Merge pull request #6731 from galaxyproject/18.09_release_notes

[18.09] 18.09 release notes
This commit is contained in:
Nicola Soranzo
2018-10-11 17:56:33 +01:00
committed by GitHub
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===========================================================
September 2018 Galaxy Release (v 18.09)
===========================================================
.. include:: _header.rst
Highlights
===========================================================
**Extensive Workflow Enhancements**
Workflows got a lot of love this time around, with new runtime parameters for
subworkflows, exposed workflow versions, and zoom capability in the editor, to
name a few. There were also a number of usability enhancements including
better labeling, links, overhauled workflow import interfaces, and many more.
`Pull Request 6664`_, `Pull Request 6683`_, `Pull Request 6142`_,
`Pull Request 6240`_, `Pull Request 6290`_, `Pull Request 6428`_,
`Pull Request 6441`_, `Pull Request 6580`_, `Pull Request 6596`_,
`Pull Request 6678`_, `Pull Request 6076`_, `Pull Request 6274`_,
`Pull Request 6570`_, `Pull Request 6680`_, `Pull Request 6774`_
**Group Tags**
Galaxy now contains powerful new features for multiple factor analysis of collections
of datasets. The concept of group tags has been added to Galaxy. These are a special
class of tags that describe key-value pairs that can be attached to the contents of a
collection during upload or using collection operation tools. These tags can describe
multiple sets of variables for the contents of a collection. Once set, these tags can
be consumed intelligently by tools that need to divide collections into multiple
overlapping factors or sets of datasets. A special thanks to `@mvdbeek <https://github.com/mvdbeek>`__ for devising and implementing this approach.
`Pull Request 5457`_, `Pull Request 6491`_, `Pull Request 6661`_,
`Pull Request 6750`_, `Pull Request 6499`_, `Pull Request 6500`_,
`Pull Request 6572`_, `Pull Request 6545`_
**Python 3 Beta Support**
After almost 3 years of work and more than 100 pull requests, we are proud
to announce the Beta-stage support for running Galaxy under Python 3.
Lint, unit, API, framework, integration and Selenium tests all pass, time
for you to give it a try and report any bug you find!
`Tracking issue <https://github.com/galaxyproject/galaxy/issues/1715>`__
Get Galaxy
==========
The code lives at `GitHub <https://github.com/galaxyproject/galaxy>`__ and you should have `Git <https://git-scm.com/>`__ to obtain it.
To get a new Galaxy repository run:
.. code-block:: shell
$ git clone -b release_18.09 https://github.com/galaxyproject/galaxy.git
To update an existing Galaxy repository run:
.. code-block:: shell
$ git fetch origin && git checkout release_18.09 && git pull --ff-only origin release_18.09
See the `community hub <https://galaxyproject.org/develop/source-code/>`__ for additional details regarding the source code locations.
Security
========
Unauthorized File System Operations via New Upload API
------------------------------------------------------
Tracked as GX-2018-0006. Servers running Galaxy 18.05 should be updated as soon as possible.
See `the public announcement for full details
<http://announce.list.galaxyproject.org/GX-2018-0006-Unauthorized-File-System-Operations-via-New-Upload-API-td4639432.html>`__.
Deprecation Notice
==================
With 19.01, all Galaxy users will be forced to have a username. This
requirement has been enforced on user creation for years, though we have never
taken steps to coerce users created in the past who did not have one. The
19.01 release will come with a migration script that will coerce this in the
database, which will allow us to have consistent handling of this field.
Release Notes
===========================================================
.. include:: 18.09.rst
:start-after: announce_start
.. include:: _thanks.rst
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===========================================================
January 2019 Galaxy Release (v 19.01)
===========================================================
Schedule
===========================================================
* Planned Freeze Date: 2019-01-07
* Planned Release Date: 2019-01-28
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@@ -40,7 +40,8 @@ DEVTEAM = [
"afgane", "dannon", "blankenberg",
"davebx", "martenson", "jmchilton",
"tnabtaf", "natefoo", "jgoecks",
"guerler", "jennaj", "nekrut", "jxtx"
"guerler", "jennaj", "nekrut", "jxtx",
"VJalili"
]
TEMPLATE = """
@@ -102,7 +103,7 @@ Highlights
Get Galaxy
==========
The code lives at `Github <https://github.com/galaxyproject/galaxy>`__ and you should have `Git <https://git-scm.com/>`__ to obtain it.
The code lives at `GitHub <https://github.com/galaxyproject/galaxy>`__ and you should have `Git <https://git-scm.com/>`__ to obtain it.
To get a new Galaxy repository run:
.. code-block:: shell
@@ -198,7 +199,7 @@ RELEASE_ISSUE_TEMPLATE = string.Template("""
- [ ] Ensure all [blocking milestone PRs](https://github.com/galaxyproject/galaxy/pulls?q=is%3Aopen+is%3Apr+milestone%3A${version}) have been merged or closed.
make release-check-blocking-prs RELEASE_CURR=${version}
- [ ] Ensure previous release is merged into current. [Github branch comparison](https://github.com/galaxyproject/galaxy/compare/release_${version}...release_${previous_version})
- [ ] Ensure previous release is merged into current. [GitHub branch comparison](https://github.com/galaxyproject/galaxy/compare/release_${version}...release_${previous_version})
- [ ] Create and push release tag:
make release-create RELEASE_CURR=${version}