Nick,

Thanks for your kind help. I uploaded my orig.mgz i.e. 001.mgz using
Martinos center file drop.

Thanks
Venkat


On Mon, Jun 23, 2014 at 11:42 PM, Nick Schmansky, MGH <
ni...@nmr.mgh.harvard.edu> wrote:

> Venkat,
>
> Can you send me your orig.mgz so that I can attempt to replicate?
>
> Nick
>
>
> On Mon, 2014-06-23 at 08:46 +0530, Venkateswaran Rajagopalan wrote:
> > Hi Bruce,
> >
> >
> > Thanks very much. I will wait for Avi Synder's response.
> >
> >
> > Thanks a lot
> > Venkat
> >
> >
> > On Sat, Jun 21, 2014 at 8:23 PM, Bruce Fischl
> > <fis...@nmr.mgh.harvard.edu> wrote:
> >         Hi  Venkat
> >
> >         I'll cc Avi Snyder. Avi: do you know what this error message
> >         means?
> >
> >         thanks
> >         Bruce
> >
> >
> >         On Sat, 21 Jun 2014, Venkateswaran Rajagopalan wrote:
> >
> >                 Dear All,
> >
> >                 I am sorry to post this again. Any help will be
> >                 greatly appreciated. I am
> >                 struck as I am unable to run the recon-all step.
> >
> >                 Thanks
> >                 Venkat
> >
> >                 ---------- Forwarded message ----------
> >                 From: Venkateswaran Rajagopalan
> >                 <venkateswa...@hyderabad.bits-pilani.ac.in>
> >                 Date: Fri, Jun 20, 2014 at 5:14 PM
> >                 Subject: mpr2mni305 failed, see
> >                 transforms/talairach_avi.log
> >                 To: Freesurfer support list
> >                 <freesurfer@nmr.mgh.harvard.edu>
> >
> >
> >                 Hi All,
> >
> >                 I am getting the the following error when I run
> >                 recon-all -subjid E368
> >                 -autorecon1
> >
> >                 ERROR: mpr2mni305 failed, see
> >                 transforms/talairach_avi.log
> >
> >                 Here is what talairach_avi.log says
> >
> >
> /home/administrator/Desktop/freesurfer/subjects_dir/E368/mri
> >                 /usr/local/freesurfer/bin/talairach_avi
> >                 --i orig_nu.mgz --xfm transforms/talairach.auto.xfm
> >                 $Id: talairach_avi,v 1.9 2011/03/02 18:38:06 nicks Exp
> >                 $
> >                 Linux administrator-HP-Pro-3330-MT 3.13.0-24-generic
> >                 #46-Ubuntu SMP Thu Apr
> >                 10 19:08:14 UTC 2014 i686 i686 i686 GNU/Linux
> >                 Fri Jun 20 17:06:38 IST 2014
> >                 mri_convert orig_nu.mgz talsrcimg.img
> >                 $Id: mri_convert.c,v 1.179.2.7 2012/09/05 21:55:16
> >                 mreuter Exp $
> >                 reading from orig_nu.mgz...
> >                 TR=0.00, TE=0.00, TI=0.00, flip angle=0.00
> >                 i_ras = (-1, 0, 0)
> >                 j_ras = (0, 0, -1)
> >                 k_ras = (0, 1, 0)
> >                 writing to talsrcimg.img...
> >                 Analyze Output Matrix
> >                 -1.000   0.000   0.000   129.000;
> >                  0.000   0.000   1.000  -129.000;
> >                  0.000  -1.000   0.000   122.500;
> >                  0.000   0.000   0.000   1.000;
> >                 --------------------
> >                 INFO: set hdr.hist.orient to -1
> >                 mpr2mni305 talsrcimg
> >                 Fri Jun 20 17:06:39 IST 2014
> >                 /usr/local/freesurfer/bin/mpr2mni305 talsrcimg
> >                 $Id: mpr2mni305,v 1.4 2009/06/03 16:01:38 nicks Exp $
> >                 target=711-2C_as_mni_average_305
> >
> >
> ---------------------------------------------------------------------
> >                 analyzeto4dfp talsrcimg -O0 -y
> >
> ---------------------------------------------------------------------
> >
> >                 $Id: ifh2hdr.c,v 1.3 2007/05/05 10:45:03 nicks Exp $
> >                 Fri Jun 20 17:06:40 2014
> >                 Writing: talsrcimg.4dfp.hdr
> >                 $Id: analyzeto4dfp.c,v 1.2 2007/05/05 00:00:06 nicks
> >                 Exp $
> >                 Reading: talsrcimg.hdr
> >                 header size 348 bytes
> >                 hdr.dime.datatype    offset=70    value=2
> >                 hdr.dime.bitpix        offset=72    value=8
> >                 hdr.hist.orient        offset=252    value=-1
> >                 dimensionality     4
> >                 dimensions       256       256       256         1
> >                 Reading: talsrcimg.img
> >                 Writing: talsrcimg.4dfp.img
> >                 Writing: talsrcimg.4dfp.ifh
> >                 ifh2hdr talsrcimg -r0to255
> >                 ori=2
> >
> >
> ---------------------------------------------------------------------
> >                 gauss_4dfp talsrcimg 1.1
> >
> ---------------------------------------------------------------------
> >
> >                 $Id: gauss_4dfp.c,v 1.3 2009/05/15 21:43:46 nicks Exp
> >                 $
> >                 Reading: talsrcimg.4dfp.img
> >                 Writing: talsrcimg_g11.4dfp.img
> >                 image dimensions 256 256 256 padded to 288 288 288
> >                 processing volume 1$Id: ifh2hdr.c,v 1.3 2007/05/05
> >                 10:45:03 nicks Exp $
> >                 Fri Jun 20 17:06:46 2014
> >                 Writing: talsrcimg_g11.4dfp.hdr
> >
> >                 Writing: talsrcimg_g11.4dfp.ifh
> >                 including: talsrcimg.4dfp.img.rec in
> >                 talsrcimg_g11.4dfp.img.rec
> >
> >
> ---------------------------------------------------------------------
> >                 imgreg_4dfp
> /usr/local/freesurfer/average/711-2C_as_mni_average_305 none
> >                 talsrcimg_g11 none
> >                 talsrcimg_to_711-2C_as_mni_average_305_t4 4355
> >
> ---------------------------------------------------------------------
> >
> >                 $Id: imgreg_4dfp.c,v 1.4 2010/02/27 01:41:53 nicks Exp
> >                 $
> >                 imgreg_4dfp:
> >
> /usr/local/freesurfer/average/711-2C_as_mni_average_305.4dfp.img read error
> >
> /usr/local/freesurfer/average/711-2C_as_mni_average_305.4dfp.img
> >                        256       256       256         1
> >                   1.000000  1.000000  1.000000
> >                 orientation T byte_order littleendian
> >                 Reading image:
> >
> /usr/local/freesurfer/average/711-2C_as_mni_average_305.4dfp.img
> >                 dimensions:      256       256       256
> >                 mmppix:       1.0000   -1.0000   -1.0000
> >                 center:     128.0000 -129.0000 -129.0000
> >                 ERROR:
> >                 'imgreg_4dfp
> /usr/local/freesurfer/average/711-2C_as_mni_average_305
> >                 none talsrcimg_g11 none
> >                 talsrcimg_to_711-2C_as_mni_average_305_t4 4355'
> >                 failed! status=255
> >                 ERROR: mpr2mni305 execution aborted
> >
> >                 Any help will be greatly appreciated.
> >
> >                 Thanks
> >                 Venkat
> >
> >
> >
> >         _______________________________________________
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> >
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