diff --git a/doc/source/releases/18.09.rst b/doc/source/releases/18.09.rst index aae09b94638..803b506d638 100644 --- a/doc/source/releases/18.09.rst +++ b/doc/source/releases/18.09.rst @@ -11,9 +11,7 @@ Enhancements .. feature -* Allow selecting subset of collection by group tag - (thanks to `@mvdbeek `__). - `Pull Request 5457`_ + * Copy data from a cloud-based storage to a Galaxy history (thanks to `@VJalili `__). `Pull Request 5835`_ @@ -225,12 +223,6 @@ Enhancements * small improvement to the too xsd docs regarding discovered_datasets (thanks to `@bernt-matthias `__). `Pull Request 6490`_ -* Implement ``group:`` tags (toward multi-factor analysis with group tagging) - `Pull Request 6491`_ -* Allow setting tags on targets & contents in data fetch API. - `Pull Request 6499`_ -* Integrate tagging into the rule builder. - `Pull Request 6500`_ * Cache chrom_info generation when mapping over collections. `Pull Request 6515`_ * More optimized HID generation - in one commit instead of two. @@ -254,8 +246,6 @@ Enhancements `Pull Request 6539`_ * Test case for nested collection input to flatten in a workflow. `Pull Request 6541`_ -* Allow Consuming Tags in the Apply Rules Tool - `Pull Request 6545`_ * Integration test for the interaction of nested object stores and jobs. `Pull Request 6546`_ * Configure object store for datasets in job handler instead of web thread. @@ -264,10 +254,6 @@ Enhancements `Pull Request 6552`_ * Unified dataset permission API. `Pull Request 6568`_ -* Add tagging rule to history level rule builder, copy HDAs when building - collection - (thanks to `@mvdbeek `__). - `Pull Request 6572`_ * Add API endpoint to fetch a history's workflow invocations. `Pull Request 6580`_ * Improve robustness of tour Selenium test. @@ -314,9 +300,6 @@ Enhancements * Add Seurat datatype: rdata.seurat (thanks to `@mblue9 `__). `Pull Request 6648`_ -* Allow group tag selection also for multiple="true" inputs - (thanks to `@mvdbeek `__). - `Pull Request 6661`_ * Various link and documentation fixes (thanks to `@nsoranzo `__). `Pull Request 6662`_ @@ -330,8 +313,6 @@ Enhancements `Pull Request 6681`_ * Add self help to error reporting interface `Pull Request 6711`_ -* Undo auto-propagation of group tags. - `Pull Request 6750`_ * Client build startup changes `Pull Request 6753`_ * Add graph dot datatype and enable it in visualisations diff --git a/doc/source/releases/18.09_announce.rst b/doc/source/releases/18.09_announce.rst index ec63852de17..2f4832b9f9b 100644 --- a/doc/source/releases/18.09_announce.rst +++ b/doc/source/releases/18.09_announce.rst @@ -8,14 +8,6 @@ September 2018 Galaxy Release (v 18.09) Highlights =========================================================== -**OpenID Connect Support** - Galaxy now supports using OpenID Connect for user login, relying on trusted - identity providers to manage authentication. This is intended to replace the - old (and mostly deprecated, on the web) OpenID 2.0 logins. Read more at - https://galaxyproject.org/admin/authentication/ - - `https://github.com/galaxyproject/galaxy/pull/4474` - **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 @@ -24,6 +16,19 @@ Highlights (link up PRs) +**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 `__ 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. @@ -51,7 +56,13 @@ See the `community hub `__ for a Security ======== -(TODO: Add notes) + +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 +`__. Breaking Changes ================