Branch: refs/heads/dev Home: https://github.com/galaxyproject/galaxy Commit: 66af9ce96111685e8fe22c48aa7d0e6471027c64 https://github.com/galaxyproject/galaxy/commit/66af9ce96111685e8fe22c48aa7d0... Author: mvdbeek m.vandenbeek@gmail.com Date: 2018-07-16 (Mon, 16 Jul 2018)

Changed paths: M lib/galaxy/dependencies/pipfiles/default/pinned-requirements.txt M lib/galaxy/tools/actions/upload_common.py M lib/galaxy/tools/parameters/dynamic_options.py M lib/galaxy/web/framework/base.py M tools/data_source/upload.py

Log Message: ----------- Make upload tool python3 compatible

Commit: 8ce663addbb9f8cde2bd411ab45f097cffa017e8 https://github.com/galaxyproject/galaxy/commit/8ce663addbb9f8cde2bd411ab45f0... Author: mvdbeek m.vandenbeek@gmail.com Date: 2018-07-16 (Mon, 16 Jul 2018)

Changed paths: M lib/galaxy/tools/__init__.py M lib/galaxy/tools/actions/upload_common.py M lib/galaxy/tools/parameters/basic.py M lib/galaxy/web/framework/base.py M lib/galaxy/webapps/galaxy/controllers/root.py

Log Message: ----------- Consistently use webob.compat.cgi_FieldStorage

This works around bugs in python3 cgi.FieldStorage.

Commit: a729faab8ba5e82e33baa837e804afd747532a9d https://github.com/galaxyproject/galaxy/commit/a729faab8ba5e82e33baa837e804a... Author: mvdbeek m.vandenbeek@gmail.com Date: 2018-07-16 (Mon, 16 Jul 2018)

Changed paths: M lib/galaxy/web/framework/middleware/batch.py

Log Message: ----------- Fix batch api middleware

Commit: 28cca49747d29bacbb0751df34475a47cd045cd9 https://github.com/galaxyproject/galaxy/commit/28cca49747d29bacbb0751df34475... Author: Nicola Soranzo nicola.soranzo@earlham.ac.uk Date: 2018-07-16 (Mon, 16 Jul 2018)

Changed paths: M lib/galaxy/dependencies/pipfiles/default/Pipfile

Log Message: ----------- Remove WebOb pin in Pipfile

Commit: ca8547ce1d729249f8ff07962e8e96d4f017a556 https://github.com/galaxyproject/galaxy/commit/ca8547ce1d729249f8ff07962e8e9... Author: mvdbeek m.vandenbeek@gmail.com Date: 2018-07-16 (Mon, 16 Jul 2018)

Changed paths: M lib/galaxy/tools/parameters/dynamic_options.py

Log Message: ----------- Inject `self` and `obj` into global scope

The list comprehension code in `transform_lines` gets its own local scope, so just copying the local scope into the eval functions local scope doesn't work.

Commit: c5fa023c26fafa53ea9da477243b13b3e6b85278 https://github.com/galaxyproject/galaxy/commit/c5fa023c26fafa53ea9da477243b1... Author: mvdbeek m.vandenbeek@gmail.com Date: 2018-07-16 (Mon, 16 Jul 2018)

Changed paths: M config/plugins/webhooks/demo/tour_generator/__init__.py M lib/galaxy/webapps/tool_shed/api/repositories.py

Log Message: ----------- Use webob.compat's FieldStorage in the remaining codebase

Commit: a65cd29c366035fb8b26e2274046e8c96e3cab33 https://github.com/galaxyproject/galaxy/commit/a65cd29c366035fb8b26e2274046e... Author: Nicola Soranzo nicola.soranzo@earlham.ac.uk Date: 2018-07-16 (Mon, 16 Jul 2018)

Changed paths: M lib/galaxy/web/framework/base.py

Log Message: ----------- Patch webob.compat.cgi_FieldStorage instead of overwrite it

Commit: c6c34beb812a966c224c30c17e675d6dfd278248 https://github.com/galaxyproject/galaxy/commit/c6c34beb812a966c224c30c17e675... Author: Nicola Soranzo nicola.soranzo@earlham.ac.uk Date: 2018-07-16 (Mon, 16 Jul 2018)

Changed paths: M tox.ini

Log Message: ----------- Add py34-unit to default tox tests

Commit: 9d886c866da5a04e51e5ff6887867393a009257d https://github.com/galaxyproject/galaxy/commit/9d886c866da5a04e51e5ff6887867... Author: Nicola Soranzo nicola.soranzo@tgac.ac.uk Date: 2018-07-16 (Mon, 16 Jul 2018)

Changed paths: M lib/galaxy/tools/actions/upload_common.py

Log Message: ----------- Use six.moves for urlparse import

Commit: 347e3124f4628cde3ad9f6ba169ecf1d2a0a0e4e https://github.com/galaxyproject/galaxy/commit/347e3124f4628cde3ad9f6ba169ec... Author: John Chilton jmchilton@gmail.com Date: 2018-07-17 (Tue, 17 Jul 2018)

Changed paths: M config/plugins/webhooks/demo/tour_generator/__init__.py M lib/galaxy/dependencies/pipfiles/default/Pipfile M lib/galaxy/dependencies/pipfiles/default/pinned-requirements.txt M lib/galaxy/tools/__init__.py M lib/galaxy/tools/actions/upload_common.py M lib/galaxy/tools/parameters/basic.py M lib/galaxy/tools/parameters/dynamic_options.py M lib/galaxy/web/framework/base.py M lib/galaxy/web/framework/middleware/batch.py M lib/galaxy/webapps/galaxy/controllers/root.py M lib/galaxy/webapps/tool_shed/api/repositories.py M tools/data_source/upload.py M tox.ini

Log Message: ----------- Merge pull request #6467 from mvdbeek/fix_upload_tool_py3

Make upload tool python3 compatible

Compare: https://github.com/galaxyproject/galaxy/compare/051bc9507313...347e3124f462 **NOTE:** This service been marked for deprecation: https://developer.github.com/changes/2018-04-25-github-services-deprecation/

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