Hi Janani,

I seem to recall that newer distributions (and judging from your kernel it is a rather new distribution) come with libtiff.so.4 instead of libtiff.so.3. My solution to this problem so far just was to symlink libtiff.so.4 to libtiff.so.3. (Just go in the directory where the library lives (might be /usr/lib or /usr/lib64) and issued the following command: "ln -s ./libtiff.so.4 ./libbtiff.so.3", you might have to get root permissions first (or ask the system administrator for help)). While there might be differences between the two versions I did not run into problems with freesurfer yet...

best Sebastian

On Mar 22, 2010, at 9:00 AM, freesurfer-request@nmr.mgh.harvard.edu wrote:

Message: 2 Date: Mon, 22 Mar 2010 09:18:11 -0400 (EDT) From: Bruce Fischl fischl@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] Recon runs longer than the previous time and exits this time with errors To: Janani Dhinakaran janinthesky@gmail.com Cc: freesurfer@nmr.mgh.harvard.edu Message-ID: Pine.LNX.4.62.1003220917180.30973@gate.nmr.mgh.harvard.edu Content-Type: TEXT/PLAIN; charset=US-ASCII; format=flowed

Hi Janani,

do you not have libtiff installed on your system? Maybe your LD_LIBRARY_PATH is incorrect? You should talk to a local sysadmin about it.

cheers Bruce

On Mon, 22 Mar 2010, Janani Dhinakaran wrote:

...

I was unable to extract parts of the cortex with the commands you had told me to try last time. I realised then that it was because recon hadn't finished running and I was using partially processed data. So I tried running it again. Here below is what I got. Since I'm using a partitioned machine space may be a problem but it doesn't seem to say so. Thanks in advance for the advice.

#-------------------------------------------- #@# Cortical ribbon mask Sat Mar 20 07:17:29 GMT 2010 /home/s0964091/Desktop/jan/mri

mris_volmask --label_left_white 2 --label_left_ribbon 3 --label_right_white 41 --label_right_ribbon 42 --save_ribbon --save_distance jan

mris_volmask.bin: error while loading shared libraries: libtiff.so.3: cannot open shared object file: No such file or directory Linux CRIC-0012 2.6.31-20-generic #57-Ubuntu SMP Mon Feb 8 09:02:26 UTC 2010 x86_64 GNU/Linux

recon-all exited with ERRORS at Sat Mar 20 07:17:29 GMT 2010