.brains2rc (Re: [Brains-users] Error message during measurementof T50 volumes)

[Christoph Christmann]

Looking at the file server I can only find a RH version from July 
2005. Is the version from January a stable one?

Best

Christoph

Index of /BRAINS/files/StableRelease

  Name                    Last modified      Size  Description

  Parent Directory                             -
  BRAINS2_Users_Guide.pdf 10-Jun-2005 08:04  6.2M
  BRAINS2_Users_Guide.ps  10-Jun-2005 08:04  196M
  FedoraCore3/            04-Jun-2005 15:57    -
  MacOSX_10.3/            10-Jun-2005 16:12    -
  MacOSX_10.4/            02-Jun-2005 23:06    -
  RH9/                    27-Jul-2005 11:17    -
  RHEL3.x_32/             27-Jul-2005 11:17    -
  RHEL4.x_32/             03-Jun-2005 12:47    -
  RHEL4.x_64/             27-Jul-2005 11:15    -
  SGI/                    08-Aug-2005 10:52    -

Index of /BRAINS/files/StableRelease/RH9

  Name                                     Last modified      Size  Description

  Parent Directory                                              -
  brains2-RedHat9-20050603-042442.i386.rpm 03-Jun-2005 04:27   49M
  brains2-RedHat9-20050727-045902.i386.rpm 27-Jul-2005 11:17   48M
  brains2_RedHat9_20050603.042442.tar.gz   03-Jun-2005 04:27   50M
  brains2_RedHat9_20050727.045902.tar.gz   27-Jul-2005 11:17   48M

At Wednesday 22.02.2006 16:23, Eugene Zeien wrote:
>Ah.  You are using an older version of BRAINS.
>The syntax of the .brains2rc file changed in... January 2006?
>
>I do not see any evidence that the last 2 variables existed.
>B2_SCV_FILE, B2_SSM_FILE
>I think the best you can hope for is to set the directory where
>those data files are written with B2_GLOBAL_DATA_DIR
>
>Christoph Christmann wrote:
>>Hi all,
>>regarding the config files I noticed that the general config file 
>>(in /opt/brains2/bin) has a different syntax. Instead of
>>
>>>   B2_EVAL_TCL "B2_GLOBAL_DATA_DIR" "set B2_GLOBAL_DATA_DIR 
>>> /raid0/data/new_data/brains2 ; "
>>
>>it seems to be necessary to use
>>B2_GLOBAL_DATA_DIR /home/morpho/brains2_data
>>Otherwise brains2 reports an error (unknown command...)
>>However, setting the parameters as follows
>># set directory where scripts are saved
>>B2_WORK_DIR ${HOME}/morpho/scripts
>># set global data directory
>>B2_GLOBAL_DATA_DIR /home/morpho/brains2_data
>># redirect brains2 meausres
>>B2_SCV_FILE ${HOME}/data/Class_Volumes
>>B2_SSM_FILE ${HOME}/data/Surface_Measures
>>results in
>>1. The first two commands are executed
>>2. The last two commands result in error reports
>>3. An additional error occures, e.g. the directory where the NET 
>>information is stored (usually /opt/brains2/bin/net) could not be set.
>>Therefore we abstained to use this configuration file so far. 
>>Nevertheless, we would be happy to use a correct version in order 
>>to prevent the known error messages during the segmentation process.
>>Thanks in advance for any hint
>>Christoph

-- 
Christoph Christmann                  christma at as200.zi-mannheim.de
Psychologist, MEE                     Fon/Fax +49 621 1703 63 18/05
Central Institute of Mental Health    http://www.zi-mannheim.de
Department of Clinical                  D-68159 Mannheim J5
and Cognitive Psychology                       

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