working on sra and get.mimarkspackage commands. added file parameter to cluster...

[mothur.git] / chimeracheckcommand.cpp

diff --git a/chimeracheckcommand.cpp b/chimeracheckcommand.cpp
index 64ed9faa73e7cb72e5e307cc10e86f1a9bcfc195..ab079fd073ccd0463b55e909cab4d4d46e7f1bc3 100644 (file)
--- a/chimeracheckcommand.cpp
+++ b/chimeracheckcommand.cpp
@@ -622,17 +622,17 @@ int ChimeraCheckCommand::createProcesses(string outputFileName, string filename)
                
                //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
                                process++;
                        }else if (pid == 0){
-                               num = driver(lines[process], outputFileName + toString(getpid()) + ".temp", filename);
+                               num = driver(lines[process], outputFileName + toString(m->mothurGetpid(process)) + ".temp", filename);
                                
                                //pass numSeqs to parent
                                ofstream out;
-                               string tempFile = outputFileName + toString(getpid()) + ".num.temp";
+                               string tempFile = outputFileName + toString(m->mothurGetpid(process)) + ".num.temp";
                                m->openOutputFile(tempFile, out);
                                out << num << endl;
                                out.close();