GitLab

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.

This version contains updates concerning the space migration and purge system.

More informations in this tag's release notes.

This updates contains mostly fixes for existing workflows.

More informations in this tag's release notes.

New 'switch_space_id' workflow (issue #129)

More informations in the release notes.

Updates since the last release:

Issue#121: When sending a purge mail, the "Error-to" mail field will be set as the "email_from" value instead of "email_copy".

Issue#119: The Run and Analysis views have been updated to include a new line explainig the retention policy.

Issue#126: The superadmin users can now update any password, and can see all runs on the runs list page. (https://ng6.toulouse.inra.fr/index.php?id=56)

Issue#134: The "index" variables have been renamed to "readsi".

Issues#131,#132,#112: 
Pdf files added to analysis for nanopore runs.
AligmentStats -> Duplicate output corrected.
New analysis : Demultiplex Stat for ONT

The superadmin feature was missing from the last tag.
Several bug have also been fixed. For more informations, check this tag's release notes.

Adds a new illumuna_qc_10X pipelines to ng6

New features and fixes, check the release note.

This tag includes 2 bug corrections related to NG6's addanalysis, for both commands and web interface. 

-Fixes the 'Nonetype object has no space_id' error, that appeared following the V3.2.5.1 implementation.
-Analyzes added to a run now have a correct space_id.

This tag contains an issue fix missing from 3.2.5