diff --git a/misc-scripts/xref_mapping/XrefMapper/Methods/ExonerateBasic.pm b/misc-scripts/xref_mapping/XrefMapper/Methods/ExonerateBasic.pm index cd5fda9ae4693cf223921e86b2af065e96a3943d..a1e8d3a3df4e2d72692b0f72f599857c3202581f 100644 --- a/misc-scripts/xref_mapping/XrefMapper/Methods/ExonerateBasic.pm +++ b/misc-scripts/xref_mapping/XrefMapper/Methods/ExonerateBasic.pm @@ -284,10 +284,11 @@ EON my $output = $self->get_class_name() . "_" . $ensembl_type . "_" . "\$LSB_JOBINDEX.map"; - my $queue = $self->mapper->farm_queue || 'normal'; + my $queue = $self->mapper->farm_queue; - my $usage = "-q $queue ".'-M 1500 -R"select[mem>1500] rusage[tmp='.$disk_space_needed.', mem=1500]" '.'-J "'.$unique_name.'[1-'.$num_jobs.']%200" -o '.$prefix.'.%J-%I.out -e '.$prefix.'.%J-%I.err'; + my $usage = '-M 1500 -R"select[mem>1500] rusage[tmp='.$disk_space_needed.', mem=1500]" '.'-J "'.$unique_name.'[1-'.$num_jobs.']%200" -o '.$prefix.'.%J-%I.out -e '.$prefix.'.%J-%I.err'; + $queue and $usage = "-q $queue " . $usage; my $command = $exe." ".$query." ".$target.' --querychunkid $LSB_JOBINDEX --querychunktotal '.$num_jobs.' --showvulgar false --showalignment FALSE --ryo "xref:%qi:%ti:%ei:%ql:%tl:%qab:%qae:%tab:%tae:%C:%s\n" '.$options_str;