added checks to make sure windows processes completed their tasks.

[mothur.git] / chopseqscommand.h

diff --git a/chopseqscommand.h b/chopseqscommand.h
index cd2b2fe9640eb7e359cdc068d98552611f5b2d13..c9a4962c96fe9e548b50db1e4c0d6f63d1cdfff4 100644 (file)
--- a/chopseqscommand.h
+++ b/chopseqscommand.h
@@ -60,7 +60,7 @@ struct chopData {
        string outFasta, outAccnos, keep; 
        unsigned long long start;
        unsigned long long end;
-       int numbases;
+       int numbases, count;
     bool countGaps, Short, wroteAccnos;
        MothurOut* m;
        string namefile;
@@ -108,7 +108,7 @@ static DWORD WINAPI MyChopThreadFunction(LPVOID lpParam){
 
                bool done = false;
         bool wroteAccnos = false;
-               int count = 0;
+               pDataArray->count = 0;
 
                for(int i = 0; i < pDataArray->end; i++){ //end is the number of sequences to process
                                                
@@ -238,14 +238,14 @@ static DWORD WINAPI MyChopThreadFunction(LPVOID lpParam){
                                        outAcc << seq.getName() << endl;
                                        pDataArray->wroteAccnos = true;
                                }
-                count++;
+                pDataArray->count++;
                        }
             //report progress
-                       if((count) % 1000 == 0){        pDataArray->m->mothurOut(toString(count)); pDataArray->m->mothurOutEndLine();           }
+                       if((pDataArray->count) % 1000 == 0){    pDataArray->m->mothurOut(toString(pDataArray->count)); pDataArray->m->mothurOutEndLine();               }
                        
                }
                //report progress
-               if((count) % 1000 != 0){        pDataArray->m->mothurOut(toString(count)); pDataArray->m->mothurOutEndLine();           }
+               if((pDataArray->count) % 1000 != 0){    pDataArray->m->mothurOut(toString(pDataArray->count)); pDataArray->m->mothurOutEndLine();               }
         
                
                in.close();