]> git.donarmstrong.com Git - mothur.git/blobdiff - filterseqscommand.cpp
working on sra and get.mimarkspackage commands. added file parameter to cluster...
[mothur.git] / filterseqscommand.cpp
index 4ac3381d384edf1979f78c911381e040666b8afe..6041c95d59952fbaf1c856055181d4e145c3a9c0 100644 (file)
@@ -653,18 +653,18 @@ int FilterSeqsCommand::createProcessesRunFilter(string F, string filename, strin
                
                //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){
-                               string filteredFasta = filename + toString(getpid()) + ".temp";
+                               string filteredFasta = filename + m->mothurGetpid(process) + ".temp";
                                num = driverRunFilter(F, filteredFasta, filename, lines[process]);
                                
                                //pass numSeqs to parent
                                ofstream out;
-                               string tempFile = filename +  toString(getpid()) + ".num.temp";
+                               string tempFile = filename +  m->mothurGetpid(process) + ".num.temp";
                                m->openOutputFile(tempFile, out);
                                out << num << endl;
                                out.close();
@@ -1079,7 +1079,7 @@ int FilterSeqsCommand::createProcessesCreateFilter(Filters& F, 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
@@ -1095,7 +1095,7 @@ int FilterSeqsCommand::createProcessesCreateFilter(Filters& F, string filename)
                                num = driverCreateFilter(F, filename, lines[process]);
                                
                                //write out filter counts to file
-                               filename += toString(getpid()) + "filterValues.temp";
+                               filename += m->mothurGetpid(process) + "filterValues.temp";
                                ofstream out;
                                m->openOutputFile(filename, out);