import org.forester.msa.Msa;
import org.forester.msa.MsaFormatException;
import org.forester.sequence.BasicSequence;
import org.forester.msa.Msa;
import org.forester.msa.MsaFormatException;
import org.forester.sequence.BasicSequence;
private static final Pattern ANYTHING_REGEX = Pattern.compile( "[\\d\\s]+" );
//>gi|71834668|ref|NP_001025424.1| Bcl2 [Danio rerio]
public static final Pattern FASTA_DESC_LINE = Pattern
private static final Pattern ANYTHING_REGEX = Pattern.compile( "[\\d\\s]+" );
//>gi|71834668|ref|NP_001025424.1| Bcl2 [Danio rerio]
public static final Pattern FASTA_DESC_LINE = Pattern
public static void main( final String[] args ) {
final String a = ">gi|71834668|ref|NP_001025424.1| Bcl2 [Danio rerio]";
public static void main( final String[] args ) {
final String a = ">gi|71834668|ref|NP_001025424.1| Bcl2 [Danio rerio]";
for( int i = 0; i < temp_msa.size(); ++i ) {
seqs.add( BasicSequence.createAaSequence( temp_msa.get( i )[ 0 ].toString(),
temp_msa.get( i )[ 1 ].toString() ) );
for( int i = 0; i < temp_msa.size(); ++i ) {
seqs.add( BasicSequence.createAaSequence( temp_msa.get( i )[ 0 ].toString(),
temp_msa.get( i )[ 1 ].toString() ) );