Tags

Bug fix : correct SQL for extending project retention date

update demultiplex_ont view

Bug fixes : 
- ont_qc : correct demulitplexont component due to the last release (display all samples now)
- methylseq : workflow now work on genobioinfo
Enhancement
- update SubsetSeqFiles component, adapt its behavior on each fastq to select the right number of reads to extract
- update methylseq workflow not to save bismark and bismark_methylation_extractor file output (bam and other huge files)
- make ont_qc workflow use sequencing_summary gzipped or not as input file

remove archive from download options  
add ngl-bi_run_code optional parameter to link ng6 run wth NGL-Bi run code and lane

allow to create symbolic links on genobioinfo

Update to the purge process

- Update to the purge process, no mail will be sent if the purge demand only contains hidden elements (runs/analyzes). Issue #240

use phpseclib for ssh connections

upgrade to typo3 V11

Fixes for nG6:

- Path to application.prperties fixed in nG6_utils.php (Issue #216)
- Fix for the purge delay variable in nG6_pi6_purge.php (Issue #217)
- .png files are now displayed in the analysis page (Issue #218)
- Update to workflows/components/contaminationsearch.py (Issue #221) 
- Remove the size display from the project an run pages (Issue #224)
- Remove the hidden runs and analyses from the purge process (Issue #225)

correct require and use for internal classes

add compatibility with typo3 v10  
the password of a newly created user has to be set by the user himself

compatibility for Typo3 V9
add envelop sender address to get error on sending emails

Massive update to the purge process

- The multiple "esitoul" email adresses in the purge mail's "cc" field have been fixed. Issue #195

- The hidden runs and analyzes will not appear anymore in the purge mail (and resent purge mail), nor in the volume counts for each purge demand, but are still recorded in our database. Issues #193, #178

- If a purge demand is already declared for a project (and still pending), and an admin tries to open a new one, a SQL trigger is called to prevent the insertion. This results in a mail sent to the nG6 admins, informing them that no new demand can be openned (for this project) as long as the old one has not been treated. Issue #192

Merge !118

Hotfixes:
- New logs to monitor the purge process, see Issue #192 .
- Correction to the demultiplex ONT workflow. Issue #191.

- Refactoring for the migration process and the correction of filepaths. (issue #129)
- Update to the purge process, with new exclusions for log files. (issue #190)

More infos in the related issues.

This version contains a fix for the switch_space_id workflow.
More informations in this tag's release notes.

This version contains fixes for the addanalysis form, and two minors fixes.
More informations in this tag's release notes.

This version contains updates concerning the purge system and bug fixes.

More informations in this tag's release notes.