ng6 merge requestshttps://forgemia.inra.fr/genotoul-bioinfo/ng6/-/merge_requests2019-09-06T11:35:02+02:00https://forgemia.inra.fr/genotoul-bioinfo/ng6/-/merge_requests/36Merge branch Issue#124 with master2019-09-06T11:35:02+02:00Romain ThervilleMerge branch Issue#124 with master2 fixes:
in ng6workflows.py, there was a bug with space_ids when adding an analyse to a run.
in analysis.py, the space_id wasn't recovered properly.2 fixes:
in ng6workflows.py, there was a bug with space_ids when adding an analyse to a run.
in analysis.py, the space_id wasn't recovered properly.V3.2.5Romain ThervilleRomain Thervillehttps://forgemia.inra.fr/genotoul-bioinfo/ng6/-/merge_requests/32Merge branch Issue#104 into master2019-08-30T14:59:01+02:00Romain ThervilleMerge branch Issue#104 into masterFixes the infinite loading when the "downloadsymlink" workflow status is returned as "failed" (When the typed passord is incorrect).Fixes the infinite loading when the "downloadsymlink" workflow status is returned as "failed" (When the typed passord is incorrect).V3.2.5https://forgemia.inra.fr/genotoul-bioinfo/ng6/-/merge_requests/31Merge branch Issue#86 into master2019-08-30T14:58:23+02:00Romain ThervilleMerge branch Issue#86 into masterRemoves special characters from run names in the downloadsymlink process.Removes special characters from run names in the downloadsymlink process.V3.2.5Gerald Salingerald.salin@inra.frGerald Salingerald.salin@inra.frhttps://forgemia.inra.fr/genotoul-bioinfo/ng6/-/merge_requests/90Merge branch issue#154 with dev2020-01-22T15:56:09+01:00Romain ThervilleMerge branch issue#154 with devUpdate for the project view
The projects count has been updated to ignore the hidden projects if
they do not appear in the list.
issue #154Update for the project view
The projects count has been updated to ignore the hidden projects if
they do not appear in the list.
issue #154V3.2.6Celine NoirotCeline Noirothttps://forgemia.inra.fr/genotoul-bioinfo/ng6/-/merge_requests/89Merge branch issue#157 with dev2020-01-22T15:56:28+01:00Romain ThervilleMerge branch issue#157 with devCorrection du workflow addproject
1 import was missing to use the new data type "ng6space".
(So the space selection is a nice dropdown menu, instead of a simple
textfield.)
issue #157Correction du workflow addproject
1 import was missing to use the new data type "ng6space".
(So the space selection is a nice dropdown menu, instead of a simple
textfield.)
issue #157V3.2.6Celine NoirotCeline Noirothttps://forgemia.inra.fr/genotoul-bioinfo/ng6/-/merge_requests/88Merge branch Issue#151 with master2020-01-15T16:58:19+01:00Romain ThervilleMerge branch Issue#151 with masterThere was a typo in class.tx_nG6_eid.php.
A few indentations have been fixed.There was a typo in class.tx_nG6_eid.php.
A few indentations have been fixed.V3.2.6Romain ThervilleRomain Thervillehttps://forgemia.inra.fr/genotoul-bioinfo/ng6/-/merge_requests/85Merge branch issue #151 with master2020-01-15T13:35:21+01:00Romain ThervilleMerge branch issue #151 with masterA function was missing from the last commit + merge,
get_available_space_ids() from tx.nG6_utils.php.
issue #151A function was missing from the last commit + merge,
get_available_space_ids() from tx.nG6_utils.php.
issue #151V3.2.6Romain ThervilleRomain Thervillehttps://forgemia.inra.fr/genotoul-bioinfo/ng6/-/merge_requests/80Merge branch issue#129.2 with master2020-01-08T17:53:39+01:00Romain ThervilleMerge branch issue#129.2 with masterBig update for the switch_space_id workflow
-The workflow now handles empty (no data) runs and analyzes, and more
errors.
-A lot of user cases have been tested.
issue #129Big update for the switch_space_id workflow
-The workflow now handles empty (no data) runs and analyzes, and more
errors.
-A lot of user cases have been tested.
issue #129V3.2.6Celine NoirotCeline Noirothttps://forgemia.inra.fr/genotoul-bioinfo/ng6/-/merge_requests/79Merge branch Issues#143 with master2020-01-08T17:56:04+01:00Romain ThervilleMerge branch Issues#143 with masterIt's due to bug with the older version :
- just R1 and R2 files are used for analyses (ContaminationSearch, FastQC etc ... )
- R1, R2 and I1 after illuminaFilter if it's done are saved
- not impacted illlumina_qc analysis
Change : ...It's due to bug with the older version :
- just R1 and R2 files are used for analyses (ContaminationSearch, FastQC etc ... )
- R1, R2 and I1 after illuminaFilter if it's done are saved
- not impacted illlumina_qc analysis
Change :
- ng6_workflow
- add new function in utils for catch R1,R2 and I1 files after illuminafilter
- add new files to manage in smarty viszualisation
(Replaces the merge !68)V3.2.6https://forgemia.inra.fr/genotoul-bioinfo/ng6/-/merge_requests/78#155 convert bool to int to avaoid warning2020-01-08T17:30:39+01:00Celine Noirot#155 convert bool to int to avaoid warningcorrect warningcorrect warningV3.2.6Romain ThervilleRomain Thervillehttps://forgemia.inra.fr/genotoul-bioinfo/ng6/-/merge_requests/75Merge branch issue#153 with master2020-01-06T11:28:58+01:00Romain ThervilleMerge branch issue#153 with masterUtils.py update
The get_directories_structure_and_content() function has been reworked
to make the projects, runs and analyzes names normalization way more
consistent. This will solve the differences between sources and
destinations in ...Utils.py update
The get_directories_structure_and_content() function has been reworked
to make the projects, runs and analyzes names normalization way more
consistent. This will solve the differences between sources and
destinations in this function.
issue #153V3.2.6Romain ThervilleRomain Thervillehttps://forgemia.inra.fr/genotoul-bioinfo/ng6/-/merge_requests/74Merge branch issue#150 with master2020-01-06T11:29:35+01:00Romain ThervilleMerge branch issue#150 with masterThe expired projects table's design has been fixed.
issue #150The expired projects table's design has been fixed.
issue #150V3.2.6Romain ThervilleRomain Thervillehttps://forgemia.inra.fr/genotoul-bioinfo/ng6/-/merge_requests/72Merge issue#129 with master2019-12-09T13:23:18+01:00Romain ThervilleMerge issue#129 with master- I have removed the "local = True" parameter to execute the workflow on
the computing cluster instead of ng6's host.
(It was a test parameter, only meant for testing.)
issue #129- I have removed the "local = True" parameter to execute the workflow on
the computing cluster instead of ng6's host.
(It was a test parameter, only meant for testing.)
issue #129V3.2.6Romain ThervilleRomain Thervillehttps://forgemia.inra.fr/genotoul-bioinfo/ng6/-/merge_requests/66Merge branch Issue#129 with master2019-11-19T09:32:54+01:00Romain ThervilleMerge branch Issue#129 with masterV3.2.6Celine NoirotCeline Noirothttps://forgemia.inra.fr/genotoul-bioinfo/ng6/-/merge_requests/65#141 change REGEX to display pictures from FASTQC analysis from new2019-11-13T15:26:01+01:00Claire Kuchly#141 change REGEX to display pictures from FASTQC analysis from newstorage spacesstorage spacesV3.2.6Romain ThervilleRomain Thervillehttps://forgemia.inra.fr/genotoul-bioinfo/ng6/-/merge_requests/62[demultiplexont.py]2019-10-28T13:22:00+01:00Audrey Gibert[demultiplexont.py]Script was incorrect for long time processing seqkit
-> Now : postprocess waits the end of job in the process partScript was incorrect for long time processing seqkit
-> Now : postprocess waits the end of job in the process partV3.2.6Romain 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/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/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 Therville