diff --git a/misc-scripts/xref_mapping/sql/populate_metadata.sql b/misc-scripts/xref_mapping/sql/populate_metadata.sql index 8b064ad3d5502af890a42958c12c64c930c8b9cf..603a28aef77bacacde4b8aa8f43bb00efb0ba9ba 100644 --- a/misc-scripts/xref_mapping/sql/populate_metadata.sql +++ b/misc-scripts/xref_mapping/sql/populate_metadata.sql @@ -323,7 +323,7 @@ INSERT INTO source_url (source_id, species_id, url, checksum, file_modified_date INSERT INTO source_url (source_id, species_id, url, checksum, file_modified_date, upload_date, parser) VALUES (3, 9606,'ftp://ftp.ncbi.nih.gov/refseq/H_sapiens/mRNA_Prot/human.protein.gpff.gz', '', now(), now(), "RefSeqGPFFParser"); ## refseq -INSERT INTO source_url (source_id, species_id, url, checksum, file_modified_date, upload_date, parser) VALUES (4, 9606,'ftp://ftp.ncbi.nih.gov/refseq/H_sapiens/mRNA_Prot/human.rna.fna.gz', '', now(), now(), "RefSeqParser"); +INSERT INTO source_url (source_id, species_id, url, checksum, file_modified_date, upload_date, parser) VALUES (4, 9606,'ftp://ftp.ncbi.nih.gov/refseq/H_sapiens/mRNA_Prot/human.rna.fna.gz ftp://ftp.ncbi.nih.gov/refseq/release/release-notes/RefSeq-release*.txt', '', now(), now(), "RefSeqParser"); ## refseq INSERT INTO source_url (source_id, species_id, url, checksum, file_modified_date, upload_date, parser) VALUES (14, 9606,'LOCAL:RefSeq_dna/CCDS_to_REFSEQ', '', now(), now(), "RefSeq_CCDSParser"); @@ -397,7 +397,7 @@ INSERT INTO source_url (source_id, species_id, url, checksum, file_modified_date INSERT INTO source_url (source_id, species_id, url, checksum, file_modified_date, upload_date, parser) VALUES (3, 10090,'ftp://ftp.ncbi.nih.gov/refseq/M_musculus/mRNA_Prot/mouse.protein.gpff.gz', '', now(), now(), "RefSeqGPFFParser"); ## refseq -INSERT INTO source_url (source_id, species_id, url, checksum, file_modified_date, upload_date, parser) VALUES (4, 10090,'ftp://ftp.ncbi.nih.gov/refseq/M_musculus/mRNA_Prot/mouse.rna.fna.gz', '', now(), now(), "RefSeqParser"); +INSERT INTO source_url (source_id, species_id, url, checksum, file_modified_date, upload_date, parser) VALUES (4, 10090,'ftp://ftp.ncbi.nih.gov/refseq/M_musculus/mRNA_Prot/mouse.rna.fna.gz ftp://ftp.ncbi.nih.gov/refseq/release/release-notes/RefSeq-release*.txt', '', now(), now(), "RefSeqParser"); ## mgd (MGI -- MarkerSymbol) # need to add ftp://ftp.informatics.jax.org/pub/reports/MRK_Sequence.rpt @@ -452,7 +452,7 @@ INSERT INTO source_url (source_id, species_id, url, checksum, file_modified_date INSERT INTO source_url (source_id, species_id, url, checksum, file_modified_date, upload_date, parser) VALUES (3, 10116,'ftp://ftp.ncbi.nih.gov/refseq/R_norvegicus/mRNA_Prot/rat.protein.gpff.gz', '', now(), now(), "RefSeqGPFFParser"); ## refseq -INSERT INTO source_url (source_id, species_id, url, checksum, file_modified_date, upload_date, parser) VALUES (4, 10116,'ftp://ftp.ncbi.nih.gov/refseq/R_norvegicus/mRNA_Prot/rat.rna.fna.gz', '', now(), now(), "RefSeqParser"); +INSERT INTO source_url (source_id, species_id, url, checksum, file_modified_date, upload_date, parser) VALUES (4, 10116,'ftp://ftp.ncbi.nih.gov/refseq/R_norvegicus/mRNA_Prot/rat.rna.fna.gz ftp://ftp.ncbi.nih.gov/refseq/release/release-notes/RefSeq-release*.txt', '', now(), now(), "RefSeqParser"); ## GO INSERT INTO source_url (source_id, species_id, url, checksum, file_modified_date, upload_date, parser) VALUES (1070, 10116,'ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/RAT/gene_association.goa_rat.gz', '', now(), now(), "GOParser"); @@ -498,7 +498,7 @@ INSERT INTO source_url (source_id, species_id, url, checksum, file_modified_date INSERT INTO source_url (source_id, species_id, url, checksum, file_modified_date, upload_date, parser) VALUES (3, 7955,'ftp://ftp.ncbi.nih.gov/refseq/D_rerio/mRNA_Prot/zebrafish.protein.gpff.gz', '', now(), now(), "RefSeqGPFFParser"); ## refseq -INSERT INTO source_url (source_id, species_id, url, checksum, file_modified_date, upload_date, parser) VALUES (4, 7955,'ftp://ftp.ncbi.nih.gov/refseq/D_rerio/mRNA_Prot/zebrafish.rna.fna.gz', '', now(), now(), "RefSeqParser"); +INSERT INTO source_url (source_id, species_id, url, checksum, file_modified_date, upload_date, parser) VALUES (4, 7955,'ftp://ftp.ncbi.nih.gov/refseq/D_rerio/mRNA_Prot/zebrafish.rna.fna.gz ftp://ftp.ncbi.nih.gov/refseq/release/release-notes/RefSeq-release*.txt', '', now(), now(), "RefSeqParser"); ## GO @@ -578,9 +578,9 @@ INSERT INTO source_url (source_id, species_id, url, checksum, file_modified_date INSERT INTO source_url (source_id, species_id, url, checksum, file_modified_date, upload_date, parser) VALUES (3, 8364,'ftp://ftp.ncbi.nih.gov/refseq/release/vertebrate_other/vertebrate_other3.protein.gpff.gz', '', now(), now(), "RefSeqGPFFParser"); ## refseq -INSERT INTO source_url (source_id, species_id, url, checksum, file_modified_date, upload_date, parser) VALUES (4, 8364,'ftp://ftp.ncbi.nih.gov/refseq/release/vertebrate_other/vertebrate_other1.rna.fna.gz', '', now(), now(), "RefSeqParser"); -INSERT INTO source_url (source_id, species_id, url, checksum, file_modified_date, upload_date, parser) VALUES (4, 8364,'ftp://ftp.ncbi.nih.gov/refseq/release/vertebrate_other/vertebrate_other2.rna.fna.gz', '', now(), now(), "RefSeqParser"); -INSERT INTO source_url (source_id, species_id, url, checksum, file_modified_date, upload_date, parser) VALUES (4, 8364,'ftp://ftp.ncbi.nih.gov/refseq/release/vertebrate_other/vertebrate_other3.rna.fna.gz', '', now(), now(), "RefSeqParser"); +INSERT INTO source_url (source_id, species_id, url, checksum, file_modified_date, upload_date, parser) VALUES (4, 8364,'ftp://ftp.ncbi.nih.gov/refseq/release/vertebrate_other/vertebrate_other1.rna.fna.gz ftp://ftp.ncbi.nih.gov/refseq/release/release-notes/RefSeq-release*.txt', '', now(), now(), "RefSeqParser"); +INSERT INTO source_url (source_id, species_id, url, checksum, file_modified_date, upload_date, parser) VALUES (4, 8364,'ftp://ftp.ncbi.nih.gov/refseq/release/vertebrate_other/vertebrate_other2.rna.fna.gz ftp://ftp.ncbi.nih.gov/refseq/release/release-notes/RefSeq-release*.txt', '', now(), now(), "RefSeqParser"); +INSERT INTO source_url (source_id, species_id, url, checksum, file_modified_date, upload_date, parser) VALUES (4, 8364,'ftp://ftp.ncbi.nih.gov/refseq/release/vertebrate_other/vertebrate_other3.rna.fna.gz ftp://ftp.ncbi.nih.gov/refseq/release/release-notes/RefSeq-release*.txt', '', now(), now(), "RefSeqParser"); ## Interpro INSERT INTO source_url (source_id, species_id, url, checksum, file_modified_date, upload_date, parser) VALUES (1300, 8364,'ftp://ftp.ebi.ac.uk/pub/databases/interpro/interpro.xml.gz http://www.ebi.ac.uk/interpro/release_notes.html', '', now(), now(), "InterproParser");