| "Clé" | valeur | type | obligatoire | Exemple |
|---|---|---|---|---|
"equipe" |
Team identifier (the same as used in the equipes.json file) |
String |
yes |
"001" |
"gleaves_display" |
Show/hide folder for users |
Boolean |
yes |
true |
"date_vcf_uploaded" |
Date of file upload |
timestamp |
yes |
1596622550227 |
"vcf" |
Path or S3 URL to the VCF |
String |
yes |
"/test_dossiers/dossier_6A61/A00666_0012_WGS_MR_FS00505001_21042022_final.vcf" |
"preindication" |
(see preindication block) |
- |
yes |
- |
"cnv" |
Reserved |
- |
yes |
null |
"pid" |
Unique folder number |
Integer |
yes |
123 |
"pid_crc" |
Folder identifier |
String |
yes |
"azerty" |
"bam" |
Dictionary sample_id → dictionary(chrom→bai,bam) |
- |
yes |
"FS00505001": { "1": { "bai": "/test_dossiers/dossier_6A61/bams/FS00505001_S6_chr_1_markdup.cram.bai", "bam": "/test_dossiers/dossier_6A61/bams/FS00505001_S6_chr_1_markdup.cram" }, … |
"patients" |
List of patients |
- |
yes |
[ { "patient": { "nom": "TOTO", "prenom": "TOTO", "sexe": "H" }, "atteint": true, "id_anon": "FS00505001", "lien": { "name": "Patient" } }, … |
"date" |
XXXXXXX |
timestamp |
yes |
1591795675219 |
preindication block
| "Clé" | valeur | type | obligatoire | Exemple |
|---|---|---|---|---|
"catname" |
YYYY |
Folder group identification |
yes |
"the-group" |
"name" |
YYYY |
Subgroup identifier for the folder |
yes |
"the-subgroup" |
"catkey" |
Reserved |
String |
yes |
"" |
"key" |
Reserved |
String |
yes |
"" |
patient block
| "clé" | valeur | type | obligatoire | Exemple |
|---|---|---|---|---|
"patient" |
Dictionary (nom,prenom,sexe) |
dictionary |
yes |
{ "nom": "TOTO", "prenom": "TOTO", "sexe": "H" } |
"atteint" |
Whether the patient is affected or not |
Boolean |
yes |
true |
"id_anon" |
sample_id of the patient in the VCF |
String |
yes |
"FS00505001" |
"lien" |
(name) |
dictionary |
yes |
"name": "Patient" |