diff --git a/doc/source/releases/21.09_announce_user.rst b/doc/source/releases/21.09_announce_user.rst index cd1bf201b8c..32c40386ca6 100644 --- a/doc/source/releases/21.09_announce_user.rst +++ b/doc/source/releases/21.09_announce_user.rst @@ -8,85 +8,76 @@ September 2021 Galaxy Release (v 21.09) Highlights =========================================================== -Please note that the release is still being tested and finalized, and that these -are pre-release notes. +Tool Panel +---------- -Check back here for the official and comprehensive notes soon! +We now have "Tool Panel Views"! These are different views into the same toolbox and might help it make it easier to find the tools you want. In the future there are plans to create user-customisable toolboxes, but until then go explore the new EDAM Ontology based toolboxes which organise tools around their scientific area, or based on the scientific process they do. For example a category like "Filtering" might have tools like "select lines" or "filter bam by quality", both doing the same process of filtering, despite their different filetypes and formats. -**Feature1** - Feature description. +.. raw:: html -**Feature2** - Feature description. + -**Feature3** - Feature description. +Unfortunately not all tools are well annotated yet, and while we also pull terms from `bio.tools `__, this still doesn't get us full coverage and many tools will still appear under a large section "Uncategorized". Hopefully this will improve as users and tool developers annotate these tools with their terms to help everyone find them. + +More details can be found in `Pull Request 12327`_, `Pull Request 12365`_, and `Pull Request 12291`_ + +Collections (Beta History Updates) +---------------------------------- + +Did you ever create *a collection with the wrong dbkey or datatype*? Well in the Beta History you can now **change collections' datatypes and dbkeys**! This should save a lot of time for everyone working with large datasets (`Pull Request 11799`). + +.. raw:: html + + + +Additionally did a *collection ever fail* for you? And you wondered why? Now you can find out with the **view details button for collections** (`Pull Request 12261`_)! + +Importing Data +-------------- + +Selecting datasets from the Remote Files view has gotten easier! Now you can select folders and files, and it will import all of the datasets recursively in those folders. Previously you could only select files within a folder so this is a huge improvement in usability of such a key new feature of Galaxy. (`Pull Request 12310`_) But with great power comes great responsibility, be careful not to import the entirety of NCBI! + +.. raw:: html + + -New Visualizations -=========================================================== +Reports +------- + +Report components used to try and arrange themselves in a smart way, but due to some issues with the floating of report components these will now be full width until we can figure out a good way to provide a similar feature allowing you to control the layout of the report. (`Pull Request 12085`_) + +.. figure:: images/21.09-reports.png + :alt: A screenshot of the reports interface is shown, there are a number of 'report components' like table previews embedded and these are full width across the report. + +News Webhook +------------ + +You might be reading this in the recently added "News" feature! This is the very first iteration of this component, hopefully in the future we will expand it to bring you all of your news and Galaxy notifications. The idea with the current iteration is that whenever your server admin updates Galaxy to a new version, everyone using the server will get a small, non-intrusive notification with these release notes! There you can find out all of the new features in Galaxy and quick videos on their use. (`Pull Request 12396`_) -.. visualizations New Datatypes =========================================================== .. datatypes -* Convert/standardize to fstrings across `lib` - `Pull Request 11338`_ -* Added documentation for FASTQ datatypes and implemented quality check - (thanks to `@bernt-matthias `__). - `Pull Request 11931`_ * Make dataset preview for h5mlm datatype (thanks to `@qiagu `__). `Pull Request 11935`_ * Add datatypes for Structural Materials Hexrd application (thanks to `@jj-umn `__). `Pull Request 11957`_ -* Adding new subclass types - (thanks to `@maikenp `__). - `Pull Request 12097`_ -* Converters: use target datatype - (thanks to `@bernt-matthias `__). - `Pull Request 12185`_ * Add bref3 datatype (thanks to `@gallardoalba `__). `Pull Request 12199`_ -* Converters: add missing tests and add linting to converter tests - (thanks to `@bernt-matthias `__). - `Pull Request 12202`_ -* Converters: Unify converters to tabix and bgzip - (thanks to `@bernt-matthias `__). - `Pull Request 12213`_ -* Converters: Unify molecules converters - (thanks to `@bernt-matthias `__). - `Pull Request 12214`_ -* Converters: Unify dcd, trr, xtc - (thanks to `@bernt-matthias `__). - `Pull Request 12224`_ -* converters: Unify bcf converters - (thanks to `@bernt-matthias `__). - `Pull Request 12225`_ -* Fix edta metadata setting - (thanks to `@bernt-matthias `__). - `Pull Request 12273`_ * mothur datatype: PairwiseDistanceMatrix sniffer may be too unspecific (thanks to `@bernt-matthias `__). `Pull Request 12280`_ * Add "ExpressionSet RData object" Datatype (thanks to `@mtekman `__). `Pull Request 12336`_ -* Small fix in binary.py - (thanks to `@melibleq `__). - `Pull Request 12384`_ -* also parse sam metadata from sam files - (thanks to `@bernt-matthias `__). - `Pull Request 12392`_ * Add ONNX datatype (thanks to `@anuprulez `__). `Pull Request 12429`_ -* Drop bcftools requirement from set_metadata tool - `Pull Request 12472`_ * Fix cmap sniffer (thanks to `@astrovsky01 `__). `Pull Request 12509`_ diff --git a/doc/source/releases/images/21.09-reports.png b/doc/source/releases/images/21.09-reports.png new file mode 100644 index 00000000000..9862f22266e Binary files /dev/null and b/doc/source/releases/images/21.09-reports.png differ