Commit 4bd2e72c authored by Mathieu Giraud's avatar Mathieu Giraud

germline/get-germline: gets from IMGT all genes, not only those inframe

Note that we should also keep inframeP, which has gaps.
See #3515.
parent 005d00b0
......@@ -2,9 +2,11 @@
cd $(dirname $0)
wget -N http://www.imgt.org/download/GENE-DB/IMGTGENEDB-GeneList
wget -N http://www.imgt.org/download/GENE-DB/IMGTGENEDB-ReferenceSequences.fasta-nt-WithGaps-F+ORF+inframeP
wget -N http://www.imgt.org/download/GENE-DB/IMGTGENEDB-ReferenceSequences.fasta-nt-WithGaps-F+ORF+inframeP
wget -N http://www.imgt.org/download/GENE-DB/IMGTGENEDB-ReferenceSequences.fasta-nt-WithoutGaps-F+ORF+allP
errors=$(tempfile)
python split-from-imgt.py IMGTGENEDB-ReferenceSequences.fasta-nt-WithGaps-F+ORF+inframeP IMGTGENEDB-GeneList 2> $errors
python split-from-imgt.py IMGTGENEDB-ReferenceSequences.fasta-nt-WithGaps-F+ORF+inframeP IMGTGENEDB-ReferenceSequences.fasta-nt-WithoutGaps-F+ORF+allP IMGTGENEDB-GeneList 2> $errors
wget -O IMGT_RELEASE http://www.imgt.org/download/GENE-DB/RELEASE
......
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