apraga/org - Change JC7WIPNKI5INKLTOLR4OACIUFNKDXOOYXAEXSE4VK2NDK7H7GIPAC

Workout

Created by Alexis Praga on November 9, 2022

JC7WIPNKI5INKLTOLR4OACIUFNKDXOOYXAEXSE4VK2NDK7H7GIPAC

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In channels

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Change contents

Insertion in workout.org at line 5544 [5.1]

[4.305]

* <2022-11-07 Mon> Workout
- RTO: 20-16
L-sit: 0
Skin-the-cat (avec descente): 2x2
- Muscle-up 3x1 - 2+1+1 - 2+1+1
Extension: 3x22
- FL tucked row : 3+1-3+1-1+1
Pistols : 3x4
- Planche tucked push-up: 3x{3+1}
Compression: 3x10 (levé)
* <2022-11-08 Tue> Tricking
Aerial progression
Bkick x10
* <2022-11-09 Wed> Workout
- RTO:  2
L-sit: 1
Skin-the-cat (avec descente): 2x2
- Muscle-up 1+1+1 - 2+1 - 2+1
- FL tucked row :  2+1- 2+1 - 1+1
- Planche tucked push-up: 3+1 - 3+1 - 2+1

Replacement in projects.org at line 295 [5.123895]

B:BD[6.434] → [7.163:226]

**** TODO Clinique, OCR et nettoyage données labkey [15/1199]

[6.434]

[8.120]

**** TODO Clinique, OCR et nettoyage données labkey [29/1199]

Replacement in projects.org at line 315 [5.123895]

B:BD[7.265] → [7.265:360]

B:BD[7.360] → [3.14:33]

∅:D[3.33] → [9.248:267]

B:BD[10.1287] → [9.248:267]

B:BD[9.267] → [11.14:52]

B:BD[11.52] → [12.83:121]

B:BD[12.121] → [4.397:454]

∅:D[4.454] → [10.1439:1496]

B:BD[10.1439] → [10.1439:1496]

***** WAIT PED1038
***** WAIT PED1040
***** WAIT PED1042
***** WAIT PED1043
***** WAIT PED1044
***** WAIT PED1045
***** WAIT PED1064
***** WAIT PED1068
***** WAIT PED1069
***** WAIT PED1070
***** WAIT PED1071
***** WAIT PED1072
***** WAIT PED1075
***** WAIT PED1077
***** TODO PED1078
***** TODO PED1079
***** TODO PED1080

[7.265]

[10.1496]

***** DONE PED1038
CLOSED: [2022-11-08 Tue 22:20]
***** DONE PED1040
CLOSED: [2022-11-08 Tue 22:20]
***** DONE PED1042
CLOSED: [2022-11-08 Tue 22:20]
***** DONE PED1043
CLOSED: [2022-11-08 Tue 22:20]
***** DONE PED1044
CLOSED: [2022-11-08 Tue 22:20]
***** DONE PED1045
CLOSED: [2022-11-08 Tue 22:20]
***** DONE PED1064
CLOSED: [2022-11-08 Tue 22:20]
***** DONE PED1068
CLOSED: [2022-11-08 Tue 22:20]
***** DONE PED1069
CLOSED: [2022-11-08 Tue 22:20]
***** DONE PED1070
CLOSED: [2022-11-08 Tue 22:20]
***** DONE PED1071
CLOSED: [2022-11-08 Tue 22:20]
***** DONE PED1072
CLOSED: [2022-11-08 Tue 22:20]
***** DONE PED1075
CLOSED: [2022-11-08 Tue 22:20]
***** DONE PED1077
CLOSED: [2022-11-08 Tue 22:20]
***** WAIT PED1078
***** WAIT PED1079
***** WAIT PED1080

Replacement in projects.org at line 1557 [5.123895]
B:BD[13.18] → [13.18:36]
```
** Pipeline exome
```
[13.18]
[14.15]
```
** Pipeline exome :bisonex:
```

Replacement in projects.org at line 1597 [5.123895]

B:BD[15.39] → [15.39:82]

****** TODO common dbSNP not clinvar patho

[15.39]

[16.14]

****** DONE common dbSNP not clinvar patho
CLOSED: [2022-11-07 Mon 21:42]

Replacement in projects.org at line 1600 [5.123895]

B:BD[16.64] → [16.64:98]

B:BD[16.98] → [2.2201:2286]

 - [ ] packager rgttools avec nix
 - [ ] Utiliser bcftools isec qui semble faire la même chose que le script d'alexis

[16.64]

[2.2286]

 - [-] packager rgttools avec nix
 - [X] Utiliser bcftools isec qui semble faire la même chose que le script d'alexis

Deletion in projects.org at line 1603 [5.123895]
∅:D[2.2319] → [17.14:15]
B:BD[15.267] → [17.14:15]
Replacement in projects.org at line 1626 [5.123895]
B:BD[16.663] → [16.663:691]
```
******* DONE Essai bcftools
```
[16.663]
[2.2470]
```
******* DONE Essai bcftools isec
```

Replacement in projects.org at line 1703 [5.123895]

B:BD[16.1216] → [2.4856:4904]

******* TODO Valider avec Alexis : bcftool isec

[16.1216]

[18.14]

******* DONE Valider avec Alexis : bcftool isec
CLOSED: [2022-11-07 Mon 21:42]

Replacement in projects.org at line 1713 [5.123895]
B:BD[18.207] → [18.207:228]
```
***** TODO rtg-tools
```
[18.185]
[19.5199]
```
***** HOLD rtg-tools
```

Replacement in projects.org at line 1739 [5.123895]

B:BD[15.386] → [15.386:432]

B:BD[15.432] → [20.37:78]

∅:D[20.78] → [15.432:486]

B:BD[15.432] → [15.432:486]

***** TODO Filter common snp not clinvar path
- [ ] Tester rtg-tools
- [ ] Tester comm
***** TODO Filter variant only in consensual sequence

[15.386]

[15.486]

***** DONE Filter common snp not clinvar path
CLOSED: [2022-11-07 Mon 23:00]
Voir [[*common dbSNP not clinvar patho][common dbSNP not clinvar patho]]
***** DONE Filter variant only in consensual sequence
CLOSED: [2022-11-08 Tue 22:23]

Deletion in projects.org at line 1805 [5.123895]

∅:D[21.1635] → [14.1412:1879]

B:BD[14.1412] → [14.1412:1879]

B:BD[14.1879] → [22.2107:2134]

*** Simulation sur mésocentre
**** Réunion <2022-08-31 Wed>
Intervenants:
- Kamel Mazouzi (directeur adjoint informatique)
- Sekou Diakité
2 clusters :
- Lumière : Centos non mis à jour, SGE, Spack comme équivalent Nix
- Helios : moins de coeurs mais à jours, Slurm
Conclusion :
- essai d’installation Nix
- si échec, essayer Spack ou Conda
- répertoire partagé de 2To pour datasets
- soumission de jobs sous Nextflow à discuter dans un second temps
**** DONE Installation nix