ng6 issueshttps://forgemia.inra.fr/genotoul-bioinfo/ng6/-/issues2018-12-14T18:44:42+01:00https://forgemia.inra.fr/genotoul-bioinfo/ng6/-/issues/96Extra space between md5 and file name in md5sum.txt2018-12-14T18:44:42+01:00Roxane BoyerExtra space between md5 and file name in md5sum.txtThere are 3 spaces instead of 2 in the md5sum file :
```
3efa244db27854b63b740a31e16e85e6 ESE00019_AAGTCCAA-TACTCATA-AH2MC2BBXY_L002_R1.fastq.gz
ff0510e4615e75a5b5cccac402262e88 ESE00107_GTTCCAAT-GCAGAATT-AH2MC2BBXY_L002_R2.fastq.gz...There are 3 spaces instead of 2 in the md5sum file :
```
3efa244db27854b63b740a31e16e85e6 ESE00019_AAGTCCAA-TACTCATA-AH2MC2BBXY_L002_R1.fastq.gz
ff0510e4615e75a5b5cccac402262e88 ESE00107_GTTCCAAT-GCAGAATT-AH2MC2BBXY_L002_R2.fastq.gz
```
md5sum -c md5sum.txt
md5sum: PLF7_GCCGCG-C28GH_L001_R1.fastq.gz: Aucun fichier ou dossier de ce type
PLF7_GCCGCG-C28GH_L001_R1.fastq.gz : Échec d'ouverture ou de lecture.Roxane BoyerRoxane Boyerhttps://forgemia.inra.fr/genotoul-bioinfo/ng6/-/issues/87Enhancing the display of a project search result2019-08-29T14:24:03+02:00Audrey GibertEnhancing the display of a project search resultI was looking for project Epi on the ng6 project page.
It appears on the 2nd page of search result because according to ng6, space character comes after letters.I was looking for project Epi on the ng6 project page.
It appears on the 2nd page of search result because according to ng6, space character comes after letters.Romain ThervilleRomain Thervillehttps://forgemia.inra.fr/genotoul-bioinfo/ng6/-/issues/71clean pipeline outputs if succeeded2018-09-06T15:09:01+02:00Gerald Salingerald.salin@inra.frclean pipeline outputs if succeededallow the deletion of files in the worflow output dir to save dik spaceallow the deletion of files in the worflow output dir to save dik spaceV4 - Maintenancehttps://forgemia.inra.fr/genotoul-bioinfo/ng6/-/issues/70enhance disk usage with concatenatefilesgroups2018-09-17T09:30:51+02:00Gerald Salingerald.salin@inra.frenhance disk usage with concatenatefilesgroupsto limit the disk usage in illumina pipelines, do not store the output of ConcatenateFilesGroups component in its out output folder, but rather in the run.get_work_directory() folder.
saves a copy step (originally done in AddRawFiles com...to limit the disk usage in illumina pipelines, do not store the output of ConcatenateFilesGroups component in its out output folder, but rather in the run.get_work_directory() folder.
saves a copy step (originally done in AddRawFiles componenent) and limit the disk usage (can represent few hundreds of Gb for novaseq runs)V3.2 - Slurmhttps://forgemia.inra.fr/genotoul-bioinfo/ng6/-/issues/69Add a super admin ng6 who can see all projects2019-09-27T13:14:15+02:00Claire KuchlyAdd a super admin ng6 who can see all projectshttps://forgemia.inra.fr/genotoul-bioinfo/ng6/-/issues/68add md5sum for raw data in all pipelines2018-09-07T12:07:23+02:00Gerald Salingerald.salin@inra.fradd md5sum for raw data in all pipelinesV3.2 - SlurmGerald Salingerald.salin@inra.frGerald Salingerald.salin@inra.frhttps://forgemia.inra.fr/genotoul-bioinfo/ng6/-/issues/66add a way to align illumina reads against a subset of reads2018-09-06T13:56:45+02:00Gerald Salingerald.salin@inra.fradd a way to align illumina reads against a subset of readswith novaseq/hiseq data, the alignment step can be very time consuming.
think of a way to only align a subset of the reads, giving a workflow argument, e.g. --align-subset-reads
some source code is available in the extract_random_seq f...with novaseq/hiseq data, the alignment step can be very time consuming.
think of a way to only align a subset of the reads, giving a workflow argument, e.g. --align-subset-reads
some source code is available in the extract_random_seq function of SubSetAssignation componentV3.2 - SlurmClaire KuchlyClaire Kuchlyhttps://forgemia.inra.fr/genotoul-bioinfo/ng6/-/issues/42Upgrade jflow: load server file2018-08-09T17:15:33+02:00Celine NoirotUpgrade jflow: load server filecheck how ng6 upload server file.
This functionnality is now in jflowcheck how ng6 upload server file.
This functionnality is now in jflowV3.2 - SlurmCeline NoirotCeline Noirothttps://forgemia.inra.fr/genotoul-bioinfo/ng6/-/issues/39Purge : Set Email From, in ng6 conf pi6 comme pour pi12019-08-30T10:09:24+02:00Celine NoirotPurge : Set Email From, in ng6 conf pi6 comme pour pi1![image](/uploads/59f957cf14964106c3b4e51914488f29/image.png)![image](/uploads/59f957cf14964106c3b4e51914488f29/image.png)V3.2.6Romain ThervilleRomain Thervillehttps://forgemia.inra.fr/genotoul-bioinfo/ng6/-/issues/33correct source indent (tabs/white space) for all files2019-08-29T14:11:18+02:00Gerald Salingerald.salin@inra.frcorrect source indent (tabs/white space) for all filesV4 - MaintenanceRomain ThervilleRomain Thervillehttps://forgemia.inra.fr/genotoul-bioinfo/ng6/-/issues/32add manual for purging data2018-08-02T14:57:31+02:00Gerald Salingerald.salin@inra.fradd manual for purging dataV4 - MaintenanceClaire KuchlyClaire Kuchlyhttps://forgemia.inra.fr/genotoul-bioinfo/ng6/-/issues/31add link and name to runs and analyses and projects in the purge email2019-09-10T11:58:20+02:00Gerald Salingerald.salin@inra.fradd link and name to runs and analyses and projects in the purge emaile.g.
Files impacted of:
- runs names: 314,315,316,317,735,723,1292,1414,1423,1530,1974,1983
- analyses ids: 1149,1151,1154,1150,1152,1153,1155,1159,1160,1156,1157,1158,3650,3652,3662,3634,3633,3623,3621,3636,3635,5835,5840,5852,5858,585...e.g.
Files impacted of:
- runs names: 314,315,316,317,735,723,1292,1414,1423,1530,1974,1983
- analyses ids: 1149,1151,1154,1150,1152,1153,1155,1159,1160,1156,1157,1158,3650,3652,3662,3634,3633,3623,3621,3636,3635,5835,5840,5852,5858,5855,5845,6309,6310,6311,6313,6314,6320,6321,6382,6381,6380,6379,6378,6383,6758,6757,6759,6763,8532,8539,8544,8547,8559,8568,8571,8582,158V3.2.6Romain ThervilleRomain Thervillehttps://forgemia.inra.fr/genotoul-bioinfo/ng6/-/issues/29Modification du plugin nG6 typo3 pour utilisation sur php7 et typo3 V82018-08-28T14:15:29+02:00Gerald Salingerald.salin@inra.frModification du plugin nG6 typo3 pour utilisation sur php7 et typo3 V8copier/coller du mail ne fonctionne pas très bien.
mise de la procedure de mise à jour du plugin ng6 en PJ[procedure_mise_a_jour_ng6_typo3V8.pdf](/uploads/99473730dc54cc392fe051dc18a6f72e/procedure_mise_a_jour_ng6_typo3V8.pdf)[diffModifn...copier/coller du mail ne fonctionne pas très bien.
mise de la procedure de mise à jour du plugin ng6 en PJ[procedure_mise_a_jour_ng6_typo3V8.pdf](/uploads/99473730dc54cc392fe051dc18a6f72e/procedure_mise_a_jour_ng6_typo3V8.pdf)[diffModifnG6_Typo3_V8](/uploads/899e4ad5977dafc9bf0558339e03f93f/diffModifnG6_Typo3_V8)V3.2 - SlurmGerald Salingerald.salin@inra.frGerald Salingerald.salin@inra.frhttps://forgemia.inra.fr/genotoul-bioinfo/ng6/-/issues/23Add total project size in purge demand email2018-06-27T16:32:07+02:00Celine NoirotAdd total project size in purge demand emailV3.1 - PurgeCeline NoirotCeline Noirothttps://forgemia.inra.fr/genotoul-bioinfo/ng6/-/issues/9Regenerate a password for users added by the project manager2020-01-22T16:22:03+01:00Audrey GibertRegenerate a password for users added by the project managerFor now, there is no possibility for a user added by the project manager to regenerate their password.
=> It has to be addedFor now, there is no possibility for a user added by the project manager to regenerate their password.
=> It has to be addedRomain ThervilleRomain Therville