smarter about path finding

obvvq · Nov 19, 2014 · d58beee · d58beee
1 parent d36083b
commit d58beee
Showing 1 changed file with 1 addition and 0 deletions.
diff --git a/bwakit/run-bwamem b/bwakit/run-bwamem
@@ -55,6 +55,7 @@ my $idx = $ARGV[0];
 
 my $exepath = $0 =~/^\S+\/[^\/\s]+/? $0 : &which($0);
 my $root = $0 =~/^(\S+)\/[^\/\s]+/? $1 : undef;
+$root = $exepath =~/^(\S+)\/[^\/\s]+/? $1 : undef if !defined($root);
 die "ERROR: failed to locate the 'bwa.kit' directory\n" if !defined($root);
 
 die("ERROR: failed to locate the BWA index. Please run '$root/bwa index -p $idx ref.fa'.\n")