Issues · vidjil / vidjil

New issue

Nouvelles germlines ne détectent pas IGHD7-27/J1, collision up/down avec IGHJ1P

#4647 · created Jan 15, 2021 by Mathieu Giraud !!-bug bio-germlines next-audio
- CLOSED
- 1
- 4
updated Mar 30, 2021
mulitple-test et json.decoder.JSONDecodeError

#4649 · created Jan 15, 2021 by Mathieu Giraud !!-broken-ci dev-tests-should-get
- CLOSED
- 1
- 2
updated Feb 03, 2021
Pouvoir filtrer les reads VDJ depuis l'algo (cas fichier RNA)

#4650 · created Jan 19, 2021 by Thonier Florian Paris - St Louis bio-rnaseq cpp cpp-export cpp-options user-request
- CLOSED
- 5
updated Jan 22, 2021
Warning quand des programmes différents donnent des estimations différentes de productivité

#4651 · created Jan 19, 2021 by Mathieu Giraud bio-productivity client-warning repseq-IMGT
- 3
updated Feb 17, 2021
Warning et/ou confirmation quand merge de séquences productives + non-productives

#4652 · created Jan 19, 2021 by Mathieu Giraud LIL-Lille bio-productivity client-warning
- 0
updated Jan 19, 2021
vidjil-algo : prendre plusieurs fichiers ?

#4653 · created Jan 19, 2021 by Mathieu Giraud cpp cpp-options priority-1-low
- 1
updated Jan 21, 2021
vidjil-algo: warning quand une désignation a un mauvais score

#4654 · created Jan 19, 2021 by Mathieu Giraud client-warning cpp-finesegmenter math-stats
- 0
updated Jan 19, 2021
Que prendre pour les up/downstream ?

#4655 · created Jan 20, 2021 by Mathieu Giraud bio-germlines
- CLOSED
- 8
updated Mar 24, 2021
split-germlines.py : indiquer dans le header une référence à la séquence up/down

#4656 · created Jan 20, 2021 by Mathieu Giraud bio-germlines
- CLOSED
- 2
- 0
updated Apr 08, 2021
Examiner les warnings sur les germlines

#4657 · created Jan 20, 2021 by Mathieu Giraud *-go bio-germlines
- 1
updated Jan 20, 2021
Les germlines J+down ne sont pas gappées

#4658 · created Jan 20, 2021 by Mathieu Giraud bio-germlines bio-productivity
- CLOSED
- 1
updated Jan 20, 2021
Vérification d'overlap : le faire aussi sur non up/down (bref les V) + refactor split-germlines

#4659 · created Jan 20, 2021 by Mathieu Giraud bio-germlines dev-refactor
- 0
updated Jan 20, 2021
Le filtre se désactive avec plus de 127 gènes

#4660 · created Jan 21, 2021 by Mathieu Giraud +-working cpp-filter-fine
- CLOSED
- 1
- 13
updated Apr 26, 2021
Sortir dans le .vidjil des informations quand problème critique

#4661 · created Jan 22, 2021 by Mathieu Giraud cpp-export
- 0
updated Jan 22, 2021
Up/down-streams: étendre bien plus, vers 200bp ?

#4662 · created Jan 23, 2021 by Mathieu Giraud bio-germlines
- 0
updated Jan 23, 2021
Avoir un outil pour manipuler/comparer les .affects

#4664 · created Jan 26, 2021 by Mathieu Giraud cpp cpp-heuristic priority-1-low
- 1
updated Jan 26, 2021
Warning reads Illumina non mergés à 151bp ?

#4666 · created Jan 27, 2021 by Mathieu Giraud client-warning sequencers-Illumina server-pre-process
- 4
updated Jan 27, 2021
Documentation, avoir un champ de recherhce

#4667 · created Jan 27, 2021 by Thonier Florian doc feature
- 0
updated Jan 27, 2021
Authentification SSO / SAML

#4668 · created Jan 27, 2021 by Mathieu Giraud !-reflexion !-security server-auth
- 0
updated Jan 27, 2021
Warning sur certaines séquences en sortie des pre-process

#4669 · created Jan 27, 2021 by Mathieu Giraud client-warning server-pre-process wont-fix
- 0
updated Jan 27, 2021
Timeout sur upload de gros fichier

#4670 · created Feb 02, 2021 by Mikaël Salson !!-bug server server-upload server-uwsgi
- 17
updated Feb 19, 2021
json.decoder.JSONDecodeError non existant sur certaines images

#4672 · created Feb 02, 2021 by Mikaël Salson Algo 2021.02 !!-bug *-go cpp cpp-compiler dev-ci dev-tests-should-get
- CLOSED
- 1
- 5
updated Feb 03, 2021
Suggestion de nouveaux warnings

#4673 · created Feb 03, 2021 by Mathieu Giraud client-warning
- 0
updated Feb 03, 2021
vidjil-format.md: documenter les raisons de non-productivité

#4674 · created Feb 03, 2021 by Mathieu Giraud Algo 2021.02 *-go doc repseq-platform
- CLOSED
- 1
- 0
updated Feb 04, 2021
Afficher les raisons de non-productivité dans le client

#4675 · created Feb 03, 2021 by Mathieu Giraud Web 2021.05 !-reflexion bio-AA bio-productivity client
- CLOSED
- 1
- 2
updated Apr 14, 2021
vidjil-format.md : mieux tester / linter / verrouiller

#4676 · created Feb 03, 2021 by Mathieu Giraud !-reflexion dev-tests doc repseq-formats
- 0
updated Feb 03, 2021
Aligner : zoom horizontal ?

#4677 · created Feb 04, 2021 by Mathieu Giraud !-reflexion client-aligner client-ergonomy
- 0
updated Feb 04, 2021
Reproductibilité des tests valgrind_functional

#4678 · created Feb 04, 2021 by Mathieu Giraud cpp-mem dev-ci dev-tests
- 0
updated Apr 14, 2021
Pouvoir facilement lancer sur le ci des jobs "élgoignés"

#4679 · created Feb 05, 2021 by Mathieu Giraud dev-ci
- 0
updated Feb 05, 2021
Remonter AUTODELETE dans defs.py

#4680 · created Feb 05, 2021 by Mathieu Giraud !-easy *-go doc server-defs.py
- 0
updated Feb 05, 2021
vidjil-algo : preset --filter-reads

#4681 · created Feb 09, 2021 by Mathieu Giraud !-easy bio-rnaseq cpp-options
- CLOSED
- 1
- 0
updated Feb 17, 2021
Les CGI du Docker sont versionnées en dur : les recompiler.

#4682 · created Feb 09, 2021 by Mikaël Salson *-go server-cgi server-docker
- 2
updated Feb 09, 2021
Mise à jour Docker et service de relancement

#4684 · created Feb 10, 2021 by Mathieu Giraud doc server-docker server-hosting
- 0
updated Feb 10, 2021
SEG_METHOD_ONE_CENTERED, sans minimiseur

#4687 · created Feb 10, 2021 by Mathieu Giraud !-reflexion cpp-heuristic
- 2
updated Apr 27, 2021
fuse.py: --post

#4688 · created Feb 10, 2021 by Mathieu Giraud server-fuse
- 0
updated Feb 10, 2021
vidjil-algo: pouvoir invoquer SEG_METHOD_ONE depuis la ligne de commande

#4689 · created Feb 10, 2021 by Mathieu Giraud !-easy cpp-options
- 0
updated Apr 27, 2021
--filter-reads : débrancher complètement la gestion des windows

#4691 · created Feb 11, 2021 by Mathieu Giraud !-hard !-reflexion cpp-mem dev-refactor
- 2
updated Mar 18, 2021
-u/-U + --gz : sortir des fichiers .fa.gz

#4692 · created Feb 11, 2021 by Mathieu Giraud Web 2021.05 !-easy cpp-export cpp-options priority-1-low
- CLOSED
- 2
- 2
updated Feb 17, 2021
Exception dans updateCountActiveSamples

#4694 · created Feb 12, 2021 by Mikaël Salson Web 2021.11 !!-bug !!-partially-blocking *-go client client-graph
- 6
updated May 05, 2021
Indice de diversité; affiché les noms complets dans le panel information de l'échantillon

#4695 · created Feb 12, 2021 by Thonier Florian Mar 5, 2021 !-easy *-go NAN - Nantes client client-ergonomy doc
- 1
updated Feb 12, 2021
--filter-reads : renommer "detected.fa"

#4696 · created Feb 12, 2021 by Mathieu Giraud bikeshedding priority-1-low
- 1
- 0
updated Mar 26, 2021
Mieux afficher les ratios très faibles

#4697 · created Feb 12, 2021 by Mathieu Giraud bikeshedding bio-capture bio-rnaseq priority-1-low
- 0
updated Feb 12, 2021
Renommer vidjil-algo-latest.tar.gz en vidjil-algo-stable.tar.gz ?

#4698 · created Feb 15, 2021 by Mathieu Giraud bikeshedding com wont-fix
- CLOSED
- 2
updated Feb 15, 2021
vidjil-algo: pouvoir prendre des séquences en ligne de commande

#4699 · created Feb 15, 2021 by Mathieu Giraud cpp-options priority-1-low
- 0
updated Feb 15, 2021
Pouvoir accéder à la "Detailed view" de IMGT/V-QUEST

#4700 · created Feb 17, 2021 by Mathieu Giraud bio-productivity client client-export repseq-IMGT
- CLOSED
- 1
updated Feb 17, 2021
Productivité et pseudo-gènes

#4702 · created Feb 17, 2021 by Mathieu Giraud bio-productivity cpp
- 1
updated Mar 19, 2021
Bouton pour accéder directement au "compare sample " d'un seul sample

#4703 · created Feb 17, 2021 by Mathieu Giraud Web 2021.05 !-easy *-go
- CLOSED
- 1
- 3
updated Apr 20, 2021
Documenter / cacher -c detect / windows / germline ?

#4704 · created Feb 17, 2021 by Mathieu Giraud !-reflexion bikeshedding com-first-time-user cpp-options doc
- 0
updated Feb 17, 2021
Packaging / déploiement web, templates, et ouverture en local du client

#4705 · created Feb 17, 2021 by Mathieu Giraud !-important !-reflexion client dev-build dev-policy
- 3
updated Feb 24, 2021
--gz, windows.fa.gz, et valgrind

#4706 · created Feb 18, 2021 by Mathieu Giraud cpp priority-1-low
- 2
updated Apr 19, 2021
vidjil-algo: make install

#4707 · created Feb 18, 2021 by Mathieu Giraud cpp dev-build
- 0
updated Feb 18, 2021
Erreur sur la variable system

#4709 · created Feb 19, 2021 by Thonier Florian !!-bug client
- 1
updated Feb 19, 2021
Traduction AA : s'arrêter à la fin du J / au début de V

#4710 · created Feb 19, 2021 by Mathieu Giraud Web 2021.05 bio-AA client-aligner
- CLOSED
- 1
updated May 05, 2021
Avoir des séquences de test pour les subsets

#4711 · created Feb 23, 2021 by Mathieu Giraud
- 0
updated Feb 23, 2021
Log : tracer les changements de config

#4712 · created Feb 24, 2021 by Mathieu Giraud #-healthcare server-logs
- 0
updated Feb 24, 2021
Pouvoir régler par conf.js le healthcare

#4713 · created Mar 10, 2021 by Mathieu Giraud Web 2021.05 #-healthcare beware-migration
- CLOSED
- 1
- 1
updated Apr 19, 2021
Pouvoir lister voire supprimer les gros fichiers de séquences

#4714 · created Mar 10, 2021 by Mathieu Giraud !-reflexion server-disk
- 4
updated Mar 17, 2021
Supprimer le nom de l'usager de la fenêtre db

#4715 · created Mar 10, 2021 by Mathieu Giraud !-easy *-go client-ugly
- 0
updated Mar 10, 2021
Supprimer les boutons logout tant qu'ils ne fonctionnent pas

#4716 · created Mar 10, 2021 by Mathieu Giraud Web 2021.05 Apr 7, 2021 server-auth
- CLOSED
- 1
- 3
updated Apr 15, 2021
Export des données : exporter les comptes/groupes

#4717 · created Mar 12, 2021 by Mikaël Salson #-healthcare server-database server-export
- 0
updated Apr 01, 2021
Export des données : exporter les sample sets dans l'ordre de leur création

#4718 · created Mar 15, 2021 by Mikaël Salson !!-bug #-healthcare server-export server-sample-sets user-request
- 1
updated Apr 01, 2021
Récupérer un clone ou quelques clones en .json

#4719 · created Mar 16, 2021 by Mathieu Giraud !-reflexion client client-export repseq-formats
- 1
updated Mar 31, 2021
Classement des runs suite à export/import sur nouveau serveur

#4720 · created Mar 17, 2021 by Mathieu Giraud server-sample-sets user-request
- CLOSED
- 1
updated Mar 17, 2021
Faire un meilleur filtre pour plus de 127 genes, avec plus d'un octet

#4722 · created Mar 17, 2021 by Mathieu Giraud cpp-filter-fine
- CLOSED
- 1
- 2
updated Apr 27, 2021
Identifier le V dans les séquences non mergées

#4723 · created Mar 17, 2021 by Anne de Septenville Paris-Pitié bio-analyze-more patho-LLC user-request
- 4
updated Apr 01, 2021
Se souvenir du nombre de reads initial avant filtrage

#4724 · created Mar 17, 2021 by Mathieu Giraud repseq-formats
- 0
updated Mar 17, 2021
Besoin de 3-4 nt de up DD2

#4725 · created Mar 18, 2021 by Mathieu Giraud
- CLOSED
- 1
- 1
updated Apr 01, 2021
Recherche de séquence approchée par "search"

#4726 · created Mar 19, 2021 by Mathieu Giraud Web 2021.05 client
- CLOSED
- 3
updated Apr 16, 2021
bikeshedding .affects, 1 seul caractère

#4727 · created Mar 22, 2021 by Mathieu Giraud *-go cpp
- CLOSED
- 1
- 0
updated Mar 31, 2021
Nouvelles germlines, séquence hors locus passant de too_few en only_V

#4728 · created Mar 22, 2021 by Mathieu Giraud cpp cpp-heuristic
- 2
updated Apr 01, 2021
Ouvrir le fichier de reads avant d'ouvrir les germlines

#4729 · created Mar 22, 2021 by Mathieu Giraud *-go cpp priority-1-low
- 0
updated Mar 22, 2021
Plus de STRAND avec nouvelles germlines dans des cas qui devraient être too few V/J

#4730 · created Mar 22, 2021 by Mathieu Giraud cpp-heuristic
- 2
updated Apr 01, 2021
Mettre à jour (encore) les germlines

#4731 · created Mar 24, 2021 by Mathieu Giraud Algo 2021.06
- 1
updated Apr 14, 2021
Réparer "add germline genes" sur le nouvel aligneur

#4732 · created Mar 24, 2021 by Mathieu Giraud client-aligner
- 0
updated Mar 24, 2021
L'interface admin ne permet plus de partager des sets à d'autres groupes

#4733 · created Mar 24, 2021 by Mathieu Giraud Web 2021.05 priority-1-low server-auth server-sample-sets
- CLOSED
- 1
- 1
updated Apr 13, 2021
Follow-up from "Feature c/genescan primer search"; add documentation 0 of 1 task completed

#4736 · created Mar 31, 2021 by Thonier Florian Web 2021.05 doc
- 0
updated Mar 31, 2021
Nouvel aligner : le premier span peut déborder sur la gauche

#4737 · created Mar 31, 2021 by Mathieu Giraud Web 2021.05 client-aligner client-ugly
- CLOSED
- 0
updated Mar 31, 2021
Nouvel aligneur : pas de scroll à 4 séquences

#4738 · created Mar 31, 2021 by Mathieu Giraud Web 2021.05 client-aligner client-ugly
- CLOSED
- 1
updated Apr 01, 2021
Templates .js 0 of 1 task completed

#4739 · created Mar 31, 2021 by Mathieu Giraud !-reflexion client dev-policy dev-robust
- 0
updated Mar 31, 2021
"Unknown" tant qu'on n'a pas envoyé sur IMGT ? 0 of 1 task completed

#4740 · created Mar 31, 2021 by Mathieu Giraud client client-ugly priority-1-low
- 0
updated Mar 31, 2021
Recherche de primers avec caractère dégénérée sur la première ou la dernière position

#4741 · created Mar 31, 2021 by Mathieu Giraud client
- 0
updated Mar 31, 2021
Retirer le --trim du test germlines-read.should

#4742 · created Apr 01, 2021 by Mikaël Salson Algo 2021.06 *-go cpp dev-tests-should-get
- 2
updated Apr 14, 2021
Nouvel aligneur: doc dev-client

#4743 · created Apr 01, 2021 by Mathieu Giraud Web 2021.05 client-aligner dev-policy doc
- CLOSED
- 1
updated Apr 28, 2021
Nouvel aligneur et tests mystères

#4744 · created Apr 01, 2021 by Mathieu Giraud Web 2021.11 dev-tests
- 0
updated Apr 15, 2021
Import/export du serveur : conserver les identifiants

#4745 · created Apr 01, 2021 by Mikaël Salson !-reflexion server-export
- 1
updated Apr 14, 2021
Nouvel aligneur et tests supprimés

#4746 · created Apr 01, 2021 by Mathieu Giraud dev-dead-code dev-tests
- 4
updated Apr 14, 2021
Internaliser un retry sur le NetTimeout du old-chrome

#4747 · created Apr 02, 2021 by Mathieu Giraud dev-tests-watir
- 0
updated Apr 02, 2021
Pouvoir invalider "manuellement" quelques k-mers

#4748 · created Apr 06, 2021 by Mathieu Giraud Algo 2021.06 cpp-heuristic
- 0
updated Apr 06, 2021
Les tests unitaires browser ne passent plus

#4749 · created Apr 08, 2021 by Mathieu Giraud !!-broken-ci priority-5-today
- CLOSED
- 1
- 2
updated Apr 14, 2021
Alignement suspect avec bioseq

#4751 · created Apr 08, 2021 by Mathieu Giraud
- CLOSED
- 1
updated Apr 08, 2021
Configurations gallus-gallus et sus-scrofa

#4752 · created Apr 08, 2021 by Mathieu Giraud Web 2021.05 bio-species
- 0
updated Apr 08, 2021
Warning s'affiche sur un coverage faible alors que ce n'est pas le coverage pris par fuse

#4753 · created Apr 08, 2021 by Mikaël Salson !!-bug client client-warning cpp-representative
- 0
updated Apr 08, 2021
Pouvoir afficher de manière générique une feature de l'aligneur (ou un axe)

#4754 · created Apr 13, 2021 by Mathieu Giraud !-reflexion client-aligner
- 0
updated Apr 14, 2021
Mieux documenter les raisons de non-productivité

#4755 · created Apr 14, 2021 by Mathieu Giraud Algo 2021.04 bio-CLL doc
- CLOSED
- 1
- 0
updated Apr 19, 2021
Axes dans un ordre arbitraire ?

#4756 · created Apr 14, 2021 by Mathieu Giraud bio-productivity client-axis doc
- 2
updated Jun 11, 2021
axes: avoir plus de place (responsive ?) pour les légendes longues

#4757 · created Apr 14, 2021 by Mathieu Giraud client-axis client-responsive client-ugly priority-1-low
- 2
updated Jun 11, 2021
algo: -3 par défaut ?

#4758 · created Apr 15, 2021 by Mathieu Giraud Algo 2021.04 beware-migration bikeshedding cpp-options
- CLOSED
- 1
- 4
updated Apr 19, 2021
Installation binaire : rendre cela possible et/ou supprimer

#4759 · created Apr 15, 2021 by Mathieu Giraud Algo 2021.04 bio-germlines dev-dead-code dev-packaging doc
- CLOSED
- 1
- 10
updated Apr 19, 2021
Germlines custom -V / -J et findCDR3()

#4760 · created Apr 15, 2021 by Mathieu Giraud bio-AA cpp-options priority-1-low
- 0
updated Apr 15, 2021
Gitlab-CI : ne pas avoir de dépendance (si possible) pour les jobs manuels

#4761 · created Apr 15, 2021 by Mikaël Salson dev-ci dev-gitlab
- CLOSED
- 1
- 0
updated Apr 15, 2021