Re: question regarding output format -- February 21, 2009

Hi,

What you have encountered here is a bug.  It is a relic of a complete
redesign of relax which happened between the 1.2 and 1.3 versions,
where some small bits of code have not yet been converted to the new
design.  I fixed this bug a few days ago for you though.  These
changes are located in the relax source code repository.  You can
either wait for me to release a new version (which probably will not
occur for while) or to fetch the code directly from the relax
repository.  For the last option, you just have to type:

$ svn co svn://svn.gna.org/svn/relax/1.3 relax-1.3

or if this doesn't work:

$ svn co http://svn.gna.org/svn/relax/1.3 relax-1.3

You will need the Subversion program installed to do this.  The copy
of relax in the resultant 'relax-1.3' directory will have the fixes
you need.  I hope this helps.

Regards,

Edward




On Sat, Feb 21, 2009 at 4:33 PM, Raj Jose <isodna05@xxxxxxxxx> wrote:

Dr Edwards,

I tried to run the below commands you sent to me on one of the files
~/relax-1.3.3/test_suite/shared_data/model_free/results_1.2.bz2


relax> pipe.create('prdata','mf')
relax> results.read('results_1.2')
Opening the file 'results_1.2.bz2' for reading.
relax 1.2 model-free results file.

Generating the sequence.

Setting the diffusion tensor.
Diffusion type: sphere
relax> value.display('S2')
RelaxError: The parameter argument None must be a string.

if i say

relax> value.display('prdata','S2')
Traceback (most recent call last):
  File "<console>", line 1, in <module>
  File "/home/prem/programs/relax-1.3.3/prompt/value.py", line 152, in
display
    self.__relax__.generic.value.display(run=run, param=param)
TypeError: display() got an unexpected keyword argument 'run'

I get the above error.
i am still trying to get a grip on RELAX. sorry to trouble you with these
trivial issues.

thanks

prem



Prem Raj B Joseph
Post Dcotoral Fellow
Dept. of Biochemistry and Molecular Biology
Sealy Center for Structural Biology and Molecular Biophysics
5.142 Medical Branch Building
University of Texas Medical Branch
Galveston, TX 77555-1055
Cell: 409-354-8536

________________________________
From: Edward d'Auvergne <edward@xxxxxxxxxxxxx>
To: Raj Jose <isodna05@xxxxxxxxx>
Cc: relax-users@xxxxxxx
Sent: Thursday, February 19, 2009 3:45:32 AM
Subject: Re: question regarding output format

Hi,

This depends on which format you would like to use.  There is one
script, sample_scripts/latex_mf_table.py, that will generate a LaTeX
table from your model-free data.  If this is not what you need, then
the output text file could possibly also be imported into Excel as a
field delimited file with the delimiter set to '&'.  If you need
something a bit different, this script could be modified to produce
the table in a slightly different format.  Or you could output the
results by typing the following into the relax:

pipe.create('my data', 'mf')
results.read('your_results_file')
value.display('S2')
value.display('S2f')
value.display('S2s')
value.display('te')
value.display('tf')
value.display('ts')
value.display('Rex')

etc.  I hope this helps.  Otherwise there is alway the option of
cutting and pasting from the results file directly.

Regards,

Edward




On Thu, Feb 19, 2009 at 2:06 AM, Raj Jose <isodna05@xxxxxxxxx> wrote:

Hello,

Thanks Dr. Edward for the reply and the suggestions.
I was wondering if there are any general python scripts available to get
the  final outputs in a presentable
format of all the modelfree parameter , for all the residues after the
final run.

thanks
prem

Prem Raj B Joseph
Post Dcotoral Fellow
Dept. of Biochemistry and Molecular Biology
Sealy Center for Structural Biology and Molecular Biophysics
5.142 Medical Branch Building
University of Texas Medical Branch
Galveston, TX 77555-1055
Cell: 409-354-8536





_______________________________________________
relax (http://nmr-relax.com)

This is the relax-users mailing list
relax-users@xxxxxxx

To unsubscribe from this list, get a password
reminder, or change your subscription options,
visit the list information page at
https://mail.gna.org/listinfo/relax-users




_______________________________________________
relax (http://nmr-relax.com)

This is the relax-users mailing list
relax-users@xxxxxxx

To unsubscribe from this list, get a password
reminder, or change your subscription options,
visit the list information page at
https://mail.gna.org/listinfo/relax-users

Re: question regarding output format

Header

Content

Related Messages