Merge pull request #866 from MatBarba/mbarba/pepstats

Check that pepstats is there. Merged even with failures on copyrights checks.
Ensembl · Feb 5, 2024 · b0d1bc4 · b0d1bc4
2 parents 85abe06 + 8d93d27
commit b0d1bc4
Showing 1 changed file with 2 additions and 1 deletion.
diff --git a/modules/Bio/EnsEMBL/Production/Pipeline/Production/PepStats.pm b/modules/Bio/EnsEMBL/Production/Pipeline/Production/PepStats.pm
@@ -103,8 +103,9 @@ sub run_pepstats {
   my $attribs = {};
   my $tid;
   close(OUT);
-  foreach my $line (@lines) {
+  die("pepstats command not found ($PEPSTATS)") if ($lines[0] =~ /command not found/);
 
+  foreach my $line (@lines) {
 	if ($line =~ /PEPSTATS of ([^ ]+)/) {
 	  $tid = $1;
 	} elsif (defined $tid) {