ng6 issueshttps://forgemia.inra.fr/genotoul-bioinfo/ng6/-/issues2019-08-29T14:24:03+02:00https://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/239error displaying workflow status if too much runs present2022-11-07T16:33:55+01:00Gerald Salingerald.salin@inra.frerror displaying workflow status if too much runs presenterror in web developper interface of the browser : Request-URI Too Long The requested URL's length exceeds the capacity limit for this server.error in web developper interface of the browser : Request-URI Too Long The requested URL's length exceeds the capacity limit for this server.V3.4.1Gerald Salingerald.salin@inra.frGerald Salingerald.salin@inra.frhttps://forgemia.inra.fr/genotoul-bioinfo/ng6/-/issues/108export metadata2019-08-30T09:27:13+02:00Celine Noirotexport metadataadd a functionality to export all metadata of project, run, analysis.add a functionality to export all metadata of project, run, analysis.V4 - Maintenancehttps://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/169FAQ style is ugly2020-02-11T14:32:56+01:00Celine NoirotFAQ style is uglyDo it less uglyDo it less uglyV3.2.6Celine NoirotCeline Noirothttps://forgemia.inra.fr/genotoul-bioinfo/ng6/-/issues/13flag project which all runs and analyses are purgeable2018-07-18T15:48:10+02:00Claire Kuchlyflag project which all runs and analyses are purgeableV3.1 - PurgeClaire KuchlyClaire Kuchly2018-06-30https://forgemia.inra.fr/genotoul-bioinfo/ng6/-/issues/109ftp server architecture2019-08-30T09:27:13+02:00Celine Noirotftp server architectureKeep/generate run/analysis architecture for a project when ftp server will be available.Keep/generate run/analysis architecture for a project when ftp server will be available.V4 - MaintenanceGerald Salingerald.salin@inra.frGerald Salingerald.salin@inra.frhttps://forgemia.inra.fr/genotoul-bioinfo/ng6/-/issues/16generate script to compute storage size for extention2019-07-23T14:15:59+02:00Celine Noirotgenerate script to compute storage size for extentionV3.1 - Purge2018-06-29https://forgemia.inra.fr/genotoul-bioinfo/ng6/-/issues/189GPDR2021-04-23T15:07:08+02:00Gerald Salingerald.salin@inra.frGPDRadding a user to a project allows any authenticated manager user to access the list of all users, including their password :
![image](/uploads/02075d0ab92873342988603ae9e5c84a/image.png)adding a user to a project allows any authenticated manager user to access the list of all users, including their password :
![image](/uploads/02075d0ab92873342988603ae9e5c84a/image.png)V3.2.8https://forgemia.inra.fr/genotoul-bioinfo/ng6/-/issues/107handle limit storage period/date depending on storage space parameter2019-08-30T17:25:07+02:00Celine Noirothandle limit storage period/date depending on storage space parameterData storage period depend on kind of project (eg seqoccin), this should be a workflow parameter.
To ensure the user do not set period value, the period has to be set in application.properties.
- For rented space validate how to set en...Data storage period depend on kind of project (eg seqoccin), this should be a workflow parameter.
To ensure the user do not set period value, the period has to be set in application.properties.
- For rented space validate how to set end of storage date
![image](/uploads/dcb383c6dea62c2d9ededd61a85fe433/image.png)
- end of storage date could depend on a date or a period depending on storage space name
```
[space_default]
retention_period = 3m
path=/ng6
[space_default_old]
retention_period = 2y
path=/ng6
[space_seqoc]
# pour un espace donnee : deux parametre exclusif retention_date != retention_period
retention_date=12/03/2021
#retention_period = 2year
path=/seqoc
```
- Add retention_time parameter in application.properties.example
V3.2.5Romain ThervilleRomain Thervillehttps://forgemia.inra.fr/genotoul-bioinfo/ng6/-/issues/235Hide and unhide a run2022-10-07T17:07:32+02:00Jules SabbanHide and unhide a runWhen I hide a run : every analysis bellow are hidden too
When I unhide a run : every analysis bellow are unhidden too
The behavouir we want when I unhide a run : nothing at analysis level OR unhide every analysis except 'Log files' ...When I hide a run : every analysis bellow are hidden too
When I unhide a run : every analysis bellow are unhidden too
The behavouir we want when I unhide a run : nothing at analysis level OR unhide every analysis except 'Log files' analysis.
The behavouir we want when I hide a run : nothing at analysis level OR same as now (to be discuss).
---
At analysis level, everything works well.
When I hide an analysis : the run above is no hidden : OK !
When I unhide an analysis : the run above is not unhidden : OK !V3.4Romain ThervilleRomain Thervillehttps://forgemia.inra.fr/genotoul-bioinfo/ng6/-/issues/3Infos générales sur la page purge2018-06-19T15:14:21+02:00Celine NoirotInfos générales sur la page purgeDonner l'information de :
- la somme totale "purgeable"
- le nombre total de projets
correspondant aux projets filtrés.Donner l'information de :
- la somme totale "purgeable"
- le nombre total de projets
correspondant aux projets filtrés.V3.1 - PurgeClaire KuchlyClaire Kuchly2018-04-18https://forgemia.inra.fr/genotoul-bioinfo/ng6/-/issues/18List all project even not obsolete2018-06-28T18:11:30+02:00Celine NoirotList all project even not obsoleteList all project in purge management to enable the extention for the projects of a complete lab.List all project in purge management to enable the extention for the projects of a complete lab.V3.1 - PurgeCeline NoirotCeline Noirot2018-06-30https://forgemia.inra.fr/genotoul-bioinfo/ng6/-/issues/196mail method : some people does not receive mails sent by ng6-slurm2021-04-28T18:59:38+02:00Gerald Salingerald.salin@inra.frmail method : some people does not receive mails sent by ng6-slurmhttps://ariane.inrae.fr/block/?id=ariane_ticket&table=incident&sys_id=96e56e891bdfec102c571176bd4bcb76https://ariane.inrae.fr/block/?id=ariane_ticket&table=incident&sys_id=96e56e891bdfec102c571176bd4bcb76V3.2.8Romain ThervilleRomain Thervillehttps://forgemia.inra.fr/genotoul-bioinfo/ng6/-/issues/181make filenames in NG6 uniq2020-05-15T07:36:11+02:00Gerald Salingerald.salin@inra.frmake filenames in NG6 uniqin NG6 FAQ, for downloading :
On a Windows workstation (Command lines), copy/paste this list in a file "listOfFiles" (B**e aware that if the same filename is found in different url, the local file will be overriden**). Then you can down...in NG6 FAQ, for downloading :
On a Windows workstation (Command lines), copy/paste this list in a file "listOfFiles" (B**e aware that if the same filename is found in different url, the local file will be overriden**). Then you can download curl for Windows (https://curl.haxx.se/download.html), extract the archive, and run this following command in a windows prompt
should not happen.
prefix the filename so that it is uniq (add the name of the parent folder which is uniq? the run Id + analysis Id?)V4 - Maintenancehttps://forgemia.inra.fr/genotoul-bioinfo/ng6/-/issues/142manage run 10X with samples with custom index that have to be processed like ...2022-12-16T16:21:27+01:00Claire Kuchlymanage run 10X with samples with custom index that have to be processed like 10X samplesLike SOCSMURIS projects : [mantis 4657](https://genomique.genotoul.fr/Mantis/view.php?id=4657), 10X samples and other samples in the same lane with longranger demultiplexing.
Rigth now, only sample with 10X indexes can be analyse with 1...Like SOCSMURIS projects : [mantis 4657](https://genomique.genotoul.fr/Mantis/view.php?id=4657), 10X samples and other samples in the same lane with longranger demultiplexing.
Rigth now, only sample with 10X indexes can be analyse with 10X illumina qc workflow.Claire KuchlyClaire Kuchlyhttps://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/224Project page : Remove the "Raw data and analysis results use xxx"2022-04-26T14:00:49+02:00Romain ThervilleProject page : Remove the "Raw data and analysis results use xxx"This part of the page is computed on the fly, and does not exclude hidden elements. It can be removed.This part of the page is computed on the fly, and does not exclude hidden elements. It can be removed.V3.3Romain ThervilleRomain Thervillehttps://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/127Purge email should be send to all the users of the project.2019-09-20T11:37:40+02:00Celine NoirotPurge email should be send to all the users of the project.From now, email to alert for a purge has to be sent to all the member, administrator and manager of the project.From now, email to alert for a purge has to be sent to all the member, administrator and manager of the project.V3.2.6Romain ThervilleRomain Therville