Hello FreeSurfers
I'm trying to convert some dicom images, but some of them apparentely FS just does not recognize them as dicom images, even when their extention is *.dcm, I'm sending you an example, one of the dicom series, in case any one can helpme disguising the problem, i'll really appreciate it.
I'm using FS v4.2
Kind Regards
Gabriel
This is from a philips scanner, most of the time I think our tools work on philips data. Does this happen with all of your philips data or just this one series?
doug
Gabriel Go.Es. wrote:
Hello FreeSurfers
I'm trying to convert some dicom images, but some of them apparentely FS just does not recognize them as dicom images, even when their extention is *.dcm, I'm sending you an example, one of the dicom series, in case any one can helpme disguising the problem, i'll really appreciate it.
I'm using FS v4.2
Kind Regards
Gabriel
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Thank for answering Doug Yes, they are from a philips scanner, and actually not with all series, there are some of them wich does not have extension, and with those series FS works perfectly, but not at all with the ones like the one i've send.
And i remmember that some day we have convert some *.dcm images, so I can not figure out what could be wrong.
Gabriel
Date: Thu, 2 Sep 2010 16:22:19 -0400 From: greve@nmr.mgh.harvard.edu To: gabriellbk@hotmail.com CC: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] dicom help
This is from a philips scanner, most of the time I think our tools work on philips data. Does this happen with all of your philips data or just this one series?
doug
Gabriel Go.Es. wrote:
Hello FreeSurfers
I'm trying to convert some dicom images, but some of them apparentely FS just does not recognize them as dicom images, even when their extention is *.dcm, I'm sending you an example, one of the dicom series, in case any one can helpme disguising the problem, i'll really appreciate it.
I'm using FS v4.2
Kind Regards
Gabriel
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
-- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu 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
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.
The name/extension should not matter. I have had problems with functional data from philips. Structurals seem to always work.
doug
Gabriel Go.Es. wrote:
Thank for answering Doug Yes, they are from a philips scanner, and actually not with all series, there are some of them wich does not have extension, and with those series FS works perfectly, but not at all with the ones like the one i've send.
And i remmember that some day we have convert some *.dcm images, so I can not figure out what could be wrong.
Gabriel
Date: Thu, 2 Sep 2010 16:22:19 -0400 From: greve@nmr.mgh.harvard.edu To: gabriellbk@hotmail.com CC: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] dicom help
This is from a philips scanner, most of the time I think our tools work on philips data. Does this happen with all of your philips data or just this one series?
doug
Gabriel Go.Es. wrote:
Hello FreeSurfers
I'm trying to convert some dicom images, but some of them apparentely FS just does not recognize them as dicom images, even when their extention is *.dcm, I'm sending you an example, one of the dicom series, in case any one can helpme disguising the problem, i'll
really
appreciate it.
I'm using FS v4.2
Kind Regards
Gabriel
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
-- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu 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
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.
Mmm, now I just have a problem... that dicom is from an structural MRI and still does not work... do you think that can i solve it anyother way???
Gabriel
Sorry, I don't have an easy solution. I think philips does something that breaks our 3rd party dicom reader, so there's not an easy way for me to fix it. There are other converters out there (one called MRIconvert). You can convert to nifti and just pass that to recon-all instead of the dicom.
doug
Gabriel Go.Es. wrote:
Mmm, now I just have a problem... that dicom is from an structural MRI and still does not work... do you think that can i solve it anyother way???
Gabriel
'dcm2nii' would be another DICOM to nifti converter to try.
good luck, -MH
On Thu, 2010-09-02 at 17:54 -0400, Douglas N Greve wrote:
Sorry, I don't have an easy solution. I think philips does something that breaks our 3rd party dicom reader, so there's not an easy way for me to fix it. There are other converters out there (one called MRIconvert). You can convert to nifti and just pass that to recon-all instead of the dicom.
doug
Gabriel Go.Es. wrote:
Mmm, now I just have a problem... that dicom is from an structural MRI and still does not work... do you think that can i solve it anyother way???
Gabriel
where did they come from? Did you try telling mri_conver that they are dicom with -it dicom? On Thu, 2 Sep 2010, Gabriel Go.Es. wrote:
Hello FreeSurfers
I'm trying to convert some dicom images, but some of them apparentely FS just does not recognize them as dicom images, even when their extention is *.dcm, I'm sending you an example, one of the dicom series, in case any one can helpme disguising the problem, i'll really appreciate it.
I'm using FS v4.2
Kind Regards
Gabriel
freesurfer@nmr.mgh.harvard.edu
-
Bruce Fischl -
Douglas N Greve -
Gabriel Go.Es. -
Michael Harms