usage: cath-sc-merge-alignment [-h] --cv CATH_VERSION --in SC_FILE --out
OUT_STO [--ff_dir FF_DIR] [--ff_tmpl FF_TMPL]
[--verbose]
Merge FunFams using a structure-based alignment
optional arguments:
-h, --help show this help message and exit
--cv CATH_VERSION cath version
--in SC_FILE input reference structure-based alignment (FASTA)
--out OUT_STO output merged alignment file (STOCKHOLM)
--ff_dir FF_DIR directory in which funfam alignments can be found
(default: <sc_dir>)
--ff_tmpl FF_TMPL template used to help locate funfam file (default:
__SFAM__-ff-__FF_NUM__.reduced.sto)
--verbose, -v more verbose logging