// Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA
//
// Contact: phylosoft @ gmail . com
-// WWW: www.phylosoft.org/forester
+// WWW: https://sites.google.com/site/cmzmasek/home/software/forester
package org.forester.application;
if ( !ForesterUtil.isEmpty( error ) ) {
ForesterUtil.fatalError( pccx.PRG_NAME, error );
}
- intable = BasicTableParser.parse( infile, " ", false, false );
+ intable = BasicTableParser.parse( infile, ' ', false, false );
}
catch ( final IOException e ) {
ForesterUtil.fatalError( pccx.PRG_NAME, "failed to read \"" + infile + "\" [" + e.getMessage() + "]" );
}
catch ( final IOException e ) {
ForesterUtil.fatalError( pccx.PRG_NAME, "Failed to write to \"" + annotated_phylogenies_outfile
- + "\" [" + e.getMessage() + "]" );
+ + "\" [" + e.getMessage() + "]" );
}
}
}
System.out.println( "Usage:" );
System.out.println();
System.out.println( pccx.PRG_NAME
- + " [options] <phylogen(y|ies) infile> [external node name 1] [name 2] ... [name n]" );
+ + " [options] <phylogen(y|ies) infile> [external node name 1] [name 2] ... [name n]" );
System.out.println();
System.out.println( " Options: " );
System.out.println();
System.out.println( " -o=<file> : write output to <file>" );
System.out.println( " -i=<file> : read (new-line separated) external node names from <file>" );
System.out.println( " -" + pccx.OUTPUT_ANNOTATED_PHYLOGENIES_OPTION
- + "=<file> : write output as annotated phylogeny to <file> (only first" );
+ + "=<file> : write output as annotated phylogeny to <file> (only first" );
System.out.println( " phylogeny in phylogenies infile is used)" );
System.out.println();
}