[patch] motif.cc.diff

motif.cc.diff (text/plain), 1.60 KB, created by Stephen Diener (RETIRED) on 2003-05-19 21:34:42 UTC

--- motif.cc.orig	2003-05-19 20:07:15.000000000 -0400
+++ motif.cc	2003-05-19 19:41:44.000000000 -0400
@@ -49,7 +49,8 @@
 // Background::Background
 // Background constructor for a given fasta file and sequence type (aac or nt)
 //
-Background::Background(GFastaFile *F,FILE *outfile,const seqType t,double e=0.0000001)
+//Background::Background(GFastaFile *F,FILE *outfile,const seqType t,double e=0.0000001)
+Background::Background(GFastaFile *F,FILE *outfile,const seqType t,double e)
 {
   outf=outfile;
   eps=e;
@@ -386,7 +387,8 @@
 // apply_test_wilcoxon_pair
 // applies the wilcoxon pair test on a vector of differences
 //
-void apply_test_wilcoxon_pair(FILE *outf,int diffno, FreqPos *diff,int print=1) 
+//void apply_test_wilcoxon_pair(FILE *outf,int diffno, FreqPos *diff,int print=1) 
+void apply_test_wilcoxon_pair(FILE *outf,int diffno, FreqPos *diff,int print) 
 {
   double *rank;
 
@@ -1543,7 +1545,8 @@
 // Motif::printMotif
 // prints the motif
 //
-void Motif::printMotif(int printmax,int SignifNo,int print=1)
+//void Motif::printMotif(int printmax,int SignifNo,int print=1)
+void Motif::printMotif(int printmax,int SignifNo,int print)
 {
   fprintf(B->outf,"Motif found:\n\n");
 
@@ -2130,7 +2133,8 @@
 // statistical significance after the test sequences have been created; 
 // can be deterministic (when det=1) or not
 //
-void Motif::testsignif(int det,char **fkseq, int *posfreqlen,int print=1)
+//void Motif::testsignif(int det,char **fkseq, int *posfreqlen,int print=1)
+void Motif::testsignif(int det,char **fkseq, int *posfreqlen,int print)
 {
   FreqPos diff[B->noseq];
   unsigned long int diffno=0;