NAME

       sand_compress_reads - compress sequence data

SYNOPSIS

       sand_compress_reads [-qcivh] [infile] [outfile]

DESCRIPTION

       sand_compress_reads  reads  sequence data in standard FASTA format, and produces output in the compressed
       FASTA (cfa) format used by the sand_filter_master(1) and sand_align_master(1).

       If the output file is omitted, standard output is used.  if the input file is omitted, standard input  is
       used.   After  completing the compression, this program will output a summary line of sequences and bytes
       compressed.

OPTIONS

        -q    Quiet mode: suppress summary line.

        -c    Remove Celera read ids if data came from the Celera gatekeeper.

        -i    Remove Celera read ids but leave internal ids if the data came from the Celera gatekeeper.

        -h    Display version information.

        -v    Show help text.

EXIT STATUS

       On success, returns zero.  On failure, returns non-zero.

EXAMPLES

       To compress mydata.fasta into mydata.cfa:

               % sand_compress_reads mydata.fasta mydata.cfa

COPYRIGHT

       The Cooperative Computing Tools are Copyright (C) 2005-2019 The University of Notre Dame.  This  software
       is distributed under the GNU General Public License.  See the file COPYING for details.

SEE ALSO

       •   Cooperative Computing Tools Documentation

       •   SAND User Manual

       •   sand_filter_master(1)   sand_filter_kernel(1)   sand_align_master(1)  sand_align_kernel(1)  sand_com‐
           press_reads(1)  sand_uncompress_reads(1)  work_queue_worker(1)

CCTools 8.0.0 DEVELOPMENT                                                                 sand_compress_reads(1)