Reporting on   3 segmentations
Computing spatial average of each frame
0 1 2*** glibc detected *** mri_segstats: malloc(): memory corruption: 0x2e61e810 ***
======= Backtrace: =========
/lib/libc.so.6[0x9e11dd]
/lib/libc.so.6(__libc_malloc+0x67)[0x9e2d97]
/lib/libc.so.6[0x9cf4cf]
/lib/libc.so.6(fopen64+0x2c)[0x9d1a7c]
mri_segstats[0x80536cd]
/lib/libc.so.6(__libc_start_main+0xdc)[0x98ce9c]
mri_segstats(__gxx_personality_v0+0x1c9)[0x804f791]
======= Memory map: ========
00958000-00973000 r-xp 00000000 fd:00 60785448                           /lib/ld-2.5.so
00973000-00974000 r-xp 0001a000 fd:00 60785448                           /lib/ld-2.5.so
00974000-00975000 rwxp 0001b000 fd:00 60785448                           /lib/ld-2.5.so
00977000-00acb000 r-xp 00000000 fd:00 60784655                           /lib/libc-2.5.so
00acb000-00acc000 ---p 00154000 fd:00 60784655                           /lib/libc-2.5.so
00acc000-00ace000 r-xp 00154000 fd:00 60784655                           /lib/libc-2.5.so
00ace000-00acf000 rwxp 00156000 fd:00 60784655                           /lib/libc-2.5.so
00acf000-00ad2000 rwxp 00acf000 00:00 0
00ad4000-00add000 r-xp 00000000 fd:00 60784725                           /lib/libcrypt-2.5.so
00add000-00ade000 r-xp 00008000 fd:00 60784725                           /lib/libcrypt-2.5.so
00ade000-00adf000 rwxp 00009000 fd:00 60784725                           /lib/libcrypt-2.5.so
00adf000-00b06000 rwxp 00adf000 00:00 0
00b22000-00b2d000 r-xp 00000000 fd:00 60784686                           /lib/libgcc_s-4.1.2-20080825.so.1
00b2d000-00b2e000 rwxp 0000a000 fd:00 60784686                           /lib/libgcc_s-4.1.2-20080825.so.1
00c68000-00d48000 r-xp 00000000 fd:00 56176146                           /usr/lib/libstdc++.so.6.0.8
00d48000-00d4c000 r-xp 000df000 fd:00 56176146                           /usr/lib/libstdc++.so.6.0.8
00d4c000-00d4d000 rwxp 000e3000 fd:00 56176146                           /usr/lib/libstdc++.so.6.0.8
00d4d000-00d53000 rwxp 00d4d000 00:00 0
00d72000-00d84000 r-xp 00000000 fd:00 60784662                           /lib/libz.so.1.2.3
00d84000-00d85000 rwxp 00011000 fd:00 60784662                           /lib/libz.so.1.2.3
08048000-08817000 r-xp 08048000 00:00 0
08817000-2e63b000 rwxp 08817000 00:00 0                                  [heap]
f6300000-f6321000 rwxp f6300000 00:00 0
f6321000-f6400000 ---p f6321000 00:00 0
f6498000-f7e61000 rwxp f6498000 00:00 0
f7f02000-f7f04000 rwxp f7f02000 00:00 0
f7f04000-f7f2b000 r-xp 00000000 fd:00 60784705                           /lib/libm-2.5.so
f7f2b000-f7f2c000 r-xp 00026000 fd:00 60784705                           /lib/libm-2.5.so
f7f2c000-f7f2d000 rwxp 00027000 fd:00 60784705                           /lib/libm-2.5.so
f7f2d000-f7f42000 r-xp 00000000 fd:00 60784716                           /lib/libpthread-2.5.so
f7f42000-f7f43000 ---p 00015000 fd:00 60784716                           /lib/libpthread-2.5.so
f7f43000-f7f44000 r-xp 00015000 fd:00 60784716                           /lib/libpthread-2.5.so
f7f44000-f7f45000 rwxp 00016000 fd:00 60784716                           /lib/libpthread-2.5.so
f7f45000-f7f47000 rwxp f7f45000 00:00 0
f7f47000-f7f4a000 r-xp 00000000 fd:00 60784670                           /lib/libdl-2.5.so
f7f4a000-f7f4b000 r-xp 00002000 fd:00 60784670                           /lib/libdl-2.5.so
f7f4b000-f7f4c000 rwxp 00003000 fd:00 60784670                           /lib/libdl-2.5.so
f7f4c000-f7f4d000 rwxp f7f4c000 00:00 0
f7f6f000-f7f79000 r-xp 00000000 fd:00 60784678                           /lib/libnss_files-2.5.so
f7f79000-f7f7a000 r-xp 00009000 fd:00 60784678                           /lib/libnss_files-2.5.so
f7f7a000-f7f7b000 rwxp 0000a000 fd:00 60784678                           /lib/libnss_files-2.5.so
f7f7b000-f7f7c000 rwxp f7f7b000 00:00 0
ff8e2000-ff8f7000 rwxp 7ffffffe9000 00:00 0                              [stack]
ffffe000-fffff000 r-xp ffffe000 00:00 0

Hi doug and others,

I am sorry for pasting files in my first contrast directory, if it can help me desolve the question:

cache.th23.abs.pdf.dat              mc-z.abs.2.sig.cluster.summary mc-z.neg.3.sig.cluster.summary mc-z.pos.3.sig.cluster.summary
cache.th23.abs.sig.cluster.mgh      mc-z.abs.2.sig.masked.mgh       mc-z.neg.3.sig.masked.mgh       mc-z.pos.3.sig.masked.mgh
cache.th23.abs.sig.cluster.summary mc-z.abs.2.sig.ocn.annot        mc-z.neg.3.sig.ocn.annot        mc-z.pos.3.sig.ocn.annot
cache.th23.abs.sig.masked.mgh       mc-z.abs.2.sig.ocn.mgh          mc-z.neg.3.sig.ocn.mgh          mc-z.pos.3.sig.ocn.mgh
cache.th23.abs.sig.ocn.annot        mc-z.abs.2.sig.voxel.mgh        mc-z.neg.3.sig.voxel.mgh        mc-z.pos.3.sig.voxel.mgh
cache.th23.abs.sig.ocn.mgh          mc-z.abs.3.pdf.dat              mc-z.neg.3.y.ocn.dat            mc-z.pos.3.y.ocn.dat
cache.th23.abs.sig.voxel.mgh        mc-z.abs.3.sig.cluster.mgh      mc-z.neg.pdf.dat                mc-z.pos.pdf.dat
C.dat                               mc-z.abs.3.sig.cluster.summary mc-z.neg.sig.cluster.mgh        mc-z.pos.sig.cluster.mgh
cnr.mgh                             mc-z.abs.3.sig.masked.mgh       mc-z.neg.sig.cluster.summary    mc-z.pos.sig.cluster.summary
F.mgh                               mc-z.abs.3.sig.ocn.annot        mc-z.neg.sig.masked.mgh         mc-z.pos.sig.masked.mgh
gamma.mgh                           mc-z.abs.3.sig.ocn.mgh          mc-z.neg.sig.ocn.annot          mc-z.pos.sig.ocn.annot
gammavar.mgh                        mc-z.abs.3.sig.voxel.mgh        mc-z.neg.sig.ocn.mgh            mc-z.pos.sig.ocn.mgh
maxvox.dat                          mc-z.abs.3.y.ocn.dat            mc-z.neg.sig.voxel.mgh          mc-z.pos.sig.voxel.mgh
mc-z.abs.2.pdf.dat                  mc-z.neg.3.pdf.dat              mc-z.pos.3.pdf.dat              mc-z.pos.y.ocn.dat
mc-z.abs.2.sig.cluster.mgh          mc-z.neg.3.sig.cluster.mgh      mc-z.pos.3.sig.cluster.mgh      sig.mgh

Thanks.

All the best.

Rujing Zha

2014-02-22

charujing123

发件人："charujing123"<charujing123@163.com>

发送时间：2014-02-22 10:18

主题：Re: [Freesurfer] error in mri_glmfit-sim when using --bg and doss

收件人："freesurfer@nmr.mgh.harvard.edu"<freesurfer@nmr.mgh.harvard.edu>

抄送：

Hi doug and others,

Thanks doug.

According this information https://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/GroupAnalysis#ViewCSDFile, I try to find the csd files in the csd folder(I am not sure this is what you just told me). But there are the csd files as I run simulation with --bg option.

Also I try to find the csd files in the first contrast directory, but I think, maybe I am wrong, none of these is csd files that you suggest.

Doug, would you please describe it more detailly, as I am a new user for FS?

Thanks doug and others.

All the best.

Rujing Zha

2014-02-22

charujing123

发件人：Douglas Greve <greve@nmr.mgh.harvard.edu>

发送时间：2014-02-21 23:49

主题：Re: [Freesurfer] error in mri_glmfit-sim when using --bg and doss

收件人："freesurfer"<freesurfer@nmr.mgh.harvard.edu>

抄送：

When you actually run the simulation, it only runs it for the first contrast. The simulation is the same for all contrasts, so you can just copy the csd files from the first contrast to the others, then run mri_glmfit-sim with the --no-sim option
doug

On 2/21/14 5:47 AM, charujing123 wrote:

Hi FS experts,

I ran the mri_glmfit with DOSS, followed by the mri_glmfit-sim(running with --bg option). I have 4 contrasts, but only the first one has some files of corrected results(i.e. mc-z.neg.3.sig.cluster.summary). I donot know why. So I upload the log file in the attachment. However, previously I ran mri_glmfit by DODS, and mri_glmfit-sim with --bg option.All the contrasts have corrected results.

Thanks.

All the best.

Rujing Zha

2014-02-21

charujing123
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