X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=summaryqualcommand.cpp;h=6396f8ff6f5944fc167d49895a44c5248b5f0523;hb=a89c6295ae9a35fcaaab7fa50dcb68360dd543b0;hp=0f6f719ef568446af70438eb08579a81c7c6f3f6;hpb=c85db0a4be3a1f8037a71a23ca73f9762184e28a;p=mothur.git

diff --git a/summaryqualcommand.cpp b/summaryqualcommand.cpp
index 0f6f719..6396f8f 100644
--- a/summaryqualcommand.cpp
+++ b/summaryqualcommand.cpp
@@ -196,7 +196,7 @@ int SummaryQualCommand::execute(){
 		if (namefile != "") { nameMap = m->readNames(namefile); }
 		else if (countfile != "") {
             CountTable ct;
-            ct.readTable(countfile);
+            ct.readTable(countfile, false, false);
             nameMap = ct.getNameMap();
         }
         
@@ -337,7 +337,7 @@ int SummaryQualCommand::createProcessesCreateSummary(vector<int>& position, vect
 		
 		//loop through and create all the processes you want
 		while (process != processors) {
-			int pid = fork();
+			pid_t pid = fork();
 			
 			if (pid > 0) {
 				processIDS.push_back(pid);  //create map from line number to pid so you can append files in correct order later
@@ -347,7 +347,7 @@ int SummaryQualCommand::createProcessesCreateSummary(vector<int>& position, vect
 				
 				//pass numSeqs to parent
 				ofstream out;
-				string tempFile = qualfile + toString(getpid()) + ".num.temp";
+				string tempFile = qualfile + m->mothurGetpid(process) + ".num.temp";
 				m->openOutputFile(tempFile, out);
 				
 				out << numSeqs << endl;