Branch: refs/heads/dev Home: https://github.com/galaxyproject/galaxy Commit: 4bfac4536971c54a704c76de083de0600332442c https://github.com/galaxyproject/galaxy/commit/4bfac4536971c54a704c76de083de... Author: Nicola Soranzo <nicola.soranzo@tgac.ac.uk> Date: 2016-10-24 (Mon, 24 Oct 2016) Changed paths: M .ci/flake8_blacklist.txt M .ci/flake8_lint_include_list.txt M .ci/py3_sources.txt M doc/patch.py Log Message: ----------- Fix flake8 errors and Python3 compatibility for doc/patch.py Commit: a21ed34efb695fb71f1c7616dc1655de8b54be41 https://github.com/galaxyproject/galaxy/commit/a21ed34efb695fb71f1c7616dc165... Author: Nicola Soranzo <nicola.soranzo@tgac.ac.uk> Date: 2016-10-24 (Mon, 24 Oct 2016) Changed paths: R doc/source/admin/interactive_environments_success.png A doc/source/dev/interactive_environments_success.png Log Message: ----------- Move png in the right directory Broken in #2543. Commit: 8a17143bc77ce370974e35f51d699f8029edd647 https://github.com/galaxyproject/galaxy/commit/8a17143bc77ce370974e35f51d699... Author: Nicola Soranzo <nicola.soranzo@tgac.ac.uk> Date: 2016-10-24 (Mon, 24 Oct 2016) Changed paths: R doc/source/lib/galaxy.util.backports.importlib.rst R scripts/bootstrap_history_announce_template.rst Log Message: ----------- Remove unused files Commit: e6d0b69ec89786f56fa71d2e893b2361bbe55d0e https://github.com/galaxyproject/galaxy/commit/e6d0b69ec89786f56fa71d2e893b2... Author: Nicola Soranzo <nicola.soranzo@tgac.ac.uk> Date: 2016-10-24 (Mon, 24 Oct 2016) Changed paths: M doc/source/dev/build_a_job_runner.rst A doc/source/dev/inherit.png A doc/source/dev/queue.png A doc/source/dev/queue_b.png A doc/source/dev/runner_diag.png Log Message: ----------- Add and use local images for build runner doc Commit: 3180b631662ced589fe9db42d27caa58638b5f8d https://github.com/galaxyproject/galaxy/commit/3180b631662ced589fe9db42d27ca... Author: Nicola Soranzo <nicola.soranzo@tgac.ac.uk> Date: 2016-10-24 (Mon, 24 Oct 2016) Changed paths: M .gitignore M Makefile M doc/Makefile M doc/parse_gx_xsd.py M doc/schema_template.md M doc/source/dev/index.rst M lib/galaxy/tools/xsd/galaxy.xsd Log Message: ----------- Properly integrate tool XML schema with docs Generate intermediate rst file instead of html Move generation to doc/Makefile Use pandoc to generate table of contents and fragment ids. Remove nested inline markup (not supported by reStructuredText) Fix https and other links. Commit: 527e332aa39e82224965e6aaef94ffaa1cf956bf https://github.com/galaxyproject/galaxy/commit/527e332aa39e82224965e6aaef94f... Author: Nicola Soranzo <nicola.soranzo@tgac.ac.uk> Date: 2016-10-24 (Mon, 24 Oct 2016) Changed paths: M doc/source/admin/conda_faq.rst M doc/source/admin/interactive_environments.rst M doc/source/admin/mulled_containers.rst M doc/source/conf.py M doc/source/index.rst M doc/source/lib/galaxy.datatypes.converters.rst M doc/source/lib/galaxy.jobs.rst M doc/source/lib/galaxy.rst M doc/source/lib/galaxy.tools.linters.rst M doc/source/lib/galaxy.tools.parameters.rst M doc/source/lib/galaxy.util.backports.rst M doc/source/lib/galaxy.util.rst M doc/source/releases/16.04.rst M doc/source/releases/16.04_announce.rst M doc/source/releases/16.07.rst M doc/source/releases/index.rst M lib/galaxy/datatypes/binary.py M lib/galaxy/datatypes/checkers.py M lib/galaxy/datatypes/constructive_solid_geometry.py M lib/galaxy/datatypes/data.py M lib/galaxy/datatypes/dataproviders/__init__.py M lib/galaxy/datatypes/dataproviders/column.py M lib/galaxy/datatypes/dataproviders/dataset.py M lib/galaxy/datatypes/dataproviders/decorators.py M lib/galaxy/datatypes/dataproviders/line.py M lib/galaxy/datatypes/sequence.py M lib/galaxy/datatypes/tabular.py M lib/galaxy/jobs/__init__.py M lib/galaxy/jobs/metrics/instrumenters/__init__.py M lib/galaxy/managers/__init__.py M lib/galaxy/managers/base.py M lib/galaxy/managers/datasets.py M lib/galaxy/managers/libraries.py M lib/galaxy/managers/rbac_secured.py M lib/galaxy/managers/roles.py M lib/galaxy/tools/parameters/basic.py M lib/galaxy/util/simplegraph.py M lib/galaxy/webapps/galaxy/api/history_contents.py M lib/tool_shed/galaxy_install/tool_dependencies/recipe/step_handler.py M scripts/bootstrap_history.py M scripts/galaxy-main Log Message: ----------- Fix a bunch of errors reported by Sphinx Commit: f9ee0f86376f90ede636e4874cca120d30e7cd8c https://github.com/galaxyproject/galaxy/commit/f9ee0f86376f90ede636e4874cca1... Author: John Chilton <jmchilton@gmail.com> Date: 2016-10-31 (Mon, 31 Oct 2016) Changed paths: M .ci/flake8_blacklist.txt M .ci/flake8_lint_include_list.txt M .ci/py3_sources.txt M .gitignore M Makefile M doc/Makefile M doc/parse_gx_xsd.py M doc/patch.py M doc/schema_template.md M doc/source/admin/conda_faq.rst M doc/source/admin/interactive_environments.rst R doc/source/admin/interactive_environments_success.png M doc/source/admin/mulled_containers.rst M doc/source/conf.py M doc/source/dev/build_a_job_runner.rst M doc/source/dev/index.rst A doc/source/dev/inherit.png A doc/source/dev/interactive_environments_success.png A doc/source/dev/queue.png A doc/source/dev/queue_b.png A doc/source/dev/runner_diag.png M doc/source/index.rst M doc/source/lib/galaxy.datatypes.converters.rst M doc/source/lib/galaxy.jobs.rst M doc/source/lib/galaxy.rst M doc/source/lib/galaxy.tools.linters.rst M doc/source/lib/galaxy.tools.parameters.rst R doc/source/lib/galaxy.util.backports.importlib.rst M doc/source/lib/galaxy.util.backports.rst M doc/source/lib/galaxy.util.rst M doc/source/releases/16.04.rst M doc/source/releases/16.04_announce.rst M doc/source/releases/16.07.rst M doc/source/releases/index.rst M lib/galaxy/datatypes/binary.py M lib/galaxy/datatypes/checkers.py M lib/galaxy/datatypes/constructive_solid_geometry.py M lib/galaxy/datatypes/data.py M lib/galaxy/datatypes/dataproviders/__init__.py M lib/galaxy/datatypes/dataproviders/column.py M lib/galaxy/datatypes/dataproviders/dataset.py M lib/galaxy/datatypes/dataproviders/decorators.py M lib/galaxy/datatypes/dataproviders/line.py M lib/galaxy/datatypes/sequence.py M lib/galaxy/datatypes/tabular.py M lib/galaxy/jobs/__init__.py M lib/galaxy/jobs/metrics/instrumenters/__init__.py M lib/galaxy/managers/__init__.py M lib/galaxy/managers/base.py M lib/galaxy/managers/datasets.py M lib/galaxy/managers/libraries.py M lib/galaxy/managers/rbac_secured.py M lib/galaxy/managers/roles.py M lib/galaxy/tools/parameters/basic.py M lib/galaxy/tools/xsd/galaxy.xsd M lib/galaxy/util/simplegraph.py M lib/galaxy/webapps/galaxy/api/history_contents.py M lib/tool_shed/galaxy_install/tool_dependencies/recipe/step_handler.py M scripts/bootstrap_history.py R scripts/bootstrap_history_announce_template.rst M scripts/galaxy-main Log Message: ----------- Merge pull request #3086 from nsoranzo/fix_doc Properly integrate tool XML schema with docs Compare: https://github.com/galaxyproject/galaxy/compare/f0c5d5ca39d1...f9ee0f86376f