added mothurgetpid function. fixed bug with align.seqs related to g++ 4.8 change...

[mothur.git] / screenseqscommand.cpp

diff --git a/screenseqscommand.cpp b/screenseqscommand.cpp
index bf702e13534f507576bee7c24bcf6462aacb7ca3..4671b7926df8866ea2d3beee6e6706b448047b6d 100644 (file)
--- a/screenseqscommand.cpp
+++ b/screenseqscommand.cpp
@@ -1443,7 +1443,7 @@ int ScreenSeqsCommand::createProcessesContigsSummary(vector<int>& oLength, vecto
                                
                                //pass numSeqs to parent
                                ofstream out;
-                               string tempFile = contigsreport + toString(getpid()) + ".num.temp";
+                               string tempFile = contigsreport + m->mothurGetpid(process) + ".num.temp";
                                m->openOutputFile(tempFile, out);
                                
                                out << num << endl;
@@ -1713,7 +1713,7 @@ int ScreenSeqsCommand::createProcessesAlignSummary(vector<float>& sims, vector<f
                                
                                //pass numSeqs to parent
                                ofstream out;
-                               string tempFile = alignreport + toString(getpid()) + ".num.temp";
+                               string tempFile = alignreport + m->mothurGetpid(process) + ".num.temp";
                                m->openOutputFile(tempFile, out);
                                
                                out << num << endl;
@@ -1996,7 +1996,7 @@ int ScreenSeqsCommand::createProcessesCreateSummary(vector<int>& startPosition,
                                
                                //pass numSeqs to parent
                                ofstream out;
-                               string tempFile = fastafile + toString(getpid()) + ".num.temp";
+                               string tempFile = fastafile + m->mothurGetpid(process) + ".num.temp";
                                m->openOutputFile(tempFile, out);
                                
                                out << num << endl;
@@ -2532,11 +2532,11 @@ int ScreenSeqsCommand::createProcesses(string goodFileName, string badAccnos, st
                                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], goodFileName + toString(getpid()) + ".temp", badAccnos + toString(getpid()) + ".temp", filename, badSeqNames);
+                               num = driver(lines[process], goodFileName + m->mothurGetpid(process) + ".temp", badAccnos + m->mothurGetpid(process) + ".temp", filename, badSeqNames);
                                
                                //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();