srf_dump_all - dump data of SRF files
srf_dump_all [-c chunk_types] [-d
destination_types] [-f read_filter] [-n] [-o]
[-t type_of_output] archive_name
-c chunk_types
- Chunk types to output given as a comma delimited list of types. The
following types are allowed: "all", "seq",
"prb", "int", "nse", "sig2". The
default is "all".
-d destination_types
- Distinations to output to. The following types are allowed:
"console", "file", "none". The default is
"console". Console and file can be together, but none is
exclusive.
-f read_filter
- The filter to apply to reads in
the archive.
- If reads match the
- filter they are dumped. The filter takes the form of
<name>=<value>, where <name> can be "read",
"prefix", "file". If the <name> is
"read" the value is represents the name of a read to dump. Only
the matching read will be dumped. If the <name> is
"prefix" the value is represents the prefix of the name of the
reads to dump. Only the matching reads will be dumped. If the <name>
is "file" the value is a file name where any number of
"read" and "prefix" name value pairs can be included,
one per line. The default is no filter, which means all reads are
dumped.
- -n
- Output the total number of reads at the bottom.
- -o
- Output the total number of reads only. Nothing else is output.
-t type_of_output
- Type of output.
- Only one value allowed.
- Currently "text" and "solexa" is supported. The
default is "text".
- -v
- Print verbose messages.