what does the file transforms/talairach_avi.log say? and are those pathnames real? or something the email added?
n. On Wed, 2011-12-28 at 17:08 +0000, LAOUCHEDI MAKHLOUF wrote: > > Hi everyone > > I run freesurfer recon-all command with the flag -all and I have this > error > > > ERROR:mpr2mni305 failed, see transforms/talairach_avi.log > > > Some one have any idea? > > > Thanks > > > > this is the whole process: > Checking for (invalid) multi-frame inputs... > WARNING: only one run found. This is OK, but motion > correction cannot be performed on one run, so I'll > copy the run to rawavg and continue. > > cp > /var/spool/pbs/tmpdir/168794.gridgate.scg.nuigalway.ie/https_3a_2f_2flcglb11.jinr.ru_3a9000_2fkuCIe3Owzqt9NMK8dnWJIg/ws22493/.tmp/a62dcf35-8a80-4ffe-b336-6fa96f009a56/systemExecTask2949236199702543515/6559183/6559183/mri/orig/001.mgz > > /var/spool/pbs/tmpdir/168794.gridgate.scg.nuigalway.ie/https_3a_2f_2flcglb11.jinr.ru_3a9000_2fkuCIe3Owzqt9NMK8dnWJIg/ws22493/.tm > mri_convert > /var/spool/pbs/tmpdir/168794.gridgate.scg.nuigalway.ie/https_3a_2f_2flcglb11.jinr.ru_3a9000_2fkuCIe3Owzqt9NMK8dnWJIg/ws22493/.tmp/a62dcf35-8a80-4ffe-b336-6fa96f009a56/systemExecTask2949236199702543515/6559183/6559183/mri/rawavg.mgz > > /var/spool/pbs/tmpdir/168794.gridgate.scg.nuigalway.ie/https_3a_2f_2flcglb11.jinr.ru_3a9000_2fkuCIe3Owzqt9NMK8dnWJIg/ws22493/.tmp/a62dcf35-8a80-4ffe-b336-6fa96f009a56/systemExecTask2949236199702543515/6559183/6559183/mri/orig.mgz > --conform > $Id: mri_convert.c,v 1.179.2.2 2011/05/16 20:53:47 greve Exp $ > reading > from > /var/spool/pbs/tmpdir/168794.gridgate.scg.nuigalway.ie/https_3a_2f_2flcglb11.jinr.ru_3a9000_2fkuCIe3Owzqt9NMK8dnWJIg/ws22493/.tmp/a62dcf35-8a80-4ffe-b336-6fa96f009a56/systemExecTask2949236199702543515/6559183/6559183/mri/rawavg.mgz... > TR=0.00, TE=0.00, TI=0.00, flip angle=0.00 > i_ras = (-1, -0, 0) > j_ras = (-0, 1, 0) > k_ras = (-0, -0, 1) > Original Data has (1.33, 1, 1) mm size and (128, 256, 256) voxels. > Data is conformed to 1 mm size and 256 voxels for all directions > changing data type from float to uchar (noscale = 0)... > MRIchangeType: Building histogram > Reslicing using trilinear interpolation > writing > to > /var/spool/pbs/tmpdir/168794.gridgate.scg.nuigalway.ie/https_3a_2f_2flcglb11.jinr.ru_3a9000_2fkuCIe3Owzqt9NMK8dnWJIg/ws22493/.tmp/a62dcf35-8a80-4ffe-b336-6fa96f009a56/systemExecTask2949236199702543515/6559183/6559183/mri/orig.mgz... > > mri_add_xform_to_header > -c > /var/spool/pbs/tmpdir/168794.gridgate.scg.nuigalway.ie/https_3a_2f_2flcglb11.jinr.ru_3a9000_2fkuCIe3Owzqt9NMK8dnWJIg/ws22493/.tmp/a62dcf35-8a80-4ffe-b336-6fa96f009a56/systemExecTask2949236199702543515/6559183/6559183/mri/transforms/talairach.xfm > > /var/spool/pbs/tmpdir/168794.gridgate.scg.nuigalway.ie/https_3a_2f_2flcglb11.jinr.ru_3a9000_2fkuCIe3Owzqt9NMK8dnWJIg/ws22493/.tmp/a62dcf35-8a80-4ffe-b336-6fa96f009a56/systemExecTask2949236199702543515/6559183/6559183/mri/orig.mgz > > /var/spool/pbs/tmpdir/168794.gridgate.scg.nuigalway.ie/https_3a_2f_2flcglb11.jinr.ru_3a9000_ > ERROR: mpr2mni305 failed, see transforms/talairach_avi.log > Linux wn033.grid.scg.nuigalway.ie 2.6.18-274.7.1.el5 #1 SMP Thu Oct 20 > 15:20:36 EDT 2011 x86_64 x86_64 x86_64 GNU/Linux > > recon-all -s 6559183 exited with ERRORS at Wed Dec 28 16:21:01 GMT > 2011 > > For more details, see the log > file > /var/spool/pbs/tmpdir/168794.gridgate.scg.nuigalway.ie/https_3a_2f_2flcglb11.jinr.ru_3a9000_2fkuCIe3Owzqt9NMK8dnWJIg/ws22493/.tmp/a62dcf35-8a80-4ffe-b336-6fa > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.
