fixes for minimap grid support

sgblanch · Mar 9, 2017 · c29cbb6 · c29cbb6
1 parent 35a6573
commit c29cbb6
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Showing 2 changed files with 4 additions and 4 deletions.
diff --git a/src/pipelines/canu/Configure.pm b/src/pipelines/canu/Configure.pm
@@ -685,15 +685,15 @@ sub configureAssembler () {
     ($err, $all) = getAllowedResources("",    "meryl",    $err, $all);
 
     ($err, $all) = getAllowedResources("cor", "mhap",     $err, $all)   if (getGlobal("corOverlapper") eq "mhap");
-    ($err, $all) = getAllowedResources("cor", "mmap",     $err, $all)   if (getGlobal("corOverlapper") eq "minihap");
+    ($err, $all) = getAllowedResources("cor", "mmap",     $err, $all)   if (getGlobal("corOverlapper") eq "minimap");
     ($err, $all) = getAllowedResources("cor", "ovl",      $err, $all)   if (getGlobal("corOverlapper") eq "ovl");
 
     ($err, $all) = getAllowedResources("obt", "mhap",     $err, $all)   if (getGlobal("obtOverlapper") eq "mhap");
-    ($err, $all) = getAllowedResources("obt", "mmap",     $err, $all)   if (getGlobal("obtOverlapper") eq "minihap");
+    ($err, $all) = getAllowedResources("obt", "mmap",     $err, $all)   if (getGlobal("obtOverlapper") eq "minimap");
     ($err, $all) = getAllowedResources("obt", "ovl",      $err, $all)   if (getGlobal("obtOverlapper") eq "ovl");
 
     ($err, $all) = getAllowedResources("utg", "mhap",     $err, $all)   if (getGlobal("utgOverlapper") eq "mhap");
-    ($err, $all) = getAllowedResources("utg", "mmap",     $err, $all)   if (getGlobal("utgOverlapper") eq "minihap");
+    ($err, $all) = getAllowedResources("utg", "mmap",     $err, $all)   if (getGlobal("utgOverlapper") eq "minimap");
     ($err, $all) = getAllowedResources("utg", "ovl",      $err, $all)   if (getGlobal("utgOverlapper") eq "ovl");
 
     ($err, $all) = getAllowedResources("",    "cor",      $err, $all);

diff --git a/src/pipelines/canu/Defaults.pm b/src/pipelines/canu/Defaults.pm
@@ -775,7 +775,7 @@ sub setDefaults () {
     $global{"useGrid"}                     = 1;
     $synops{"useGrid"}                     = "If 'true', enable grid-based execution; if 'false', run all jobs on the local machine; if 'remote', create jobs for grid execution but do not submit; default 'true'";
 
-    foreach my $c (qw(BAT CNS COR MERYL CORMHAP CORMMAP COROVL OBTMHAP OBTOVL OEA OVB OVS RED UTGMHAP UTGMMAP UTGOVL)) {
+    foreach my $c (qw(BAT CNS COR MERYL CORMHAP CORMMAP COROVL OBTMHAP OBTMMAP OBTOVL OEA OVB OVS RED UTGMHAP UTGMMAP UTGOVL)) {
         $global{"useGrid$c"} = 1;
         $synops{"useGrid$c"} = "If 'true', run module $c under grid control; if 'false' run locally.";
     }