Commit 70e77500 authored by Mathieu Giraud's avatar Mathieu Giraud

split-from-imgt.py, get-germline: put human germlines in 'homo-sapiens'

See #2132.
parent d1a2952d
...@@ -5,5 +5,5 @@ wget -O - http://www.imgt.org/download/GENE-DB/IMGTGENEDB-ReferenceSequences.fas ...@@ -5,5 +5,5 @@ wget -O - http://www.imgt.org/download/GENE-DB/IMGTGENEDB-ReferenceSequences.fas
wget -O IMGT_RELEASE http://www.imgt.org/download/GENE-DB/RELEASE wget -O IMGT_RELEASE http://www.imgt.org/download/GENE-DB/RELEASE
wget -N http://rbx.vidjil.org/browser/germline/IGK-INTRON.fa wget -N -P homo-sapiens http://rbx.vidjil.org/browser/germline/IGK-INTRON.fa
wget -N http://rbx.vidjil.org/browser/germline/IGK-KDE.fa wget -N -P homo-sapiens http://rbx.vidjil.org/browser/germline/IGK-KDE.fa
...@@ -178,7 +178,7 @@ UPSTREAM_REGIONS=['IGHD', 'TRDD', 'TRBD', 'TRDD2'] ...@@ -178,7 +178,7 @@ UPSTREAM_REGIONS=['IGHD', 'TRDD', 'TRBD', 'TRDD2']
# Be careful, 'IGHD' regex for UPSTREAM_REGIONS also matches IGHD*0? constant regions. # Be careful, 'IGHD' regex for UPSTREAM_REGIONS also matches IGHD*0? constant regions.
SPECIES = { SPECIES = {
"Homo sapiens": './', "Homo sapiens": 'homo-sapiens/',
"Mus musculus": 'mus-musculus/', "Mus musculus": 'mus-musculus/',
"Rattus norvegicus": 'rattus-norvegicus/', "Rattus norvegicus": 'rattus-norvegicus/',
"Rattus norvegicus_BN/SsNHsdMCW": 'rattus-norvegicus/', "Rattus norvegicus_BN/SsNHsdMCW": 'rattus-norvegicus/',
......
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