SYNOPSIS

reapr facheck <in.fa> [out_prefix]

DESCRIPTION

Checks that the names in the fasta file are ok. Things like trailing whitespace or characters (|':-) could break the pipeline.

If out_prefix is not given, it will die when a bad ID is found. No output means everything is OK.

If out_prefix is given, writes a new fasta file out_prefix.fa with new names, and out_prefix.info which has the mapping from old name to new name.