Skip to content

Commit

Permalink
Update data source versions
Browse files Browse the repository at this point in the history
  • Loading branch information
@github-actions
github-actions[bot] committed Nov 13, 2024
1 parent 049680d commit 0c8248f
Show file tree
Hide file tree
Showing 3 changed files with 5 additions and 5 deletions.
2 changes: 1 addition & 1 deletion result.json
View file
Original file line number Diff line number Diff line change
Expand Up @@ -20,7 +20,7 @@
"Medicines_output_herbal_medicines.xlsx": "https://www.ema.europa.eu/sites/default/files/Medicines_output_herbal_medicines.xlsx"
},
"latest": true,
"version": "2024.11.12"
"version": "2024.11.13"
}
],
"GWASCatalog": [
Expand Down
2 changes: 1 addition & 1 deletion result.min.json
View file
Original file line number Diff line number Diff line change
@@ -1 +1 @@
{"AACT": [], "CanadianNutrientFile": [{"version": "2016.06.03", "files": {"cnf-fcen-csv.zip": "https://www.canada.ca/content/dam/hc-sc/migration/hc-sc/fn-an/alt_formats/zip/nutrition/fiche-nutri-data/cnf-fcen-csv.zip"}, "latest": true}], "CancerDrugsDB": [], "DGIdb": [], "DrugBank": [], "DrugCentral": [], "EMA": [{"version": "2024.11.12", "files": {"Medicines_output_european_public_assessment_reports.xlsx": "https://www.ema.europa.eu/sites/default/files/Medicines_output_european_public_assessment_reports.xlsx", "Medicines_output_herbal_medicines.xlsx": "https://www.ema.europa.eu/sites/default/files/Medicines_output_herbal_medicines.xlsx"}, "latest": true}], "Gene2Phenotype": [{"version": "2024.10.17", "files": {"CancerG2P.csv.gz": "https://www.ebi.ac.uk/gene2phenotype/downloads/CancerG2P.csv.gz", "DDG2P.csv.gz": "https://www.ebi.ac.uk/gene2phenotype/downloads/DDG2P.csv.gz", "EyeG2P.csv.gz": "https://www.ebi.ac.uk/gene2phenotype/downloads/EyeG2P.csv.gz", "SkinG2P.csv.gz": "https://www.ebi.ac.uk/gene2phenotype/downloads/SkinG2P.csv.gz"}, "latest": true}], "GeneOntology": [{"version": "2024.11.03", "files": {"go.obo": "http://current.geneontology.org/ontology/go.obo", "goa_human.gaf.gz": "http://current.geneontology.org/annotations/goa_human.gaf.gz", "goa_human_complex.gaf.gz": "http://current.geneontology.org/annotations/goa_human_complex.gaf.gz", "goa_human_isoform.gaf.gz": "http://current.geneontology.org/annotations/goa_human_isoform.gaf.gz", "goa_human_rna.gaf.gz": "http://current.geneontology.org/annotations/goa_human_rna.gaf.gz"}, "latest": true}], "GWASCatalog": [{"version": "2024.11.03", "files": {"gwas_catalog_associations.tsv": "https://www.ebi.ac.uk/gwas/api/search/downloads/alternative", "gwas_catalog_studies.tsv": "https://www.ebi.ac.uk/gwas/api/search/downloads/studies_alternative", "gwas_catalog_ancestry.tsv": "https://www.ebi.ac.uk/gwas/api/search/downloads/ancestry"}, "latest": true}], "HGNC": [], "HPO": [{"version": "2024.08.13", "files": {"hp.obo": "https://raw.githubusercontent.com/obophenotype/human-phenotype-ontology/master/hp.obo", "phenotype.hpoa": "http://purl.obolibrary.org/obo/hp/hpoa/phenotype.hpoa", "genes_to_phenotype.txt": "http://purl.obolibrary.org/obo/hp/hpoa/genes_to_phenotype.txt", "phenotype_to_genes.txt": "http://purl.obolibrary.org/obo/hp/hpoa/phenotype_to_genes.txt"}, "latest": true}], "ITIS": [], "KEGG": [{"version": "2023.09.25", "files": {"dgroup": "ftp://ftp.genome.jp/pub/kegg/medicus/dgroup/dgroup", "drug": "ftp://ftp.genome.jp/pub/kegg/medicus/drug/drug", "disease": "ftp://ftp.genome.jp/pub/kegg/medicus/disease/disease", "network": "ftp://ftp.genome.jp/pub/kegg/medicus/network/network", "variant": "ftp://ftp.genome.jp/pub/kegg/medicus/network/variant", "human_genes_list.tsv": "http://rest.kegg.jp/list/hsa", "compounds_list.tsv": "http://rest.kegg.jp/list/compound", "organisms_list.tsv": "http://rest.kegg.jp/list/organism"}, "latest": true}], "MED-RT": [], "Mondo": [{"version": "2024.11.05", "files": {"mondo.obo": "http://purl.obolibrary.org/obo/mondo.obo"}, "latest": true}], "NDF-RT": [], "OpenTargets": [], "PathwayCommons": [], "PharmGKB": [{"version": "2024.11.05", "files": {"genes.zip": "https://s3.pgkb.org/data/genes.zip", "drugs.zip": "https://s3.pgkb.org/data/drugs.zip", "chemicals.zip": "https://s3.pgkb.org/data/chemicals.zip", "variants.zip": "https://s3.pgkb.org/data/variants.zip", "phenotypes.zip": "https://s3.pgkb.org/data/phenotypes.zip", "clinicalAnnotations.zip": "https://s3.pgkb.org/data/clinicalAnnotations.zip", "variantAnnotations.zip": "https://s3.pgkb.org/data/variantAnnotations.zip", "relationships.zip": "https://s3.pgkb.org/data/relationships.zip", "dosingGuidelines.json.zip": "https://s3.pgkb.org/data/dosingGuidelines.json.zip", "drugLabels.zip": "https://s3.pgkb.org/data/drugLabels.zip", "pathways-tsv.zip": "https://s3.pgkb.org/data/pathways-tsv.zip", "clinicalVariants.zip": "https://s3.pgkb.org/data/clinicalVariants.zip", "occurrences.zip": "https://s3.pgkb.org/data/occurrences.zip", "automated_annotations.zip": "https://s3.pgkb.org/data/automated_annotations.zip"}, "latest": true}], "ReDO-DB": [{"version": "24.10.02", "files": {"redo_db.txt": "https://acfdata.coworks.be/redo_db.txt"}, "latest": true}], "ReDOTrialsDB": [{"version": "2024.08.14", "files": {"ReDO_Trials_DB.txt": "https://acfdata.coworks.be/ReDO_Trials_DB.txt"}, "latest": true}], "Sider": [], "UNII": [], "UniProt": [{"version": "2024.10.02", "files": {"uniprot_sprot_human.xml.gz": "https://ftp.uniprot.org/pub/databases/uniprot/current_release/knowledgebase/taxonomic_divisions/uniprot_sprot_human.xml.gz"}, "latest": true}], "USDA-PLANTS": [{"version": null, "files": {"plantlst.txt": "https://plants.sc.egov.usda.gov/assets/docs/CompletePLANTSList/plantlst.txt"}, "latest": true}]}
{"AACT": [], "CanadianNutrientFile": [{"version": "2016.06.03", "files": {"cnf-fcen-csv.zip": "https://www.canada.ca/content/dam/hc-sc/migration/hc-sc/fn-an/alt_formats/zip/nutrition/fiche-nutri-data/cnf-fcen-csv.zip"}, "latest": true}], "CancerDrugsDB": [], "DGIdb": [], "DrugBank": [], "DrugCentral": [], "EMA": [{"version": "2024.11.13", "files": {"Medicines_output_european_public_assessment_reports.xlsx": "https://www.ema.europa.eu/sites/default/files/Medicines_output_european_public_assessment_reports.xlsx", "Medicines_output_herbal_medicines.xlsx": "https://www.ema.europa.eu/sites/default/files/Medicines_output_herbal_medicines.xlsx"}, "latest": true}], "Gene2Phenotype": [{"version": "2024.10.17", "files": {"CancerG2P.csv.gz": "https://www.ebi.ac.uk/gene2phenotype/downloads/CancerG2P.csv.gz", "DDG2P.csv.gz": "https://www.ebi.ac.uk/gene2phenotype/downloads/DDG2P.csv.gz", "EyeG2P.csv.gz": "https://www.ebi.ac.uk/gene2phenotype/downloads/EyeG2P.csv.gz", "SkinG2P.csv.gz": "https://www.ebi.ac.uk/gene2phenotype/downloads/SkinG2P.csv.gz"}, "latest": true}], "GeneOntology": [{"version": "2024.11.03", "files": {"go.obo": "http://current.geneontology.org/ontology/go.obo", "goa_human.gaf.gz": "http://current.geneontology.org/annotations/goa_human.gaf.gz", "goa_human_complex.gaf.gz": "http://current.geneontology.org/annotations/goa_human_complex.gaf.gz", "goa_human_isoform.gaf.gz": "http://current.geneontology.org/annotations/goa_human_isoform.gaf.gz", "goa_human_rna.gaf.gz": "http://current.geneontology.org/annotations/goa_human_rna.gaf.gz"}, "latest": true}], "GWASCatalog": [{"version": "2024.11.03", "files": {"gwas_catalog_associations.tsv": "https://www.ebi.ac.uk/gwas/api/search/downloads/alternative", "gwas_catalog_studies.tsv": "https://www.ebi.ac.uk/gwas/api/search/downloads/studies_alternative", "gwas_catalog_ancestry.tsv": "https://www.ebi.ac.uk/gwas/api/search/downloads/ancestry"}, "latest": true}], "HGNC": [], "HPO": [{"version": "2024.08.13", "files": {"hp.obo": "https://raw.githubusercontent.com/obophenotype/human-phenotype-ontology/master/hp.obo", "phenotype.hpoa": "http://purl.obolibrary.org/obo/hp/hpoa/phenotype.hpoa", "genes_to_phenotype.txt": "http://purl.obolibrary.org/obo/hp/hpoa/genes_to_phenotype.txt", "phenotype_to_genes.txt": "http://purl.obolibrary.org/obo/hp/hpoa/phenotype_to_genes.txt"}, "latest": true}], "ITIS": [], "KEGG": [{"version": "2023.09.25", "files": {"dgroup": "ftp://ftp.genome.jp/pub/kegg/medicus/dgroup/dgroup", "drug": "ftp://ftp.genome.jp/pub/kegg/medicus/drug/drug", "disease": "ftp://ftp.genome.jp/pub/kegg/medicus/disease/disease", "network": "ftp://ftp.genome.jp/pub/kegg/medicus/network/network", "variant": "ftp://ftp.genome.jp/pub/kegg/medicus/network/variant", "human_genes_list.tsv": "http://rest.kegg.jp/list/hsa", "compounds_list.tsv": "http://rest.kegg.jp/list/compound", "organisms_list.tsv": "http://rest.kegg.jp/list/organism"}, "latest": true}], "MED-RT": [], "Mondo": [{"version": "2024.11.05", "files": {"mondo.obo": "http://purl.obolibrary.org/obo/mondo.obo"}, "latest": true}], "NDF-RT": [], "OpenTargets": [], "PathwayCommons": [], "PharmGKB": [{"version": "2024.11.05", "files": {"genes.zip": "https://s3.pgkb.org/data/genes.zip", "drugs.zip": "https://s3.pgkb.org/data/drugs.zip", "chemicals.zip": "https://s3.pgkb.org/data/chemicals.zip", "variants.zip": "https://s3.pgkb.org/data/variants.zip", "phenotypes.zip": "https://s3.pgkb.org/data/phenotypes.zip", "clinicalAnnotations.zip": "https://s3.pgkb.org/data/clinicalAnnotations.zip", "variantAnnotations.zip": "https://s3.pgkb.org/data/variantAnnotations.zip", "relationships.zip": "https://s3.pgkb.org/data/relationships.zip", "dosingGuidelines.json.zip": "https://s3.pgkb.org/data/dosingGuidelines.json.zip", "drugLabels.zip": "https://s3.pgkb.org/data/drugLabels.zip", "pathways-tsv.zip": "https://s3.pgkb.org/data/pathways-tsv.zip", "clinicalVariants.zip": "https://s3.pgkb.org/data/clinicalVariants.zip", "occurrences.zip": "https://s3.pgkb.org/data/occurrences.zip", "automated_annotations.zip": "https://s3.pgkb.org/data/automated_annotations.zip"}, "latest": true}], "ReDO-DB": [{"version": "24.10.02", "files": {"redo_db.txt": "https://acfdata.coworks.be/redo_db.txt"}, "latest": true}], "ReDOTrialsDB": [{"version": "2024.08.14", "files": {"ReDO_Trials_DB.txt": "https://acfdata.coworks.be/ReDO_Trials_DB.txt"}, "latest": true}], "Sider": [], "UNII": [], "UniProt": [{"version": "2024.10.02", "files": {"uniprot_sprot_human.xml.gz": "https://ftp.uniprot.org/pub/databases/uniprot/current_release/knowledgebase/taxonomic_divisions/uniprot_sprot_human.xml.gz"}, "latest": true}], "USDA-PLANTS": [{"version": null, "files": {"plantlst.txt": "https://plants.sc.egov.usda.gov/assets/docs/CompletePLANTSList/plantlst.txt"}, "latest": true}]}
6 changes: 3 additions & 3 deletions update-log.txt
View file
Original file line number Diff line number Diff line change
@@ -1,4 +1,4 @@
Updating data sources at 2024-11-12T08:23:30.964494
Updating data sources at 2024-11-13T08:23:47.466565
Failed to retrieve data source "AACT" status list index out of range
Retrieved 1 versions for data source "CanadianNutrientFile"
Failed to retrieve data source "CancerDrugsDB" status list index out of range
Expand All @@ -9,7 +9,7 @@ Retrieved 1 versions for data source "EMA"
Retrieved 1 versions for data source "Gene2Phenotype"
Retrieved 1 versions for data source "GeneOntology"
Retrieved 1 versions for data source "GWASCatalog"
Failed to retrieve data source "HGNC" status 550 Could not get file modification time.
Failed to retrieve data source "HGNC" status [Errno 111] Connection refused
Retrieved 1 versions for data source "HPO"
Failed to retrieve data source "ITIS" status list index out of range
Retrieved 1 versions for data source "KEGG"
Expand All @@ -22,6 +22,6 @@ Retrieved 1 versions for data source "PharmGKB"
Retrieved 1 versions for data source "ReDO-DB"
Retrieved 1 versions for data source "ReDOTrialsDB"
Failed to retrieve data source "Sider" status [Errno 110] Connection timed out
Failed to retrieve data source "UNII" status HTTPSConnectionPool(host='fdasis.nlm.nih.gov', port=443): Max retries exceeded with url: /srs/jsp/srs/uniiListDownload.jsp (Caused by NameResolutionError("<urllib3.connection.HTTPSConnection object at 0x7fcc401032e0>: Failed to resolve 'fdasis.nlm.nih.gov' ([Errno -2] Name or service not known)"))
Failed to retrieve data source "UNII" status HTTPSConnectionPool(host='fdasis.nlm.nih.gov', port=443): Max retries exceeded with url: /srs/jsp/srs/uniiListDownload.jsp (Caused by NameResolutionError("<urllib3.connection.HTTPSConnection object at 0x7f4401cc82e0>: Failed to resolve 'fdasis.nlm.nih.gov' ([Errno -2] Name or service not known)"))
Retrieved 1 versions for data source "UniProt"
Retrieved 1 versions for data source "USDA-PLANTS"

0 comments on commit 0c8248f

Please sign in to comment.