diff --git a/extras/run-gen-ref b/extras/run-gen-ref index 86317c3..3be3325 100755 --- a/extras/run-gen-ref +++ b/extras/run-gen-ref @@ -17,7 +17,6 @@ elif [ $1 == "hs38a" ]; then wget -O- $url38 | gzip -dc > $1.fa [ ! -f $1.fa.alt ] && grep _alt $root/resource-GRCh38/hs38d6.fa.alt > $1.fa.alt elif [ $1 == "hs38" ]; then - # we don't use GCA_000001405.15_GRCh38_no_alt_analysis_set.fna.gz because it lacks EBV wget -O- $url38 | gzip -dc | awk '/^>/{f=/_alt/?0:1}f' > $1.fa elif [ $1 == "hs37d5" ]; then wget -O- $url37d5 | gzip -dc > $1.fa 2>/dev/null