manipulate a specific setup of a target
setup_target.py | [-h] [-target_dir TARGET_DIR] |
[-target_prefix TARGET_PREFIX] [-quiet] | |
[-flag_lib FLAG_LIB] [-label LABEL] | |
[-method {abrelax,autoNOE,contacts,cyana,fixbb,rasrec,replica_dock,vanilla_dock}] | |
[-remove [REMOVE [REMOVE ...]]] [-patch PATCH] | |
[-target TARGET] [-transfer_method TRANSFER_METHOD] | |
[-transfer_label TRANSFER_LABEL] [-overwrite] | |
[-traceback] |
-h, --help | show this help message and exit |
-target_dir TARGET_DIR | input-files are used from/put into this path, instead of directly into the run-directory |
-target_prefix TARGET_PREFIX | target dirs are found here |
-quiet | suppress output |
-flag_lib FLAG_LIB | directory with meta files for generation of Rosetta cmd-line flag-files |
-label LABEL | give a special label to this setup -- reflected in file-name for method-options |
-method {abrelax,autoNOE,contacts,cyana,fixbb,rasrec,replica_dock,vanilla_dock} | choose algorithm; use together with -h to see additional method-specific options |
-remove [REMOVE [REMOVE ...]] | remove one or more options from the SETUP |
-patch PATCH | provide some python code that patches file-library content |
-target TARGET | target_dir is target_prefix/target |
-transfer_method TRANSFER_METHOD | start with this setup and modify according to flags |
-transfer_label TRANSFER_LABEL | start with this setup and modify according to flags |
-overwrite | force overwriting of files in the target-database |
-traceback | print full traceback in case of error |
setup_target.py -target t000_ -method abrelax -frags frags9.dat frags3.dat -fasta t000_.fasta
prepare a basic abrelax run for target t000_ (use default target-library location $CS3_BENCH_TARGETLIB)
setup_target.py -target t000_ -method rasrec -transfer_method abrelax
copy settings from Setup (t000_, abrelax, standard) to Setup (t000_, rasrec, standard)
setup_target.py -target t000_ -method rasrec -transfer_label standard -label with_rdc -rdc med1.rdc med2.rdc
add rdc data to existing Setup (t000_, rasrec, standard) and call it Setup (t000_, rasrec, with_rdc)