Dear all,
I am wondering whether mri_convert can compute .mgz files for the reconstructions with the 'Mosaic Format SIEMENS DICOM files'. I have been computing .mgz with the enhanced format .dcm so far, and it always worked. I have used mri_convert to compute .mgz from .nii (I previously transformed the mosaic .dcm format in nifti with mricron but the reconstruction failed)
Thanks in advance,
Marianna
It will handle mosaics (as the mosaics that fMRI data will come in). Hard to say what is going on without more specifics (command line, terminal output)
On 12/02/2016 10:26 AM, Marianna Riello wrote:
Dear all,
I am wondering whether mri_convert can compute .mgz files for the reconstructions with the ‘Mosaic Format SIEMENS DICOM files’.
I have been computing .mgz with the enhanced format .dcm so far, and it always worked.
I have used mri_convert to compute .mgz from .nii (I previously transformed the mosaic .dcm format in nifti with mricron but the reconstruction failed)
Thanks in advance,
Marianna
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Dear all again,
Thanks for your reply. Please check the error attached when trying to convert the DICOM Mosaic in .mgz file when using mri_convert.
Thanks in advance, Marianna
-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Douglas N Greve Sent: Friday, December 2, 2016 12:17 PM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] mri_convert dcm 'Mosaic' 2 mgz
It will handle mosaics (as the mosaics that fMRI data will come in). Hard to say what is going on without more specifics (command line, terminal output)
On 12/02/2016 10:26 AM, Marianna Riello wrote:
Dear all,
I am wondering whether mri_convert can compute .mgz files for the reconstructions with the 'Mosaic Format SIEMENS DICOM files'.
I have been computing .mgz with the enhanced format .dcm so far, and it always worked.
I have used mri_convert to compute .mgz from .nii (I previously transformed the mosaic .dcm format in nifti with mricron but the reconstruction failed)
Thanks in advance,
Marianna
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Try not including the "-it dicom" arg and see if that works
On 12/05/2016 10:01 AM, Marianna Riello wrote:
Dear all again,
Thanks for your reply. Please check the error attached when trying to convert the DICOM Mosaic in .mgz file when using mri_convert.
Thanks in advance, Marianna
-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Douglas N Greve Sent: Friday, December 2, 2016 12:17 PM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] mri_convert dcm 'Mosaic' 2 mgz
It will handle mosaics (as the mosaics that fMRI data will come in). Hard to say what is going on without more specifics (command line, terminal output)
On 12/02/2016 10:26 AM, Marianna Riello wrote:
Dear all,
I am wondering whether mri_convert can compute .mgz files for the reconstructions with the 'Mosaic Format SIEMENS DICOM files'.
I have been computing .mgz with the enhanced format .dcm so far, and it always worked.
I have used mri_convert to compute .mgz from .nii (I previously transformed the mosaic .dcm format in nifti with mricron but the reconstruction failed)
Thanks in advance,
Marianna
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
Dear all,
Thank you. I tried but still is showing the same error (check 2Error attachment) Do you have any other suggestions?
Thanks in advance, Marianna
-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Douglas N Greve Sent: Monday, December 5, 2016 12:00 PM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] mri_convert dcm 'Mosaic' 2 mgz
Try not including the "-it dicom" arg and see if that works
On 12/05/2016 10:01 AM, Marianna Riello wrote:
Dear all again,
Thanks for your reply. Please check the error attached when trying to convert the DICOM Mosaic in .mgz file when using mri_convert.
Thanks in advance, Marianna
-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Douglas N Greve Sent: Friday, December 2, 2016 12:17 PM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] mri_convert dcm 'Mosaic' 2 mgz
It will handle mosaics (as the mosaics that fMRI data will come in). Hard to say what is going on without more specifics (command line, terminal output)
On 12/02/2016 10:26 AM, Marianna Riello wrote:
Dear all,
I am wondering whether mri_convert can compute .mgz files for the reconstructions with the 'Mosaic Format SIEMENS DICOM files'.
I have been computing .mgz with the enhanced format .dcm so far, and it always worked.
I have used mri_convert to compute .mgz from .nii (I previously transformed the mosaic .dcm format in nifti with mricron but the reconstruction failed)
Thanks in advance,
Marianna
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
-- 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: 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 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.
Can you upload the dicoms to https://gate.nmr.mgh.harvard.edu/filedrop2
On 12/05/2016 12:09 PM, Marianna Riello wrote:
Dear all,
Thank you. I tried but still is showing the same error (check 2Error attachment) Do you have any other suggestions?
Thanks in advance, Marianna
-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Douglas N Greve Sent: Monday, December 5, 2016 12:00 PM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] mri_convert dcm 'Mosaic' 2 mgz
Try not including the "-it dicom" arg and see if that works
On 12/05/2016 10:01 AM, Marianna Riello wrote:
Dear all again,
Thanks for your reply. Please check the error attached when trying to convert the DICOM Mosaic in .mgz file when using mri_convert.
Thanks in advance, Marianna
-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Douglas N Greve Sent: Friday, December 2, 2016 12:17 PM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] mri_convert dcm 'Mosaic' 2 mgz
It will handle mosaics (as the mosaics that fMRI data will come in). Hard to say what is going on without more specifics (command line, terminal output)
On 12/02/2016 10:26 AM, Marianna Riello wrote:
Dear all,
I am wondering whether mri_convert can compute .mgz files for the reconstructions with the 'Mosaic Format SIEMENS DICOM files'.
I have been computing .mgz with the enhanced format .dcm so far, and it always worked.
I have used mri_convert to compute .mgz from .nii (I previously transformed the mosaic .dcm format in nifti with mricron but the reconstruction failed)
Thanks in advance,
Marianna
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
-- 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: 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 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.
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
I uploaded the dicom mosaic on Martinos Center. I am wondering whether you received it....
-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Douglas N Greve Sent: Monday, December 5, 2016 12:13 PM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] mri_convert dcm 'Mosaic' 2 mgz
Can you upload the dicoms to https://gate.nmr.mgh.harvard.edu/filedrop2
On 12/05/2016 12:09 PM, Marianna Riello wrote:
Dear all,
Thank you. I tried but still is showing the same error (check 2Error attachment) Do you have any other suggestions?
Thanks in advance, Marianna
-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Douglas N Greve Sent: Monday, December 5, 2016 12:00 PM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] mri_convert dcm 'Mosaic' 2 mgz
Try not including the "-it dicom" arg and see if that works
On 12/05/2016 10:01 AM, Marianna Riello wrote:
Dear all again,
Thanks for your reply. Please check the error attached when trying to convert the DICOM Mosaic in .mgz file when using mri_convert.
Thanks in advance, Marianna
-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Douglas N Greve Sent: Friday, December 2, 2016 12:17 PM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] mri_convert dcm 'Mosaic' 2 mgz
It will handle mosaics (as the mosaics that fMRI data will come in). Hard to say what is going on without more specifics (command line, terminal output)
On 12/02/2016 10:26 AM, Marianna Riello wrote:
Dear all,
I am wondering whether mri_convert can compute .mgz files for the reconstructions with the 'Mosaic Format SIEMENS DICOM files'.
I have been computing .mgz with the enhanced format .dcm so far, and it always worked.
I have used mri_convert to compute .mgz from .nii (I previously transformed the mosaic .dcm format in nifti with mricron but the reconstruction failed)
Thanks in advance,
Marianna
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
-- 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: 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 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.
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: 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 Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
I did not. You should have had an opportunity to enter an email address of the recipient. You can use my email
On 12/5/16 6:35 PM, Marianna Riello wrote:
I uploaded the dicom mosaic on Martinos Center. I am wondering whether you received it....
-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Douglas N Greve Sent: Monday, December 5, 2016 12:13 PM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] mri_convert dcm 'Mosaic' 2 mgz
Can you upload the dicoms to https://gate.nmr.mgh.harvard.edu/filedrop2
On 12/05/2016 12:09 PM, Marianna Riello wrote:
Dear all,
Thank you. I tried but still is showing the same error (check 2Error attachment) Do you have any other suggestions?
Thanks in advance, Marianna
-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Douglas N Greve Sent: Monday, December 5, 2016 12:00 PM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] mri_convert dcm 'Mosaic' 2 mgz
Try not including the "-it dicom" arg and see if that works
On 12/05/2016 10:01 AM, Marianna Riello wrote:
Dear all again,
Thanks for your reply. Please check the error attached when trying to convert the DICOM Mosaic in .mgz file when using mri_convert.
Thanks in advance, Marianna
-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Douglas N Greve Sent: Friday, December 2, 2016 12:17 PM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] mri_convert dcm 'Mosaic' 2 mgz
It will handle mosaics (as the mosaics that fMRI data will come in). Hard to say what is going on without more specifics (command line, terminal output)
On 12/02/2016 10:26 AM, Marianna Riello wrote:
Dear all,
I am wondering whether mri_convert can compute .mgz files for the reconstructions with the 'Mosaic Format SIEMENS DICOM files'.
I have been computing .mgz with the enhanced format .dcm so far, and it always worked.
I have used mri_convert to compute .mgz from .nii (I previously transformed the mosaic .dcm format in nifti with mricron but the reconstruction failed)
Thanks in advance,
Marianna
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
-- 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: 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 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.
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: 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 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
Yes I did it, I used your mail but it gives me an error. Check attachment.
-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Douglas Greve Sent: Tuesday, December 6, 2016 10:23 AM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] mri_convert dcm 'Mosaic' 2 mgz
I did not. You should have had an opportunity to enter an email address of the recipient. You can use my email
On 12/5/16 6:35 PM, Marianna Riello wrote:
I uploaded the dicom mosaic on Martinos Center. I am wondering whether you received it....
-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Douglas N Greve Sent: Monday, December 5, 2016 12:13 PM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] mri_convert dcm 'Mosaic' 2 mgz
Can you upload the dicoms to https://gate.nmr.mgh.harvard.edu/filedrop2
On 12/05/2016 12:09 PM, Marianna Riello wrote:
Dear all,
Thank you. I tried but still is showing the same error (check 2Error attachment) Do you have any other suggestions?
Thanks in advance, Marianna
-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Douglas N Greve Sent: Monday, December 5, 2016 12:00 PM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] mri_convert dcm 'Mosaic' 2 mgz
Try not including the "-it dicom" arg and see if that works
On 12/05/2016 10:01 AM, Marianna Riello wrote:
Dear all again,
Thanks for your reply. Please check the error attached when trying to convert the DICOM Mosaic in .mgz file when using mri_convert.
Thanks in advance, Marianna
-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Douglas N Greve Sent: Friday, December 2, 2016 12:17 PM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] mri_convert dcm 'Mosaic' 2 mgz
It will handle mosaics (as the mosaics that fMRI data will come in). Hard to say what is going on without more specifics (command line, terminal output)
On 12/02/2016 10:26 AM, Marianna Riello wrote:
Dear all,
I am wondering whether mri_convert can compute .mgz files for the reconstructions with the 'Mosaic Format SIEMENS DICOM files'.
I have been computing .mgz with the enhanced format .dcm so far, and it always worked.
I have used mri_convert to compute .mgz from .nii (I previously transformed the mosaic .dcm format in nifti with mricron but the reconstruction failed)
Thanks in advance,
Marianna
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
-- 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: 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 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.
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: 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 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
_______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Marianna,
I think Doug means:
greve@nmr.mgh.harvard.edu
hth d
On Tue, Dec 6, 2016 at 10:32 AM, Marianna Riello mriello1@jhu.edu wrote:
Yes I did it, I used your mail but it gives me an error. Check attachment.
-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Douglas Greve Sent: Tuesday, December 6, 2016 10:23 AM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] mri_convert dcm 'Mosaic' 2 mgz
I did not. You should have had an opportunity to enter an email address of the recipient. You can use my email
On 12/5/16 6:35 PM, Marianna Riello wrote:
I uploaded the dicom mosaic on Martinos Center. I am wondering whether you received it....
-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Douglas N Greve Sent: Monday, December 5, 2016 12:13 PM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] mri_convert dcm 'Mosaic' 2 mgz
Can you upload the dicoms to https://gate.nmr.mgh.harvard.edu/filedrop2
On 12/05/2016 12:09 PM, Marianna Riello wrote:
Dear all,
Thank you. I tried but still is showing the same error (check 2Error attachment) Do you have any other suggestions?
Thanks in advance, Marianna
-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Douglas N Greve Sent: Monday, December 5, 2016 12:00 PM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] mri_convert dcm 'Mosaic' 2 mgz
Try not including the "-it dicom" arg and see if that works
On 12/05/2016 10:01 AM, Marianna Riello wrote:
Dear all again,
Thanks for your reply. Please check the error attached when trying to convert the DICOM Mosaic in .mgz file when using mri_convert.
Thanks in advance, Marianna
-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Douglas N Greve Sent: Friday, December 2, 2016 12:17 PM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] mri_convert dcm 'Mosaic' 2 mgz
It will handle mosaics (as the mosaics that fMRI data will come in). Hard to say what is going on without more specifics (command line, terminal output)
On 12/02/2016 10:26 AM, Marianna Riello wrote:
Dear all,
I am wondering whether mri_convert can compute .mgz files for the reconstructions with the 'Mosaic Format SIEMENS DICOM files'.
I have been computing .mgz with the enhanced format .dcm so far, and it always worked.
I have used mri_convert to compute .mgz from .nii (I previously transformed the mosaic .dcm format in nifti with mricron but the reconstruction failed)
Thanks in advance,
Marianna
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
-- 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: 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 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.
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: 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 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
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.
correct, my email address
On 12/6/16 11:08 AM, dgw wrote:
Marianna,
I think Doug means:
greve@nmr.mgh.harvard.edu
hth d
On Tue, Dec 6, 2016 at 10:32 AM, Marianna Riello mriello1@jhu.edu wrote:
Yes I did it, I used your mail but it gives me an error. Check attachment.
-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Douglas Greve Sent: Tuesday, December 6, 2016 10:23 AM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] mri_convert dcm 'Mosaic' 2 mgz
I did not. You should have had an opportunity to enter an email address of the recipient. You can use my email
On 12/5/16 6:35 PM, Marianna Riello wrote:
I uploaded the dicom mosaic on Martinos Center. I am wondering whether you received it....
-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Douglas N Greve Sent: Monday, December 5, 2016 12:13 PM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] mri_convert dcm 'Mosaic' 2 mgz
Can you upload the dicoms to https://gate.nmr.mgh.harvard.edu/filedrop2
On 12/05/2016 12:09 PM, Marianna Riello wrote:
Dear all,
Thank you. I tried but still is showing the same error (check 2Error attachment) Do you have any other suggestions?
Thanks in advance, Marianna
-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Douglas N Greve Sent: Monday, December 5, 2016 12:00 PM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] mri_convert dcm 'Mosaic' 2 mgz
Try not including the "-it dicom" arg and see if that works
On 12/05/2016 10:01 AM, Marianna Riello wrote:
Dear all again,
Thanks for your reply. Please check the error attached when trying to convert the DICOM Mosaic in .mgz file when using mri_convert.
Thanks in advance, Marianna
-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Douglas N Greve Sent: Friday, December 2, 2016 12:17 PM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] mri_convert dcm 'Mosaic' 2 mgz
It will handle mosaics (as the mosaics that fMRI data will come in). Hard to say what is going on without more specifics (command line, terminal output)
On 12/02/2016 10:26 AM, Marianna Riello wrote:
Dear all,
I am wondering whether mri_convert can compute .mgz files for the reconstructions with the 'Mosaic Format SIEMENS DICOM files'.
I have been computing .mgz with the enhanced format .dcm so far, and it always worked.
I have used mri_convert to compute .mgz from .nii (I previously transformed the mosaic .dcm format in nifti with mricron but the reconstruction failed)
Thanks in advance,
Marianna
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
-- 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: 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 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.
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: 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 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
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.
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
This file is missing critical information. Did this come directly from your scanner or was it changed in some way (eg, anonymized)?
On 12/06/2016 10:32 AM, Marianna Riello wrote:
Yes I did it, I used your mail but it gives me an error. Check attachment.
-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Douglas Greve Sent: Tuesday, December 6, 2016 10:23 AM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] mri_convert dcm 'Mosaic' 2 mgz
I did not. You should have had an opportunity to enter an email address of the recipient. You can use my email
On 12/5/16 6:35 PM, Marianna Riello wrote:
I uploaded the dicom mosaic on Martinos Center. I am wondering whether you received it....
-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Douglas N Greve Sent: Monday, December 5, 2016 12:13 PM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] mri_convert dcm 'Mosaic' 2 mgz
Can you upload the dicoms to https://gate.nmr.mgh.harvard.edu/filedrop2
On 12/05/2016 12:09 PM, Marianna Riello wrote:
Dear all,
Thank you. I tried but still is showing the same error (check 2Error attachment) Do you have any other suggestions?
Thanks in advance, Marianna
-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Douglas N Greve Sent: Monday, December 5, 2016 12:00 PM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] mri_convert dcm 'Mosaic' 2 mgz
Try not including the "-it dicom" arg and see if that works
On 12/05/2016 10:01 AM, Marianna Riello wrote:
Dear all again,
Thanks for your reply. Please check the error attached when trying to convert the DICOM Mosaic in .mgz file when using mri_convert.
Thanks in advance, Marianna
-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Douglas N Greve Sent: Friday, December 2, 2016 12:17 PM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] mri_convert dcm 'Mosaic' 2 mgz
It will handle mosaics (as the mosaics that fMRI data will come in). Hard to say what is going on without more specifics (command line, terminal output)
On 12/02/2016 10:26 AM, Marianna Riello wrote:
Dear all,
I am wondering whether mri_convert can compute .mgz files for the reconstructions with the 'Mosaic Format SIEMENS DICOM files'.
I have been computing .mgz with the enhanced format .dcm so far, and it always worked.
I have used mri_convert to compute .mgz from .nii (I previously transformed the mosaic .dcm format in nifti with mricron but the reconstruction failed)
Thanks in advance,
Marianna
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
-- 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: 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 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.
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: 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 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
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
Yeah they do not come directly from the scanner. They are anonymized. The same were the enhanced version of the dicom (with 170 files per dicom) but these in particular didn't show any error with mri_convert. So why should these mosaic ones show the error?
Thanks, Marianna
-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Douglas N Greve Sent: Tuesday, December 6, 2016 12:59 PM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] mri_convert dcm 'Mosaic' 2 mgz
This file is missing critical information. Did this come directly from your scanner or was it changed in some way (eg, anonymized)?
On 12/06/2016 10:32 AM, Marianna Riello wrote:
Yes I did it, I used your mail but it gives me an error. Check attachment.
-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Douglas Greve Sent: Tuesday, December 6, 2016 10:23 AM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] mri_convert dcm 'Mosaic' 2 mgz
I did not. You should have had an opportunity to enter an email address of the recipient. You can use my email
On 12/5/16 6:35 PM, Marianna Riello wrote:
I uploaded the dicom mosaic on Martinos Center. I am wondering whether you received it....
-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Douglas N Greve Sent: Monday, December 5, 2016 12:13 PM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] mri_convert dcm 'Mosaic' 2 mgz
Can you upload the dicoms to https://gate.nmr.mgh.harvard.edu/filedrop2
On 12/05/2016 12:09 PM, Marianna Riello wrote:
Dear all,
Thank you. I tried but still is showing the same error (check 2Error attachment) Do you have any other suggestions?
Thanks in advance, Marianna
-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Douglas N Greve Sent: Monday, December 5, 2016 12:00 PM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] mri_convert dcm 'Mosaic' 2 mgz
Try not including the "-it dicom" arg and see if that works
On 12/05/2016 10:01 AM, Marianna Riello wrote:
Dear all again,
Thanks for your reply. Please check the error attached when trying to convert the DICOM Mosaic in .mgz file when using mri_convert.
Thanks in advance, Marianna
-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Douglas N Greve Sent: Friday, December 2, 2016 12:17 PM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] mri_convert dcm 'Mosaic' 2 mgz
It will handle mosaics (as the mosaics that fMRI data will come in). Hard to say what is going on without more specifics (command line, terminal output)
On 12/02/2016 10:26 AM, Marianna Riello wrote:
Dear all,
I am wondering whether mri_convert can compute .mgz files for the reconstructions with the 'Mosaic Format SIEMENS DICOM files'.
I have been computing .mgz with the enhanced format .dcm so far, and it always worked.
I have used mri_convert to compute .mgz from .nii (I previously transformed the mosaic .dcm format in nifti with mricron but the reconstruction failed)
Thanks in advance,
Marianna
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
-- 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: 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 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.
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: 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 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
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
Not sure. This one did not look like a mosaic (it had 256x256 voxels). Can you run it without anonymization?
On 12/06/2016 01:40 PM, Marianna Riello wrote:
Yeah they do not come directly from the scanner. They are anonymized. The same were the enhanced version of the dicom (with 170 files per dicom) but these in particular didn't show any error with mri_convert. So why should these mosaic ones show the error?
Thanks, Marianna
-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Douglas N Greve Sent: Tuesday, December 6, 2016 12:59 PM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] mri_convert dcm 'Mosaic' 2 mgz
This file is missing critical information. Did this come directly from your scanner or was it changed in some way (eg, anonymized)?
On 12/06/2016 10:32 AM, Marianna Riello wrote:
Yes I did it, I used your mail but it gives me an error. Check attachment.
-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Douglas Greve Sent: Tuesday, December 6, 2016 10:23 AM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] mri_convert dcm 'Mosaic' 2 mgz
I did not. You should have had an opportunity to enter an email address of the recipient. You can use my email
On 12/5/16 6:35 PM, Marianna Riello wrote:
I uploaded the dicom mosaic on Martinos Center. I am wondering whether you received it....
-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Douglas N Greve Sent: Monday, December 5, 2016 12:13 PM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] mri_convert dcm 'Mosaic' 2 mgz
Can you upload the dicoms to https://gate.nmr.mgh.harvard.edu/filedrop2
On 12/05/2016 12:09 PM, Marianna Riello wrote:
Dear all,
Thank you. I tried but still is showing the same error (check 2Error attachment) Do you have any other suggestions?
Thanks in advance, Marianna
-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Douglas N Greve Sent: Monday, December 5, 2016 12:00 PM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] mri_convert dcm 'Mosaic' 2 mgz
Try not including the "-it dicom" arg and see if that works
On 12/05/2016 10:01 AM, Marianna Riello wrote:
Dear all again,
Thanks for your reply. Please check the error attached when trying to convert the DICOM Mosaic in .mgz file when using mri_convert.
Thanks in advance, Marianna
-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Douglas N Greve Sent: Friday, December 2, 2016 12:17 PM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] mri_convert dcm 'Mosaic' 2 mgz
It will handle mosaics (as the mosaics that fMRI data will come in). Hard to say what is going on without more specifics (command line, terminal output)
On 12/02/2016 10:26 AM, Marianna Riello wrote:
Dear all,
I am wondering whether mri_convert can compute .mgz files for the reconstructions with the 'Mosaic Format SIEMENS DICOM files'.
I have been computing .mgz with the enhanced format .dcm so far, and it always worked.
I have used mri_convert to compute .mgz from .nii (I previously transformed the mosaic .dcm format in nifti with mricron but the reconstruction failed)
Thanks in advance,
Marianna
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
-- 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: 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 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.
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: 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 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
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
Dear FS users,
No I can't run it without anonymization. Anyway, I do not know if this can be of any help but here attached you can see the error that stopped the reconstruction when I tried to run the nifti version of the "mosaic' dicom; I transformed the dmc2nii with MRIcron.
Thanks, Marianna
-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Douglas N Greve Sent: Tuesday, December 6, 2016 2:04 PM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] mri_convert dcm 'Mosaic' 2 mgz
Not sure. This one did not look like a mosaic (it had 256x256 voxels). Can you run it without anonymization?
On 12/06/2016 01:40 PM, Marianna Riello wrote:
Yeah they do not come directly from the scanner. They are anonymized. The same were the enhanced version of the dicom (with 170 files per dicom) but these in particular didn't show any error with mri_convert. So why should these mosaic ones show the error?
Thanks, Marianna
-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Douglas N Greve Sent: Tuesday, December 6, 2016 12:59 PM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] mri_convert dcm 'Mosaic' 2 mgz
This file is missing critical information. Did this come directly from your scanner or was it changed in some way (eg, anonymized)?
On 12/06/2016 10:32 AM, Marianna Riello wrote:
Yes I did it, I used your mail but it gives me an error. Check attachment.
-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Douglas Greve Sent: Tuesday, December 6, 2016 10:23 AM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] mri_convert dcm 'Mosaic' 2 mgz
I did not. You should have had an opportunity to enter an email address of the recipient. You can use my email
On 12/5/16 6:35 PM, Marianna Riello wrote:
I uploaded the dicom mosaic on Martinos Center. I am wondering whether you received it....
-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Douglas N Greve Sent: Monday, December 5, 2016 12:13 PM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] mri_convert dcm 'Mosaic' 2 mgz
Can you upload the dicoms to https://gate.nmr.mgh.harvard.edu/filedrop2
On 12/05/2016 12:09 PM, Marianna Riello wrote:
Dear all,
Thank you. I tried but still is showing the same error (check 2Error attachment) Do you have any other suggestions?
Thanks in advance, Marianna
-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Douglas N Greve Sent: Monday, December 5, 2016 12:00 PM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] mri_convert dcm 'Mosaic' 2 mgz
Try not including the "-it dicom" arg and see if that works
On 12/05/2016 10:01 AM, Marianna Riello wrote:
Dear all again,
Thanks for your reply. Please check the error attached when trying to convert the DICOM Mosaic in .mgz file when using mri_convert.
Thanks in advance, Marianna
-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Douglas N Greve Sent: Friday, December 2, 2016 12:17 PM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] mri_convert dcm 'Mosaic' 2 mgz
It will handle mosaics (as the mosaics that fMRI data will come in). Hard to say what is going on without more specifics (command line, terminal output)
On 12/02/2016 10:26 AM, Marianna Riello wrote:
Dear all,
I am wondering whether mri_convert can compute .mgz files for the reconstructions with the 'Mosaic Format SIEMENS DICOM files'.
I have been computing .mgz with the enhanced format .dcm so far, and it always worked.
I have used mri_convert to compute .mgz from .nii (I previously transformed the mosaic .dcm format in nifti with mricron but the reconstruction failed)
Thanks in advance,
Marianna
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
-- 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: 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 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.
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: 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 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
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
-- 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: 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 Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Dear FS users,
No I can't run it without anonymization. Anyway, I do not know if this can be of any help but here attached you can see the error that stopped the reconstruction when I tried to run the nifti version of the "mosaic' dicom; I transformed the dmc2nii with MRIcron.
Thanks, Marianna
-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Douglas N Greve Sent: Tuesday, December 6, 2016 2:04 PM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] mri_convert dcm 'Mosaic' 2 mgz
Not sure. This one did not look like a mosaic (it had 256x256 voxels). Can you run it without anonymization?
On 12/06/2016 01:40 PM, Marianna Riello wrote:
Yeah they do not come directly from the scanner. They are anonymized. The same were the enhanced version of the dicom (with 170 files per dicom) but these in particular didn't show any error with mri_convert. So why should these mosaic ones show the error?
Thanks, Marianna
-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Douglas N Greve Sent: Tuesday, December 6, 2016 12:59 PM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] mri_convert dcm 'Mosaic' 2 mgz
This file is missing critical information. Did this come directly from your scanner or was it changed in some way (eg, anonymized)?
On 12/06/2016 10:32 AM, Marianna Riello wrote:
Yes I did it, I used your mail but it gives me an error. Check attachment.
-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Douglas Greve Sent: Tuesday, December 6, 2016 10:23 AM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] mri_convert dcm 'Mosaic' 2 mgz
I did not. You should have had an opportunity to enter an email address of the recipient. You can use my email
On 12/5/16 6:35 PM, Marianna Riello wrote:
I uploaded the dicom mosaic on Martinos Center. I am wondering whether you received it....
-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Douglas N Greve Sent: Monday, December 5, 2016 12:13 PM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] mri_convert dcm 'Mosaic' 2 mgz
Can you upload the dicoms to https://gate.nmr.mgh.harvard.edu/filedrop2
On 12/05/2016 12:09 PM, Marianna Riello wrote:
Dear all,
Thank you. I tried but still is showing the same error (check 2Error attachment) Do you have any other suggestions?
Thanks in advance, Marianna
-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Douglas N Greve Sent: Monday, December 5, 2016 12:00 PM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] mri_convert dcm 'Mosaic' 2 mgz
Try not including the "-it dicom" arg and see if that works
On 12/05/2016 10:01 AM, Marianna Riello wrote:
Dear all again,
Thanks for your reply. Please check the error attached when trying to convert the DICOM Mosaic in .mgz file when using mri_convert.
Thanks in advance, Marianna
-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Douglas N Greve Sent: Friday, December 2, 2016 12:17 PM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] mri_convert dcm 'Mosaic' 2 mgz
It will handle mosaics (as the mosaics that fMRI data will come in). Hard to say what is going on without more specifics (command line, terminal output)
On 12/02/2016 10:26 AM, Marianna Riello wrote:
Dear all,
I am wondering whether mri_convert can compute .mgz files for the reconstructions with the 'Mosaic Format SIEMENS DICOM files'.
I have been computing .mgz with the enhanced format .dcm so far, and it always worked.
I have used mri_convert to compute .mgz from .nii (I previously transformed the mosaic .dcm format in nifti with mricron but the reconstruction failed)
Thanks in advance,
Marianna
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
-- 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: 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 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.
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: 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 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
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
-- 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: 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 Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
sorry, if it has lost critical parameters, then we can't recover from it.
On 12/07/2016 01:20 PM, Marianna Riello wrote:
Dear FS users,
No I can't run it without anonymization. Anyway, I do not know if this can be of any help but here attached you can see the error that stopped the reconstruction when I tried to run the nifti version of the "mosaic' dicom; I transformed the dmc2nii with MRIcron.
Thanks, Marianna
-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Douglas N Greve Sent: Tuesday, December 6, 2016 2:04 PM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] mri_convert dcm 'Mosaic' 2 mgz
Not sure. This one did not look like a mosaic (it had 256x256 voxels). Can you run it without anonymization?
On 12/06/2016 01:40 PM, Marianna Riello wrote:
Yeah they do not come directly from the scanner. They are anonymized. The same were the enhanced version of the dicom (with 170 files per dicom) but these in particular didn't show any error with mri_convert. So why should these mosaic ones show the error?
Thanks, Marianna
-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Douglas N Greve Sent: Tuesday, December 6, 2016 12:59 PM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] mri_convert dcm 'Mosaic' 2 mgz
This file is missing critical information. Did this come directly from your scanner or was it changed in some way (eg, anonymized)?
On 12/06/2016 10:32 AM, Marianna Riello wrote:
Yes I did it, I used your mail but it gives me an error. Check attachment.
-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Douglas Greve Sent: Tuesday, December 6, 2016 10:23 AM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] mri_convert dcm 'Mosaic' 2 mgz
I did not. You should have had an opportunity to enter an email address of the recipient. You can use my email
On 12/5/16 6:35 PM, Marianna Riello wrote:
I uploaded the dicom mosaic on Martinos Center. I am wondering whether you received it....
-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Douglas N Greve Sent: Monday, December 5, 2016 12:13 PM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] mri_convert dcm 'Mosaic' 2 mgz
Can you upload the dicoms to https://gate.nmr.mgh.harvard.edu/filedrop2
On 12/05/2016 12:09 PM, Marianna Riello wrote:
Dear all,
Thank you. I tried but still is showing the same error (check 2Error attachment) Do you have any other suggestions?
Thanks in advance, Marianna
-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Douglas N Greve Sent: Monday, December 5, 2016 12:00 PM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] mri_convert dcm 'Mosaic' 2 mgz
Try not including the "-it dicom" arg and see if that works
On 12/05/2016 10:01 AM, Marianna Riello wrote:
Dear all again,
Thanks for your reply. Please check the error attached when trying to convert the DICOM Mosaic in .mgz file when using mri_convert.
Thanks in advance, Marianna
-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Douglas N Greve Sent: Friday, December 2, 2016 12:17 PM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] mri_convert dcm 'Mosaic' 2 mgz
It will handle mosaics (as the mosaics that fMRI data will come in). Hard to say what is going on without more specifics (command line, terminal output)
On 12/02/2016 10:26 AM, Marianna Riello wrote: > Dear all, > > I am wondering whether mri_convert can compute .mgz files for the > reconstructions with the 'Mosaic Format SIEMENS DICOM files'. > > I have been computing .mgz with the enhanced format .dcm so far, > and it always worked. > > I have used mri_convert to compute .mgz from .nii (I previously > transformed the mosaic .dcm format in nifti with mricron but the > reconstruction failed) > > Thanks in advance, > > Marianna > > > > _______________________________________________ > 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
-- 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: 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 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.
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: 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 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
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
-- 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: 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 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
freesurfer@nmr.mgh.harvard.edu
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dgw -
Douglas Greve -
Douglas N Greve
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Marianna Riello