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". The "index" variable will no longer be overwritten, and the 'Nonetype' error should not appear anymore for 10x runs with indexes.

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

• The branch #126 was missing from the last tag, adding a new superadmin group. (issue#126)
• The workflow 'switch_project_space_id' has been refactored. (issue#129)
• The addanalysis workflow (from command lines AND web interface) has been fixe via an update to jflow.min.js. (issue#95, #85)
• Bug in project view fixed (issue#120)

Same as V3.2.5.3 ( https://forgemia.inra.fr/genotoul-bioinfo/ng6/-/tags/V3.2.5.3 ), with an additional merge:

Adds a new illumuna_qc_10X pipelines to ng6

This tag contains new features and bug fixes:

• New superadmin group

A new superadmin section can be found in Administration > Admin management, only visible to superadmins. Users that belong to this group can acess every project, run and analysis.

• Workflow switch_project_space_id

This new workflow allows to migrate a project to another space_id, defined in application.properties. The project's runs and analyzes are also updated, their files are moved and their retentions are updated according to the configuration file.

• Purge mail reworks

The purge mail will now be sent to every admin, manager and member linked to the project. There is also a new "email_to_discard" parameter in the typo3 template, to remove email adresses from the recipient list.

• Hidden runs and analyzes in project view

The hidden runs and analyzes will not be counted in the project view if they are not visible to the current user.

• '0' character in run names

The character '0' in run names will no longer be normalized as '_' when creating a unix file path.

Contains fixes for the 3.2.5.1 version.

ONT : supress N50 from template, add useful bases and reads, enhancement of ui
AddRawFiles : correct a bug where the counting of reads and bases is done too early, before the presence of all .count files

ng6 with slurm optimization of some data processing for a better efficiency (work on a data subset, parallelization...)

• update jflow version
• less duplication of data for illumina pipelines
• upgrade typo3 plugin to be compatible with the last LTR typo3 version V8 and php 7
• add project and data management, allowing to delete data old data (based on retention date)

Passage de ng6 à Git Intégration de ONT_qc Intégration de la gestion des purges Password updatable