Tags give the ability to mark specific points in history as being important
  • V3   Passage de ng6 à Git Intégration de ONT_qc Intégration de la gestion des purges Password updatable
    Release V3

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

  • v3.1   added purge data management update samtools and picard tools version add ONT QC workflow
  • V3.2   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) ff867bc4 · Merge branch 'nG6-Slurm' into 'master' · 3 weeks ago 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)
    Release V3.2

    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)
  • V3.2.1   manage runs with more than 650 samples correct user information update from the interface
  • V3.2.2   bug fixes enhancement
    Release V3.2.2

    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

  • V3.2.3   bug fixes enhancement : ONT- improvement and Bug : removing of porechop trimming, GENERAL - run date in tx_ng6_run is wrong
  • V3.2.4   Add N50 to te runs status ONT_QC
  • V3.2.5   UI issues fixed, storage spaces implemented.
  • V3.2.5.1   This tag contains an issue fix missing from 3.2.5
  • V3.2.5.2   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.
    Release V3.2.5.2

    Contains fixes for the 3.2.5.1 version.

  • V3.2.5.3   New features and fixes, check the release note.
    Release V3.2.5.3

    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.

  • V3.2.5.4   Adds a new illumuna_qc_10X pipelines to ng6
    Release V3.2.5.4

    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

  • V3.2.5.5   The superadmin feature was missing from the last tag. Several bug have also been fixed. For more informations, check this tag's release notes.
    Release V3.2.5.5
    • 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)
  • V3.2.6   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
    Release V3.2.6

    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.

  • V3.2.6.1   New 'switch_space_id' workflow (issue #129) More informations in the release notes.
    Release V3.2.6.1

    New 'switch_space_id' workflow

    • New name : switch_space_id.
    • The given space id is checked in application.properties.
    • Most of the treatments have been moved to a "components" folder, allowing us to create easily a new "migrate_several_projects" (or "bulk_project_migration") later.
    • The workflow can be launched from the single project view on the nG6 website, when logged a superadmin user.
    • The project's space_id is visible to everyone on the single project view.
    • A warning indicating that the migration updates the retention has been added to the workflow's form in single project view.
    • More logs in ng6.log, and the new log file MoveProject.stdout. (path exemple : [...]/jflow/work/switchspaceid/wf000452/MoveProject_default/MoveProject.stdout)
    • CSS updates for the project views.
    • For new space_ids, the <space_id>/run and <space_id>/analyze directories will be created if missing.