URL:
<http://gna.org/bugs/?18554>
Summary: dauvergne protocol sample script
Project: relax
Submitted by: None
Submitted on: Wed 24 Aug 2011 12:36:22 PM UTC
Category: relax sample scripts
Severity: 3 - Normal
Priority: 5 - Normal
Status: None
Privacy: Public
Assigned to: None
Originator Name: Madeleine Strickland
Originator Email: m.strickland@xxxxxxxxxxxxx
Open/Closed: Open
Discussion Lock: Any
Release: 1.3.11
Operating System: GNU/Linux
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Details:
Since ri_label has been replaced with ri_id and ri_type in 1.3.11, the
program needs to be updated to change what is expected of the 13 elements
described by 'RELAX_DATA' as has been done for 'relax_data.read'. Also, the
script dauvergen_protocol.py needs to be updated to reflect this. I think
this is the only script which uses 'RELAX_DATA'?
See error below.
------------------------------
None 2033 HIS None N
None 2034 HIS None N
None 2035 HIS None N
None 2036 HIS None N
None 2037 HIS None N
None 2038 HIS None N
Traceback (most recent call last):
File "/usr/local/bin/relax", line 7, in <module>
relax.start()
File "/usr/local/relax/relax.py", line 80, in start
Relax(mode)
File "/usr/local/relax/relax.py", line 149, in __init__
self.interpreter.run(self.script_file)
File "/usr/local/relax/prompt/interpreter.py", line 297, in run
return run_script(intro=self.__intro_string, local=locals(),
script_file=script_file, quit=self.__quit_flag,
show_script=self.__show_script,
raise_relax_error=self.__raise_relax_error)
File "/usr/local/relax/prompt/interpreter.py", line 606, in run_script
return console.interact(intro, local, script_file, quit,
show_script=show_script, raise_relax_error=raise_relax_error)
File "/usr/local/relax/prompt/interpreter.py", line 492, in
interact_script
exec_script(script_file, local)
File "/usr/local/relax/prompt/interpreter.py", line 380, in exec_script
runpy.run_module(module, globals)
File "/usr/local/lib/python2.6/runpy.py", line 140, in run_module
fname, loader, pkg_name)
File "/usr/local/lib/python2.6/runpy.py", line 34, in _run_code
exec code in run_globals
File
"/home/ms4225/nmr_data/IGF2R/dynamics/relax/chicken/FINALC_110823_relax11/full_analysis_localtm.py",
line 199, in <module>
dAuvergne_protocol(diff_model=DIFF_MODEL, mf_models=MF_MODELS,
local_tm_models=LOCAL_TM_MODELS, pdb_file=PDB_FILE, seq_args=SEQ_ARGS,
het_name=HET_NAME, attached_name=ATTACHED_NAME, relax_data=RELAX_DATA,
unres=UNRES, exclude=EXCLUDE, bond_length=BOND_LENGTH, csa=CSA,
hetnuc=HETNUC, proton=PROTON, grid_inc=GRID_INC, min_algor=MIN_ALGOR,
mc_num=MC_NUM, conv_loop=CONV_LOOP)
File "/usr/local/relax/auto_analyses/dauvergne_protocol.py", line 228,
in __init__
self.execute()
File "/usr/local/relax/auto_analyses/dauvergne_protocol.py", line 556,
in execute
self.multi_model(local_tm=True)
File "/usr/local/relax/auto_analyses/dauvergne_protocol.py", line 821,
in multi_model
self.interpreter.relax_data.read(ri_label=data[0], frq_label=data[1],
frq=data[2], file=data[3], dir=data[4], mol_name_col=data[5],
res_num_col=data[6], res_name_col=data[7], spin_num_col=data[8],
spin_name_col=data[9], data_col=data[10], error_col=data[11],
sep=data[12])
TypeError: read() got an unexpected keyword argument 'ri_label'
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[bug #18554] dauvergne protocol sample script