Branch: refs/heads/dev
Home: https://github.com/galaxyproject/galaxy
Commit: 4b531179b0a19a45902f40f49e823cf5260bbd56
https://github.com/galaxyproject/galaxy/commit/4b531179b0a19a45902f40f49e82…
Author: Athos Ribeiro <athoscr(a)fedoraproject.org>
Date: 2016-10-27 (Thu, 27 Oct 2016)
Changed paths:
M lib/galaxy/dependencies/pinned-requirements.txt
Log Message:
-----------
Add missing imports for documentation builds
As mentioned in #3075, the build requirements for the project
documentation were only listed in the Jenkins job. This commit adds
those missing requirements to the project. Note that they should also be
removed from the Jenkins build
* fixes #3075
Commit: 647b4901c30d356f13f851a76c2a7c7ed8bfd808
https://github.com/galaxyproject/galaxy/commit/647b4901c30d356f13f851a76c2a…
Author: Martin Cech <marten(a)bx.psu.edu>
Date: 2017-04-26 (Wed, 26 Apr 2017)
Changed paths:
M Makefile
M lib/galaxy/dependencies/dev-requirements.txt
M lib/galaxy/dependencies/pinned-requirements.txt
Log Message:
-----------
move reqs to dev-requirements and touch makefile
Commit: d42fc9ae71b26caed30d6b904681a6b2065febbc
https://github.com/galaxyproject/galaxy/commit/d42fc9ae71b26caed30d6b904681…
Author: Martin Cech <marten(a)bx.psu.edu>
Date: 2017-04-26 (Wed, 26 Apr 2017)
Changed paths:
M .ci/flake8_blacklist.txt
M .ci/flake8_docstrings_include_list.txt
M .ci/flake8_lint_include_list.txt
A .ci/jenkins/api/run_tests.sh
A .ci/jenkins/framework/run_tests.sh
A .ci/jenkins/integration/run_tests.sh
A .ci/jenkins/selenium/Dockerfile
A .ci/jenkins/selenium/docker-compose.yml
A .ci/jenkins/selenium/galaxy.ini
A .ci/jenkins/selenium/run_galaxy.bash
A .ci/jenkins/selenium/run_tests.sh
A .ci/jenkins/toolshed/run_tests.sh
M .ci/py3_sources.txt
M .gitignore
M CONTRIBUTING.md
M CONTRIBUTORS.md
M Makefile
M README.rst
M client/galaxy/scripts/apps/analysis.js
M client/galaxy/scripts/apps/tool-panel.js
M client/galaxy/scripts/galaxy.interactive_environments.js
M client/galaxy/scripts/layout/menu.js
M client/galaxy/scripts/layout/page.js
M client/galaxy/scripts/libs/jquery/jquery.autocomplete.js
A client/galaxy/scripts/mvc/collection/base-creator.js
M client/galaxy/scripts/mvc/collection/collection-view-edit.js
M client/galaxy/scripts/mvc/collection/collection-view.js
M client/galaxy/scripts/mvc/collection/list-collection-creator.js
M client/galaxy/scripts/mvc/collection/list-of-pairs-collection-creator.js
M client/galaxy/scripts/mvc/collection/pair-collection-creator.js
M client/galaxy/scripts/mvc/dataset/dataset-li-edit.js
M client/galaxy/scripts/mvc/dataset/dataset-li.js
M client/galaxy/scripts/mvc/form/form-input.js
M client/galaxy/scripts/mvc/form/form-parameters.js
M client/galaxy/scripts/mvc/form/form-section.js
M client/galaxy/scripts/mvc/form/form-view.js
M client/galaxy/scripts/mvc/grid/grid-template.js
M client/galaxy/scripts/mvc/grid/grid-view.js
M client/galaxy/scripts/mvc/history/hda-li.js
M client/galaxy/scripts/mvc/history/hdca-li.js
M client/galaxy/scripts/mvc/history/history-contents.js
M client/galaxy/scripts/mvc/history/history-model.js
M client/galaxy/scripts/mvc/history/history-view-edit.js
M client/galaxy/scripts/mvc/history/history-view.js
M client/galaxy/scripts/mvc/history/options-menu.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/tag.js
M client/galaxy/scripts/mvc/tool/tool-form-base.js
M client/galaxy/scripts/mvc/tool/tool-form-composite.js
R client/galaxy/scripts/mvc/tool/tool-form-workflow.js
M client/galaxy/scripts/mvc/tool/tool-form.js
M client/galaxy/scripts/mvc/tool/tools.js
M client/galaxy/scripts/mvc/ui/ui-misc.js
M client/galaxy/scripts/mvc/ui/ui-options.js
M client/galaxy/scripts/mvc/ui/ui-portlet.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/ui/ui-table.js
M client/galaxy/scripts/mvc/ui/ui-tabs.js
A client/galaxy/scripts/mvc/ui/ui-thumbnails.js
A client/galaxy/scripts/mvc/upload/collection/collection-row.js
A 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/default/default-row.js
M client/galaxy/scripts/mvc/upload/upload-ftp.js
M client/galaxy/scripts/mvc/upload/upload-view.js
A client/galaxy/scripts/mvc/user/user-custom-builds.js
A client/galaxy/scripts/mvc/user/user-preferences.js
M client/galaxy/scripts/mvc/user/user-quotameter.js
M client/galaxy/scripts/mvc/workflow/workflow-canvas.js
A client/galaxy/scripts/mvc/workflow/workflow-forms.js
A client/galaxy/scripts/mvc/workflow/workflow-icons.js
M client/galaxy/scripts/mvc/workflow/workflow-manager.js
M client/galaxy/scripts/mvc/workflow/workflow-node.js
M client/galaxy/scripts/mvc/workflow/workflow-view-node.js
M client/galaxy/scripts/mvc/workflow/workflow-view.js
A client/galaxy/scripts/nls/fr/locale.js
M client/galaxy/scripts/nls/ja/locale.js
M client/galaxy/scripts/nls/locale.js
M client/galaxy/scripts/nls/zh/locale.js
M client/galaxy/scripts/ui/autocom_tagging.js
M client/galaxy/scripts/viz/trackster/tracks.js
M client/galaxy/style/less/base.less
M client/galaxy/style/less/dataset.less
M client/galaxy/style/less/history.less
M client/galaxy/style/less/ui.less
M client/galaxy/style/less/ui/paired-collection-creator.less
M client/galaxy/style/less/upload.less
M client/galaxy/style/source_material/circle.py
M client/package.json
M client/webpack.config.js
A config/build_sites.yml.sample
A config/containers_conf.yml.sample
M config/datatypes_conf.xml.sample
M config/dependency_resolvers_conf.xml.sample
M config/galaxy.ini.sample
M config/job_conf.xml.sample_advanced
A config/local_conda_mapping.yml.sample
M config/openid_conf.xml.sample
M config/plugins/interactive_environments/bam_iobio/config/bam_iobio.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
A config/plugins/interactive_environments/ethercalc/config/allowed_images.yml.sample
A config/plugins/interactive_environments/ethercalc/config/ethercalc.ini.sample
A config/plugins/interactive_environments/ethercalc/config/ethercalc.xml
A config/plugins/interactive_environments/ethercalc/static/js/ethercalc.js
A config/plugins/interactive_environments/ethercalc/templates/ethercalc.mako
M config/plugins/interactive_environments/jupyter/config/allowed_images.yml.sample
M config/plugins/interactive_environments/jupyter/config/jupyter.ini.sample
M config/plugins/interactive_environments/jupyter/config/jupyter.xml
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/config/neo.ini.sample
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/config/phinch.ini.sample
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/config/allowed_images.yml.sample
M config/plugins/interactive_environments/rstudio/config/rstudio.ini.sample
M config/plugins/interactive_environments/rstudio/config/rstudio.xml
M config/plugins/interactive_environments/rstudio/static/js/rstudio.js
M config/plugins/interactive_environments/rstudio/templates/rstudio.mako
M config/plugins/tours/core.galaxy_ui.yaml
M config/plugins/tours/core.history.yaml
M config/plugins/visualizations/charts/static/client/app.css
M config/plugins/visualizations/charts/static/client/views/editor.js
R config/plugins/visualizations/charts/static/client/views/types.js
A config/plugins/visualizations/charts/static/repository/build/biojs_phylocanvas.js
A config/plugins/visualizations/charts/static/repository/build/biojs_phylocanvas.js.map
R config/plugins/visualizations/charts/static/repository/build/cytoscape_basic.js
R config/plugins/visualizations/charts/static/repository/build/cytoscape_basic.js.map
A config/plugins/visualizations/charts/static/repository/build/cytoscape_viewer.js
A config/plugins/visualizations/charts/static/repository/build/cytoscape_viewer.js.map
A config/plugins/visualizations/charts/static/repository/build/ngl_viewer.js
A config/plugins/visualizations/charts/static/repository/build/ngl_viewer.js.map
M config/plugins/visualizations/charts/static/repository/build/registry.js
M config/plugins/visualizations/charts/static/repository/build/registry.js.map
M config/plugins/visualizations/charts/static/repository/build/registry.tmp.js
A config/plugins/visualizations/charts/static/repository/plugins/biojs/phylocanvas/phylocanvas.js
A config/plugins/visualizations/charts/static/repository/plugins/ngl/viewer.js
M config/plugins/visualizations/charts/static/repository/registry.json
A config/plugins/visualizations/charts/static/repository/utilities/sifjson.js
M config/plugins/visualizations/charts/static/repository/utilities/utils.js
A config/plugins/visualizations/charts/static/repository/visualizations/biojs/phylocanvas/config.js
A config/plugins/visualizations/charts/static/repository/visualizations/biojs/phylocanvas/logo.png
A config/plugins/visualizations/charts/static/repository/visualizations/biojs/phylocanvas/wrapper.js
R config/plugins/visualizations/charts/static/repository/visualizations/cytoscape/basic/config.js
R config/plugins/visualizations/charts/static/repository/visualizations/cytoscape/basic/logo.png
R config/plugins/visualizations/charts/static/repository/visualizations/cytoscape/basic/wrapper.js
A config/plugins/visualizations/charts/static/repository/visualizations/cytoscape/viewer/config.js
A config/plugins/visualizations/charts/static/repository/visualizations/cytoscape/viewer/logo.png
A config/plugins/visualizations/charts/static/repository/visualizations/cytoscape/viewer/wrapper.js
A config/plugins/visualizations/charts/static/repository/visualizations/ngl/viewer/config.js
A config/plugins/visualizations/charts/static/repository/visualizations/ngl/viewer/logo.png
A config/plugins/visualizations/charts/static/repository/visualizations/ngl/viewer/wrapper.js
M config/plugins/visualizations/charts/static/repository/visualizations/utilities/tabular-form.js
M config/plugins/visualizations/charts/templates/charts.mako
M config/plugins/visualizations/charts/webpack.config.js
M config/plugins/visualizations/csg/templates/csg.mako
M config/plugins/visualizations/graphviz/templates/graphviz.mako
M config/plugins/visualizations/scatterplot/templates/scatterplot.mako
R config/plugins/webhooks/demo/history_test1/config/history_test1.yml
R config/plugins/webhooks/demo/history_test2/config/history_test2.yml
R config/plugins/webhooks/demo/masthead_test/config/masthead_test.yml
R config/plugins/webhooks/demo/phdcomics/config/phdcomics.yaml
R config/plugins/webhooks/demo/phdcomics/helper/__init__.py
R config/plugins/webhooks/demo/phdcomics/static/script.js
R config/plugins/webhooks/demo/phdcomics/static/styles.css
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/plugins/webhooks/demo/tool_list/config/tool_list.yml
A config/plugins/webhooks/demo/tool_list/helper/__init__.py
R config/plugins/webhooks/demo/trans_object/config/trans_object.yaml
R config/plugins/webhooks/demo/trans_object/helper/__init__.py
R config/plugins/webhooks/demo/xkcd/config/xkcd.yml
R config/plugins/webhooks/demo/xkcd/static/script.js
R config/plugins/webhooks/demo/xkcd/static/styles.css
A config/swarm_manager_conf.yml.sample
M config/tool_conf.xml.sample
M config/tool_data_table_conf.xml.sample
M config/tool_destinations.yml.sample
M contrib/galaxy_config_merger.py
M contrib/nagios/check_galaxy
M contrib/nagios/check_galaxy.py
M cron/add_manual_builds.py
M cron/build_chrom_db.py
M cron/parse_builds.py
M cron/parse_builds_3_sites.py
M display_applications/igv/bigwig.xml
A display_applications/igv/genome_fasta.xml
M doc/Makefile
A doc/fix_schema_rst.sh
M doc/parse_gx_xsd.py
M doc/patch.py
M doc/schema_template.md
A doc/source/admin/authentication.md
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
M doc/source/admin/conda_faq.rst
M doc/source/admin/dependency_resolvers.rst
M doc/source/admin/framework_dependencies.rst
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/interactive_environments_success.png
R doc/source/admin/mulled_containers.rst
A doc/source/admin/reports.md
A doc/source/admin/special_topics/chat-0.png
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A doc/source/admin/special_topics/grt.rst
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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
M doc/source/admin/useful_scripts.rst
R doc/source/admin/webhooks.rst
A doc/source/api/api.rst
M doc/source/api/guidelines.rst
A doc/source/api/ts_api.rst
M doc/source/api_doc.rst
M doc/source/conf.py
M doc/source/dev/build_a_job_runner.rst
M doc/source/dev/faq.rst
M doc/source/dev/index.rst
A doc/source/dev/inherit.png
M doc/source/dev/interactive_environments.rst
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
R doc/source/lib/galaxy.webapps.galaxy.api.rst
R doc/source/lib/galaxy.webapps.tool_shed.api.rst
R doc/source/lib/galaxy_utils.rst
R doc/source/lib/galaxy_utils.sequence.rst
M doc/source/lib/modules.rst
M doc/source/project/issues.rst
M doc/source/project/organization.rst
M doc/source/releases/16.04.rst
M doc/source/releases/16.04_announce.rst
M doc/source/releases/16.07.rst
A doc/source/releases/16.10.rst
M doc/source/releases/16.10_announce.rst
A doc/source/releases/17.01.rst
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A doc/source/releases/17.05_announce.rst
M doc/source/releases/_header.rst
M doc/source/releases/_thanks.rst
M doc/source/releases/index.rst
M doc/source/slideshow/architecture/galaxy_architecture.md
M doc/source/slideshow/architecture/images/hda_dataset.plantuml.svg
M doc/source/slideshow/architecture/images/hda_hdca.plantuml.svg
M doc/source/slideshow/architecture/images/objectstore.plantuml.svg
M doc/source/slideshow/architecture/images/plantuml_options.txt
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M doc/source/slideshow/architecture/images/webapp.plantuml.svg
M doc/source/slideshow/architecture/style.css
M doc/source/ts_api_doc.rst
M lib/galaxy/actions/admin.py
M lib/galaxy/app.py
M lib/galaxy/auth/__init__.py
M lib/galaxy/auth/providers/__init__.py
M lib/galaxy/auth/providers/ldap_ad.py
M lib/galaxy/auth/providers/pam_auth.py
M lib/galaxy/config.py
A lib/galaxy/containers/__init__.py
A lib/galaxy/containers/docker.py
A lib/galaxy/containers/docker_decorators.py
A lib/galaxy/containers/docker_model.py
A lib/galaxy/containers/docker_swarm.py
A lib/galaxy/containers/docker_swarm_manager.py
M lib/galaxy/dataset_collections/types/__init__.py
M lib/galaxy/datatypes/assembly.py
M lib/galaxy/datatypes/binary.py
A lib/galaxy/datatypes/blast.py
M lib/galaxy/datatypes/checkers.py
M lib/galaxy/datatypes/constructive_solid_geometry.py
M lib/galaxy/datatypes/converters/bam_to_bai.xml
M lib/galaxy/datatypes/converters/bam_to_bigwig_converter.xml
M lib/galaxy/datatypes/converters/bcf_bgzip_to_bcf_converter.xml
M lib/galaxy/datatypes/converters/bcf_to_bcf_bgzip_converter.xml
M lib/galaxy/datatypes/converters/bed_gff_or_vcf_to_bigwig_converter.xml
M lib/galaxy/datatypes/converters/bed_to_bgzip_converter.xml
M lib/galaxy/datatypes/converters/bed_to_fli_converter.xml
M lib/galaxy/datatypes/converters/bed_to_gff_converter.py
M lib/galaxy/datatypes/converters/bed_to_gff_converter.xml
M lib/galaxy/datatypes/converters/bed_to_interval_index_converter.xml
M lib/galaxy/datatypes/converters/bed_to_tabix_converter.xml
M lib/galaxy/datatypes/converters/bedgraph_to_array_tree_converter.py
M lib/galaxy/datatypes/converters/bedgraph_to_array_tree_converter.xml
M lib/galaxy/datatypes/converters/bedgraph_to_bigwig_converter.xml
M lib/galaxy/datatypes/converters/bgzip.py
M lib/galaxy/datatypes/converters/cml_to_inchi_converter.xml
M lib/galaxy/datatypes/converters/cml_to_mol2_converter.xml
M lib/galaxy/datatypes/converters/cml_to_sdf_converter.xml
M lib/galaxy/datatypes/converters/cml_to_smi_converter.xml
M lib/galaxy/datatypes/converters/encodepeak_to_bgzip_converter.xml
M lib/galaxy/datatypes/converters/encodepeak_to_tabix_converter.xml
M lib/galaxy/datatypes/converters/fasta_to_2bit.xml
M lib/galaxy/datatypes/converters/fasta_to_bowtie_base_index_converter.xml
M lib/galaxy/datatypes/converters/fasta_to_bowtie_color_index_converter.xml
A lib/galaxy/datatypes/converters/fasta_to_fai.xml
M lib/galaxy/datatypes/converters/fasta_to_len.py
M lib/galaxy/datatypes/converters/fasta_to_len.xml
M lib/galaxy/datatypes/converters/fasta_to_tabular_converter.xml
M lib/galaxy/datatypes/converters/fastq_to_fqtoc.xml
A lib/galaxy/datatypes/converters/fastqbz2_to_fastq.xml
A lib/galaxy/datatypes/converters/fastqcssangerbz2_to_fastqcssanger.xml
A lib/galaxy/datatypes/converters/fastqcssangergz_to_fastqcssanger.xml
A lib/galaxy/datatypes/converters/fastqgz_to_fastq.xml
A lib/galaxy/datatypes/converters/fastqilluminabz2_to_fastqillumina.xml
A lib/galaxy/datatypes/converters/fastqilluminagz_to_fastqillumina.xml
A lib/galaxy/datatypes/converters/fastqsangerbz2_to_fastqsanger.xml
A lib/galaxy/datatypes/converters/fastqsangergz_to_fastqsanger.xml
M lib/galaxy/datatypes/converters/fastqsolexa_to_fasta_converter.py
M lib/galaxy/datatypes/converters/fastqsolexa_to_fasta_converter.xml
M lib/galaxy/datatypes/converters/fastqsolexa_to_qual_converter.py
M lib/galaxy/datatypes/converters/fastqsolexa_to_qual_converter.xml
A lib/galaxy/datatypes/converters/fastqsolexabz2_to_fastqsolexa.xml
A lib/galaxy/datatypes/converters/fastqsolexagz_to_fastqsolexa.xml
M lib/galaxy/datatypes/converters/gff_to_bed_converter.py
M lib/galaxy/datatypes/converters/gff_to_bed_converter.xml
M lib/galaxy/datatypes/converters/gff_to_bgzip_converter.xml
M lib/galaxy/datatypes/converters/gff_to_fli_converter.xml
M lib/galaxy/datatypes/converters/gff_to_interval_index_converter.py
M lib/galaxy/datatypes/converters/gff_to_interval_index_converter.xml
M lib/galaxy/datatypes/converters/gff_to_tabix_converter.xml
M lib/galaxy/datatypes/converters/inchi_to_cml_converter.xml
M lib/galaxy/datatypes/converters/inchi_to_mol2_converter.xml
M lib/galaxy/datatypes/converters/inchi_to_mol_converter.xml
M lib/galaxy/datatypes/converters/inchi_to_sdf_converter.xml
M lib/galaxy/datatypes/converters/inchi_to_smi_converter.xml
M lib/galaxy/datatypes/converters/interval_to_bed12_converter.xml
M lib/galaxy/datatypes/converters/interval_to_bed6_converter.xml
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M lib/galaxy/datatypes/converters/interval_to_bed_converter.xml
M lib/galaxy/datatypes/converters/interval_to_bedstrict_converter.py
M lib/galaxy/datatypes/converters/interval_to_bedstrict_converter.xml
M lib/galaxy/datatypes/converters/interval_to_bgzip_converter.xml
M lib/galaxy/datatypes/converters/interval_to_bigwig_converter.xml
M lib/galaxy/datatypes/converters/interval_to_coverage.py
M lib/galaxy/datatypes/converters/interval_to_coverage.xml
M lib/galaxy/datatypes/converters/interval_to_fli.py
M lib/galaxy/datatypes/converters/interval_to_interval_index_converter.py
M lib/galaxy/datatypes/converters/interval_to_interval_index_converter.xml
M lib/galaxy/datatypes/converters/interval_to_tabix_converter.py
M lib/galaxy/datatypes/converters/interval_to_tabix_converter.xml
M lib/galaxy/datatypes/converters/len_to_linecount.xml
M lib/galaxy/datatypes/converters/lped_to_fped_converter.py
M lib/galaxy/datatypes/converters/lped_to_fped_converter.xml
M lib/galaxy/datatypes/converters/lped_to_pbed_converter.py
M lib/galaxy/datatypes/converters/lped_to_pbed_converter.xml
M lib/galaxy/datatypes/converters/maf_to_fasta_converter.xml
M lib/galaxy/datatypes/converters/maf_to_interval_converter.xml
M lib/galaxy/datatypes/converters/mol2_to_cml_converter.xml
M lib/galaxy/datatypes/converters/mol2_to_inchi_converter.xml
M lib/galaxy/datatypes/converters/mol2_to_mol_converter.xml
M lib/galaxy/datatypes/converters/mol2_to_sdf_converter.xml
M lib/galaxy/datatypes/converters/mol2_to_smi_converter.xml
M lib/galaxy/datatypes/converters/mol_to_cml_converter.xml
M lib/galaxy/datatypes/converters/mol_to_inchi_converter.xml
M lib/galaxy/datatypes/converters/mol_to_mol2_converter.xml
M lib/galaxy/datatypes/converters/pbed_ldreduced_converter.py
M lib/galaxy/datatypes/converters/pbed_ldreduced_converter.xml
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M lib/galaxy/datatypes/converters/pbed_to_lped_converter.xml
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M lib/galaxy/datatypes/converters/picard_interval_list_to_bed6_converter.xml
M lib/galaxy/datatypes/converters/pileup_to_interval_index_converter.py
M lib/galaxy/datatypes/converters/pileup_to_interval_index_converter.xml
M lib/galaxy/datatypes/converters/ref_to_seq_taxonomy_converter.py
M lib/galaxy/datatypes/converters/ref_to_seq_taxonomy_converter.xml
M lib/galaxy/datatypes/converters/sam_to_bam.py
M lib/galaxy/datatypes/converters/sam_to_bam.xml
M lib/galaxy/datatypes/converters/sam_to_bigwig_converter.xml
M lib/galaxy/datatypes/converters/sdf_to_cml_converter.xml
M lib/galaxy/datatypes/converters/sdf_to_inchi_converter.xml
M lib/galaxy/datatypes/converters/sdf_to_mol2_converter.xml
M lib/galaxy/datatypes/converters/sdf_to_smi_converter.xml
M lib/galaxy/datatypes/converters/smi_to_cml_converter.xml
M lib/galaxy/datatypes/converters/smi_to_inchi_converter.xml
M lib/galaxy/datatypes/converters/smi_to_mol2_converter.xml
M lib/galaxy/datatypes/converters/smi_to_mol_converter.xml
M lib/galaxy/datatypes/converters/smi_to_sdf_converter.xml
M lib/galaxy/datatypes/converters/smi_to_smi_converter.xml
M lib/galaxy/datatypes/converters/tabular_to_dbnsfp.py
M lib/galaxy/datatypes/converters/tabular_to_dbnsfp.xml
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M lib/galaxy/datatypes/converters/vcf_to_vcf_bgzip_converter.xml
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M lib/galaxy/datatypes/converters/wiggle_to_array_tree_converter.xml
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M lib/galaxy/datatypes/converters/wiggle_to_simple_converter.xml
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M lib/galaxy/datatypes/display_applications/parameters.py
M lib/galaxy/datatypes/genetics.py
M lib/galaxy/datatypes/images.py
M lib/galaxy/datatypes/interval.py
M lib/galaxy/datatypes/mothur.py
M lib/galaxy/datatypes/msa.py
M lib/galaxy/datatypes/neo4j.py
M lib/galaxy/datatypes/proteomics.py
M lib/galaxy/datatypes/registry.py
M lib/galaxy/datatypes/sequence.py
M lib/galaxy/datatypes/sniff.py
M lib/galaxy/datatypes/tabular.py
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M lib/galaxy/external_services/result_handlers/basic.py
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M lib/galaxy/model/migrate/versions/0012_user_address.py
M lib/galaxy/model/migrate/versions/0013_change_lib_item_templates_to_forms.py
M lib/galaxy/model/migrate/versions/0014_pages.py
M lib/galaxy/model/migrate/versions/0015_tagging.py
M lib/galaxy/model/migrate/versions/0016_v0015_mysql_index_fix.py
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M lib/galaxy/model/migrate/versions/0020_library_upload_job.py
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M lib/galaxy/model/migrate/versions/0024_page_slug_unique_constraint.py
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M lib/galaxy/model/migrate/versions/0027_request_events.py
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M lib/galaxy/model/migrate/versions/0083_add_prepare_files_to_task.py
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A templates/webapps/tool_shed/user/change_password.mako
A templates/webapps/tool_shed/user/index.mako
A templates/webapps/tool_shed/user/username.mako
A test-data/1.fastqsanger.bz2
A test-data/1.fastqsanger.gz
A test-data/bam_from_sam.bam
A test-data/filter_labels_1.txt
A test-data/new_labels_1.txt
A test-data/new_labels_2.txt
A test-data/new_labels_bad_1.txt
A test-data/new_labels_bad_2.txt
A test-data/sam_with_header.sam
A test-data/simple.xml
M test/TESTING.md
R test/api/helpers.py
M test/api/test_api_batch.py
A test/api/test_configuration.py
M test/api/test_dataset_collections.py
M test/api/test_datasets.py
M test/api/test_datatypes.py
M test/api/test_histories.py
M test/api/test_history_contents.py
M test/api/test_history_contents_provenance.py
M test/api/test_jobs.py
M test/api/test_libraries.py
M test/api/test_search.py
M test/api/test_tools.py
M test/api/test_users.py
A test/api/test_visualizations.py
A test/api/test_webhooks.py
R test/api/test_workflow_1.ga
R test/api/test_workflow_2.ga
R test/api/test_workflow_batch.ga
M test/api/test_workflow_extraction.py
R test/api/test_workflow_map_reduce_pause.ga
R test/api/test_workflow_matching_lists.ga
R test/api/test_workflow_missing_tool.ga
R test/api/test_workflow_pause.ga
R test/api/test_workflow_topoambigouity.ga
R test/api/test_workflow_topoambigouity_auto_laidout.ga
R test/api/test_workflow_validation_1.ga
R test/api/test_workflow_with_runtime_input.ga
M test/api/test_workflows.py
M test/api/test_workflows_from_yaml.py
R test/api/workflows_format_2/README.txt
R test/api/workflows_format_2/__init__.py
R test/api/workflows_format_2/converter.py
R test/api/workflows_format_2/interface.py
R test/api/workflows_format_2/main.py
M test/base/api.py
M test/base/api_asserts.py
A test/base/data/test_workflow_1.ga
A test/base/data/test_workflow_2.ga
A test/base/data/test_workflow_batch.ga
A test/base/data/test_workflow_map_reduce_pause.ga
A test/base/data/test_workflow_matching_lists.ga
A test/base/data/test_workflow_missing_tool.ga
A test/base/data/test_workflow_pause.ga
A test/base/data/test_workflow_topoambigouity.ga
A test/base/data/test_workflow_topoambigouity_auto_laidout.ga
A test/base/data/test_workflow_validation_1.ga
A test/base/data/test_workflow_with_runtime_input.ga
M test/base/driver_util.py
M test/base/integration_util.py
M test/base/interactor.py
A test/base/populators.py
M test/base/twilltestcase.py
A test/base/workflows_format_2/README.txt
A test/base/workflows_format_2/__init__.py
A test/base/workflows_format_2/converter.py
A test/base/workflows_format_2/interface.py
A test/base/workflows_format_2/main.py
R test/casperjs/anon-history-tests.js
R test/casperjs/api-batch-tests.js
R test/casperjs/api-configuration-tests.js
R test/casperjs/api-dataset-tests.js
R test/casperjs/api-history-tests.js
R test/casperjs/api-tool-tests.js
R test/casperjs/api-user-tests.js
R test/casperjs/api-visualizations-tests.js
R test/casperjs/hda-state-tests.js
R test/casperjs/history-options-tests.js
R test/casperjs/history-panel-tests.js
R test/casperjs/history-share-tests.js
R test/casperjs/login-tests.js
R test/casperjs/registration-tests.js
R test/casperjs/upload-tests.js
M test/docker/README.md
M test/docker/base/Dockerfile
M test/docker/base/ansible_vars.yml
M test/docker/base/run_test_wrapper.sh
M test/functional/test_library_templates.py
M test/functional/test_toolbox.py
M test/functional/tools/checksum.xml
M test/functional/tools/column_param.xml
A test/functional/tools/compressed_bz2_fastq_conversion.xml
A test/functional/tools/compressed_bz2_fastq_no_conversion.xml
A test/functional/tools/compressed_gz_fastq_conversion.xml
A test/functional/tools/compressed_gz_fastq_no_conversion.xml
M test/functional/tools/create_10.xml
A test/functional/tools/create_2.xml
A test/functional/tools/explicit_conversion.xml
A test/functional/tools/for_tours/filtering.py
A test/functional/tools/for_tours/filtering.xml
A test/functional/tools/for_workflows/mapper2.xml
A test/functional/tools/identifier_multiple_in_conditional.xml
A test/functional/tools/identifier_multiple_in_repeat.xml
A test/functional/tools/implicit_conversion.xml
A test/functional/tools/is_valid_xml.xml
A test/functional/tools/legacy_r.xml
M test/functional/tools/md5sum.xml
A test/functional/tools/mulled_example_conflict.xml
A test/functional/tools/mulled_example_multi_incomplete.xml
A test/functional/tools/output_format_deprecated_when.xml
A test/functional/tools/paired_collection_map_over_structured_like.xml
A test/functional/tools/param_text_option.xml
A test/functional/tools/python_environment_problem.py
A test/functional/tools/python_environment_problem.xml
A test/functional/tools/sam_to_bam.xml
M test/functional/tools/sample_datatypes_conf.xml
M test/functional/tools/samples_tool_conf.xml
A test/functional/webhooks/history_test1/config/history_test1.yml
A test/functional/webhooks/history_test2/config/history_test2.yml
A test/functional/webhooks/masthead_test/config/masthead_test.yml
A test/functional/webhooks/phdcomics/config/phdcomics.yaml
A test/functional/webhooks/phdcomics/helper/__init__.py
A test/functional/webhooks/phdcomics/static/script.js
A test/functional/webhooks/phdcomics/static/styles.css
A test/functional/webhooks/trans_object/config/trans_object.yaml
A test/functional/webhooks/trans_object/helper/__init__.py
A test/functional/webhooks/xkcd/config/xkcd.yml
A test/functional/webhooks/xkcd/static/script.js
A test/functional/webhooks/xkcd/static/styles.css
R test/functional/workflow.py
A test/galaxy_selenium/__init__.py
A test/galaxy_selenium/cli.py
A test/galaxy_selenium/data.py
A test/galaxy_selenium/driver_factory.py
A test/galaxy_selenium/has_driver.py
A test/galaxy_selenium/navigates_galaxy.py
A test/galaxy_selenium/navigation-data.yml
A test/galaxy_selenium/sizzle.py
A test/integration/resubmission_default_job_conf.xml
A test/integration/resubmission_job_conf.xml
A test/integration/resubmission_job_resource_parameters_conf.xml
A test/integration/resubmission_rules/__init__.py
A test/integration/resubmission_rules/rules.py
A test/integration/resubmission_runners.py
A test/integration/test_job_resubmission.py
A test/integration/test_maximum_worklfow_invocation_duration.py
M test/integration/test_resolvers.py
A test/integration/test_workflow_handler_configuration.py
A test/integration/workflow_handler_configuration_job_conf.xml
A test/integration/workflow_handler_configuration_workflow_scheduler_conf.xml
M test/manual/workflows_scaling.py
M test/qunit/package.json
M test/qunit/test-data/paired-collection-creator.data.js
M test/qunit/tests/form_tests.js
M test/qunit/tests/ui_tests.js
M test/qunit/tests/workflow_editor_tests.js
A test/selenium_tests/__init__.py
A test/selenium_tests/_workflow_fixtures.py
A test/selenium_tests/framework.py
A test/selenium_tests/test_anon_history.py
A test/selenium_tests/test_collection_builders.py
A test/selenium_tests/test_history_dataset_state.py
A test/selenium_tests/test_history_options.py
A test/selenium_tests/test_history_panel.py
A test/selenium_tests/test_history_sharing.py
A test/selenium_tests/test_login.py
A test/selenium_tests/test_registration.py
A test/selenium_tests/test_stock_tours.py
A test/selenium_tests/test_tool_form.py
A test/selenium_tests/test_uploads.py
A test/selenium_tests/test_workflow_editor.py
A test/selenium_tests/test_workflow_management.py
A test/selenium_tests/test_workflow_run.py
M test/shed_functional/base/twilltestcase.py
M test/shed_functional/functional/test_1010_install_repository_with_tool_dependencies.py
M test/shed_functional/functional/test_1090_repository_dependency_handling.py
M test/shed_functional/functional/test_1140_simple_repository_dependency_multiple_owners.py
M test/shed_functional/functional/test_1150_datatype_converters.py
M test/shed_functional/functional/test_1210_uninstall_reinstall_repository_with_tool_dependencies.py
M test/unit/dataset_collections/test_matching.py
M test/unit/datatypes/dataproviders/test_base_dataproviders.py
M test/unit/datatypes/dataproviders/test_line_dataproviders.py
M test/unit/jobs/dynamic_tool_destination/test_dynamic_tool_destination.py
M test/unit/jobs/test_command_factory.py
M test/unit/jobs/test_job_configuration.py
M test/unit/jobs/test_job_output_checker.py
M test/unit/jobs/test_job_wrapper.py
M test/unit/jobs/test_mapper.py
M test/unit/jobs/test_rule_helper.py
M test/unit/jobs/test_runner_local.py
M test/unit/managers/base.py
M test/unit/managers/test_CollectionManager.py
M test/unit/managers/test_DatasetManager.py
M test/unit/managers/test_HDAManager.py
M test/unit/managers/test_HDCAManager.py
M test/unit/managers/test_HistoryContentsManager.py
M test/unit/managers/test_HistoryManager.py
M test/unit/managers/test_UserManager.py
M test/unit/shed_unit/test_fabric_util.py
M test/unit/shed_unit/test_td_common_util.py
M test/unit/shed_unit/test_tool_panel_manager.py
M test/unit/test_galaxy_transactions.py
M test/unit/test_routes.py
M test/unit/test_sockets.py
M test/unit/tools/test_actions.py
M test/unit/tools/test_citations.py
M test/unit/tools/test_collect_primary_datasets.py
M test/unit/tools/test_column_parameters.py
M test/unit/tools/test_conda_resolution.py
M test/unit/tools/test_data_parameters.py
M test/unit/tools/test_dataset_matcher.py
M test/unit/tools/test_evaluation.py
M test/unit/tools/test_execution.py
M test/unit/tools/test_history_imp_exp.py
M test/unit/tools/test_parameter_parsing.py
M test/unit/tools/test_select_parameters.py
M test/unit/tools/test_tool_deps.py
M test/unit/tools/test_tool_external_files.py
M test/unit/tools/test_toolbox.py
M test/unit/tools/test_watcher.py
M test/unit/tools/test_wrappers.py
M test/unit/tools_support.py
M test/unit/unittest_utils/galaxy_mock.py
M test/unit/unittest_utils/tempfilecache.py
M test/unit/unittest_utils/utility.py
M test/unit/visualizations/plugins/test_VisualizationPlugin.py
M test/unit/visualizations/plugins/test_VisualizationsRegistry.py
M test/unit/web/base/test_HookPluginManager.py
M test/unit/web/base/test_PageServingPluginManager.py
M test/unit/web/base/test_PluginManager.py
M test/unit/web/framework/test_webapp.py
M test/unit/workflows/test_modules.py
M test/unit/workflows/test_run_parameters.py
M test/unit/workflows/test_workflow_progress.py
M test/unit/workflows/workflow_support.py
A tool-data/blastdb.loc.sample
A tool-data/blastdb_d.loc.sample
A tool-data/blastdb_p.loc.sample
M tool-data/shared/ucsc/builds.txt.sample
M tool-data/shared/ucsc/ucsc_build_sites.txt.sample
M tools/data_source/data_source.py
M tools/data_source/fetch.py
M tools/data_source/genbank.py
M tools/data_source/upload.py
M tools/evolution/add_scores.py
M tools/evolution/add_scores.xml
M tools/extract/extract_genomic_dna.py
M tools/extract/extract_genomic_dna.xml
M tools/extract/liftOver_wrapper.py
M tools/filters/axt_to_fasta.py
M tools/filters/bed_to_gff_converter.py
M tools/filters/catWrapper.py
M tools/filters/convert_characters.py
M tools/filters/gff/extract_GFF_Features.py
M tools/filters/gff/gff_filter_by_attribute.py
M tools/filters/gff/gff_filter_by_attribute.xml
M tools/filters/gff/gff_filter_by_feature_count.py
M tools/filters/gff/gff_filter_by_feature_count.xml
M tools/filters/gff/gtf_filter_by_attribute_values_list.py
R tools/filters/gff/sort_gtf.py
M tools/filters/gff_to_bed_converter.py
M tools/filters/grep.py
M tools/filters/gtf_to_bedgraph_converter.py
M tools/filters/join.py
M tools/filters/joinWrapper.py
M tools/filters/lav_to_bed.py
M tools/filters/mergeCols.py
M tools/filters/pasteWrapper.xml
M tools/filters/random_lines_two_pass.py
M tools/filters/randomlines.py
M tools/filters/secure_hash_message_digest.py
M tools/filters/sorter.py
M tools/filters/trimmer.py
M tools/filters/trimmer.xml
M tools/filters/ucsc_gene_bed_to_exon_bed.py
M tools/filters/ucsc_gene_bed_to_intron_bed.py
M tools/filters/ucsc_gene_table_to_intervals.py
M tools/filters/uniq.py
M tools/filters/wiggle_to_simple.py
M tools/genomespace/genomespace_exporter.py
M tools/genomespace/genomespace_file_browser.py
M tools/genomespace/genomespace_importer.py
M tools/maf/genebed_maf_to_fasta.xml
M tools/maf/interval2maf.py
M tools/maf/interval2maf.xml
M tools/maf/interval2maf_pairwise.xml
M tools/maf/interval_maf_to_merged_fasta.py
M tools/maf/interval_maf_to_merged_fasta.xml
M tools/maf/macros.xml
M tools/maf/maf_by_block_number.py
M tools/maf/maf_by_block_number.xml
M tools/maf/maf_filter.py
M tools/maf/maf_filter.xml
M tools/maf/maf_limit_size.py
M tools/maf/maf_limit_size.xml
M tools/maf/maf_limit_to_species.py
M tools/maf/maf_limit_to_species.xml
M tools/maf/maf_reverse_complement.py
M tools/maf/maf_reverse_complement.xml
M tools/maf/maf_split_by_species.py
M tools/maf/maf_split_by_species.xml
M tools/maf/maf_stats.py
M tools/maf/maf_stats.xml
M tools/maf/maf_thread_for_species.py
M tools/maf/maf_thread_for_species.xml
M tools/maf/maf_to_bed.py
M tools/maf/maf_to_bed.xml
M tools/maf/maf_to_fasta.xml
M tools/maf/maf_to_fasta_multiple_sets.py
M tools/maf/maf_to_interval.py
M tools/maf/maf_to_interval.xml
M tools/maf/vcf_to_maf_customtrack.py
M tools/maf/vcf_to_maf_customtrack.xml
M tools/meme/fimo_wrapper.py
M tools/metag_tools/blat_wrapper.py
M tools/metag_tools/shrimp_color_wrapper.xml
M tools/metag_tools/shrimp_wrapper.xml
M tools/next_gen_conversion/fastq_conversions.py
M tools/next_gen_conversion/fastq_gen_conv.py
M tools/next_gen_conversion/fastq_gen_conv.xml
M tools/next_gen_conversion/solid2fastq.py
M tools/next_gen_conversion/solid_to_fastq.py
M tools/ngs_simulation/ngs_simulation.py
M tools/phenotype_association/pagetag.py
M tools/phenotype_association/senatag.py
M tools/plotting/bar_chart.xml
M tools/solid_tools/maq_cs_wrapper.py
M tools/solid_tools/solid_qual_stats.py
M tools/sr_assembly/velveth_wrapper.py
M tools/sr_mapping/bfast_wrapper.py
M tools/sr_mapping/srma_wrapper.py
M tools/stats/aggregate_binned_scores_in_intervals.xml
M tools/stats/aggregate_scores_in_intervals.py
M tools/stats/filtering.py
M tools/stats/grouping.py
M tools/stats/gsummary.py
M tox.ini
Log Message:
-----------
Merge branch 'dev' into fix_documentation_build
Commit: 7edfe39f20024f161a30be14406c0baa2a9807bf
https://github.com/galaxyproject/galaxy/commit/7edfe39f20024f161a30be14406c…
Author: Martin Cech <marten(a)bx.psu.edu>
Date: 2017-04-26 (Wed, 26 Apr 2017)
Changed paths:
M Makefile
Log Message:
-----------
fix makefile help for docs
thanks nsoranzo
Commit: 7ba3662d29f0f8d9c6a24ea3fa66eee421f6059d
https://github.com/galaxyproject/galaxy/commit/7ba3662d29f0f8d9c6a24ea3fa66…
Author: Martin Cech <marten(a)bx.psu.edu>
Date: 2017-04-27 (Thu, 27 Apr 2017)
Changed paths:
M Makefile
M lib/galaxy/dependencies/dev-requirements.txt
Log Message:
-----------
Merge pull request #3104 from athos-ribeiro/fix_documentation_build
Add missing imports for documentation builds
Compare: https://github.com/galaxyproject/galaxy/compare/26afd36a4d13...7ba3662d29f0
Branch: refs/heads/release_17.01
Home: https://github.com/galaxyproject/galaxy
Commit: 60e00088c8b27c04734c7f7adb3cdae6a9a9580f
https://github.com/galaxyproject/galaxy/commit/60e00088c8b27c04734c7f7adb3c…
Author: John Chilton <jmchilton(a)gmail.com>
Date: 2017-04-24 (Mon, 24 Apr 2017)
Changed paths:
M client/galaxy/scripts/mvc/workflow/workflow-terminals.js
M static/maps/mvc/workflow/workflow-terminals.js.map
M static/scripts/mvc/workflow/workflow-terminals.js
Log Message:
-----------
Fix edge case for workflow mapping handling when tools not available.
Fixes #3960.
Commit: 3fcd78564630fae9c4670cfbe198572f94f688c0
https://github.com/galaxyproject/galaxy/commit/3fcd78564630fae9c4670cfbe198…
Author: Martin Cech <marten(a)bx.psu.edu>
Date: 2017-04-27 (Thu, 27 Apr 2017)
Changed paths:
M client/galaxy/scripts/mvc/workflow/workflow-terminals.js
M static/maps/mvc/workflow/workflow-terminals.js.map
M static/scripts/mvc/workflow/workflow-terminals.js
Log Message:
-----------
Merge pull request #3962 from jmchilton/workflow_editor_mapping_test
[17.01] Fix edge case for workflow mapping handling when tools not available.
Compare: https://github.com/galaxyproject/galaxy/compare/f3c134abcb04...3fcd78564630
Branch: refs/heads/dev
Home: https://github.com/galaxyproject/galaxy
Commit: c0fd3c7c6ddef01b0546b485a1a4e88d215042e2
https://github.com/galaxyproject/galaxy/commit/c0fd3c7c6ddef01b0546b485a1a4…
Author: guerler <aysam.guerler(a)gmail.com>
Date: 2017-04-19 (Wed, 19 Apr 2017)
Changed paths:
M client/galaxy/scripts/mvc/tool/tool-form-composite.js
M lib/galaxy/tools/__init__.py
M static/maps/mvc/tool/tool-form-composite.js.map
M static/scripts/mvc/tool/tool-form-composite.js
Log Message:
-----------
Display input parameters default value for runtime values
Commit: fba860f689d1af5e6727a946e20e1521f83620ed
https://github.com/galaxyproject/galaxy/commit/fba860f689d1af5e6727a946e20e…
Author: guerler <aysam.guerler(a)gmail.com>
Date: 2017-04-19 (Wed, 19 Apr 2017)
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
Log Message:
-----------
Use local flag to handle runtime values
Commit: 291426a5dcd7941e1d6711b5926418bf0dab0c4c
https://github.com/galaxyproject/galaxy/commit/291426a5dcd7941e1d6711b59264…
Author: John Chilton <jmchilton(a)gmail.com>
Date: 2017-04-27 (Thu, 27 Apr 2017)
Changed paths:
M client/galaxy/scripts/mvc/tool/tool-form-composite.js
M lib/galaxy/tools/__init__.py
M static/maps/mvc/tool/tool-form-composite.js.map
M static/scripts/mvc/tool/tool-form-composite.js
Log Message:
-----------
Merge pull request #3943 from guerler/show_default_value_for_runtime_values
Show default value for runtime values
Compare: https://github.com/galaxyproject/galaxy/compare/b7a8bea3cd67...291426a5dcd7