paralellized summary.seqs and added mpi code to it.

[mothur.git] / screenseqscommand.cpp

diff --git a/screenseqscommand.cpp b/screenseqscommand.cpp
index ab750321b8468670d626f5d5b724aba61a98c071..f67dba7223eded3e55cc104841657ee229bc0db8 100644 (file)
--- a/screenseqscommand.cpp
+++ b/screenseqscommand.cpp
@@ -134,7 +134,7 @@ ScreenSeqsCommand::ScreenSeqsCommand(string option)  {
 void ScreenSeqsCommand::help(){
        try {
                m->mothurOut("The screen.seqs command reads a fastafile and creates .....\n");
-               m->mothurOut("The screen.seqs command parameters are fasta, start, end, maxambig, maxhomop, minlength, maxlength, name, and group.\n");
+               m->mothurOut("The screen.seqs command parameters are fasta, start, end, maxambig, maxhomop, minlength, maxlength, name, group and processors.\n");
                m->mothurOut("The fasta parameter is required.\n");
                m->mothurOut("The start parameter .... The default is -1.\n");
                m->mothurOut("The end parameter .... The default is -1.\n");
@@ -142,6 +142,7 @@ void ScreenSeqsCommand::help(){
                m->mothurOut("The maxhomop parameter .... The default is -1.\n");
                m->mothurOut("The minlength parameter .... The default is -1.\n");
                m->mothurOut("The maxlength parameter .... The default is -1.\n");
+               m->mothurOut("The processors parameter allows you to specify the number of processors to use while running the command. The default is 1.\n");
                m->mothurOut("The name parameter allows you to provide a namesfile, and the group parameter allows you to provide a groupfile.\n");
                m->mothurOut("The screen.seqs command should be in the following format: \n");
                m->mothurOut("screen.seqs(fasta=yourFastaFile, name=youNameFile, group=yourGroupFIle, start=yourStart, end=yourEnd, maxambig=yourMaxambig,  \n");