Fixes bug with remove.groups phylip file option

#792
mothur · Sep 21, 2021 · 5d74e8e · 5d74e8e
1 parent 5ac44ae
commit 5d74e8e
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Showing 2 changed files with 5 additions and 6 deletions.
diff --git a/source/commands/getgroupscommand.cpp b/source/commands/getgroupscommand.cpp
@@ -807,8 +807,7 @@ void GetGroupsCommand::readPhylip(){
         variables["[extension]"] = util.getExtension(phylipfile);
         string outputFileName = getOutputFileName("phylip", variables);
 
-        ifstream in;
-        util.openInputFile(phylipfile, in);
+        ifstream in; util.openInputFile(phylipfile, in);
 
         float distance;
         int square, nseqs; square = 0;
@@ -873,8 +872,7 @@ void GetGroupsCommand::readPhylip(){
         if (m->getControl_pressed()) {  return; }
 
         //read through file only printing rows and columns of seqs in names
-        ifstream inPhylip;
-        util.openInputFile(phylipfile, inPhylip);
+        ifstream inPhylip; util.openInputFile(phylipfile, inPhylip);
 
         inPhylip >> numTest;
 

diff --git a/source/commands/removegroupscommand.cpp b/source/commands/removegroupscommand.cpp
@@ -790,6 +790,8 @@ void RemoveGroupsCommand::readDesign(){
 
         out.close();
 
+        names.clear(); names = util.mothurConvert(Groups);
+
         int removedCount = allGroups.size() - numGroupsFound;
 
 		if (wroteSomething == false) {  m->mothurOut("Your file contains only groups from the groups you wish to remove.\n");   }
@@ -862,8 +864,7 @@ void RemoveGroupsCommand::readPhylip(){
         variables["[extension]"] = util.getExtension(phylipfile);
         string outputFileName = getOutputFileName("phylip", variables);
 
-        ifstream in;
-        util.openInputFile(phylipfile, in);
+        ifstream in; util.openInputFile(phylipfile, in);
 
         float distance;
         int square, nseqs; square = 0;