Ca2ace

Overview

Ca2ace can be used to convert assembler output in the Celera Assembler message format to the .ACE format (readable by consed).

Synopsis

ca2ace [options]-i <infile>.asm [-o <outfile>]

Ca2ace reads a Celera Assembler message file (<infile>.asm) specified on the command line and produces a .ACE file. It automatically detects the presence of the <infile>.frg file containing the input provided to the assembler. The output file name is generated from the first file on the command line unless specifically set through option -o (see below).

Options

• -o <outfile> - place output in <outfile>
• -c <chromat_dir> - the chromatograms can be found in directory <chromat_dir>
• -p <phd_dir> - the PHD files can be found in directory <phd_dir>

Note: the chromat_dir and phd_dir parameters are only used to provide consed with the necessary information used to display chromatograms. These options are only relevant if the assembler inputs were generated using the phred pipeline.