MrParse options

MrParse Molecular Replacement Search Model analysis

usage: mrparse [-h] [-hkl HKLIN] [--do_classify] [--pdb_dir PDB_DIR]
               [--phmmer_dblvl {50,70,90,95,100}] [--run_serial] [-seq SEQIN]
               [--search_engine {phmmer,hhsearch}] [--tmhmm_exe TMHMM_EXE]
               [--deepcoil_exe DEEPCOIL_EXE] [--hhsearch_exe HHSEARCH_EXE]
               [--hhsearch_db HHSEARCH_DB] [--ccp4cloud] [-v]

Named Arguments

-hkl, --hklin

MTZ/CIF Crystal Data file

--do_classify

Run the SS/TM/CC classifiers - requires internet access.

Default: False

--pdb_dir

Directory of PDB files

--phmmer_dblvl

Possible choices: 50, 70, 90, 95, 100

Redundancy level of PDB database used by Phmmer

Default: “95”

--run_serial

Run on a single processor

Default: False

-seq, --seqin

Sequence file

--search_engine

Possible choices: phmmer, hhsearch

Select search engine

Default: “phmmer”

--tmhmm_exe

Location of TMHMM executable for transmembrane classification

--deepcoil_exe

Location of Deepcoil executable for coiled-coil classification

--hhsearch_exe

Location of hhsearch executable

--hhsearch_db

Location of hhsearch database

--ccp4cloud

specify running through CCP4Cloud

Default: False

-v, --version

show program’s version number and exit