freesurfer --version produces the following output (last 2 lines):
You are running this version of FreeSurfer:
freesurfer-Linux-centos4_x86_64-stable-pub-v4.2.0
Actually, I thought I had a pretty recent version... Kind regards Florian
Nick Schmansky wrote:
what version of freesurfer is being used?
type freesurfer --version and send us the last line. we may have fixed this in an earlier version.
On Mon, 2009-03-02 at 16:43 +0100, Florian Gerstl wrote:
Thanks for your quick reply! However, when I cast the mris_anatomical_stats command with the "-log" flag the program seems to crash. That's not really a concern for me as I can still use the -f flag to obtain a results-file (no problems there) and I'm not sure whether this is a problem only with our computers but since it is reproducible I thought I'd bring it to your attention..
below I have pasted the command I used with the resulting errors
cheers, Florian
mris_anatomical_stats -log out.log -a aparc -f pet.lh.curv s05 lh
outputting results to out.log... computing statistics for each annotation in aparc. reading volume /fsubjects/o05/mri/wm.mgz... reading input surface /fsubjects/o05/surf/lh.white... reading input pial surface /fsubjects/o05/surf/lh.pial... reading input white surface /fsubjects/o05/surf/lh.white... reading colortable from annotation file... colortable with 35 entries read (originally /space/amaebi/26/users/buckner_cortical_atlas/scripts/colortable_final.txt) *** glibc detected *** mris_anatomical_stats: double free or corruption (!prev): 0x00000000046135d0 *** ======= Backtrace: ========= /lib/libc.so.6[0x7f3fb9ffe08a] /lib/libc.so.6(cfree+0x8c)[0x7f3fba001c1c] /lib/libc.so.6(fclose+0x14c)[0x7f3fb9fecdac] mris_anatomical_stats(vfprintf+0x23f7)[0x4079f7] /lib/libc.so.6(__libc_start_main+0xf4)[0x7f3fb9fa81c4] mris_anatomical_stats(__gxx_personality_v0+0xfa)[0x40626a] ======= Memory map: ======== 00400000-00785000 r-xp 00000000 00:1b 1949331435 /progs/freesurfer/bin/mris_anatomical_stats 00884000-008de000 rw-p 00384000 00:1b 1949331435 /progs/freesurfer/bin/mris_anatomical_stats 008de000-07ac0000 rw-p 008de000 00:00 0 [heap] 7f3fb0000000-7f3fb0021000 rw-p 7f3fb0000000 00:00 0 7f3fb0021000-7f3fb4000000 ---p 7f3fb0021000 00:00 0 7f3fb577e000-7f3fb5794000 r-xp 00000000 09:02 4026756148 /lib/libnsl-2.7.so 7f3fb5794000-7f3fb5993000 ---p 00016000 09:02 4026756148 /lib/libnsl-2.7.so 7f3fb5993000-7f3fb5995000 rw-p 00015000 09:02 4026756148 /lib/libnsl-2.7.so 7f3fb5995000-7f3fb5997000 rw-p 7f3fb5995000 00:00 0 7f3fb5997000-7f3fb59a1000 r-xp 00000000 09:02 4026756153 /lib/libnss_nis-2.7.so 7f3fb59a1000-7f3fb5ba0000 ---p 0000a000 09:02 4026756153 /lib/libnss_nis-2.7.so 7f3fb5ba0000-7f3fb5ba2000 rw-p 00009000 09:02 4026756153 /lib/libnss_nis-2.7.so 7f3fb5ba2000-7f3fb5bac000 r-xp 00000000 09:02 4026756151 /lib/libnss_files-2.7.so 7f3fb5bac000-7f3fb5dac000 ---p 0000a000 09:02 4026756151 /lib/libnss_files-2.7.so 7f3fb5dac000-7f3fb5dae000 rw-p 0000a000 09:02 4026756151 /lib/libnss_files-2.7.so 7f3fb5dae000-7f3fb9f8a000 rw-p 7f3fb5dae000 00:00 0 7f3fb9f8a000-7f3fba0e2000 r-xp 00000000 09:02 4026756142 /lib/libc-2.7.so 7f3fba0e2000-7f3fba2e2000 ---p 00158000 09:02 4026756142 /lib/libc-2.7.so 7f3fba2e2000-7f3fba2e5000 r--p 00158000 09:02 4026756142 /lib/libc-2.7.so 7f3fba2e5000-7f3fba2e7000 rw-p 0015b000 09:02 4026756142 /lib/libc-2.7.so 7f3fba2e7000-7f3fba2ec000 rw-p 7f3fba2e7000 00:00 0 7f3fba2ec000-7f3fba2f9000 r-xp 00000000 09:02 4026532161 /lib/libgcc_s.so.1 7f3fba2f9000-7f3fba4f9000 ---p 0000d000 09:02 4026532161 /lib/libgcc_s.so.1 7f3fba4f9000-7f3fba4fa000 rw-p 0000d000 09:02 4026532161 /lib/libgcc_s.so.1 7f3fba4fa000-7f3fba57a000 r-xp 00000000 09:02 4026756146 /lib/libm-2.7.so 7f3fba57a000-7f3fba779000 ---p 00080000 09:02 4026756146 /lib/libm-2.7.so 7f3fba779000-7f3fba77b000 rw-p 0007f000 09:02 4026756146 /lib/libm-2.7.so 7f3fba77b000-7f3fba86a000 r-xp 00000000 09:02 268435746 /usr/lib/libstdc++.so.6.0.9 7f3fba86a000-7f3fbaa6a000 ---p 000ef000 09:02 268435746 /usr/lib/libstdc++.so.6.0.9 7f3fbaa6a000-7f3fbaa70000 r--p 000ef000 09:02 268435746 /usr/lib/libstdc++.so.6.0.9 7f3fbaa70000-7f3fbaa73000 rw-p 000f5000 09:02 268435746 /usr/lib/libstdc++.so.6.0.9 7f3fbaa73000-7f3fbaa86000 rw-p 7f3fbaa73000 00:00 0 7f3fbaa86000-7f3fbaa9c000 r-xp 00000000 09:02 4026756156 /lib/libpthread-2.7.so 7f3fbaa9c000-7f3fbac9c000 ---p 00016000 09:02 4026756156 /lib/libpthread-2.7.so 7f3fbac9c000-7f3fbac9e000 rw-p 00016000 09:02 4026756156 /lib/libpthread-2.7.so 7f3fbac9e000-7f3fbaca2000 rw-p 7f3fbac9e000 00:00 0 7f3fbaca2000-7f3fbaca4000 r-xp 00000000 09:02 4026756145 /lib/libdl-2.7.so 7f3fbaca4000-7f3fbaea4000 ---p 00002000 09:02 4026756145 /lib/libdl-2.7.so 7f3fbaea4000-7f3fbaea6000 rw-p 00002000 09:02 4026756145 /lib/libdl-2.7.so 7f3fbaea6000-7f3fbaeaf000 r-xp 00000000 09:02 4026756144 /lib/libcrypt-2.7.so 7f3fbaeaf000-7f3fbb0ae000 ---p 00009000 09:02 4026756144 /lib/libcrypt-2.7.so 7f3fbb0ae000-7f3fbb0b0000 rw-p 00008000 09:02 4026756144 /lib/libcrypt-2.7.so 7f3fbb0b0000-7f3fbb0de000 rw-p 7f3fbb0b0000 00:00 0 7f3fbb0de000-7f3fbb0f4000 r-xp 00000000 09:02 268436020 /usr/lib/libz.so.1.2.3.3 7f3fbb0f4000-7f3fbb2f4000 ---p 00016000 09:02 268436020 /usr/lib/libz.so.1.2.3.3 7f3fbb2f4000-7f3fbb2f5000 rw-p 00016000 09:02 268436020 /usr/lib/libz.so.1.2.3.3 7f3fbb2f5000-7f3fbb34c000 r-xp 00000000 09:02 268436242 /usr/lib/libtiff.so.4.2.1 7f3fbb34c000-7f3fbb54b000 ---p 00057000 09:02 268436242 /usr/lib/libtiff.so.4.2.1 7f3fbb54b000-7f3fbb54e000 rw-p 00056000 09:02 268436242 /usr/lib/libtiff.so.4.2.1 7f3fbb54e000-7f3fbb570000 r-xp 00000000 09:02 268438589 /usr/lib/libjpeg.so.62.0.0 7f3fbb570000-7f3fbb770000 ---p 00022000 09:02 268438589 /usr/lib/libjpeg.so.62.0.0 7f3fbb770000-7f3fbb771000 rw-p 00022000 09:02 268438589 /usr/lib/libjpeg.so.62.0.0 7f3fbb771000-7f3fbb78e000 r-xp 00000000 09:02 4026629687 /lib/ld-2.7.so 7f3fbb8fc000-7f3fbb979000 rw-p 7f3fbb8fc000 00:00 0 7f3fbb989000-7f3fbb98e000 rw-p 7f3fbb989000 00:00 0 7f3fbb98e000-7f3fbb990000 rw-p 0001d000 09:02 4026629687 /lib/ld-2.7.so 7fffc3977000-7fffc3990000 rw-p 7ffffffe6000 00:00 0 [stack] 7fffc39fe000-7fffc3a00000 r-xp 7fffc39fe000 00:00 0 [vdso] ffffffffff600000-ffffffffff601000 r-xp 00000000 00:00 0 [vsyscall] Aborted
Bruce Fischl wrote:
sure, once you have it sampled on the surface you can treat it like a thickness study (unless you have a timecourse, in which case it would be like an fMRI study).
cheers, Bruce
On Mon, 2 Mar 2009, Florian Gerstl wrote:
Dear FS-Team,
I have mapped some PET-data on the corresponding subject's cortical surface. Is it possible to get some statistics from the resulting curv-file using the FS-parcellation as ROIs?
Thanks in advance, Florian
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