Commit 3a1b84c7 authored by Ian Longden's avatar Ian Longden
Browse files

commented out Uniprot/Varsplic and all the array type sources

parent cae15912
......@@ -1536,14 +1536,14 @@ parser = UCSCParser
[source UCSC::homo_sapiens]
# Used by homo_sapiens
name = UCSC_hg18
name = UCSC_hg19
download = Y
order = 70
priority = 1
prio_descr =
parser = UCSCParser
release_uri = ftp://hgdownload.cse.ucsc.edu/goldenPath/hg18/database/README.txt
data_uri = ftp://hgdownload.cse.ucsc.edu/goldenPath/hg18/database/knownGene.txt.gz
release_uri = ftp://hgdownload.cse.ucsc.edu/goldenPath/hg19/database/README.txt
data_uri = ftp://hgdownload.cse.ucsc.edu/goldenPath/hg19/database/knownGene.txt.gz
[source UCSC::mus_musculus]
# Used by mus_musculus
......@@ -2373,7 +2373,7 @@ source = RefSeq_peptide::apis_mellifera
source = UniGene::apis_mellifera
source = Uniprot/SPTREMBL::MULTI
source = Uniprot/SWISSPROT::MULTI
source = Uniprot/Varsplic::MULTI
#source = Uniprot/Varsplic::MULTI
[species bos_taurus]
taxonomy_id = 9913
......@@ -2403,7 +2403,7 @@ source = RefSeq_peptide::MULTI-invertebrate
source = UniGene::caenorhabditis_elegans
source = Uniprot/SPTREMBL::MULTI
source = Uniprot/SWISSPROT::MULTI
source = Uniprot/Varsplic::MULTI
#source = Uniprot/Varsplic::MULTI
source = wormpep_id::caenorhabditis_elegans
source = wormpep_id::caenorhabditis_elegans#01
......@@ -2419,7 +2419,7 @@ source = RefSeq_peptide::canis_familiaris
source = UniGene::canis_familiaris
source = Uniprot/SPTREMBL::MULTI
source = Uniprot/SWISSPROT::MULTI
source = Uniprot/Varsplic::MULTI
#source = Uniprot/Varsplic::MULTI
source = ncRNA::MULTI
[species ciona_intestinalis]
......@@ -2454,7 +2454,7 @@ source = RefSeq_peptide::MULTI-vertebrate_other
source = UniGene::ciona_savignyi
source = Uniprot/SPTREMBL::MULTI
source = Uniprot/SWISSPROT::MULTI
source = Uniprot/Varsplic::MULTI
#source = Uniprot/Varsplic::MULTI
source = ncRNA::MULTI
[species culex_pipiens]
......@@ -2466,13 +2466,13 @@ source = GO::MULTI
source = Interpro::MULTI
source = Uniprot/SPTREMBL::MULTI
source = Uniprot/SWISSPROT::MULTI
source = Uniprot/Varsplic::MULTI
#source = Uniprot/Varsplic::MULTI
source = ncRNA::culex_pipiens
[species danio_rerio]
taxonomy_id = 7955
aliases = danio, daniorerio, drerio, zebrafish
source = AgilentProbe::danio_rerio
#source = AgilentProbe::danio_rerio
source = EntrezGene::MULTI
source = GO::danio_rerio
source = InterproGO::MULTI
......@@ -2483,7 +2483,7 @@ source = RefSeq_peptide::danio_rerio
source = UniGene::danio_rerio
source = Uniprot/SPTREMBL::MULTI
source = Uniprot/SWISSPROT::MULTI
source = Uniprot/Varsplic::MULTI
#source = Uniprot/Varsplic::MULTI
source = ZFIN_ID::danio_rerio
source = ncRNA::MULTI
......@@ -2496,7 +2496,7 @@ source = InterproGO::MULTI
source = Interpro::MULTI
source = Uniprot/SPTREMBL::MULTI
source = Uniprot/SWISSPROT::MULTI
source = Uniprot/Varsplic::MULTI
#source = Uniprot/Varsplic::MULTI
source = ncRNA::MULTI
[species dipodomys_ordii]
......@@ -2510,7 +2510,7 @@ source = RefSeq_dna::MULTI-vertebrate_mammalian
source = RefSeq_peptide::MULTI-vertebrate_mammalian
source = Uniprot/SPTREMBL::MULTI
source = Uniprot/SWISSPROT::MULTI
source = Uniprot/Varsplic::MULTI
#source = Uniprot/Varsplic::MULTI
source = ncRNA::MULTI
[species drosophila_melanogaster]
......@@ -2534,7 +2534,7 @@ source = InterproGO::MULTI
source = Interpro::MULTI
source = Uniprot/SPTREMBL::MULTI
source = Uniprot/SWISSPROT::MULTI
source = Uniprot/Varsplic::MULTI
#source = Uniprot/Varsplic::MULTI
source = ncRNA::MULTI
[species erinaceus_europaeus]
......@@ -2549,7 +2549,7 @@ source = RefSeq_peptide::MULTI-vertebrate_mammalian
source = UniGene::MULTI
source = Uniprot/SPTREMBL::MULTI
source = Uniprot/SWISSPROT::MULTI
source = Uniprot/Varsplic::MULTI
#source = Uniprot/Varsplic::MULTI
source = ncRNA::MULTI
[species equus_caballus]
......@@ -2564,7 +2564,7 @@ source = RefSeq_peptide::equus_caballus
source = UniGene::equus_caballus
source = Uniprot/SPTREMBL::MULTI
source = Uniprot/SWISSPROT::MULTI
source = Uniprot/Varsplic::MULTI
#source = Uniprot/Varsplic::MULTI
source = ncRNA::MULTI
[species felis_catus]
......@@ -2576,7 +2576,7 @@ source = InterproGO::MULTI
source = Interpro::MULTI
source = Uniprot/SPTREMBL::MULTI
source = Uniprot/SWISSPROT::MULTI
source = Uniprot/Varsplic::MULTI
#source = Uniprot/Varsplic::MULTI
source = ncRNA::MULTI
[species gallus_gallus]
......@@ -2592,7 +2592,7 @@ source = RefSeq_peptide::gallus_gallus
source = UniGene::gallus_gallus
source = Uniprot/SPTREMBL::MULTI
source = Uniprot/SWISSPROT::MULTI
source = Uniprot/Varsplic::MULTI
#source = Uniprot/Varsplic::MULTI
source = ncRNA::MULTI
[species gasterosteus_aculeatus]
......@@ -2607,7 +2607,7 @@ source = RefSeq_dna::gasterosteus_aculeatus
source = RefSeq_peptide::MULTI-vertebrate_other
source = Uniprot/SPTREMBL::MULTI
source = Uniprot/SWISSPROT::MULTI
source = Uniprot/Varsplic::MULTI
#source = Uniprot/Varsplic::MULTI
source = ncRNA::MULTI
[species gorilla_gorilla]
......@@ -2621,17 +2621,17 @@ source = RefSeq_dna::MULTI-vertebrate_mammalian
source = RefSeq_peptide::MULTI-vertebrate_mammalian
source = Uniprot/SPTREMBL::MULTI
source = Uniprot/SWISSPROT::MULTI
source = Uniprot/Varsplic::MULTI
#source = Uniprot/Varsplic::MULTI
source = ncRNA::MULTI
[species homo_sapiens]
taxonomy_id = 9606
aliases = homosapiens, hsapiens, human
source = AgilentCGH::homo_sapiens
source = AgilentProbe::homo_sapiens
#source = AgilentCGH::homo_sapiens
#source = AgilentProbe::homo_sapiens
source = CCDS::homo_sapiens
source = Codelink::homo_sapiens
#source = Codelink::homo_sapiens
source = DBASS5::homo_sapiens
source = DBASS3::homo_sapiens
source = EntrezGene::MULTI
......@@ -2644,8 +2644,8 @@ source = HGNC::homo_sapiens#01
source = HGNC::homo_sapiens#02
source = IMGT/GENE_DB::homo_sapiens
source = IPI::homo_sapiens
source = Illumina_V1::homo_sapiens
source = Illumina_V2::homo_sapiens
#source = Illumina_V1::homo_sapiens
#source = Illumina_V2::homo_sapiens
source = Interpro::MULTI
source = MIM::homo_sapiens
#source = OTTT::homo_sapiens # got from merge
......@@ -2656,7 +2656,7 @@ source = UniGene::homo_sapiens
source = Uniprot/SPTREMBL::MULTI
source = Uniprot/SWISSPROT::MULTI
source = ncRNA::MULTI
source = UCSC::homo_sapiens
#source = UCSC::homo_sapiens ADD WHEN STABLE ID'S ADDED FOR NEW ASEMBLY
source = HGNC_curated_transcript::homo_sapiens
[species ixodes_scapularis]
......@@ -2670,7 +2670,7 @@ source = Interpro::MULTI
source = UniGene::ixodes_scapularis
source = Uniprot/SPTREMBL::MULTI
source = Uniprot/SWISSPROT::MULTI
source = Uniprot/Varsplic::MULTI
#source = Uniprot/Varsplic::MULTI
[species loxodonta_africana]
taxonomy_id = 9785
......@@ -2681,7 +2681,7 @@ source = InterproGO::MULTI
source = Interpro::MULTI
source = Uniprot/SPTREMBL::MULTI
source = Uniprot/SWISSPROT::MULTI
source = Uniprot/Varsplic::MULTI
#source = Uniprot/Varsplic::MULTI
source = ncRNA::MULTI
[species macaca_mulatta]
......@@ -2709,16 +2709,16 @@ source = RefSeq_dna::MULTI-vertebrate_mammalian
source = RefSeq_peptide::MULTI-vertebrate_mammalian
source = Uniprot/SPTREMBL::MULTI
source = Uniprot/SWISSPROT::MULTI
source = Uniprot/Varsplic::MULTI
#source = Uniprot/Varsplic::MULTI
source = UniGene::monodelphis_domestica
source = ncRNA::MULTI
[species mus_musculus]
taxonomy_id = 10090
aliases = mmusculus, mouse, musmusculus
source = AgilentProbe::mus_musculus
#source = AgilentProbe::mus_musculus
source = CCDS::mus_musculus
source = Codelink::mus_musculus
#source = Codelink::mus_musculus
source = EntrezGene::MULTI
source = GO::mus_musculus
source = GO::mus_musculus#01
......@@ -2754,7 +2754,7 @@ source = RefSeq_peptide::MULTI-vertebrate_mammalian
source = UniGene::myotis_lucifugus
source = Uniprot/SPTREMBL::MULTI
source = Uniprot/SWISSPROT::MULTI
source = Uniprot/Varsplic::MULTI
#source = Uniprot/Varsplic::MULTI
source = ncRNA::MULTI
[species ochotona_princeps]
......@@ -2768,7 +2768,7 @@ source = RefSeq_dna::MULTI-vertebrate_mammalian
source = RefSeq_peptide::MULTI-vertebrate_mammalian
source = Uniprot/SPTREMBL::MULTI
source = Uniprot/SWISSPROT::MULTI
source = Uniprot/Varsplic::MULTI
#source = Uniprot/Varsplic::MULTI
source = ncRNA::MULTI
[species ornithorhynchus_anatinus]
......@@ -2781,7 +2781,7 @@ source = RefSeq_dna::MULTI-vertebrate_mammalian
source = RefSeq_peptide::MULTI-vertebrate_mammalian
source = Uniprot/SPTREMBL::MULTI
source = Uniprot/SWISSPROT::MULTI
source = Uniprot/Varsplic::MULTI
#source = Uniprot/Varsplic::MULTI
source = Oxford_FGU_Oa_tscript::ornithorhynchus_anatinus
source = Oxford_FGU_Oa_gene::ornithorhynchus_anatinus
source = Platypus_olfactory_receptor::ornithorhynchus_anatinus
......@@ -2796,7 +2796,7 @@ source = InterproGO::MULTI
source = Interpro::MULTI
source = Uniprot/SPTREMBL::MULTI
source = Uniprot/SWISSPROT::MULTI
source = Uniprot/Varsplic::MULTI
#source = Uniprot/Varsplic::MULTI
source = ncRNA::MULTI
[species oryzias_latipes]
......@@ -2811,7 +2811,7 @@ source = RefSeq_peptide::MULTI-vertebrate_other
source = UniGene::MULTI
source = Uniprot/SPTREMBL::MULTI
source = Uniprot/SWISSPROT::MULTI
source = Uniprot/Varsplic::MULTI
#source = Uniprot/Varsplic::MULTI
source = UniProt::protein_id
source = Uniprot::EMBL
source = ncRNA::MULTI
......@@ -2827,7 +2827,7 @@ source = RefSeq_dna::pan_troglodytes
source = RefSeq_peptide::pan_troglodytes
source = Uniprot/SPTREMBL::MULTI
source = Uniprot/SWISSPROT::MULTI
source = Uniprot/Varsplic::MULTI
#source = Uniprot/Varsplic::MULTI
source = ncRNA::MULTI
[species pongo_pygmaeus]
......@@ -2843,7 +2843,7 @@ source = RefSeq_peptide::pongo_pygmaeus
source = UniGene::MULTI
source = Uniprot/SPTREMBL::MULTI
source = Uniprot/SWISSPROT::MULTI
source = Uniprot/Varsplic::MULTI
#source = Uniprot/Varsplic::MULTI
source = ncRNA::MULTI
[species procavia_capensis]
......@@ -2857,7 +2857,7 @@ source = RefSeq_dna::MULTI-vertebrate_mammalian
source = RefSeq_peptide::MULTI-vertebrate_mammalian
source = Uniprot/SPTREMBL::MULTI
source = Uniprot/SWISSPROT::MULTI
source = Uniprot/Varsplic::MULTI
#source = Uniprot/Varsplic::MULTI
source = ncRNA::MULTI
......@@ -2872,14 +2872,14 @@ source = RefSeq_dna::MULTI-vertebrate_mammalian
source = RefSeq_peptide::MULTI-vertebrate_mammalian
source = Uniprot/SPTREMBL::MULTI
source = Uniprot/SWISSPROT::MULTI
source = Uniprot/Varsplic::MULTI
#source = Uniprot/Varsplic::MULTI
source = ncRNA::MULTI
[species rattus_norvegicus]
taxonomy_id = 10116
aliases = rat, rattusnorvegicus, rnovegicus
source = AgilentProbe::rattus_norvegicus
source = Codelink::rattus_norvegicus
#source = AgilentProbe::rattus_norvegicus
#source = Codelink::rattus_norvegicus
source = EntrezGene::MULTI
source = GO::rattus_norvegicus
source = InterproGO::MULTI
......@@ -2891,7 +2891,7 @@ source = RefSeq_peptide::rattus_norvegicus
source = UniGene::rattus_norvegicus
source = Uniprot/SPTREMBL::MULTI
source = Uniprot/SWISSPROT::MULTI
source = Uniprot/Varsplic::MULTI
#source = Uniprot/Varsplic::MULTI
source = ncRNA::MULTI
[species saccharomyces_cerevisiae]
......@@ -2906,7 +2906,7 @@ source = RefSeq_peptide::MULTI-fungi
source = SGD::saccharomyces_cerevisiae
source = Uniprot/SPTREMBL::MULTI
source = Uniprot/SWISSPROT::MULTI
source = Uniprot/Varsplic::MULTI
#source = Uniprot/Varsplic::MULTI
[species spermophilus_tridecemlineatus]
taxonomy_id = 43179
......@@ -2920,7 +2920,7 @@ source = RefSeq_peptide::MULTI-vertebrate_mammalian
source = UniGene::MULTI
source = Uniprot/SPTREMBL::MULTI
source = Uniprot/SWISSPROT::MULTI
source = Uniprot/Varsplic::MULTI
#source = Uniprot/Varsplic::MULTI
source = ncRNA::MULTI
[species taeniopygia_guttata]
......@@ -2935,7 +2935,7 @@ source = RefSeq_peptide::MULTI-vertebrate_other
source = UniGene::taeniopygia_guttata
source = Uniprot/SPTREMBL::MULTI
source = Uniprot/SWISSPROT::MULTI
source = Uniprot/Varsplic::MULTI
#source = Uniprot/Varsplic::MULTI
source = ncRNA::MULTI
[species takifugu_rubripes]
......@@ -2950,7 +2950,7 @@ source = RefSeq_peptide::MULTI-vertebrate_other
source = UniGene::takifugu_rubripes
source = Uniprot/SPTREMBL::MULTI
source = Uniprot/SWISSPROT::MULTI
source = Uniprot/Varsplic::MULTI
#source = Uniprot/Varsplic::MULTI
source = ncRNA::MULTI
[species tarsius_syrichta]
......@@ -2964,7 +2964,7 @@ source = RefSeq_dna::MULTI-vertebrate_mammalian
source = RefSeq_peptide::MULTI-vertebrate_mammalian
source = Uniprot/SPTREMBL::MULTI
source = Uniprot/SWISSPROT::MULTI
source = Uniprot/Varsplic::MULTI
#source = Uniprot/Varsplic::MULTI
source = ncRNA::MULTI
[species tetraodon_nigroviridis]
......@@ -2978,7 +2978,7 @@ source = RefSeq_dna::MULTI-vertebrate_other
source = RefSeq_peptide::MULTI-vertebrate_other
source = Uniprot/SPTREMBL::MULTI
source = Uniprot/SWISSPROT::MULTI
source = Uniprot/Varsplic::MULTI
#source = Uniprot/Varsplic::MULTI
source = ncRNA::MULTI
source = Genoscope_pred_gene::tetraodon_nigroviridis
source = Genoscope_pred_transcript::tetraodon_nigroviridis
......@@ -2998,7 +2998,7 @@ source = RefSeq_peptide::MULTI-vertebrate_mammalian
source = UniGene::MULTI
source = Uniprot/SPTREMBL::MULTI
source = Uniprot/SWISSPROT::MULTI
source = Uniprot/Varsplic::MULTI
#source = Uniprot/Varsplic::MULTI
source = ncRNA::MULTI
[species tursiops_truncatus]
......@@ -3012,7 +3012,7 @@ source = RefSeq_dna::MULTI-vertebrate_mammalian
source = RefSeq_peptide::MULTI-vertebrate_mammalian
source = Uniprot/SPTREMBL::MULTI
source = Uniprot/SWISSPROT::MULTI
source = Uniprot/Varsplic::MULTI
#source = Uniprot/Varsplic::MULTI
source = ncRNA::MULTI
[species vicugna_pacos]
......@@ -3026,7 +3026,7 @@ source = RefSeq_dna::MULTI-vertebrate_mammalian
source = RefSeq_peptide::MULTI-vertebrate_mammalian
source = Uniprot/SPTREMBL::MULTI
source = Uniprot/SWISSPROT::MULTI
source = Uniprot/Varsplic::MULTI
#source = Uniprot/Varsplic::MULTI
source = ncRNA::MULTI
[species choloepus_hoffmanni]
......@@ -3040,7 +3040,7 @@ source = RefSeq_dna::MULTI-vertebrate_mammalian
source = RefSeq_peptide::MULTI-vertebrate_mammalian
source = Uniprot/SPTREMBL::MULTI
source = Uniprot/SWISSPROT::MULTI
source = Uniprot/Varsplic::MULTI
#source = Uniprot/Varsplic::MULTI
source = ncRNA::MULTI
[species xenopus_tropicalis]
......@@ -3055,6 +3055,6 @@ source = RefSeq_peptide::MULTI-vertebrate_other
source = UniGene::xenopus_tropicalis
source = Uniprot/SPTREMBL::MULTI
source = Uniprot/SWISSPROT::MULTI
source = Uniprot/Varsplic::MULTI
#source = Uniprot/Varsplic::MULTI
source = Xenopus_Jamboree::xenopus_tropicalis
source = ncRNA::MULTI
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