}
else {
throw new MsaFormatException( "illegal msa format (line: " + line_counter + "):\n\"" + trim( line )
- + "\"" );
+ + "\"" );
}
if ( is_first ) {
is_first = false;
final List<MolecularSequence> seqs = new ArrayList<MolecularSequence>();
for( int i = 0; i < names_in_order.size(); ++i ) {
seqs.add( BasicSequence.createAaSequence( names_in_order.get( i ), temp_msa.get( names_in_order.get( i ) )
- .toString() ) );
+ .toString() ) );
}
final Msa msa = BasicMsa.createInstance( seqs );
return msa;