Package: mricron Version: 0.20101102.1~dfsg.1-1 Severity: normal Relaying a user bug report that came via email (not mentioning the origin yet as I'm waiting for approval):
> To reproduce: > 1. go to About-Preferences and enable the drawing menus > 2. Draw - Advanced - Brain extraction ; click 'go' > > It seems the location of 'bet' is hardcoded in the app for three locations > (/usr/bin/bet, /usr/local/fsl/bin/bet, /usr/local/fsl/bin/bet_8UI). > Installing FSL from neuro-repos drops it into /usr/lib/fsl/4.1/bin/bet, > although the location set by /etc/fsl/fsl.sh is /usr/share/fsl/4.1 > (symlinked back to /usr/lib/fsl/4.1) > and unfortunately, none of the three (presumably) hardcoded locations in > mricron is thus correct. > > The ~/.mricron/mricron.ini contains a line for the location of FSLDIR, but > this seems not to be used, or only _after_ 'bet' (the wrapper script) is > found in the hardwired location, it seems the FSLDIR dir is used to hold tabs > on bet2, the actual extraction tool. > So setting this location to > FSLDIR=FSLDIR=/usr/share/fsl/4.1 > does lead to bet2 to be found. > However, bet2 then bails out with libmeshclass.so not found. > > source /etc/fsl/fsl.sh _does_ set LD_LIBRARY_PATH=/usr/lib/fsl/4.1 but that > does not get picked up. > > > To remedy or work around, i > > ## FOR ADMIN > #make the hardcoded bet found: > mkdir /usr/local/fsl > cd /usr/local/fsl > ln -s /usr/share/fsl/4.1/bin > > #have bet2 pick up the library > echo "/usr/lib/fsl/4.1" > /etc/ld.so.conf.d/fsl.conf > ldconfig > > ## FOR USERS > #edit ~/.mricron/mricron.ini to feed proper FSL location to mricron > # change FSLDIR (under [STR]) to > FSLDIR=FSLDIR=/usr/share/fsl/4.1 > > > At this point the extraction seems to work. > > > I am not sure if it is only mricron (remove hardcoded line to read the FSLDIR > location from the mricron.ini file) > or also FSL (not finding libs after sourcing /etc/fsl/fsl.sh) > being in need of a change when used from the debian-repos. -- To UNSUBSCRIBE, email to [email protected] with a subject of "unsubscribe". Trouble? Contact [email protected]
