5b4e0ab9dcf0345d588a88049923a619515ed211
hiram
  Sun Aug 13 18:38:47 2023 -0700
allow -ram=Ng argument to get through to the para make command no redmine

diff --git src/hg/utils/automation/doSameSpeciesLiftOver.pl src/hg/utils/automation/doSameSpeciesLiftOver.pl
index f86b529..ad3668e 100755
--- src/hg/utils/automation/doSameSpeciesLiftOver.pl
+++ src/hg/utils/automation/doSameSpeciesLiftOver.pl
@@ -297,31 +297,30 @@
   my $whatItDoes = "It performs a cluster run of blat -fastMap.";
   my $bossScript = new HgRemoteScript("$runDir/doAlign.csh", $paraHub,
 				      $runDir, $whatItDoes);
 
   # Don't allow target sequences to be split because we don't lift them
   # nor do we cat them before chaining.  Use the max target seq size
   # as the chunkSize for partitionSequence.pl on the target.
   my $tpSize = `awk '{print \$2;}' $tSizes | sort -nr | head -1`;
   chomp $tpSize;
   # However, $tDb might be a collection of zillions of tiny scaffolds.
   # So to ensure reasonable cluster batch size, make sure that chunkSize
   # is at least 10,000,000 for the target.
   my $minTpSize = 10000000;
   $tpSize = $minTpSize if ($tpSize < $minTpSize);
 
-  my $paraRun = &HgAutomate::paraRun();
   my $gensub2 = &HgAutomate::gensub2();
   $bossScript->add(<<_EOF_
 # Compute partition (coordinate ranges) for cluster job.  This does
 # not need to be run on the build fileserver because it does not actually
 # split any sequences -- it merely computes ranges based on the chrom.sizes.
 rm -rf tParts
 $Bin/partitionSequence.pl $tpSize 0 $tSeqScratch \\
    $tSizes 2000 \\
   -lstDir=tParts > t.lst
 rm -rf qParts
 $Bin/partitionSequence.pl 10000000 0 $qSeqScratch \\
   $qSizes 1000 \\
   -lstDir=qParts > q.lst
 
 mkdir $pslDir