[Bio] / FigKernelScripts / FFB2_build_updated_FF.pl Repository:
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revision 1.10, Mon Jul 12 20:04:03 2010 UTC revision 1.11, Mon Jul 12 21:06:53 2010 UTC
# Line 19  Line 19 
19    
20  my $in_ssfam = shift;  my $in_ssfam = shift;
21    
22    $ENV{TMPDIR} = $FIG_Config::temp;
23    
24  my $sort_args = "-T $FIG_Config::temp -S 4G";  my $sort_args = "-T $FIG_Config::temp -S 4G";
25    
26  mkdir($newD,0777) || die "You have an existing $newD; remove it and try again";  mkdir($newD,0777) || die "You have an existing $newD; remove it and try again";
# Line 154  Line 156 
156  {  {
157      &FIG::run("FFB2_update_FIGfams -f $ssfam $newD/families.2c $newD/family.functions $oldD");      &FIG::run("FFB2_update_FIGfams -f $ssfam $newD/families.2c $newD/family.functions $oldD");
158      &FIG::run("FFB2_get_oligos $newD/families.2c $newD/family.functions 2> $newD/function.index |" .      &FIG::run("FFB2_get_oligos $newD/families.2c $newD/family.functions 2> $newD/function.index |" .
159                "sort $sort_args | FFB2_usable_motifs $newD/Kmers");                "FFB2_usable_motifs $newD/Kmers");
160  }  }
161    
162    

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