ng6 merge requestshttps://forgemia.inra.fr/genotoul-bioinfo/ng6/-/merge_requests2019-10-24T09:50:03+02:00https://forgemia.inra.fr/genotoul-bioinfo/ng6/-/merge_requests/61merge branche issue#119 with master2019-10-24T09:50:03+02:00Romain Thervillemerge branche issue#119 with masterUpdate the run and analysis display to add the data state, and retention limit.
commit 20f6a237798424ef1b82cb236ff21fbbaaba03be
issue #119Update the run and analysis display to add the data state, and retention limit.
commit 20f6a237798424ef1b82cb236ff21fbbaaba03be
issue #119V3.2.6Romain ThervilleRomain Thervillehttps://forgemia.inra.fr/genotoul-bioinfo/ng6/-/merge_requests/60Merge branch issue#121 with master2019-10-24T09:39:03+02:00Romain ThervilleMerge branch issue#121 with masterThe purge mails 'Errors-To:' field has been set to the 'email_from'
value, instead of 'email_copy'.
Issue#121The purge mails 'Errors-To:' field has been set to the 'email_from'
value, instead of 'email_copy'.
Issue#121V3.2.6Romain ThervilleRomain Thervillehttps://forgemia.inra.fr/genotoul-bioinfo/ng6/-/merge_requests/59Merge branch issue#126.2 with master2019-10-28T10:29:29+01:00Romain ThervilleMerge branch issue#126.2 with masterSuperadmin users are now allowed to update any user (and their
password), from any project.
issue #126Superadmin users are now allowed to update any user (and their
password), from any project.
issue #126V3.2.6Romain ThervilleRomain Thervillehttps://forgemia.inra.fr/genotoul-bioinfo/ng6/-/merge_requests/58#134 : debug ng6workflow.py and sample.py2019-10-28T10:29:18+01:00Claire Kuchly#134 : debug ng6workflow.py and sample.pyindex files in casava directory who isn't 10X data.index files in casava directory who isn't 10X data.Romain ThervilleRomain Thervillehttps://forgemia.inra.fr/genotoul-bioinfo/ng6/-/merge_requests/57Merge branch issue#126 with master2019-10-17T14:40:49+02:00Romain ThervilleMerge branch issue#126 with masterIssue#126
* The superadmin group allows to navigate every project, run and analysis on nG6, hidden or not, with admin rights.
* There is a new table in the admin section ( Administration > Admin management ) that allow superadmins to ad...Issue#126
* The superadmin group allows to navigate every project, run and analysis on nG6, hidden or not, with admin rights.
* There is a new table in the admin section ( Administration > Admin management ) that allow superadmins to add and remove users to and from the superadmin group.
* The group's key is NEVER written directly in the source code, allowing an easier deployment for production use.
* The only requirement outside of the source deployment is to create a group with title = 'ng6_superadmin'. For additional informations, check the SQL file.V3.2.6Romain ThervilleRomain Thervillehttps://forgemia.inra.fr/genotoul-bioinfo/ng6/-/merge_requests/56Merge branch issue#129 with master2019-10-17T10:39:18+02:00Romain ThervilleMerge branch issue#129 with masterEnhancement for the workflow 'switch_project_space_id'
I have moved the DB updates down in the code, to only register
migrations that went well.
issue #129Enhancement for the workflow 'switch_project_space_id'
I have moved the DB updates down in the code, to only register
migrations that went well.
issue #129V3.2.6Romain ThervilleRomain Thervillehttps://forgemia.inra.fr/genotoul-bioinfo/ng6/-/merge_requests/55merge branch issue#95 with master2019-10-17T09:57:00+02:00Romain Thervillemerge branch issue#95 with masterFix for jflow.min.js
Resolves the addanalysis bug
issue#95, issue#85Fix for jflow.min.js
Resolves the addanalysis bug
issue#95, issue#85V3.2.6Romain ThervilleRomain Thervillehttps://forgemia.inra.fr/genotoul-bioinfo/ng6/-/merge_requests/54merge branch issue#129 with master2019-10-17T09:54:56+02:00Romain Thervillemerge branch issue#129 with masterThe workflow has been re-writed to put most of the BD treatments in the
corresponding classes (Run, Analysis, Project).
issue#129The workflow has been re-writed to put most of the BD treatments in the
corresponding classes (Run, Analysis, Project).
issue#129V3.2.6Romain ThervilleRomain Thervillehttps://forgemia.inra.fr/genotoul-bioinfo/ng6/-/merge_requests/53Merge branch issue#120 with master2019-10-17T09:54:48+02:00Romain ThervilleMerge branch issue#120 with masterThe displayed date (when the retention is a fixed date) in project view was wrong.
Issue #120The displayed date (when the retention is a fixed date) in project view was wrong.
Issue #120V3.2.6Romain ThervilleRomain Thervillehttps://forgemia.inra.fr/genotoul-bioinfo/ng6/-/merge_requests/52Issue#1292019-10-14T13:22:08+02:00Romain ThervilleIssue#129There was a bug concerning the moved files's directories. It has been fixed, and some logging calls have been removed.There was a bug concerning the moved files's directories. It has been fixed, and some logging calls have been removed.V3.2.6Romain ThervilleRomain Thervillehttps://forgemia.inra.fr/genotoul-bioinfo/ng6/-/merge_requests/51Issue#1202019-10-10T15:51:37+02:00Romain ThervilleIssue#120Adds a new retention policy line in the single project view display.
For more informations, check https://forgemia.inra.fr/genotoul-bioinfo/ng6/issues/120 .Adds a new retention policy line in the single project view display.
For more informations, check https://forgemia.inra.fr/genotoul-bioinfo/ng6/issues/120 .V3.2.6Romain ThervilleRomain Thervillehttps://forgemia.inra.fr/genotoul-bioinfo/ng6/-/merge_requests/50Ng6 slurm 10 x2019-10-10T16:51:42+02:00Claire KuchlyNg6 slurm 10 xAdd illumuna_qc_10X pipelines to ng6Add illumuna_qc_10X pipelines to ng6V3.2.6Romain ThervilleRomain Thervillehttps://forgemia.inra.fr/genotoul-bioinfo/ng6/-/merge_requests/49Issue#1292019-10-09T15:49:56+02:00Romain ThervilleIssue#129**New project space_id migration workflow**
Allows to migrate a project to another space_id, defined in application.properties .
The corresponding files are moved, and the old directories are deleted.
The projects's runs and analyse...**New project space_id migration workflow**
Allows to migrate a project to another space_id, defined in application.properties .
The corresponding files are moved, and the old directories are deleted.
The projects's runs and analyses's retentions are updated according to the values given in application.properties.
If the retention given is a period (not a date), the new retention is relative to the run or analysis's creation date.
**How to do it?**
python3.4 /save/ng6-test/src/ng6-git-rtherville/bin/ng6_cli.py switchprojectspaceid --project-id 1292 --space-id seqoccin --admin-login CTDV3.2.6Romain ThervilleRomain Thervillehttps://forgemia.inra.fr/genotoul-bioinfo/ng6/-/merge_requests/48N g6 ont demultiplex2019-10-10T13:48:38+02:00Maxime MannoN g6 ont demultiplexV3.2.6Maxime MannoMaxime Mannohttps://forgemia.inra.fr/genotoul-bioinfo/ng6/-/merge_requests/47merge reopened branch 86 with master2019-09-27T09:15:38+02:00Romain Thervillemerge reopened branch 86 with master'0' was not allowed in Run name during download workflow.
(They were replaced with '_'.)
issue#86 reopened'0' was not allowed in Run name during download workflow.
(They were replaced with '_'.)
issue#86 reopenedV3.2.6Romain ThervilleRomain Thervillehttps://forgemia.inra.fr/genotoul-bioinfo/ng6/-/merge_requests/46Merge branch Issue#128 with master2019-09-27T09:15:53+02:00Romain ThervilleMerge branch Issue#128 with masterEmails declared in typo3->email_to_discard will be removed from the purge mail's recipient list.
The emails have to be separated with ',' and no space.Emails declared in typo3->email_to_discard will be removed from the purge mail's recipient list.
The emails have to be separated with ',' and no space.V3.2.6Romain ThervilleRomain Thervillehttps://forgemia.inra.fr/genotoul-bioinfo/ng6/-/merge_requests/45Merge branch Issue#127 with master2019-09-27T09:18:21+02:00Romain ThervilleMerge branch Issue#127 with masterThe send_purge_mail method has been reworked to send the mail to every admin, manager et member link to the project.The send_purge_mail method has been reworked to send the mail to every admin, manager et member link to the project.V3.2.6Romain ThervilleRomain Thervillehttps://forgemia.inra.fr/genotoul-bioinfo/ng6/-/merge_requests/44Merge branch Issue#27 with master2019-09-27T09:14:59+02:00Romain ThervilleMerge branch Issue#27 with masterFixes the analyzes and runs count in the project view, the hidden ones will not be counted.Fixes the analyzes and runs count in the project view, the hidden ones will not be counted.V3.2.6Romain ThervilleRomain Thervillehttps://forgemia.inra.fr/genotoul-bioinfo/ng6/-/merge_requests/43Master2019-09-18T09:15:08+02:00Maxime MannoMasterMaxime MannoMaxime Mannohttps://forgemia.inra.fr/genotoul-bioinfo/ng6/-/merge_requests/39Merge branch Issue#31 with master2019-09-13T11:42:30+02:00Romain ThervilleMerge branch Issue#31 with masterThe purge demand mail has been enhanced with clear names and links for runs an analyzes.The purge demand mail has been enhanced with clear names and links for runs an analyzes.V3.2.6Romain ThervilleRomain Therville