Kayma, Can you give it a try now?
Also, can you type the following for me? cat /etc/redhat-release uname -a This will tell me the machine OS and type. Unfortunately, I can't login to miracle. Nick On Wed, 2005-08-24 at 11:40 -0400, Keyma Prince wrote: > this is on miracle. I opened a new terminal window and here is the output > from nu_correct > > [miracle:STRUCS] (nmr-std-env) nu_correct > Can't locate MNI/Startup.pm in @INC (@INC contains: > /usr/lib/perl5/5.8.5/i386-li nux-thread-multi /usr/lib/perl5/5.8.5 > /usr/lib/perl5/site_perl/5.8.5/i386-linux- thread-multi > /usr/lib/perl5/site_perl/5.8.4/i386-linux-thread-multi /usr/lib/per > l5/site_perl/5.8.3/i386-linux-thread-multi > /usr/lib/perl5/site_perl/5.8.2/i386-l inux-thread-multi > /usr/lib/perl5/site_perl/5.8.1/i386-linux-thread-multi /usr/li > b/perl5/site_perl/5.8.0/i386-linux-thread-multi > /usr/lib/perl5/site_perl/5.8.5 / usr/lib/perl5/site_perl/5.8.4 > /usr/lib/perl5/site_perl/5.8.3 /usr/lib/perl5/site _perl/5.8.2 > /usr/lib/perl5/site_perl/5.8.1 /usr/lib/perl5/site_perl/5.8.0 /usr/l > ib/perl5/site_perl > /usr/lib/perl5/vendor_perl/5.8.5/i386-linux-thread-multi /usr > /lib/perl5/vendor_perl/5.8.4/i386-linux-thread-multi > /usr/lib/perl5/vendor_perl/ 5.8.3/i386-linux-thread-multi > /usr/lib/perl5/vendor_perl/5.8.2/i386-linux-thread -multi > /usr/lib/perl5/vendor_perl/5.8.1/i386-linux-thread-multi /usr/lib/perl5/v > endor_perl/5.8.0/i386-linux-thread-multi /usr/lib/perl5/vendor_perl/5.8.5 > /usr/l ib/perl5/vendor_perl/5.8.4 /usr/lib/perl5/vendor_perl/5.8.3 > /usr/lib/perl5/vendo r_perl/5.8.2 /usr/lib/perl5/vendor_perl/5.8.1 > /usr/lib/perl5/vendor_perl/5.8.0 / usr/lib/perl5/vendor_perl .) at > /usr/pubsw/packages/mni/current/bin/nu_correct l ine 37. > BEGIN failed--compilation aborted at > /usr/pubsw/packages/mni/current/bin/nu_corr ect line 37. > > > Keyma Prince > Massachusetts Institute of Technology > Department of Brain and Cognitive Sciences > NE20-392 > Cambridge, MA 02139 > > On Wed, 24 Aug 2005, Nick Schmansky wrote: > > > Keyma, > > > > Hi, on which machine does this occur? If you start a new shell, and > > type: > > > > nu_correct > > > > What does it display? > > > > Nick > > > > > > On Wed, 2005-08-24 at 11:34 -0400, Keyma Prince wrote: > > > I just tried to run the following command and I got an error which has > > > appeared before on the freesurfer list after the MINC toolkit was rebuilt. > > > Can you let me know if this has happened again and what I can do about it? > > > > > > thanks, > > > > > > -Keyma > > > > > > > > > Command: recon-all -stage1 -subjid Y24_031905a_STRUC > > > > > > Error output: > > > > > > i_ras = (-1, 0, 0) > > > j_ras = (0, -0, -1) > > > k_ras = (-0, 1, 0) > > > Original Data has (1, 1, 1) mm size and (256, 256, 256) voxels. > > > Data is conformed to 1 mm size and 256 voxels for all directions > > > writing to .... > > > Started at: Wed Aug 24 11:21:42 EDT 2005 > > > Ended at: Wed Aug 24 11:23:46 EDT 2005 > > > mri_motion_correct2: done > > > --------------------------------------------- > > > Nu Intensity Correction Wed Aug 24 11:23:46 EDT 2005 > > > mri_convert orig nu0.mnc > > > mri_convert orig nu0.mnc > > > reading from orig... > > > TR=2530.00, TE=3.30, TI=1100.00, flip angle=7.00 > > > i_ras = (-1, 0, 0) > > > j_ras = (0, -0, -1) > > > k_ras = (-0, 1, 0) > > > writing to nu0.mnc... > > > nu_correct -clobber nu0.mnc nu1.mnc > > > Can't locate MNI/Startup.pm in @INC (@INC contains: > > > /usr/lib/perl5/5.8.5/i386-linux-thread-multi /usr/lib/perl5/5.8.5 > > > /usr/lib/perl5/site_perl/5.8.5/i386-linux-thread-multi > > > /usr/lib/perl5/site_perl/5.8.4/i386-linux-thread-multi > > > /usr/lib/perl5/site_perl/5.8.3/i386-linux-thread-multi > > > /usr/lib/perl5/site_perl/5.8.2/i386-linux-thread-multi > > > /usr/lib/perl5/site_perl/5.8.1/i386-linux-thread-multi > > > /usr/lib/perl5/site_perl/5.8.0/i386-linux-thread-multi > > > /usr/lib/perl5/site_perl/5.8.5 /usr/lib/perl5/site_perl/5.8.4 > > > /usr/lib/perl5/site_perl/5.8.3 /usr/lib/perl5/site_perl/5.8.2 > > > /usr/lib/perl5/site_perl/5.8.1 /usr/lib/perl5/site_perl/5.8.0 > > > /usr/lib/perl5/site_perl > > > /usr/lib/perl5/vendor_perl/5.8.5/i386-linux-thread-multi > > > /usr/lib/perl5/vendor_perl/5.8.4/i386-linux-thread-multi > > > /usr/lib/perl5/vendor_perl/5.8.3/i386-linux-thread-multi > > > /usr/lib/perl5/vendor_perl/5.8.2/i386-linux-thread-multi > > > /usr/lib/perl5/vendor_perl/5.8.1/i386-linux-thread-multi > > > /usr/lib/perl5/vendor_perl/5.8.0/i386-linux-thread-multi > > > /usr/lib/perl5/vendor_perl/5.8.5 /usr/lib/perl5/vendor_perl/5.8.4 > > > /usr/lib/perl5/vendor_perl/5.8.3 /usr/lib/perl5/vendor_perl/5.8.2 > > > /usr/lib/perl5/vendor_perl/5.8.1 /usr/lib/perl5/vendor_perl/5.8.0 > > > /usr/lib/perl5/vendor_perl .) at > > > /usr/pubsw/packages/mni/current/bin/nu_correct line 37. > > > BEGIN failed--compilation aborted at > > > /usr/pubsw/packages/mni/current/bin/nu_correct line 37. > > > ERROR: nu_correct > > > ------------------------------------------ > > > Filesystem 1K-blocks Used Available Use% Mounted on > > > engram:/local_mount/space/engram/11 > > > 68682136 44104560 24577576 65% > > > /autofs/space/engram_011 > > > ------------------------------------------ > > > recon-all exited with errors at Wed Aug 24 11:24:01 EDT 2005 > > > > > > > > > Keyma Prince > > > Massachusetts Institute of Technology > > > Department of Brain and Cognitive Sciences > > > NE20-392 > > > Cambridge, MA 02139 > > > _______________________________________________ > > > 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
