sand_compress_reads1
Compress sequence data
Usage
FCsand_compress_reads [-qcivh]
[infile]
[outfile]
FT
Overview
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 FCmydata.fastaFT into FCmydata.cfaFT:
-
% sand_compress_reads mydata.fasta mydata.cfa
Releases
6 releases since Debian 7 (Wheezy); the text changed 4 times.
-c since Debian 10 (Buster);
-h since Debian 10 (Buster);
-i since Debian 10 (Buster);
-q since Debian 10 (Buster);
-v since Debian 10 (Buster).