JWS-112 Bumping version of ClustalW (src, binaries and windows) to version 2.1.

[jabaws.git] / binaries / src / clustalw / src / fileInput / FileReader.cpp

diff --git a/binaries/src/clustalw/src/fileInput/FileReader.cpp b/binaries/src/clustalw/src/fileInput/FileReader.cpp
index 957f1aa..57b628d 100644 (file)
--- a/binaries/src/clustalw/src/fileInput/FileReader.cpp
+++ b/binaries/src/clustalw/src/fileInput/FileReader.cpp
@@ -193,7 +193,6 @@ bool FileReader::noEmptySequence(vector<Sequence> seqVector, string *offendingSe
     }
         
     userParameters->setSeqName(line);
-
    
     // NOTE I made a change here because the profile2Name was not stored!
     if(userParameters->getProfileNum() == 2 && userParameters->getProfile2Name().empty())
@@ -223,7 +222,7 @@ bool FileReader::noEmptySequence(vector<Sequence> seqVector, string *offendingSe
     if (noEmptySequence(seqRangeVector, offendingSeq) == false) {
         return EMPTYSEQUENCE; // Error there are same names.
     }
-            
+     
     for (int i=0; i < (int)seqRangeVector.size(); i++) {
         // Andreas Wilm (UCD): fixed wrong default output order
         // which is important when no alignment (convert!) is done
@@ -362,6 +361,7 @@ int FileReader::profileInput(Alignment *alignPtr)
     }
     else
     {                    
+
         // first seq to be read = profile1_nseqs + 1 
         int profile1NumOfSeqs = alignPtr->getNumSeqs();
         code = readSeqs(alignPtr, profile1NumOfSeqs + 1, &offendingSeq);