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SRF_DUMP_ALL(1) User Commands SRF_DUMP_ALL(1)

NAME

srf_dump_all - dump data of SRF files

SYNOPSIS

srf_dump_all [-c chunk_types] [-d destination_types] [-f read_filter] [-n] [-o] [-t type_of_output] archive_name

OPTIONS

-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

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.
Output the total number of reads at the bottom.
Output the total number of reads only. Nothing else is output.

-t type_of_output

Only one value allowed.
Currently "text" and "solexa" is supported. The default is "text".
Print verbose messages.
August 2013 srf_dump_all 1.13.2