why are you putting a dot in front of the path? There's no dot in the dcmunpack output doug
On 09/14/2012 01:35 PM, Eiran Vadim Harel wrote: > It still does not find the file. > > > [shimshon:TrioTim-35101-20120912-135155-195000] (nmr-stable5.0-env) > recon-all -i > ./cluster/archive/301/siemens/TrioTim-35101-20120912-135155-195000/MR.1.3.12.2.1107.5.2.32.35101.3.2012091214284986179598358 > -i > ./cluster/archive/301/siemens/TrioTim-35101-20120912-135155-195000/MR.1.3.12.2.1107.5.2.32.35101.3.2012091214340478463998836 > -s 39_bay6 > ERROR: cannot find > ./cluster/archive/301/siemens/TrioTim-35101-20120912-135155-195000/MR.1.3.12.2.1107.5.2.32.35101.3.2012091214284986179598358 > Linux shimshon 2.6.18-308.13.1.el5 #1 SMP Tue Aug 21 17:10:18 EDT 2012 > x86_64 x86_64 x86_64 GNU/Linux > > recon-all -s exited with ERRORS at Fri Sep 14 13:32:22 EDT 2012 > > > > >> /cluster/archive/301/siemens/TrioTim-35101-20120912-135155-195000/MR.1.3.12.2.1107.5.2.32.35101.3.2012091214284986179598358 >> >> >> >> On 09/14/2012 01:01 PM, Eiran Vadim Harel wrote: >>> Hi, >>> >>> 3 T1_MPRAGE_sag_short 3.39 2430 7 unknown ROW 190 >>> /cluster/archive/301/siemens/TrioTim-35101-20120912-135155-195000/MR.1.3.12.2.1107.5.2.32.35101.3.2012091214284986179598358 >>> >>> >>> This is what it gives me when i do dcmunpack. What shall i use as the >>> file >>> indicator in the recon-all -i ./.... >>> Thanks! >>> eiran >>> >>> >>> >>> >>>> You'll need to run dcmunpack without the -martinos flag. This will >>>> (eventually) give you a list of runs and corresponding file names. Find >>>> the one that is the MPRAGE you want to recon, and pass that as -i to >>>> recon-all. Unfortunately the name change makes it harder/slower to >>>> unpack data here. >>>> doug >>>> >>>> On 09/14/2012 11:06 AM, Eiran Vadim Harel wrote: >>>>> Hi all, >>>>> Is there a change in the unpacking of the MPRAGE and DICOM files? >>>>> The names of the files have changed. >>>>> what file name should be put in the command: >>>>> recon-all -i./file name -s subjectname >>>>> Thanks, >>>>> Eiran >>>>> _______________________________________________ >>>>> Freesurfer mailing list >>>>> [email protected] >>>>> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >>>>> >>>>> >>>> -- >>>> Douglas N. Greve, Ph.D. >>>> MGH-NMR Center >>>> [email protected] >>>> Phone Number: 617-724-2358 >>>> Fax: 617-726-7422 >>>> >>>> Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting >>>> FileDrop: www.nmr.mgh.harvard.edu/facility/filedrop/index.html >>>> >>>> _______________________________________________ >>>> Freesurfer mailing list >>>> [email protected] >>>> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >>>> >>>> >>>> >> -- >> Douglas N. Greve, Ph.D. >> MGH-NMR Center >> [email protected] >> Phone Number: 617-724-2358 >> Fax: 617-726-7422 >> >> Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting >> FileDrop: www.nmr.mgh.harvard.edu/facility/filedrop/index.html >> >> >> > -- Douglas N. Greve, Ph.D. MGH-NMR Center [email protected] Phone Number: 617-724-2358 Fax: 617-726-7422 Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: www.nmr.mgh.harvard.edu/facility/filedrop/index.html _______________________________________________ Freesurfer mailing list [email protected] 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.
