vidjil merge requestshttps://gitlab.inria.fr/vidjil/vidjil/-/merge_requests2023-03-29T13:53:58+02:00https://gitlab.inria.fr/vidjil/vidjil/-/merge_requests/1299Draft: Prod client release 2023-032023-03-29T13:53:58+02:00THONIER FlorianDraft: Prod client release 2023-03Release 2023-03 on prod clientRelease 2023-03 on prod clienthttps://gitlab.inria.fr/vidjil/vidjil/-/merge_requests/1298js/warnings{,_data}.js: bikeshed strings2023-03-29T10:56:47+02:00Mathieu Giraudjs/warnings{,_data}.js: bikeshed stringshttps://gitlab.inria.fr/vidjil/vidjil/-/merge_requests/1297Documentation, a LOT of modification for mkdocs and mkdocs-material2023-03-28T10:25:15+02:00THONIER FlorianDocumentation, a LOT of modification for mkdocs and mkdocs-material- Change level of various section for a better 'table of content' readability
- change some code decorator
- Create some table where it was relevant
- Refactor LICENSE file that was not correctly formated for mkdocs
- Include stuff for m...- Change level of various section for a better 'table of content' readability
- change some code decorator
- Create some table where it was relevant
- Refactor LICENSE file that was not correctly formated for mkdocs
- Include stuff for mkdocs-material. This theme allow to add multiple function or increase readability, as better summary, table of content, code copy, footer links, clean checkbox, ...
- Roadmap; use checkbox for a better vision of what is done or not ==> next MR
Maybe some modification is needed to CI integrationhttps://gitlab.inria.fr/vidjil/vidjil/-/merge_requests/1296docker/vidjil-client/conf: recompile cgi2023-03-23T15:48:37+01:00Mathieu Girauddocker/vidjil-client/conf: recompile cgi
Comme !1293, mais avec feature-sct, juste pour voir
Comme !1293, mais avec feature-sct, juste pour voirhttps://gitlab.inria.fr/vidjil/vidjil/-/merge_requests/1295gitlab-ci, add artifact for deploy review server jobs.2024-02-14T10:27:27+01:00THONIER Floriangitlab-ci, add artifact for deploy review server jobs.Need to get docker-compose as modify by the gitlab jobNeed to get docker-compose as modify by the gitlab jobhttps://gitlab.inria.fr/vidjil/vidjil/-/merge_requests/1294Resolve "docker-compose, use env and more config for mysql"2023-06-19T10:47:23+02:00THONIER FlorianResolve "docker-compose, use env and more config for mysql"Closes #5127Closes #5127Mikaël SalsonMikaël Salsonhttps://gitlab.inria.fr/vidjil/vidjil/-/merge_requests/1293docker/vidjil-client/conf: recompile cgi2023-03-23T15:49:29+01:00Mathieu Girauddocker/vidjil-client/conf: recompile cgifollowing !1284
see #4682following !1284
see #4682https://gitlab.inria.fr/vidjil/vidjil/-/merge_requests/1292Resolve "Tester buildBrowserGermline.py"2023-03-02T17:12:34+01:00THONIER FlorianResolve "Tester buildBrowserGermline.py"Closes #2144Closes #2144Mikaël SalsonMikaël Salsonhttps://gitlab.inria.fr/vidjil/vidjil/-/merge_requests/1291healthcare: link to HDS official information in English2023-03-02T17:54:49+01:00Mikaël Salsonhealthcare: link to HDS official information in EnglishMikaël SalsonMikaël Salsonhttps://gitlab.inria.fr/vidjil/vidjil/-/merge_requests/1290documentation for 2022.12 release2023-04-03T15:51:57+02:00THONIER Floriandocumentation for 2022.12 releasedocumentation for 2022.12 releasedocumentation for 2022.12 releasehttps://gitlab.inria.fr/vidjil/vidjil/-/merge_requests/1289Draft: Resolve "app/analyze: exposer/documenter une API"2023-02-28T16:10:42+01:00THONIER FlorianDraft: Resolve "app/analyze: exposer/documenter une API"Closes #1992Closes #1992Web 2022.12https://gitlab.inria.fr/vidjil/vidjil/-/merge_requests/1288warnings: add code to show unknown warnings inside warnings view2023-03-28T16:00:42+02:00THONIER Florianwarnings: add code to show unknown warnings inside warnings viewClose #5118Close #5118Web 2022.12Mathieu GiraudMathieu Giraudhttps://gitlab.inria.fr/vidjil/vidjil/-/merge_requests/1287Draft: Don't rebuild docker images2023-11-28T12:09:59+01:00Mikaël SalsonDraft: Don't rebuild docker imagesFix #4951Fix #4951https://gitlab.inria.fr/vidjil/vidjil/-/merge_requests/1286.gitlab-ci.yml: CI_REGISTRY* variables are predefined by Gitlab2023-01-25T19:28:02+01:00Mikaël Salson.gitlab-ci.yml: CI_REGISTRY* variables are predefined by GitlabWe should not overwrite them, therefore we rename them.We should not overwrite them, therefore we rename them.https://gitlab.inria.fr/vidjil/vidjil/-/merge_requests/1285Draft: Resolve "Vidjil-algo see a VDJ with very poor quality instead of 100% ...2023-01-25T17:17:24+01:00THONIER FlorianDraft: Resolve "Vidjil-algo see a VDJ with very poor quality instead of 100% germline"Closes #5116Closes #5116https://gitlab.inria.fr/vidjil/vidjil/-/merge_requests/1284core/compare-all.cpp: compute global similarities2023-03-21T16:46:03+01:00Mathieu Giraudcore/compare-all.cpp: compute global similaritiesCloses #5114Closes #5114https://gitlab.inria.fr/vidjil/vidjil/-/merge_requests/1283Feature sc/hotfix prod server get reads refix2023-01-19T16:40:27+01:00Thonier FlorianFeature sc/hotfix prod server get reads refixhttps://gitlab.inria.fr/vidjil/vidjil/-/merge_requests/1282Draft: get reads; return correct result file, update client part for name of ...2023-01-19T10:44:56+01:00Thonier FlorianDraft: get reads; return correct result file, update client part for name of downloaded fileLink to #5070Link to #5070https://gitlab.inria.fr/vidjil/vidjil/-/merge_requests/1281clone; add a new axis segment ratio and his method inside clone.js2023-03-09T14:55:14+01:00Thonier Florianclone; add a new axis segment ratio and his method inside clone.jsReturn the percentage value of germline sequence covered by clonotype sequence
Exclusion of CDR3 junction deletion
ERIC recommandation have been updated and sequence should now cover the entire germline sequence.
This MR add a new axe w...Return the percentage value of germline sequence covered by clonotype sequence
Exclusion of CDR3 junction deletion
ERIC recommandation have been updated and sequence should now cover the entire germline sequence.
This MR add a new axe with the percentage of coverage for each segments.
~"NAN - Nantes"Web 2022.12Mathieu GiraudMathieu Giraudhttps://gitlab.inria.fr/vidjil/vidjil/-/merge_requests/1280Similarity, add a new way to make similarity computing on AA sequence2023-03-21T16:52:05+01:00Thonier FlorianSimilarity, add a new way to make similarity computing on AA sequence* Remove tSNE without locus split.
* Add similarity computing based on AA
* Modify code to allow clustering of clone on AA
* Add new preset similarity AA by locus
Close #5083* Remove tSNE without locus split.
* Add similarity computing based on AA
* Modify code to allow clustering of clone on AA
* Add new preset similarity AA by locus
Close #5083Web 2022.12Mathieu GiraudMathieu Giraud