init__.py M lib/galaxy/tools/data/__init__.py M lib/galaxy/tools/deps/__init__.py M lib/galaxy/tools/deps/resolvers/conda.py M lib/galaxy/tools/deps/resolvers/galaxy_packages.py M lib/galaxy/tools/deps/resolvers/modules.py M lib/galaxy/tools/execute.py M lib/galaxy/tools/loader_directory.py M lib/galaxy/tools/parameters/dynamic_options.py M lib/galaxy/tools/parser/xml.py M lib/galaxy/util/__init__.py M lib/galaxy/visualization/plugins/config_parser.py M lib/galaxy/visualization/plugins/registry.py M lib/galaxy/visualization/plugins/resource_parser.py M lib/galaxy/web/base/controller.py M lib/galaxy/web/base/pluginframework.py M lib/galaxy/webapps/galaxy/controllers/dataset.py M lib/galaxy/webapps/galaxy/controllers/history.py M lib/galaxy/workflow/extract.py M lib/tool_shed/galaxy_install/install_manager.py M lib/tool_shed/galaxy_install/tool_dependencies/recipe/install_environment.py M lib/tool_shed/galaxy_install/tool_dependencies/recipe/step_handler.py M lib/tool_shed/util/common_util.py M lib/tool_shed/util/tool_dependency_util.py Log Message: ----------- Python3: use log.warning() instead of deprecated log.warn() $ python3 -Wd -c 'import logging; logging.warn("foo")' -c:1: DeprecationWarning: The 'warn' function is deprecated, use 'warning' instead WARNING:root:foo Commit: 35da049d4299e84db09dc46f9d23524acb15e35c https://github.com/galaxyproject/galaxy/commit/35da049d4299e84db09dc46f9d23… Author: Martin Cech <cech.marten(a)gmail.com> Date: 2016-05-26 (Thu, 26 May 2016) Changed paths: M lib/galaxy/auth/providers/ldap_ad.py M lib/galaxy/datatypes/binary.py M lib/galaxy/datatypes/mothur.py M lib/galaxy/datatypes/registry.py M lib/galaxy/datatypes/text.py M lib/galaxy/jobs/metrics/collectl/processes.py M lib/galaxy/jobs/runners/local.py M lib/galaxy/jobs/runners/pulsar.py M lib/galaxy/managers/citations.py M lib/galaxy/managers/tags.py M lib/galaxy/model/migrate/versions/0041_workflow_invocation.py M lib/galaxy/model/migrate/versions/0046_post_job_actions.py M lib/galaxy/model/migrate/versions/0056_workflow_outputs.py M lib/galaxy/model/migrate/versions/0061_tasks.py M lib/galaxy/tools/__init__.py M lib/galaxy/tools/data/__init__.py M lib/galaxy/tools/deps/__init__.py M lib/galaxy/tools/deps/resolvers/conda.py M lib/galaxy/tools/deps/resolvers/galaxy_packages.py M lib/galaxy/tools/deps/resolvers/modules.py M lib/galaxy/tools/execute.py M lib/galaxy/tools/loader_directory.py M lib/galaxy/tools/parameters/dynamic_options.py M lib/galaxy/tools/parser/xml.py M lib/galaxy/util/__init__.py M lib/galaxy/visualization/plugins/config_parser.py M lib/galaxy/visualization/plugins/registry.py M lib/galaxy/visualization/plugins/resource_parser.py M lib/galaxy/web/base/controller.py M lib/galaxy/web/base/pluginframework.py M lib/galaxy/webapps/galaxy/controllers/dataset.py M lib/galaxy/webapps/galaxy/controllers/history.py M lib/galaxy/workflow/extract.py M lib/tool_shed/galaxy_install/install_manager.py M lib/tool_shed/galaxy_install/tool_dependencies/recipe/install_environment.py M lib/tool_shed/galaxy_install/tool_dependencies/recipe/step_handler.py M lib/tool_shed/util/common_util.py M lib/tool_shed/util/tool_dependency_util.py Log Message: ----------- Merge pull request #2420 from nsoranzo/log_warn Python3: use log.warning() instead of deprecated log.warn() Compare: https://github.com/galaxyproject/galaxy/compare/1453dbdb13fd...35da049d4299

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[galaxyproject/galaxy] ee314e: Update galaxy-lib related modules to latest in tha...
by GitHub 26 May '16

26 May '16

Branch: refs/heads/dev Home: https://github.com/galaxyproject/galaxy Commit: ee314ee89b9a657a0845246b3dc1a5df785b4b50 https://github.com/galaxyproject/galaxy/commit/ee314ee89b9a657a0845246b3dc1… Author: John Chilton <jmchilton(a)gmail.com> Date: 2016-05-25 (Wed, 25 May 2016) Changed paths: M lib/galaxy/tools/deps/commands.py M lib/galaxy/tools/deps/docker_util.py M lib/galaxy/tools/verify/__init__.py Log Message: ----------- Update galaxy-lib related modules to latest in that project. Commit: 1453dbdb13fd2be177bcee58dfc47f7a4e8224f1 https://github.com/galaxyproject/galaxy/commit/1453dbdb13fd2be177bcee58dfc4… Author: Martin Cech <cech.marten(a)gmail.com> Date: 2016-05-26 (Thu, 26 May 2016) Changed paths: M lib/galaxy/tools/deps/commands.py M lib/galaxy/tools/deps/docker_util.py M lib/galaxy/tools/verify/__init__.py Log Message: ----------- Merge pull request #2414 from jmchilton/lib-fix Update galaxy-lib related modules to latest in that project. Compare: https://github.com/galaxyproject/galaxy/compare/4eeb73ec8c84...1453dbdb13fd

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[galaxyproject/infrastructure-playbook] 5ea96f: Update access list
by GitHub 26 May '16

26 May '16

Branch: refs/heads/master Home: https://github.com/galaxyproject/infrastructure-playbook Commit: 5ea96f95929f2c6c4408b34fba2cafc1c035e126 https://github.com/galaxyproject/infrastructure-playbook/commit/5ea96f95929… Author: Nate Coraor <nate(a)bx.psu.edu> Date: 2016-05-26 (Thu, 26 May 2016) Changed paths: M galaxyenv/secret_host_vars/delirium.galaxyproject.org.yml Log Message: ----------- Update access list

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