Changelog
Follow up on the latest improvements and updates.
RSS
Improved
- Analysis dropdown navigation now supports right-click and middle-click to open links in new tabs/windows
- Project creation now displays a success banner with instructions for adding samples to the new project
- ONT file concatenation is now enabled by default in the uploader settings
Fixed
- We fixed an issue preventing the display of logs of workflows that failed due to running out of memory.
New
- Added "Download unclassified reads" button to allow users to download reads that failed to classify.
- Raw readcount metrics (i.e. unfiltered reads) are now available in the V1 API.
Changed
- Switch Shannon diversity calculation in API results to use natural logarithm (base-e) instead of base-2 for improved consistency with standard definitions. (Note, Shannon Diversity has previously been updated in the client library, Custom Plots, and Quick Compare.)
Fixed
- GitHub integration token generation now works correctly with updated library dependencies
Improved
- Significantly improved performance of sample filtering and search operations
Changed
- Reimplemented underlying package updates
Improved
- We now clear the working directory of Nextflow workflows that have been rerun. This prevents unnecessary storage growth, and as a result, reduces failures due to insufficient storage.
- Compression of workdirectories of failed Nextflow runs is now streamed upon upload to S3, to reduce unnecessary storage growth.
improved
fixed
Sankey plot updates, fixed sample uploads
Improved
- Classification Run Sankey plots (taxonomy tree plots) now display classified vs total reads, with improved percentage calculations that show more precise values. Read count filtering now displays percentages relative to all reads instead of just classified reads.
- Documentation updated to point to new client library guide location with additional feature callouts.
Fixed
- Reverted previous package updates that prevented sample uploads.
New
- Web Uploader now supports merging Illumina sequencing lanes. The upload page now provides a settings menu to choose whether files should be merged for various sequencing types. ONT files will no longer merge as default.
Improved
- Custom Plot axis labels now truncate gracefully to prevent layout issues while preserving full values on hover
- The performance of launching jobs was significantly improved, reducing response time
Fixed
- Job Runnability timeout issues resolved through optimized database queries
- Sample List performance issue fixed
- Improved error reporting in Custom Plots when no functional analyses we successful
- Updates of various underlying packages
Improved
- Updated storage requests for workflows so that resources do not get scheduled with insufficient storage. This should decrease the need to rerun some workflows.
New
- Released new sequencing dashboard at https://app.onecodex.com/sequencing/dashboard with updated UI, including new columns, summary counts, and a chart for turnaround times of recent samples.
Fixed
- Fixed MLST results API schema to return correct data structure with panelResultsandmlstResultsfields
- Updated references page for Targeted Loci Database, to include 6,109 previously missing taxa and 12,031 new (tax_id, locus) combinations that are contained in the database but were not displaying on the references page.
Improved
- Classification runs with "no reads classified" error now automatically fail dependent child analyses, preventing downstream tasks from processing incomplete data
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