{
"@context": "/terms/",
"@id": "/curated-sets/IGVFDS3509VPYM/",
"@type": [
"CuratedSet",
"FileSet",
"Item"
],
"accession": "IGVFDS3509VPYM",
"aliases": [
"igvf:igvf_catalog_beta_v0.1_pharm_gkb_variant_drug_effects"
],
"audit": {
"ERROR": [
{
"category": "upload status not validated",
"detail": "Reference file [IGVFFI4821BJHQ](/reference-files/IGVFFI4821BJHQ/) has `upload_status` invalidated. Validation error detail: {\"tabular_file_error\": [[34, 14, \"missing-cell\", \"\"], [34, 15, \"missing-cell\", \"\"], [34, 16, \"missing-cell\", \"\"], [34, 17, \"missing-cell\", \"\"], [72, 14, \"missing-cell\", \"\"], [72, 15, \"missing-cell\", \"\"], [72, 16, \"missing-cell\", \"\"], [72, 17, \"missing-cell\", \"\"], [236, 14, \"missing-cell\", \"\"], [236, 15, \"missing-cell\", \"\"]]}. Files are expected to be validated.",
"level": 60,
"level_name": "ERROR",
"name": "audit_upload_status",
"path": "/reference-files/IGVFFI4821BJHQ/"
},
{
"category": "upload status not validated",
"detail": "Reference file [IGVFFI2997DUKO](/reference-files/IGVFFI2997DUKO/) has `upload_status` invalidated. Validation error detail: {\"tabular_file_error\": [[6, 16, \"missing-cell\", \"\"], [6, 17, \"missing-cell\", \"\"], [6, 18, \"missing-cell\", \"\"], [6, 19, \"missing-cell\", \"\"], [6, 20, \"missing-cell\", \"\"], [6, 21, \"missing-cell\", \"\"], [6, 22, \"missing-cell\", \"\"], [6, 23, \"missing-cell\", \"\"], [6, 24, \"missing-cell\", \"\"], [10, 16, \"missing-cell\", \"\"]]}. Files are expected to be validated.",
"level": 60,
"level_name": "ERROR",
"name": "audit_upload_status",
"path": "/reference-files/IGVFFI2997DUKO/"
},
{
"category": "upload status not validated",
"detail": "Reference file [IGVFFI1149WTCK](/reference-files/IGVFFI1149WTCK/) has `upload_status` invalidated. Validation error detail: {\"tabular_file_error\": [[1695, 15, \"missing-cell\", \"\"], [1695, 16, \"missing-cell\", \"\"], [1695, 17, \"missing-cell\", \"\"], [3184, 13, \"missing-cell\", \"\"], [3184, 14, \"missing-cell\", \"\"], [3184, 15, \"missing-cell\", \"\"], [3184, 16, \"missing-cell\", \"\"], [3184, 17, \"missing-cell\", \"\"], [5950, 8, \"missing-cell\", \"\"], [5950, 9, \"missing-cell\", \"\"]]}. Files are expected to be validated.",
"level": 60,
"level_name": "ERROR",
"name": "audit_upload_status",
"path": "/reference-files/IGVFFI1149WTCK/"
}
]
},
"award": {
"@id": "/awards/Community/",
"title": "Community"
},
"collections": [
"IGVF_catalog_beta_v0.3",
"IGVF_catalog_beta_v0.1",
"IGVF_catalog_beta_v0.2"
],
"control_for": [],
"creation_timestamp": "2023-11-22T20:15:14.441085+00:00",
"description": "pharmGKB variant-drug effect edges",
"file_set_type": "external data for catalog",
"files": [
{
"@id": "/reference-files/IGVFFI2997DUKO/",
"accession": "IGVFFI2997DUKO",
"content_type": "drugs",
"creation_timestamp": "2023-11-22T22:08:17.914571+00:00",
"file_format": "tsv",
"file_size": 772512,
"href": "/reference-files/IGVFFI2997DUKO/@@download/IGVFFI2997DUKO.tsv.gz",
"s3_uri": "s3://igvf-files/2023/11/22/a08ffed0-1c89-4a56-81b8-9b382e90703c/IGVFFI2997DUKO.tsv.gz",
"submitted_file_name": "/home/ubuntu/igvf-catalog-shengcheng/data/data_loading_support_files/pharmGKB_chemicals.tsv.gz",
"upload_status": "invalidated"
},
{
"@id": "/reference-files/IGVFFI1149WTCK/",
"accession": "IGVFFI1149WTCK",
"content_type": "variants_drugs",
"creation_timestamp": "2023-11-22T22:08:22.012989+00:00",
"file_format": "tsv",
"file_size": 1093538,
"href": "/reference-files/IGVFFI1149WTCK/@@download/IGVFFI1149WTCK.tsv.gz",
"s3_uri": "s3://igvf-files/2023/11/22/48ce9dc7-d651-4ab4-a986-b7ce55561f7e/IGVFFI1149WTCK.tsv.gz",
"submitted_file_name": "/home/ubuntu/igvf-catalog-shengcheng/data/data_loading_support_files/pharmGKB_study_parameters.tsv.gz",
"upload_status": "invalidated"
},
{
"@id": "/reference-files/IGVFFI8835SMSP/",
"accession": "IGVFFI8835SMSP",
"content_type": "variants_drugs_genes",
"creation_timestamp": "2023-11-22T22:08:15.847199+00:00",
"file_format": "tar",
"file_size": 2673593,
"href": "/reference-files/IGVFFI8835SMSP/@@download/IGVFFI8835SMSP.tar.gz",
"s3_uri": "s3://igvf-files/2023/11/22/04098d6c-dde9-4342-b3fb-e80b5140830b/IGVFFI8835SMSP.tar.gz",
"submitted_file_name": "variantAnnotations.tar.gz",
"upload_status": "validated"
},
{
"@id": "/reference-files/IGVFFI4821BJHQ/",
"accession": "IGVFFI4821BJHQ",
"content_type": "variants_drugs",
"creation_timestamp": "2023-11-22T22:08:19.986923+00:00",
"file_format": "tsv",
"file_size": 2810001,
"href": "/reference-files/IGVFFI4821BJHQ/@@download/IGVFFI4821BJHQ.tsv.gz",
"s3_uri": "s3://igvf-files/2023/11/22/f2810ee7-d39f-45ab-b1a9-a014d941324a/IGVFFI4821BJHQ.tsv.gz",
"submitted_file_name": "/home/ubuntu/igvf-catalog-shengcheng/data/data_loading_support_files/pharmGKB_genes.tsv.gz",
"upload_status": "invalidated"
},
{
"@id": "/reference-files/IGVFFI7955ICXJ/",
"accession": "IGVFFI7955ICXJ",
"content_type": "variants_drugs_genes",
"creation_timestamp": "2023-11-22T22:08:23.982741+00:00",
"file_format": "tsv",
"file_size": 821094,
"href": "/reference-files/IGVFFI7955ICXJ/@@download/IGVFFI7955ICXJ.tsv.gz",
"s3_uri": "s3://igvf-files/2023/11/22/18784f67-e6e1-4227-bde7-d24211740387/IGVFFI7955ICXJ.tsv.gz",
"submitted_file_name": "/home/ubuntu/igvf-catalog-shengcheng/data/data_loading_support_files/pharmGKB_variants.tsv.gz",
"upload_status": "validated"
}
],
"input_file_set_for": [],
"lab": {
"@id": "/labs/community/",
"title": "External Lab, Community"
},
"notes": "https://igvf.atlassian.net/browse/DSERV-170. This file set was moved from the Cherry lab and award to a community lab and award.",
"release_timestamp": "2023-12-07T06:00:21.205467+00:00",
"schema_version": "8",
"status": "released",
"submitted_by": {
"@id": "/users/6bae687f-b77a-46b9-af0e-a02c135cf42e/",
"title": "Meenakshi Kagda"
},
"submitted_files_timestamp": "2023-11-22T22:08:15.847199+00:00",
"summary": "Homo sapiens external data for catalog",
"taxa": "Homo sapiens",
"url": "https://www.pharmgkb.org/variantAnnotations",
"uuid": "a7035d69-576f-426b-9680-ab67ba8c890e"
}