tar up the freesurfer analysis and CT volume and drop it to me our file drop system (url at the end of the email) doug
On 02/04/2014 03:29 PM, Borzello, Mia wrote: > Okay, I separated and moved everything into its own folder. I just ran > spmregister and then tkregister and the CT is really skewed. I'm wondering if > I accidentally fussed with something or if there is another way I can fix > this. Can someone look at the data? I chose the CT with the most slices, and > the second highest scan has 35 slices. > > Thanks so much, > m > ________________________________________ > From: [email protected] > [[email protected]] on behalf of Douglas N Greve > [[email protected]] > Sent: Tuesday, February 04, 2014 3:01 PM > To: [email protected] > Subject: Re: [Freesurfer] dicom loading difficulty > > I would put the new ones into a different folder > doug > > On 02/04/2014 02:35 PM, Borzello, Mia wrote: >> Hmm this didn't seem to work. I converted all 78 files. Is it okay to leave >> both versions of the dicoms (the ones with the .dcm extension and the >> original in the same folder)? >> >> Thanks, >> m >> ________________________________________ >> From: [email protected] >> [[email protected]] on behalf of Douglas N Greve >> [[email protected]] >> Sent: Tuesday, February 04, 2014 11:21 AM >> To: [email protected] >> Subject: Re: [Freesurfer] dicom loading difficulty >> >> FS does not natively uncompress jpeg compressed dicoms, however, you can >> get and use the dcmdjpeg to do the decompression like this >> >> dcmdjpeg +te dicomfile dicomfile >> >> this will overwrite the dicom file, so make a backup. You will have to >> run this for all of your dicoms >> >> doug >> >> >> On 02/04/2014 10:31 AM, Borzello, Mia wrote: >>> Hi Freesurfers, >>> >>> I'm trying to convert CT dicoms to the MGZ format, but am getting an >>> error saying "the pixel data cannot be loaded as it is JPEG >>> compressed." I originally got dicoms without the extension .dcm, but >>> then resaved them with the extension. Using either version didn't >>> work. If you can shed some light on this, that would be great! >>> >>> Thanks, >>> m >>> >>> >>> _______________________________________________ >>> 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: https://gate.nmr.mgh.harvard.edu/filedrop2 >> www.nmr.mgh.harvard.edu/facility/filedrop/index.html >> Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ >> >> _______________________________________________ >> Freesurfer mailing list >> [email protected] >> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >> >> _______________________________________________ >> 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: https://gate.nmr.mgh.harvard.edu/filedrop2 > www.nmr.mgh.harvard.edu/facility/filedrop/index.html > Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ > > _______________________________________________ > Freesurfer mailing list > [email protected] > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > _______________________________________________ > 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: https://gate.nmr.mgh.harvard.edu/filedrop2 www.nmr.mgh.harvard.edu/facility/filedrop/index.html Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ _______________________________________________ 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.
