jass merge requestshttps://gitlab.pasteur.fr/statistical-genetics/jass/-/merge_requests2022-04-21T11:02:57+02:00https://gitlab.pasteur.fr/statistical-genetics/jass/-/merge_requests/52Bring all changes from dev into master2022-04-21T11:02:57+02:00Bryan BRANCOTTEBring all changes from dev into masterBryan BRANCOTTEBryan BRANCOTTEhttps://gitlab.pasteur.fr/statistical-genetics/jass/-/merge_requests/54check free space, and remove older project is space is under the limit. No...2022-04-21T15:25:13+02:00Bryan BRANCOTTEcheck free space, and remove older project is space is under the limit. No...check free space, and remove older project is space is under the limit. No limit by default. Only enabled in k8scheck free space, and remove older project is space is under the limit. No limit by default. Only enabled in k8sBryan BRANCOTTEBryan BRANCOTTEhttps://gitlab.pasteur.fr/statistical-genetics/jass/-/merge_requests/55working on unexpected reboot2022-04-22T13:48:22+02:00Bryan BRANCOTTEworking on unexpected rebootBryan BRANCOTTEBryan BRANCOTTEhttps://gitlab.pasteur.fr/statistical-genetics/jass/-/merge_requests/58run computation when opening the project, not when creating it.2022-04-28T09:19:44+02:00Bryan BRANCOTTErun computation when opening the project, not when creating it.Check presence of files, and status of the encompassing task to know if computation is already running, or should be started.
Closes #110Check presence of files, and status of the encompassing task to know if computation is already running, or should be started.
Closes #110Bryan BRANCOTTEBryan BRANCOTTEhttps://gitlab.pasteur.fr/statistical-genetics/jass/-/merge_requests/56Show phenotypes while task is being computed2022-04-28T09:37:31+02:00Bryan BRANCOTTEShow phenotypes while task is being computedSHowing what phenotypes are used is useful to me when debuging, but I think end-user could also found it usefull, don't you think @hjulienn @hmenager ?
![Capture_d_écran_de_2022-04-21_17-47-14](/uploads/24b05a3782d736c6bce8183828503159/...SHowing what phenotypes are used is useful to me when debuging, but I think end-user could also found it usefull, don't you think @hjulienn @hmenager ?
![Capture_d_écran_de_2022-04-21_17-47-14](/uploads/24b05a3782d736c6bce8183828503159/Capture_d_écran_de_2022-04-21_17-47-14.png)Bryan BRANCOTTEBryan BRANCOTTEhttps://gitlab.pasteur.fr/statistical-genetics/jass/-/merge_requests/59Compute plot in parallel2022-04-28T10:52:01+02:00Bryan BRANCOTTECompute plot in parallelThis MR allows to compute plot in parallel, should only be merge once the memory usage of plot generation have be reducedThis MR allows to compute plot in parallel, should only be merge once the memory usage of plot generation have be reducedBryan BRANCOTTEBryan BRANCOTTEhttps://gitlab.pasteur.fr/statistical-genetics/jass/-/merge_requests/57use namespace dependant values...yaml file2022-04-28T10:54:37+02:00Bryan BRANCOTTEuse namespace dependant values...yaml fileset project size and ingress class in such filesset project size and ingress class in such filesBryan BRANCOTTEBryan BRANCOTTEhttps://gitlab.pasteur.fr/statistical-genetics/jass/-/merge_requests/10answer issues 55 to 60 and 62 and 632022-04-28T14:35:55+02:00Cyril NERINanswer issues 55 to 60 and 62 and 63#55 Progress window that display the % achieved during computation
#60 add .csv to the file genome_full
#59 #58 reduce number of digits in tables
fix #57 put values into PVALmin
fix #63 JASS_PVAL shows -log10(PVALUE)
#62 add refere...#55 Progress window that display the % achieved during computation
#60 add .csv to the file genome_full
#59 #58 reduce number of digits in tables
fix #57 put values into PVALmin
fix #63 JASS_PVAL shows -log10(PVALUE)
#62 add references to jass papersHervé MENAGERHervé MENAGERhttps://gitlab.pasteur.fr/statistical-genetics/jass/-/merge_requests/60Dev plotopti2022-05-06T17:34:01+02:00Hanna JULIENNEDev plotoptihttps://gitlab.pasteur.fr/statistical-genetics/jass/-/merge_requests/61Serve QQ Plot2022-05-09T17:36:27+02:00Bryan BRANCOTTEServe QQ PlotFixes #111Fixes #111Bryan BRANCOTTEBryan BRANCOTTEhttps://gitlab.pasteur.fr/statistical-genetics/jass/-/merge_requests/62Fixing responsiveness issues2022-05-13T17:39:11+02:00Bryan BRANCOTTEFixing responsiveness issuesBryan BRANCOTTEBryan BRANCOTTEhttps://gitlab.pasteur.fr/statistical-genetics/jass/-/merge_requests/63Fixing responsiveness issues - 22022-05-13T18:07:54+02:00Bryan BRANCOTTEFixing responsiveness issues - 2Bryan BRANCOTTEBryan BRANCOTTEhttps://gitlab.pasteur.fr/statistical-genetics/jass/-/merge_requests/64Show queue status2022-05-16T16:06:58+02:00Bryan BRANCOTTEShow queue statusWIP #116
Show under the progress bar ho many task are running, and how many pending. If there is only this task running, and none pending, we hide the queue status
![Capture_d_écran_de_2022-05-16_13-44-25](/uploads/8ad9f808608beb8ec1a...WIP #116
Show under the progress bar ho many task are running, and how many pending. If there is only this task running, and none pending, we hide the queue status
![Capture_d_écran_de_2022-05-16_13-44-25](/uploads/8ad9f808608beb8ec1af925da9819f9e/Capture_d_écran_de_2022-05-16_13-44-25.png)Bryan BRANCOTTEBryan BRANCOTTEhttps://gitlab.pasteur.fr/statistical-genetics/jass/-/merge_requests/66fixing queue status polling2022-05-17T13:23:35+02:00Bryan BRANCOTTEfixing queue status pollingBryan BRANCOTTEBryan BRANCOTTEhttps://gitlab.pasteur.fr/statistical-genetics/jass/-/merge_requests/65Give name to csv files2022-05-18T22:03:45+02:00Bryan BRANCOTTEGive name to csv filesFixes #119Fixes #119Bryan BRANCOTTEBryan BRANCOTTEhttps://gitlab.pasteur.fr/statistical-genetics/jass/-/merge_requests/69Handle corrupted worktable, and invalid gencov2022-05-19T15:32:26+02:00Bryan BRANCOTTEHandle corrupted worktable, and invalid gencovraise an error 500 when such errors are caught
Catch error 500 in frontend, and show error detail to userraise an error 500 when such errors are caught
Catch error 500 in frontend, and show error detail to userBryan BRANCOTTEBryan BRANCOTTEhttps://gitlab.pasteur.fr/statistical-genetics/jass/-/merge_requests/70Fix issue 121 1222022-05-19T15:35:04+02:00Hanna JULIENNEFix issue 121 122https://gitlab.pasteur.fr/statistical-genetics/jass/-/merge_requests/71dump metadata in a celery task, backend serve the content of the metadata file2022-05-24T14:59:36+02:00Bryan BRANCOTTEdump metadata in a celery task, backend serve the content of the metadata fileBryan BRANCOTTEBryan BRANCOTTEhttps://gitlab.pasteur.fr/statistical-genetics/jass/-/merge_requests/72Gitlab ci retry2022-05-24T15:25:36+02:00Bryan BRANCOTTEGitlab ci retryBryan BRANCOTTEBryan BRANCOTTEhttps://gitlab.pasteur.fr/statistical-genetics/jass/-/merge_requests/68Add queue status as a menu entry, remove it from projects, add dedicated page2022-06-23T15:39:01+02:00Bryan BRANCOTTEAdd queue status as a menu entry, remove it from projects, add dedicated page# Current version :
![screencapture-jass-queue-status-in-main-ui-dev-pasteur-cloud-projects-12bbef51de9322f84ac3ba1162959fed-2022-06-23-15_36_54](/uploads/729c0c494943141664a0c2af4e8fdda6/screencapture-jass-queue-status-in-main-ui-dev-pa...# Current version :
![screencapture-jass-queue-status-in-main-ui-dev-pasteur-cloud-projects-12bbef51de9322f84ac3ba1162959fed-2022-06-23-15_36_54](/uploads/729c0c494943141664a0c2af4e8fdda6/screencapture-jass-queue-status-in-main-ui-dev-pasteur-cloud-projects-12bbef51de9322f84ac3ba1162959fed-2022-06-23-15_36_54.png)
fixed centering, and more explicit information on what is the progress bar
# First draft:
![Capture_d_écran_de_2022-05-19_11-21-36](/uploads/4569b3e5055b5a3325ea2612b429e203/Capture_d_écran_de_2022-05-19_11-21-36.png)Bryan BRANCOTTEBryan BRANCOTTE