added uchime_src folder. added biom parameter to make.shared. added biom as a current...

[mothur.git] / optionparser.cpp

diff --git a/optionparser.cpp b/optionparser.cpp
index 06a900d8137a031236d52261882c744bb169b440..0d6ed2d4d0bfa681a7aa30693bcb7ae30a9c77fb 100644 (file)
--- a/optionparser.cpp
+++ b/optionparser.cpp
@@ -91,6 +91,8 @@ map<string, string> OptionParser::getParameters() {
                                        it->second = m->getAccnosFile();
                                }else if (it->first == "taxonomy") {
                                        it->second = m->getTaxonomyFile();
+                }else if (it->first == "biom") {
+                        it->second = m->getBiomFile();
                                }else {
                                        m->mothurOut("[ERROR]: mothur does not save a current file for " + it->first); m->mothurOutEndLine();
                                }