added more descriptive error messages to sharedlist

[mothur.git] / sharedlistvector.cpp

diff --git a/sharedlistvector.cpp b/sharedlistvector.cpp
index ba2ac1f54082a44cc188611994ff4f5c61b65ad3..a113ebe7e82e93f135541b0bfa0ffc7a3b1d33b1 100644 (file)
--- a/sharedlistvector.cpp
+++ b/sharedlistvector.cpp
@@ -200,10 +200,14 @@ SharedOrderVector* SharedListVector::getSharedOrderVector(){
                                name = names.substr(0,names.find_first_of(','));
                                names = names.substr(names.find_first_of(',')+1, names.length());
                                groupName = groupmap->getGroup(name);
+                               
+                               if(groupName == "not found") {  mothurOut("Error: Sequence '" + name + "' was not found in the group file, please correct."); mothurOutEndLine();  exit(1); }
+                               
                                order->push_back(i, binSize, groupName);  //i represents what bin you are in
                        }
                        //get last name
                        groupName = groupmap->getGroup(names);
+                       if(groupName == "not found") {  mothurOut("Error: Sequence '" + names + "' was not found in the group file, please correct."); mothurOutEndLine();  exit(1); }
                        order->push_back(i, binSize, groupName);
                }
 
@@ -229,6 +233,7 @@ SharedRAbundVector SharedListVector::getSharedRAbundVector(string groupName) {
                                name = names.substr(0,names.find_first_of(','));
                                names = names.substr(names.find_first_of(',')+1, names.length());
                                group = groupmap->getGroup(name);
+                               if(group == "not found") {      mothurOut("Error: Sequence '" + name + "' was not found in the group file, please correct."); mothurOutEndLine();  exit(1); }
                                if (group == groupName) { //this name is in the group you want the vector for.
                                        rav.set(i, rav.getAbundance(i) + 1, group);  //i represents what bin you are in
                                }
@@ -236,6 +241,7 @@ SharedRAbundVector SharedListVector::getSharedRAbundVector(string groupName) {
                        
                        //get last name
                        groupName = groupmap->getGroup(names);
+                       if(groupName == "not found") {  mothurOut("Error: Sequence '" + names + "' was not found in the group file, please correct."); mothurOutEndLine();  exit(1); }
                        if (group == groupName) { //this name is in the group you want the vector for.
                                        rav.set(i, rav.getAbundance(i) + 1, group);  //i represents what bin you are in
                        }
@@ -281,11 +287,13 @@ vector<SharedRAbundVector*> SharedListVector::getSharedRAbundVector() {
                                name = names.substr(0,names.find_first_of(','));
                                names = names.substr(names.find_first_of(',')+1, names.length());
                                group = groupmap->getGroup(name);
+                               if(group == "not found") {      mothurOut("Error: Sequence '" + name + "' was not found in the group file, please correct."); mothurOutEndLine();  exit(1); }
                                finder[group]->set(i, finder[group]->getAbundance(i) + 1, group);  //i represents what bin you are in
                        }
                        
                        //get last name
                        group = groupmap->getGroup(names);
+                       if(group == "not found") {      mothurOut("Error: Sequence '" + names + "' was not found in the group file, please correct."); mothurOutEndLine();  exit(1); }
                        finder[group]->set(i, finder[group]->getAbundance(i) + 1, group);  //i represents what bin you are in
                        
                }