Mercurial > repos > fubar > jbrowse2

diff convertMAF.sh @ 57:94264fe60478 draft

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planemo upload for repository https://github.com/usegalaxy-eu/temporary-tools/tree/master/jbrowse2 commit 4b5df41484f6bdf316edaf95b53c92d328ec1674-dirty
author fubar
date Thu, 21 Mar 2024 08:01:42 +0000
parents d78175596286
children e7a6f7a7148d
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line diff
--- a/convertMAF.sh	Tue Mar 19 02:33:40 2024 +0000
+++ b/convertMAF.sh	Thu Mar 21 08:01:42 2024 +0000
@@ -3,5 +3,5 @@
 #  MAF file must contain the species name and chromosome name
 #  e.g. hg38.chr1 in the sequence identifiers.
 perl $3/maf2bed.pl $2 < $1 | sort -k1,1 -k2,2n > $4.sorted.bed
-bgzip $4.sorted.bed
+bgzip -c $4.sorted.bed > $4.sorted.bed.gz
 tabix -p bed $4.sorted.bed.gz