sources for the worm

misc-scripts/xref_mapping/sql/populate_metadata.sql

@@ -34,7 +34,7 @@ INSERT INTO source VALUES (4, "RefSeq_dna", 1, 'Y',1);
 INSERT INTO source VALUES (5, "IPI", 1, 'Y',2);
 INSERT INTO source VALUES (6, "UniGene", 1, 'Y',2);
 
-# Other sources - used to create dependent xrefs, but not to upload from
+# Other sources - used to create dependent xrefs, but not to download from
 
 INSERT INTO source VALUES (1010, 'EMBL', 1, 'N', 2);
 INSERT INTO source VALUES (1020, 'MIM', 1, 'N', 2);
@@ -233,8 +233,10 @@ INSERT INTO source_url (source_id, species_id, url, checksum, file_modified_date
 
 ### Dog
 
+#        uniprot
 INSERT INTO source_url (source_id, species_id, url, checksum, file_modified_date, upload_date, parser) VALUES (1, 9615, 'ftp://ftp.ebi.ac.uk/pub/databases/uniprot/knowledgebase/uniprot_sprot.dat.gz', '', now(), now(), "UniProtParser");
 
+#        uniprot
 INSERT INTO source_url (source_id, species_id, url, checksum, file_modified_date, upload_date, parser) VALUES (1, 9615, 'ftp://ftp.ebi.ac.uk/pub/databases/uniprot/knowledgebase/uniprot_trembl.dat.gz', '', now(), now(), "UniProtParser");
 
 ##       refseq
@@ -252,6 +254,35 @@ INSERT INTO source_url (source_id, species_id, url, checksum, file_modified_date
 ##      UniGene
 INSERT INTO source_url (source_id, species_id, url, checksum, file_modified_date, upload_date, parser) VALUES (6, 9615,'ftp://ftp.ncbi.nih.gov/repository/UniGene/Cfa.seq.uniq.gz ftp://ftp.ncbi.nih.gov/repository/UniGene/Cfa.data.gz', '', now(), now(), "UniGeneParser");
 
+# --------------------------------------------------------------------------------
+
+### C elegans
+
+#        uniprot
+INSERT INTO source_url (source_id, species_id, url, checksum, file_modified_date, upload_date, parser) VALUES (1, 6239, 'ftp://ftp.ebi.ac.uk/pub/databases/uniprot/knowledgebase/uniprot_sprot.dat.gz', '', now(), now(), "UniProtParser");
+
+#        uniprot
+INSERT INTO source_url (source_id, species_id, url, checksum, file_modified_date, upload_date, parser) VALUES (1, 6239, 'ftp://ftp.ebi.ac.uk/pub/databases/uniprot/knowledgebase/uniprot_trembl.dat.gz', '', now(), now(), "UniProtParser");
+
+##       GO
+INSERT INTO source_url (source_id, species_id, url, checksum, file_modified_date, upload_date, parser) VALUES (1070, 6239,'ftp://ftp.geneontology.org/pub/go/gene-associations/gene_association.wb.gz', '', now(), now(), "GOParser");
+
+##      Interpro
+INSERT INTO source_url (source_id, species_id, url, checksum, file_modified_date, upload_date, parser) VALUES (1300, 6239,'ftp://ftp.ebi.ac.uk/pub/databases/interpro/interpro.xml.gz', '', now(), now(), "InterproParser");
+
+##      UniGene
+INSERT INTO source_url (source_id, species_id, url, checksum, file_modified_date, upload_date, parser) VALUES (6, 6239,'ftp://ftp.ncbi.nih.gov/repository/UniGene/Cel.seq.uniq.gz ftp://ftp.ncbi.nih.gov/repository/UniGene/Cel.data.gz', '', now(), now(), "UniGeneParser");
+
+##       refseq
+INSERT INTO source_url (source_id, species_id, url, checksum, file_modified_date, upload_date, parser) VALUES (4, 6239,'ftp://ftp.ncbi.nih.gov/genomes/Caenorhabditis_elegans/CHR_I/NC_003279.gbk ftp://ftp.ncbi.nih.gov/genomes/Caenorhabditis_elegans/CHR_II/NC_003280.gbk ftp://ftp.ncbi.nih.gov/genomes/Caenorhabditis_elegans/CHR_III/NC_003281.gbk ftp://ftp.ncbi.nih.gov/genomes/Caenorhabditis_elegans/CHR_IV/NC_003282.gbk ftp://ftp.ncbi.nih.gov/genomes/Caenorhabditis_elegans/CHR_V/NC_003283.gbk ftp://ftp.ncbi.nih.gov/genomes/Caenorhabditis_elegans/CHR_X/NC_003284.gbk', '', now(), now(), "RefSeqGPFFParser");
+
+##       refseq
+INSERT INTO source_url (source_id, species_id, url, checksum, file_modified_date, upload_date, parser) VALUES (3, 6239,'ftp://ftp.ncbi.nih.gov/refseq/release/invertebrate/invertebrate1.protein.gpff ftp://ftp.ncbi.nih.gov/refseq/release/invertebrate/invertebrate2.protein.gpff.gz ftp://ftp.ncbi.nih.gov/refseq/release/invertebrate/invertebrate3.protein.gpff ftp://ftp.ncbi.nih.gov/refseq/release/invertebrate/invertebrate4.protein.gpff.gz ftp://ftp.ncbi.nih.gov/refseq/release/invertebrate/invertebrate5.protein.gpff ftp://ftp.ncbi.nih.gov/refseq/release/invertebrate/invertebrate6.protein.gpff.gz ftp://ftp.ncbi.nih.gov/refseq/release/invertebrate/invertebrate7.protein.gpff ftp://ftp.ncbi.nih.gov/refseq/release/invertebrate/invertebrate8.protein.gpff.gz ftp://ftp.ncbi.nih.gov/refseq/release/invertebrate/invertebrate9.protein.gpff ftp://ftp.ncbi.nih.gov/refseq/release/invertebrate/invertebrate10.protein.gpff.gz', '', now(), now(), "RefSeqGPFFParser");
+
+##       WormPep
+
+
+
 # --------------------------------------------------------------------------------