added multiple processors option for Windows users to align.seqs, dist.seqs, summary...

[mothur.git] / aligncommand.h

diff --git a/aligncommand.h b/aligncommand.h
index 193eeacae57c5bb62deb844bac610b40437d14a2..4a5eb11bf320a500ddfca34f0504130637fda0f0 100644 (file)
--- a/aligncommand.h
+++ b/aligncommand.h
@@ -91,10 +91,10 @@ typedef struct alignData {
        MothurOut* m;
        //AlignmentDB* templateDB;
        float match, misMatch, gapOpen, gapExtend, threshold;
-       int count, kmerSize;
+       int count, kmerSize, threadID;
        
        alignData(){}
-       alignData(string a, string r, string ac, string f, string al, string se, int ks, MothurOut* mout, unsigned long int st, unsigned long int en, bool fl, float ma, float misMa, float gapO, float gapE, float thr) {
+       alignData(string a, string r, string ac, string f, string al, string se, int ks, MothurOut* mout, unsigned long int st, unsigned long int en, bool fl, float ma, float misMa, float gapO, float gapE, float thr, int tid) {
                alignFName = a;
                reportFName = r;
                accnosFName = ac;
@@ -113,6 +113,7 @@ typedef struct alignData {
                search = se;
                count = 0;
                kmerSize = ks;
+               threadID = tid;
        }
 };
 
@@ -144,7 +145,7 @@ static DWORD WINAPI MyAlignThreadFunction(LPVOID lpParam){
                
                pDataArray->count = pDataArray->end;
                
-               AlignmentDB* templateDB = new AlignmentDB("saved-silent", pDataArray->search, pDataArray->kmerSize, pDataArray->gapOpen, pDataArray->gapExtend, pDataArray->match, pDataArray->misMatch);
+               AlignmentDB* templateDB = new AlignmentDB("saved-silent", pDataArray->search, pDataArray->kmerSize, pDataArray->gapOpen, pDataArray->gapExtend, pDataArray->match, pDataArray->misMatch, pDataArray->threadID);
                
                //moved this into driver to avoid deep copies in windows paralellized version
                Alignment* alignment;