Re: [Freesurfer] dt_recon error for Siemens mosaics image
It is looking for information in the Siemens "ascii header". This is a bit of ascii text that gets stored in a private field in the dicom, but because it is ascii we can just parse the file. It uses this information to determine the size of the mosaic. doug On 02/12/2014 12:23 PM, Gennan Chen wrote: > Possible. Can you give me DICOM tag/tags the program looks for?? > > Gen > > -Original Message- > From: freesurfer-boun...@nmr.mgh.harvard.edu > [mailto:freesurfer-boun...@nmr.mgh.harvard.edu] On Behalf Of Douglas N Greve > Sent: Wednesday, February 12, 2014 8:24 AM > To: freesurfer@nmr.mgh.harvard.edu > Subject: Re: [Freesurfer] dt_recon error for Siemens mosaics image > > has it been anonymized? > > On 02/11/2014 02:23 PM, Gennan Chen wrote: >> HI! All, >> >> I got an error when I ran dt_recon >> >> WARNING: file /Users/gnchen/tmp/3011_DTI/orig/MR01.dcm does not >> contain a Siemens ASCII header >> >> has this file been anonymized? >> >> ERROR: cannot unpack mosiacs without ASCII header >> >> >> I can confirm it is Siemens mosaics format. Any idea how to by pass >> this?? >> >> >> -- >> Gennan Chen >> >> >> -- >> -- This email message is for the sole use of the intended recipient(s) >> and may contain confidential and privileged information. Any >> unauthorized review, use, disclosure or distribution is prohibited. If >> you are not the intended recipient, please contact the sender by reply >> email and destroy all copies of the original message. If you are the >> intended recipient, please be advised that the content of this message >> is subject to access, review and disclosure by the sender's Email >> System Administrator >> >> >> ___ >> 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 > gr...@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. > > > This email message is for the sole use of the intended recipient(s) and may > contain confidential and privileged information. Any unauthorized review, > use, disclosure or distribution is prohibited. If you are not the intended > recipient, please contact the sender by reply email and destroy all copies of > the original message. If you are the intended recipient, please be advised > that the content of this message is subject to access, review and disclosure > by the sender's Email System Administrator > > -- Douglas N. Greve, Ph.D. MGH-NMR Center gr...@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
Re: [Freesurfer] dt_recon error for Siemens mosaics image
Possible. Can you give me DICOM tag/tags the program looks for?? Gen -Original Message- From: freesurfer-boun...@nmr.mgh.harvard.edu [mailto:freesurfer-boun...@nmr.mgh.harvard.edu] On Behalf Of Douglas N Greve Sent: Wednesday, February 12, 2014 8:24 AM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] dt_recon error for Siemens mosaics image has it been anonymized? On 02/11/2014 02:23 PM, Gennan Chen wrote: > HI! All, > > I got an error when I ran dt_recon > > WARNING: file /Users/gnchen/tmp/3011_DTI/orig/MR01.dcm does not > contain a Siemens ASCII header > > has this file been anonymized? > > ERROR: cannot unpack mosiacs without ASCII header > > > I can confirm it is Siemens mosaics format. Any idea how to by pass > this?? > > > -- > Gennan Chen > > > -- > -- This email message is for the sole use of the intended recipient(s) > and may contain confidential and privileged information. Any > unauthorized review, use, disclosure or distribution is prohibited. If > you are not the intended recipient, please contact the sender by reply > email and destroy all copies of the original message. If you are the > intended recipient, please be advised that the content of this message > is subject to access, review and disclosure by the sender's Email > System Administrator > > > ___ > 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 gr...@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. This email message is for the sole use of the intended recipient(s) and may contain confidential and privileged information. Any unauthorized review, use, disclosure or distribution is prohibited. If you are not the intended recipient, please contact the sender by reply email and destroy all copies of the original message. If you are the intended recipient, please be advised that the content of this message is subject to access, review and disclosure by the sender's Email System Administrator ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Re: [Freesurfer] dt_recon error for Siemens mosaics image
has it been anonymized? On 02/11/2014 02:23 PM, Gennan Chen wrote: > HI! All, > > I got an error when I ran dt_recon > > WARNING: file /Users/gnchen/tmp/3011_DTI/orig/MR01.dcm does not > contain a Siemens ASCII header > > has this file been anonymized? > > ERROR: cannot unpack mosiacs without ASCII header > > > I can confirm it is Siemens mosaics format. Any idea how to by pass > this?? > > > -- > Gennan Chen > > > > This email message is for the sole use of the intended recipient(s) > and may contain confidential and privileged information. Any > unauthorized review, use, disclosure or distribution is prohibited. If > you are not the intended recipient, please contact the sender by reply > email and destroy all copies of the original message. If you are the > intended recipient, please be advised that the content of this message > is subject to access, review and disclosure by the sender's Email > System Administrator > > > ___ > 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 gr...@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] dt_recon error for Siemens mosaics image
HI! All, I got an error when I ran dt_recon WARNING: file /Users/gnchen/tmp/3011_DTI/orig/MR01.dcm does not contain a Siemens ASCII header has this file been anonymized? ERROR: cannot unpack mosiacs without ASCII header I can confirm it is Siemens mosaics format. Any idea how to by pass this?? -- Gennan Chen This email message is for the sole use of the intended recipient(s) and may contain confidential and privileged information. Any unauthorized review, use, disclosure or distribution is prohibited. If you are not the intended recipient, please contact the sender by reply email and destroy all copies of the original message. If you are the intended recipient, please be advised that the content of this message is subject to access, review and disclosure by the sender's Email System Administrator ___ 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.
