New subject: Fwd: mpr2mni305 failed, see transforms/talairach_avi.log

20 Jun 2014

    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
            <venkateswaran@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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