Ping,
According to line 9 of the log file you sent to Anastasia, are running
freesurfer version v5.1. Not version 5.2.
-Zeke
-------- Original Message --------
Subject: Re: [Freesurfer] memory allocation errors on Snow Leopard
running dmri_train (fwd)
Date: Wed, 27 Mar 2013 15:17:34 -0400 (EDT)
From: Anastasia Yendiki <ayend...@nmr.mgh.harvard.edu>
To: Zeke Kaufman <zkauf...@nmr.mgh.harvard.edu>
---------- Forwarded message ----------
Date: Wed, 27 Mar 2013 13:44:56 -0400
From: Ping-Hong Yeh <pinghong...@gmail.com>
To: Anastasia Yendiki <ayend...@nmr.mgh.harvard.edu>
Cc: freesurfer@nmr.mgh.harvard.edu
Subject: Re: [Freesurfer] memory allocation errors on Snow Leopard running
dmri_train
Hi Anastasia,
See the attached.
Thank you.
ping
On Wed, Mar 27, 2013 at 1:38 PM, Anastasia Yendiki
<ayend...@nmr.mgh.harvard.edu> wrote:
>
> Hi Ping - Can you send us your entire trac-all.log? There's some info in
> there about your system and the freesurfer build you're using that we'll
> need to try to replicate the problem.
>
> Thanks,
>
> a.y
>
> On Tue, 26 Mar 2013, Ping-Hong Yeh wrote:
>
>> Hi Anastasia,
>>
>> It had the same issue before, but worked fine after installing the
>> fixed dmri patch for Snow Leopard.
>>
>> Thanks.
>> ping
>>
>> On Tue, Mar 26, 2013 at 5:09 PM, Anastasia Yendiki
>> <ayend...@nmr.mgh.harvard.edu> wrote:
>>>
>>>
>>> Hi Ping - Are you running this on the same system where you were running
>>> the
>>> 5.1 snow leopard build without a problem?
>>>
>>> a.y
>>>
>>>
>>> On Tue, 26 Mar 2013, Ping-Hong Yeh wrote:
>>>
>>>> Hi FS users,
>>>>
>>>> I've tested the newer Tracula FS 5.2 on Snow Leopard and ran into
>>>> errors. The 5.2 recon-all of T1 was finished ok.
>>>>
>>>> Here is the final part of log file.
>>>>
>>>> #@# Priors Tue Mar 26 14:39:36 EDT 2013
>>>> /apps/freesurfer/bin/dmri_train --outdir
>>>> /Volumes/Access_Point_Backup/freesurfer/NCNC2348/dlabel/mni --out
>>>> lh.cst_AS_avg33_mni_flt rh.cst_AS_avg33_mni_flt
>>>> lh.ilf_AS_avg33_mni_flt rh.ilf_AS_avg33_mni_flt
>>>> lh.unc_AS_avg33_mni_flt rh.unc_AS_avg33_mni_flt
>>>> fmajor_PP_avg33_mni_flt fminor_PP_avg33_mni_flt
>>>> lh.atr_PP_avg33_mni_flt rh.atr_PP_avg33_mni_flt
>>>> lh.cab_PP_avg33_mni_flt rh.cab_PP_avg33_mni_flt
>>>> lh.ccg_PP_avg33_mni_flt rh.ccg_PP_avg33_mni_flt
>>>> lh.slfp_PP_avg33_mni_flt rh.slfp_PP_avg33_mni_flt
>>>> lh.slft_PP_avg33_mni_flt rh.slft_PP_avg33_mni_flt --slist
>>>> /tmp/subj33.NCNC2348.61836.txt --trk dlabel/mni/lh.cst_AS.flt.trk
>>>> dlabel/mni/rh.cst_AS.flt.trk dlabel/mni/lh.ilf_AS.flt.trk
>>>> dlabel/mni/rh.ilf_AS.flt.trk dlabel/mni/lh.unc_AS.flt.trk
>>>> dlabel/mni/rh.unc_AS.flt.trk dlabel/mni/fmajor_PP.flt.trk
>>>> dlabel/mni/fminor_PP.flt.trk dlabel/mni/lh.atr_PP.flt.trk
>>>> dlabel/mni/rh.atr_PP.flt.trk dlabel/mni/lh.cab_PP.flt.trk
>>>> dlabel/mni/rh.cab_PP.flt.trk dlabel/mni/lh.ccg_PP.flt.trk
>>>> dlabel/mni/rh.ccg_PP.flt.trk dlabel/mni/lh.slfp_PP.flt.trk
>>>> dlabel/mni/rh.slfp_PP.flt.trk dlabel/mni/lh.slft_PP.flt.trk
>>>> dlabel/mni/rh.slft_PP.flt.trk --seg dlabel/mni/aparc+aseg.nii.gz
>>>> --cmask dlabel/mni/cortex+2mm.nii.gz --lmask 16 16 0 0 0 0 0 0 10 49 0
>>>> 0 0 0 0 0 0 0 --rois dlabel/mni/lh.cst_AS_roi1.flt.nii.gz
>>>> dlabel/mni/lh.cst_AS_roi2.flt.nii.gz
>>>> dlabel/mni/rh.cst_AS_roi1.flt.nii.gz
>>>> dlabel/mni/rh.cst_AS_roi2.flt.nii.gz
>>>> dlabel/mni/lh.ilf_AS_roi1.flt.nii.gz
>>>> dlabel/mni/lh.ilf_AS_roi2.flt.nii.gz
>>>> dlabel/mni/rh.ilf_AS_roi1.flt.nii.gz
>>>> dlabel/mni/rh.ilf_AS_roi2.flt.nii.gz
>>>> dlabel/mni/lh.unc_AS_roi1.flt.nii.gz
>>>> dlabel/mni/lh.unc_AS_roi2.flt.nii.gz
>>>> dlabel/mni/rh.unc_AS_roi1.flt.nii.gz
>>>> dlabel/mni/rh.unc_AS_roi2.flt.nii.gz
>>>> dlabel/mni/fmajor_PP_roi1.flt.nii.gz
>>>> dlabel/mni/fmajor_PP_roi2.flt.nii.gz
>>>> dlabel/mni/fminor_PP_roi1.flt.nii.gz
>>>> dlabel/mni/fminor_PP_roi2.flt.nii.gz
>>>> dlabel/mni/lh.atr_PP_roi1.flt.nii.gz
>>>> dlabel/mni/lh.atr_PP_roi2.flt.nii.gz
>>>> dlabel/mni/rh.atr_PP_roi1.flt.nii.gz
>>>> dlabel/mni/rh.atr_PP_roi2.flt.nii.gz
>>>> dlabel/mni/lh.cab_PP_roi1.flt.nii.gz
>>>> dlabel/mni/lh.cab_PP_roi2.flt.nii.gz
>>>> dlabel/mni/rh.cab_PP_roi1.flt.nii.gz
>>>> dlabel/mni/rh.cab_PP_roi2.flt.nii.gz
>>>> dlabel/mni/lh.ccg_PP_roi1.flt.nii.gz
>>>> dlabel/mni/lh.ccg_PP_roi2.flt.nii.gz
>>>> dlabel/mni/rh.ccg_PP_roi1.flt.nii.gz
>>>> dlabel/mni/rh.ccg_PP_roi2.flt.nii.gz
>>>> dlabel/mni/lh.slfp_PP_roi1.flt.nii.gz
>>>> dlabel/mni/lh.slfp_PP_roi2.flt.nii.gz
>>>> dlabel/mni/rh.slfp_PP_roi1.flt.nii.gz
>>>> dlabel/mni/rh.slfp_PP_roi2.flt.nii.gz
>>>> dlabel/mni/lh.slft_PP_roi1.flt.nii.gz
>>>> dlabel/mni/lh.slft_PP_roi2.flt.nii.gz
>>>> dlabel/mni/rh.slft_PP_roi1.flt.nii.gz
>>>> dlabel/mni/rh.slft_PP_roi2.flt.nii.gz --bmask
>>>>
>>>>
>>>> /Volumes/Access_Point_Backup/freesurfer/NCNC2348/dlabel/mni/aparc+aseg_mask.nii.gz
>>>> --fa
>>>> /Volumes/Access_Point_Backup/freesurfer/NCNC2348/dmri/dtifit_FA.nii.gz
>>>> --cptdir /Volumes/Access_Point_Backup/freesurfer/NCNC2348/dlabel/diff
>>>> --reg
>>>>
>>>> /Volumes/Access_Point_Backup/freesurfer/NCNC2348/dmri/xfms/mni2diff.flt.mat
>>>> --ncpts 10 --trunc
>>>>
>>>>
>>>> cwd /Users/twbrkmp2
>>>> cmdline /apps/freesurfer/bin/dmri_train --outdir
>>>> /Volumes/Access_Point_Backup/freesurfer/NCNC2348/dlabel/mni --out
>>>> lh.cst_AS_avg33_mni_flt rh.cst_AS_avg33_mni_flt
>>>> lh.ilf_AS_avg33_mni_flt rh.ilf_AS_avg33_mni_flt
>>>> lh.unc_AS_avg33_mni_flt rh.unc_AS_avg33_mni_flt
>>>> fmajor_PP_avg33_mni_flt fminor_PP_avg33_mni_flt
>>>> lh.atr_PP_avg33_mni_flt rh.atr_PP_avg33_mni_flt
>>>> lh.cab_PP_avg33_mni_flt rh.cab_PP_avg33_mni_flt
>>>> lh.ccg_PP_avg33_mni_flt rh.ccg_PP_avg33_mni_flt
>>>> lh.slfp_PP_avg33_mni_flt rh.slfp_PP_avg33_mni_flt
>>>> lh.slft_PP_avg33_mni_flt rh.slft_PP_avg33_mni_flt --slist
>>>> /tmp/subj33.NCNC2348.61836.txt --trk dlabel/mni/lh.cst_AS.flt.trk
>>>> dlabel/mni/rh.cst_AS.flt.trk dlabel/mni/lh.ilf_AS.flt.trk
>>>> dlabel/mni/rh.ilf_AS.flt.trk dlabel/mni/lh.unc_AS.flt.trk
>>>> dlabel/mni/rh.unc_AS.flt.trk dlabel/mni/fmajor_PP.flt.trk
>>>> dlabel/mni/fminor_PP.flt.trk dlabel/mni/lh.atr_PP.flt.trk
>>>> dlabel/mni/rh.atr_PP.flt.trk dlabel/mni/lh.cab_PP.flt.trk
>>>> dlabel/mni/rh.cab_PP.flt.trk dlabel/mni/lh.ccg_PP.flt.trk
>>>> dlabel/mni/rh.ccg_PP.flt.trk dlabel/mni/lh.slfp_PP.flt.trk
>>>> dlabel/mni/rh.slfp_PP.flt.trk dlabel/mni/lh.slft_PP.flt.trk
>>>> dlabel/mni/rh.slft_PP.flt.trk --seg dlabel/mni/aparc+aseg.nii.gz
>>>> --cmask dlabel/mni/cortex+2mm.nii.gz --lmask 16 16 0 0 0 0 0 0 10 49 0
>>>> 0 0 0 0 0 0 0 --rois dlabel/mni/lh.cst_AS_roi1.flt.nii.gz
>>>> dlabel/mni/lh.cst_AS_roi2.flt.nii.gz
>>>> dlabel/mni/rh.cst_AS_roi1.flt.nii.gz
>>>> dlabel/mni/rh.cst_AS_roi2.flt.nii.gz
>>>> dlabel/mni/lh.ilf_AS_roi1.flt.nii.gz
>>>> dlabel/mni/lh.ilf_AS_roi2.flt.nii.gz
>>>> dlabel/mni/rh.ilf_AS_roi1.flt.nii.gz
>>>> dlabel/mni/rh.ilf_AS_roi2.flt.nii.gz
>>>> dlabel/mni/lh.unc_AS_roi1.flt.nii.gz
>>>> dlabel/mni/lh.unc_AS_roi2.flt.nii.gz
>>>> dlabel/mni/rh.unc_AS_roi1.flt.nii.gz
>>>> dlabel/mni/rh.unc_AS_roi2.flt.nii.gz
>>>> dlabel/mni/fmajor_PP_roi1.flt.nii.gz
>>>> dlabel/mni/fmajor_PP_roi2.flt.nii.gz
>>>> dlabel/mni/fminor_PP_roi1.flt.nii.gz
>>>> dlabel/mni/fminor_PP_roi2.flt.nii.gz
>>>> dlabel/mni/lh.atr_PP_roi1.flt.nii.gz
>>>> dlabel/mni/lh.atr_PP_roi2.flt.nii.gz
>>>> dlabel/mni/rh.atr_PP_roi1.flt.nii.gz
>>>> dlabel/mni/rh.atr_PP_roi2.flt.nii.gz
>>>> dlabel/mni/lh.cab_PP_roi1.flt.nii.gz
>>>> dlabel/mni/lh.cab_PP_roi2.flt.nii.gz
>>>> dlabel/mni/rh.cab_PP_roi1.flt.nii.gz
>>>> dlabel/mni/rh.cab_PP_roi2.flt.nii.gz
>>>> dlabel/mni/lh.ccg_PP_roi1.flt.nii.gz
>>>> dlabel/mni/lh.ccg_PP_roi2.flt.nii.gz
>>>> dlabel/mni/rh.ccg_PP_roi1.flt.nii.gz
>>>> dlabel/mni/rh.ccg_PP_roi2.flt.nii.gz
>>>> dlabel/mni/lh.slfp_PP_roi1.flt.nii.gz
>>>> dlabel/mni/lh.slfp_PP_roi2.flt.nii.gz
>>>> dlabel/mni/rh.slfp_PP_roi1.flt.nii.gz
>>>> dlabel/mni/rh.slfp_PP_roi2.flt.nii.gz
>>>> dlabel/mni/lh.slft_PP_roi1.flt.nii.gz
>>>> dlabel/mni/lh.slft_PP_roi2.flt.nii.gz
>>>> dlabel/mni/rh.slft_PP_roi1.flt.nii.gz
>>>> dlabel/mni/rh.slft_PP_roi2.flt.nii.gz --bmask
>>>>
>>>>
>>>> /Volumes/Access_Point_Backup/freesurfer/NCNC2348/dlabel/mni/aparc+aseg_mask.nii.gz
>>>> --fa
>>>> /Volumes/Access_Point_Backup/freesurfer/NCNC2348/dmri/dtifit_FA.nii.gz
>>>> --cptdir /Volumes/Access_Point_Backup/freesurfer/NCNC2348/dlabel/diff
>>>> --reg
>>>>
>>>> /Volumes/Access_Point_Backup/freesurfer/NCNC2348/dmri/xfms/mni2diff.flt.mat
>>>> --ncpts 10 --trunc
>>>> sysname Darwin
>>>> hostname twbrkmp2s-Mac-Pro-5.local
>>>> machine x86_64
>>>> user twbrkmp2
>>>> Output directory:
>>>> /Volumes/Access_Point_Backup/freesurfer/NCNC2348/dlabel/mni
>>>> Output directory in test subject's space:
>>>> /Volumes/Access_Point_Backup/freesurfer/NCNC2348/dlabel/diff
>>>> Output base: lh.cst_AS_avg33_mni_flt rh.cst_AS_avg33_mni_flt
>>>> lh.ilf_AS_avg33_mni_flt rh.ilf_AS_avg33_mni_flt
>>>> lh.unc_AS_avg33_mni_flt rh.unc_AS_avg33_mni_flt
>>>> fmajor_PP_avg33_mni_flt fminor_PP_avg33_mni_flt
>>>> lh.atr_PP_avg33_mni_flt rh.atr_PP_avg33_mni_flt
>>>> lh.cab_PP_avg33_mni_flt rh.cab_PP_avg33_mni_flt
>>>> lh.ccg_PP_avg33_mni_flt rh.ccg_PP_avg33_mni_flt
>>>> lh.slfp_PP_avg33_mni_flt rh.slfp_PP_avg33_mni_flt
>>>> lh.slft_PP_avg33_mni_flt rh.slft_PP_avg33_mni_flt
>>>> Training subject directory list: /private/tmp/subj33.NCNC2348.61836.txt
>>>> Location of streamline files relative to base:
>>>> dlabel/mni/lh.cst_AS.flt.trk dlabel/mni/rh.cst_AS.flt.trk
>>>> dlabel/mni/lh.ilf_AS.flt.trk dlabel/mni/rh.ilf_AS.flt.trk
>>>> dlabel/mni/lh.unc_AS.flt.trk dlabel/mni/rh.unc_AS.flt.trk
>>>> dlabel/mni/fmajor_PP.flt.trk dlabel/mni/fminor_PP.flt.trk
>>>> dlabel/mni/lh.atr_PP.flt.trk dlabel/mni/rh.atr_PP.flt.trk
>>>> dlabel/mni/lh.cab_PP.flt.trk dlabel/mni/rh.cab_PP.flt.trk
>>>> dlabel/mni/lh.ccg_PP.flt.trk dlabel/mni/rh.ccg_PP.flt.trk
>>>> dlabel/mni/lh.slfp_PP.flt.trk dlabel/mni/rh.slfp_PP.flt.trk
>>>> dlabel/mni/lh.slft_PP.flt.trk dlabel/mni/rh.slft_PP.flt.trk
>>>> Location of start ROI files relative to base:
>>>> dlabel/mni/lh.cst_AS_roi1.flt.nii.gz
>>>> dlabel/mni/rh.cst_AS_roi1.flt.nii.gz
>>>> dlabel/mni/lh.ilf_AS_roi1.flt.nii.gz
>>>> dlabel/mni/rh.ilf_AS_roi1.flt.nii.gz
>>>> dlabel/mni/lh.unc_AS_roi1.flt.nii.gz
>>>> dlabel/mni/rh.unc_AS_roi1.flt.nii.gz
>>>> dlabel/mni/fmajor_PP_roi1.flt.nii.gz
>>>> dlabel/mni/fminor_PP_roi1.flt.nii.gz
>>>> dlabel/mni/lh.atr_PP_roi1.flt.nii.gz
>>>> dlabel/mni/rh.atr_PP_roi1.flt.nii.gz
>>>> dlabel/mni/lh.cab_PP_roi1.flt.nii.gz
>>>> dlabel/mni/rh.cab_PP_roi1.flt.nii.gz
>>>> dlabel/mni/lh.ccg_PP_roi1.flt.nii.gz
>>>> dlabel/mni/rh.ccg_PP_roi1.flt.nii.gz
>>>> dlabel/mni/lh.slfp_PP_roi1.flt.nii.gz
>>>> dlabel/mni/rh.slfp_PP_roi1.flt.nii.gz
>>>> dlabel/mni/lh.slft_PP_roi1.flt.nii.gz
>>>> dlabel/mni/rh.slft_PP_roi1.flt.nii.gz
>>>> Location of end ROI files relative to base:
>>>> dlabel/mni/lh.cst_AS_roi2.flt.nii.gz
>>>> dlabel/mni/rh.cst_AS_roi2.flt.nii.gz
>>>> dlabel/mni/lh.ilf_AS_roi2.flt.nii.gz
>>>> dlabel/mni/rh.ilf_AS_roi2.flt.nii.gz
>>>> dlabel/mni/lh.unc_AS_roi2.flt.nii.gz
>>>> dlabel/mni/rh.unc_AS_roi2.flt.nii.gz
>>>> dlabel/mni/fmajor_PP_roi2.flt.nii.gz
>>>> dlabel/mni/fminor_PP_roi2.flt.nii.gz
>>>> dlabel/mni/lh.atr_PP_roi2.flt.nii.gz
>>>> dlabel/mni/rh.atr_PP_roi2.flt.nii.gz
>>>> dlabel/mni/lh.cab_PP_roi2.flt.nii.gz
>>>> dlabel/mni/rh.cab_PP_roi2.flt.nii.gz
>>>> dlabel/mni/lh.ccg_PP_roi2.flt.nii.gz
>>>> dlabel/mni/rh.ccg_PP_roi2.flt.nii.gz
>>>> dlabel/mni/lh.slfp_PP_roi2.flt.nii.gz
>>>> dlabel/mni/rh.slfp_PP_roi2.flt.nii.gz
>>>> dlabel/mni/lh.slft_PP_roi2.flt.nii.gz
>>>> dlabel/mni/rh.slft_PP_roi2.flt.nii.gz
>>>> Location of cortex masks relative to base: dlabel/mni/cortex+2mm.nii.gz
>>>> Label ID's from aparc+aseg to add to cortex mask: 16 16 0 0 0 0 0 0 10
>>>> 49 0 0 0 0 0 0 0 0
>>>> Location of aparc+aseg's relative to base: dlabel/mni/aparc+aseg.nii.gz
>>>> Brain mask for output subject:
>>>>
>>>>
>>>> /Volumes/Access_Point_Backup/freesurfer/NCNC2348/dlabel/mni/aparc+aseg_mask.nii.gz
>>>> FA map for output subject:
>>>> /Volumes/Access_Point_Backup/freesurfer/NCNC2348/dmri/dtifit_FA.nii.gz
>>>> Affine registration from atlas to base for output subject:
>>>>
>>>>
>>>> /Volumes/Access_Point_Backup/freesurfer/NCNC2348/dmri/xfms/mni2diff.flt.mat
>>>> Number of control points for initial spline: 10
>>>> Exclude previously chosen center streamlines: 0
>>>> Use truncated streamlines: 1
>>>> Loading brain mask of output subject from
>>>>
>>>>
>>>> /Volumes/Access_Point_Backup/freesurfer/NCNC2348/dlabel/mni/aparc+aseg_mask.nii.gz
>>>> Loading FA map of output subject from
>>>> /Volumes/Access_Point_Backup/freesurfer/NCNC2348/dmri/dtifit_FA.nii.gz
>>>> Loading affine registration from
>>>>
>>>>
>>>> /Volumes/Access_Point_Backup/freesurfer/NCNC2348/dmri/xfms/mni2diff.flt.mat
>>>> Loading streamline start ROI from
>>>> /apps/freesurfer/trctrain/trc001/dlabel/mni/lh.cst_AS_roi1.flt.nii.gz
>>>> Loading streamline end ROI from
>>>> /apps/freesurfer/trctrain/trc001/dlabel/mni/lh.cst_AS_roi2.flt.nii.gz
>>>> Loading streamlines from
>>>> /apps/freesurfer/trctrain/trc001/dlabel/mni/lh.cst_AS.flt.trk
>>>> Loading streamline start ROI from
>>>> /apps/freesurfer/trctrain/trc002/dlabel/mni/lh.cst_AS_roi1.flt.nii.gz
>>>> Loading streamline end ROI from
>>>> /apps/freesurfer/trctrain/trc002/dlabel/mni/lh.cst_AS_roi2.flt.nii.gz
>>>> Loading streamlines from
>>>> /apps/freesurfer/trctrain/trc002/dlabel/mni/lh.cst_AS.flt.trk
>>>> Loading streamline start ROI from
>>>> /apps/freesurfer/trctrain/trc003/dlabel/mni/lh.cst_AS_roi1.flt.nii.gz
>>>> Loading streamline end ROI from
>>>> /apps/freesurfer/trctrain/trc003/dlabel/mni/lh.cst_AS_roi2.flt.nii.gz
>>>> Loading streamlines from
>>>> /apps/freesurfer/trctrain/trc003/dlabel/mni/lh.cst_AS.flt.trk
>>>> Loading streamline start ROI from
>>>> /apps/freesurfer/trctrain/trc004/dlabel/mni/lh.cst_AS_roi1.flt.nii.gz
>>>> Loading streamline end ROI from
>>>> /apps/freesurfer/trctrain/trc004/dlabel/mni/lh.cst_AS_roi2.flt.nii.gz
>>>> Loading streamlines from
>>>> /apps/freesurfer/trctrain/trc004/dlabel/mni/lh.cst_AS.flt.trk
>>>> Loading streamline start ROI from
>>>> /apps/freesurfer/trctrain/trc005/dlabel/mni/lh.cst_AS_roi1.flt.nii.gz
>>>> Loading streamline end ROI from
>>>> /apps/freesurfer/trctrain/trc005/dlabel/mni/lh.cst_AS_roi2.flt.nii.gz
>>>> Loading streamlines from
>>>> /apps/freesurfer/trctrain/trc005/dlabel/mni/lh.cst_AS.flt.trk
>>>> Loading streamline start ROI from
>>>> /apps/freesurfer/trctrain/trc006/dlabel/mni/lh.cst_AS_roi1.flt.nii.gz
>>>> Loading streamline end ROI from
>>>> /apps/freesurfer/trctrain/trc006/dlabel/mni/lh.cst_AS_roi2.flt.nii.gz
>>>> Loading streamlines from
>>>> /apps/freesurfer/trctrain/trc006/dlabel/mni/lh.cst_AS.flt.trk
>>>> Loading streamline start ROI from
>>>> /apps/freesurfer/trctrain/trc007/dlabel/mni/lh.cst_AS_roi1.flt.nii.gz
>>>> Loading streamline end ROI from
>>>> /apps/freesurfer/trctrain/trc007/dlabel/mni/lh.cst_AS_roi2.flt.nii.gz
>>>> Loading streamlines from
>>>> /apps/freesurfer/trctrain/trc007/dlabel/mni/lh.cst_AS.flt.trk
>>>> Loading streamline start ROI from
>>>> /apps/freesurfer/trctrain/trc008/dlabel/mni/lh.cst_AS_roi1.flt.nii.gz
>>>> Loading streamline end ROI from
>>>> /apps/freesurfer/trctrain/trc008/dlabel/mni/lh.cst_AS_roi2.flt.nii.gz
>>>> Loading streamlines from
>>>> /apps/freesurfer/trctrain/trc008/dlabel/mni/lh.cst_AS.flt.trk
>>>> Loading streamline start ROI from
>>>> /apps/freesurfer/trctrain/trc009/dlabel/mni/lh.cst_AS_roi1.flt.nii.gz
>>>> Loading streamline end ROI from
>>>> /apps/freesurfer/trctrain/trc009/dlabel/mni/lh.cst_AS_roi2.flt.nii.gz
>>>> Loading streamlines from
>>>> /apps/freesurfer/trctrain/trc009/dlabel/mni/lh.cst_AS.flt.trk
>>>> Loading streamline start ROI from
>>>> /apps/freesurfer/trctrain/trc010/dlabel/mni/lh.cst_AS_roi1.flt.nii.gz
>>>> Loading streamline end ROI from
>>>> /apps/freesurfer/trctrain/trc010/dlabel/mni/lh.cst_AS_roi2.flt.nii.gz
>>>> Loading streamlines from
>>>> /apps/freesurfer/trctrain/trc010/dlabel/mni/lh.cst_AS.flt.trk
>>>> Loading streamline start ROI from
>>>> /apps/freesurfer/trctrain/trc011/dlabel/mni/lh.cst_AS_roi1.flt.nii.gz
>>>> Loading streamline end ROI from
>>>> /apps/freesurfer/trctrain/trc011/dlabel/mni/lh.cst_AS_roi2.flt.nii.gz
>>>> Loading streamlines from
>>>> /apps/freesurfer/trctrain/trc011/dlabel/mni/lh.cst_AS.flt.trk
>>>> Loading streamline start ROI from
>>>> /apps/freesurfer/trctrain/trc012/dlabel/mni/lh.cst_AS_roi1.flt.nii.gz
>>>> Loading streamline end ROI from
>>>> /apps/freesurfer/trctrain/trc012/dlabel/mni/lh.cst_AS_roi2.flt.nii.gz
>>>> Loading streamlines from
>>>> /apps/freesurfer/trctrain/trc012/dlabel/mni/lh.cst_AS.flt.trk
>>>> Loading streamline start ROI from
>>>> /apps/freesurfer/trctrain/trc013/dlabel/mni/lh.cst_AS_roi1.flt.nii.gz
>>>> Loading streamline end ROI from
>>>> /apps/freesurfer/trctrain/trc013/dlabel/mni/lh.cst_AS_roi2.flt.nii.gz
>>>> Loading streamlines from
>>>> /apps/freesurfer/trctrain/trc013/dlabel/mni/lh.cst_AS.flt.trk
>>>> Loading streamline start ROI from
>>>> /apps/freesurfer/trctrain/trc014/dlabel/mni/lh.cst_AS_roi1.flt.nii.gz
>>>> Loading streamline end ROI from
>>>> /apps/freesurfer/trctrain/trc014/dlabel/mni/lh.cst_AS_roi2.flt.nii.gz
>>>> Loading streamlines from
>>>> /apps/freesurfer/trctrain/trc014/dlabel/mni/lh.cst_AS.flt.trk
>>>> Loading streamline start ROI from
>>>> /apps/freesurfer/trctrain/trc015/dlabel/mni/lh.cst_AS_roi1.flt.nii.gz
>>>> Loading streamline end ROI from
>>>> /apps/freesurfer/trctrain/trc015/dlabel/mni/lh.cst_AS_roi2.flt.nii.gz
>>>> Loading streamlines from
>>>> /apps/freesurfer/trctrain/trc015/dlabel/mni/lh.cst_AS.flt.trk
>>>> Loading streamline start ROI from
>>>> /apps/freesurfer/trctrain/trc016/dlabel/mni/lh.cst_AS_roi1.flt.nii.gz
>>>> Loading streamline end ROI from
>>>> /apps/freesurfer/trctrain/trc016/dlabel/mni/lh.cst_AS_roi2.flt.nii.gz
>>>> Loading streamlines from
>>>> /apps/freesurfer/trctrain/trc016/dlabel/mni/lh.cst_AS.flt.trk
>>>> Loading streamline start ROI from
>>>> /apps/freesurfer/trctrain/trc017/dlabel/mni/lh.cst_AS_roi1.flt.nii.gz
>>>> Loading streamline end ROI from
>>>> /apps/freesurfer/trctrain/trc017/dlabel/mni/lh.cst_AS_roi2.flt.nii.gz
>>>> Loading streamlines from
>>>> /apps/freesurfer/trctrain/trc017/dlabel/mni/lh.cst_AS.flt.trk
>>>> Loading streamline start ROI from
>>>> /apps/freesurfer/trctrain/trc018/dlabel/mni/lh.cst_AS_roi1.flt.nii.gz
>>>> Loading streamline end ROI from
>>>> /apps/freesurfer/trctrain/trc018/dlabel/mni/lh.cst_AS_roi2.flt.nii.gz
>>>> Loading streamlines from
>>>> /apps/freesurfer/trctrain/trc018/dlabel/mni/lh.cst_AS.flt.trk
>>>> Loading streamline start ROI from
>>>> /apps/freesurfer/trctrain/trc019/dlabel/mni/lh.cst_AS_roi1.flt.nii.gz
>>>> Loading streamline end ROI from
>>>> /apps/freesurfer/trctrain/trc019/dlabel/mni/lh.cst_AS_roi2.flt.nii.gz
>>>> Loading streamlines from
>>>> /apps/freesurfer/trctrain/trc019/dlabel/mni/lh.cst_AS.flt.trk
>>>> Loading streamline start ROI from
>>>> /apps/freesurfer/trctrain/trc020/dlabel/mni/lh.cst_AS_roi1.flt.nii.gz
>>>> Loading streamline end ROI from
>>>> /apps/freesurfer/trctrain/trc020/dlabel/mni/lh.cst_AS_roi2.flt.nii.gz
>>>> Loading streamlines from
>>>> /apps/freesurfer/trctrain/trc020/dlabel/mni/lh.cst_AS.flt.trk
>>>> Loading streamline start ROI from
>>>> /apps/freesurfer/trctrain/trc021/dlabel/mni/lh.cst_AS_roi1.flt.nii.gz
>>>> Loading streamline end ROI from
>>>> /apps/freesurfer/trctrain/trc021/dlabel/mni/lh.cst_AS_roi2.flt.nii.gz
>>>> Loading streamlines from
>>>> /apps/freesurfer/trctrain/trc021/dlabel/mni/lh.cst_AS.flt.trk
>>>> Loading streamline start ROI from
>>>> /apps/freesurfer/trctrain/trc022/dlabel/mni/lh.cst_AS_roi1.flt.nii.gz
>>>> Loading streamline end ROI from
>>>> /apps/freesurfer/trctrain/trc022/dlabel/mni/lh.cst_AS_roi2.flt.nii.gz
>>>> Loading streamlines from
>>>> /apps/freesurfer/trctrain/trc022/dlabel/mni/lh.cst_AS.flt.trk
>>>> Loading streamline start ROI from
>>>> /apps/freesurfer/trctrain/trc023/dlabel/mni/lh.cst_AS_roi1.flt.nii.gz
>>>> Loading streamline end ROI from
>>>> /apps/freesurfer/trctrain/trc023/dlabel/mni/lh.cst_AS_roi2.flt.nii.gz
>>>> Loading streamlines from
>>>> /apps/freesurfer/trctrain/trc023/dlabel/mni/lh.cst_AS.flt.trk
>>>> Loading streamline start ROI from
>>>> /apps/freesurfer/trctrain/trc024/dlabel/mni/lh.cst_AS_roi1.flt.nii.gz
>>>> Loading streamline end ROI from
>>>> /apps/freesurfer/trctrain/trc024/dlabel/mni/lh.cst_AS_roi2.flt.nii.gz
>>>> Loading streamlines from
>>>> /apps/freesurfer/trctrain/trc024/dlabel/mni/lh.cst_AS.flt.trk
>>>> Loading streamline start ROI from
>>>> /apps/freesurfer/trctrain/trc025/dlabel/mni/lh.cst_AS_roi1.flt.nii.gz
>>>> Loading streamline end ROI from
>>>> /apps/freesurfer/trctrain/trc025/dlabel/mni/lh.cst_AS_roi2.flt.nii.gz
>>>> Loading streamlines from
>>>> /apps/freesurfer/trctrain/trc025/dlabel/mni/lh.cst_AS.flt.trk
>>>> Loading streamline start ROI from
>>>> /apps/freesurfer/trctrain/trc026/dlabel/mni/lh.cst_AS_roi1.flt.nii.gz
>>>> Loading streamline end ROI from
>>>> /apps/freesurfer/trctrain/trc026/dlabel/mni/lh.cst_AS_roi2.flt.nii.gz
>>>> Loading streamlines from
>>>> /apps/freesurfer/trctrain/trc026/dlabel/mni/lh.cst_AS.flt.trk
>>>> Loading streamline start ROI from
>>>> /apps/freesurfer/trctrain/trc027/dlabel/mni/lh.cst_AS_roi1.flt.nii.gz
>>>> Loading streamline end ROI from
>>>> /apps/freesurfer/trctrain/trc027/dlabel/mni/lh.cst_AS_roi2.flt.nii.gz
>>>> Loading streamlines from
>>>> /apps/freesurfer/trctrain/trc027/dlabel/mni/lh.cst_AS.flt.trk
>>>> Loading streamline start ROI from
>>>> /apps/freesurfer/trctrain/trc028/dlabel/mni/lh.cst_AS_roi1.flt.nii.gz
>>>> Loading streamline end ROI from
>>>> /apps/freesurfer/trctrain/trc028/dlabel/mni/lh.cst_AS_roi2.flt.nii.gz
>>>> Loading streamlines from
>>>> /apps/freesurfer/trctrain/trc028/dlabel/mni/lh.cst_AS.flt.trk
>>>> Loading streamline start ROI from
>>>> /apps/freesurfer/trctrain/trc029/dlabel/mni/lh.cst_AS_roi1.flt.nii.gz
>>>> Loading streamline end ROI from
>>>> /apps/freesurfer/trctrain/trc029/dlabel/mni/lh.cst_AS_roi2.flt.nii.gz
>>>> Loading streamlines from
>>>> /apps/freesurfer/trctrain/trc029/dlabel/mni/lh.cst_AS.flt.trk
>>>> Loading streamline start ROI from
>>>> /apps/freesurfer/trctrain/trc030/dlabel/mni/lh.cst_AS_roi1.flt.nii.gz
>>>> Loading streamline end ROI from
>>>> /apps/freesurfer/trctrain/trc030/dlabel/mni/lh.cst_AS_roi2.flt.nii.gz
>>>> Loading streamlines from
>>>> /apps/freesurfer/trctrain/trc030/dlabel/mni/lh.cst_AS.flt.trk
>>>> Loading streamline start ROI from
>>>> /apps/freesurfer/trctrain/trc031/dlabel/mni/lh.cst_AS_roi1.flt.nii.gz
>>>> Loading streamline end ROI from
>>>> /apps/freesurfer/trctrain/trc031/dlabel/mni/lh.cst_AS_roi2.flt.nii.gz
>>>> Loading streamlines from
>>>> /apps/freesurfer/trctrain/trc031/dlabel/mni/lh.cst_AS.flt.trk
>>>> Loading streamline start ROI from
>>>> /apps/freesurfer/trctrain/trc032/dlabel/mni/lh.cst_AS_roi1.flt.nii.gz
>>>> Loading streamline end ROI from
>>>> /apps/freesurfer/trctrain/trc032/dlabel/mni/lh.cst_AS_roi2.flt.nii.gz
>>>> Loading streamlines from
>>>> /apps/freesurfer/trctrain/trc032/dlabel/mni/lh.cst_AS.flt.trk
>>>> Loading streamline start ROI from
>>>> /apps/freesurfer/trctrain/trc033/dlabel/mni/lh.cst_AS_roi1.flt.nii.gz
>>>> Loading streamline end ROI from
>>>> /apps/freesurfer/trctrain/trc033/dlabel/mni/lh.cst_AS_roi2.flt.nii.gz
>>>> Loading streamlines from
>>>> /apps/freesurfer/trctrain/trc033/dlabel/mni/lh.cst_AS.flt.trk
>>>> INFO: Rejected 587 streamlines for straying off mask
>>>> INFO: Rejected 77 streamlines for reversing direction
>>>> INFO: Rejected 36 streamlines as length outliers
>>>> INFO: Have 7732 total streamlines (min/mean/max length: 59/99/129)
>>>> Loading segmentation from
>>>> /apps/freesurfer/trctrain/trc001/dlabel/mni/aparc+aseg.nii.gz
>>>> Loading cortex mask from
>>>> /apps/freesurfer/trctrain/trc001/dlabel/mni/cortex+2mm.nii.gz
>>>> Loading segmentation from
>>>> /apps/freesurfer/trctrain/trc002/dlabel/mni/aparc+aseg.nii.gz
>>>> Loading cortex mask from
>>>> /apps/freesurfer/trctrain/trc002/dlabel/mni/cortex+2mm.nii.gz
>>>> Loading segmentation from
>>>> /apps/freesurfer/trctrain/trc003/dlabel/mni/aparc+aseg.nii.gz
>>>> Loading cortex mask from
>>>> /apps/freesurfer/trctrain/trc003/dlabel/mni/cortex+2mm.nii.gz
>>>> Loading segmentation from
>>>> /apps/freesurfer/trctrain/trc004/dlabel/mni/aparc+aseg.nii.gz
>>>> Loading cortex mask from
>>>> /apps/freesurfer/trctrain/trc004/dlabel/mni/cortex+2mm.nii.gz
>>>> Loading segmentation from
>>>> /apps/freesurfer/trctrain/trc005/dlabel/mni/aparc+aseg.nii.gz
>>>> Loading cortex mask from
>>>> /apps/freesurfer/trctrain/trc005/dlabel/mni/cortex+2mm.nii.gz
>>>> Loading segmentation from
>>>> /apps/freesurfer/trctrain/trc006/dlabel/mni/aparc+aseg.nii.gz
>>>> Loading cortex mask from
>>>> /apps/freesurfer/trctrain/trc006/dlabel/mni/cortex+2mm.nii.gz
>>>> Loading segmentation from
>>>> /apps/freesurfer/trctrain/trc007/dlabel/mni/aparc+aseg.nii.gz
>>>> Loading cortex mask from
>>>> /apps/freesurfer/trctrain/trc007/dlabel/mni/cortex+2mm.nii.gz
>>>> Loading segmentation from
>>>> /apps/freesurfer/trctrain/trc008/dlabel/mni/aparc+aseg.nii.gz
>>>> Loading cortex mask from
>>>> /apps/freesurfer/trctrain/trc008/dlabel/mni/cortex+2mm.nii.gz
>>>> Loading segmentation from
>>>> /apps/freesurfer/trctrain/trc009/dlabel/mni/aparc+aseg.nii.gz
>>>> Loading cortex mask from
>>>> /apps/freesurfer/trctrain/trc009/dlabel/mni/cortex+2mm.nii.gz
>>>> Loading segmentation from
>>>> /apps/freesurfer/trctrain/trc010/dlabel/mni/aparc+aseg.nii.gz
>>>> Loading cortex mask from
>>>> /apps/freesurfer/trctrain/trc010/dlabel/mni/cortex+2mm.nii.gz
>>>> Loading segmentation from
>>>> /apps/freesurfer/trctrain/trc011/dlabel/mni/aparc+aseg.nii.gz
>>>> Loading cortex mask from
>>>> /apps/freesurfer/trctrain/trc011/dlabel/mni/cortex+2mm.nii.gz
>>>> Loading segmentation from
>>>> /apps/freesurfer/trctrain/trc012/dlabel/mni/aparc+aseg.nii.gz
>>>> Loading cortex mask from
>>>> /apps/freesurfer/trctrain/trc012/dlabel/mni/cortex+2mm.nii.gz
>>>> Loading segmentation from
>>>> /apps/freesurfer/trctrain/trc013/dlabel/mni/aparc+aseg.nii.gz
>>>> Loading cortex mask from
>>>> /apps/freesurfer/trctrain/trc013/dlabel/mni/cortex+2mm.nii.gz
>>>> Loading segmentation from
>>>> /apps/freesurfer/trctrain/trc014/dlabel/mni/aparc+aseg.nii.gz
>>>> Loading cortex mask from
>>>> /apps/freesurfer/trctrain/trc014/dlabel/mni/cortex+2mm.nii.gz
>>>> Loading segmentation from
>>>> /apps/freesurfer/trctrain/trc015/dlabel/mni/aparc+aseg.nii.gz
>>>> Loading cortex mask from
>>>> /apps/freesurfer/trctrain/trc015/dlabel/mni/cortex+2mm.nii.gz
>>>> Loading segmentation from
>>>> /apps/freesurfer/trctrain/trc016/dlabel/mni/aparc+aseg.nii.gz
>>>> Loading cortex mask from
>>>> /apps/freesurfer/trctrain/trc016/dlabel/mni/cortex+2mm.nii.gz
>>>> Loading segmentation from
>>>> /apps/freesurfer/trctrain/trc017/dlabel/mni/aparc+aseg.nii.gz
>>>> Loading cortex mask from
>>>> /apps/freesurfer/trctrain/trc017/dlabel/mni/cortex+2mm.nii.gz
>>>> Loading segmentation from
>>>> /apps/freesurfer/trctrain/trc018/dlabel/mni/aparc+aseg.nii.gz
>>>> Loading cortex mask from
>>>> /apps/freesurfer/trctrain/trc018/dlabel/mni/cortex+2mm.nii.gz
>>>> Loading segmentation from
>>>> /apps/freesurfer/trctrain/trc019/dlabel/mni/aparc+aseg.nii.gz
>>>> Loading cortex mask from
>>>> /apps/freesurfer/trctrain/trc019/dlabel/mni/cortex+2mm.nii.gz
>>>> Loading segmentation from
>>>> /apps/freesurfer/trctrain/trc020/dlabel/mni/aparc+aseg.nii.gz
>>>> Loading cortex mask from
>>>> /apps/freesurfer/trctrain/trc020/dlabel/mni/cortex+2mm.nii.gz
>>>> Loading segmentation from
>>>> /apps/freesurfer/trctrain/trc021/dlabel/mni/aparc+aseg.nii.gz
>>>> Loading cortex mask from
>>>> /apps/freesurfer/trctrain/trc021/dlabel/mni/cortex+2mm.nii.gz
>>>> Loading segmentation from
>>>> /apps/freesurfer/trctrain/trc022/dlabel/mni/aparc+aseg.nii.gz
>>>> Loading cortex mask from
>>>> /apps/freesurfer/trctrain/trc022/dlabel/mni/cortex+2mm.nii.gz
>>>> Loading segmentation from
>>>> /apps/freesurfer/trctrain/trc023/dlabel/mni/aparc+aseg.nii.gz
>>>> Loading cortex mask from
>>>> /apps/freesurfer/trctrain/trc023/dlabel/mni/cortex+2mm.nii.gz
>>>> Loading segmentation from
>>>> /apps/freesurfer/trctrain/trc024/dlabel/mni/aparc+aseg.nii.gz
>>>> Loading cortex mask from
>>>> /apps/freesurfer/trctrain/trc024/dlabel/mni/cortex+2mm.nii.gz
>>>> Loading segmentation from
>>>> /apps/freesurfer/trctrain/trc025/dlabel/mni/aparc+aseg.nii.gz
>>>> Loading cortex mask from
>>>> /apps/freesurfer/trctrain/trc025/dlabel/mni/cortex+2mm.nii.gz
>>>> Loading segmentation from
>>>> /apps/freesurfer/trctrain/trc026/dlabel/mni/aparc+aseg.nii.gz
>>>> Loading cortex mask from
>>>> /apps/freesurfer/trctrain/trc026/dlabel/mni/cortex+2mm.nii.gz
>>>> Loading segmentation from
>>>> /apps/freesurfer/trctrain/trc027/dlabel/mni/aparc+aseg.nii.gz
>>>> Loading cortex mask from
>>>> /apps/freesurfer/trctrain/trc027/dlabel/mni/cortex+2mm.nii.gz
>>>> Loading segmentation from
>>>> /apps/freesurfer/trctrain/trc028/dlabel/mni/aparc+aseg.nii.gz
>>>> Loading cortex mask from
>>>> /apps/freesurfer/trctrain/trc028/dlabel/mni/cortex+2mm.nii.gz
>>>> Loading segmentation from
>>>> /apps/freesurfer/trctrain/trc029/dlabel/mni/aparc+aseg.nii.gz
>>>> Loading cortex mask from
>>>> /apps/freesurfer/trctrain/trc029/dlabel/mni/cortex+2mm.nii.gz
>>>> dmri_train(63678) malloc: *** mmap(size=159744) failed (error code=12)
>>>> *** error: can't allocate region
>>>> *** set a breakpoint in malloc_error_break to debug
>>>> MRIalloc(218, 182, 182): could not allocate 158704 bytes for 138th slice
>>>>
>>>> Cannot allocate memory
>>>> Darwin twbrkmp2s-Mac-Pro-5.local 10.8.0 Darwin Kernel Version 10.8.0:
>>>> Tue Jun 7 16:32:41 PDT 2011; root:xnu-1504.15.3~1/RELEASE_X86_64
>>>> x86_64
>>>>
>>>> trac-preproc exited with ERRORS at Tue Mar 26 14:40:16 EDT 2013
>>>>
>>>>
>>>>
>>>> Any suggestions?
>>>> Thanks.
>>>>
>>>> ping
>>>> _______________________________________________
>>>> Freesurfer mailing list
>>>> Freesurfer@nmr.mgh.harvard.edu
>>>> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
>>>>
>>>>
>>>>
>>>
>>>
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