help > Can't download dcm2nii.exe
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Mar 9, 2022 05:03 PM | Qiushuo Cheng
Can't download dcm2nii.exe
Hi,
I download win.zip, but when I unzip it, there is no dcm2nii.exe.
The same happened in my Linux system, there is no dcm2nii.
What should I do?
Yours,
Qiushuo
I download win.zip, but when I unzip it, there is no dcm2nii.exe.
The same happened in my Linux system, there is no dcm2nii.
What should I do?
Yours,
Qiushuo
Mar 9, 2022 06:03 PM | Chris Rorden
RE: Can't download dcm2nii.exe
When you download a recent version of MRIcron (e.g. v1.0.20190902)
https://www.nitrc.org/frs/?group_id=152
you will notice that it includes an executable dcm2niix in its 'resources' folder. The MRIcron "Import" menu item provides a graphical wrapper for dcm2niix, but you can also run it from the command prompt.
dcm2niix is the modern version of dcm2nii that includes support for BIDS output and enhanced DICOM.
https://github.com/rordenlab/dcm2niix
https://www.nitrc.org/frs/?group_id=152
you will notice that it includes an executable dcm2niix in its 'resources' folder. The MRIcron "Import" menu item provides a graphical wrapper for dcm2niix, but you can also run it from the command prompt.
dcm2niix is the modern version of dcm2nii that includes support for BIDS output and enhanced DICOM.
https://github.com/rordenlab/dcm2niix
Mar 10, 2022 09:03 AM | Qiushuo Cheng
RE: Can't download dcm2nii.exe
Thank you for you timely response!
But I think I need to use dcm2nii, rather dcm2niiX.
When I use dcm2nii, the script report a fault,"Warning: Unable to determine manufacturer (0008,0070), so conversion is not tuned for vendor."
I am trying to reconstruct a Github project on my computer, and they used dcm2nii.
Qiushuo
But I think I need to use dcm2nii, rather dcm2niiX.
When I use dcm2nii, the script report a fault,"Warning: Unable to determine manufacturer (0008,0070), so conversion is not tuned for vendor."
I am trying to reconstruct a Github project on my computer, and they used dcm2nii.
Qiushuo
Mar 10, 2022 01:03 PM | Chris Rorden
RE: Can't download dcm2nii.exe
You can always download an older version of MRIcron that uses
dcm2nii, e.g. the version from 2016:
https://www.nitrc.org/frs/?group_id=152
Regardless of whether you use dcm2niix or dcm2nii, knowing the manufacturer is vital for interpreting the private tags (e.g. 0021,105b refers to Sequence Variant for Siemens data but TaggingFlipAngle for GE data). While both tools MIGHT be able to extract an image, they will have impoverished meta data. You may want to use a tool like gdcmdump to identify your manufacturer and dcmodify to re-instate this crucial information.
https://www.nitrc.org/frs/?group_id=152
Regardless of whether you use dcm2niix or dcm2nii, knowing the manufacturer is vital for interpreting the private tags (e.g. 0021,105b refers to Sequence Variant for Siemens data but TaggingFlipAngle for GE data). While both tools MIGHT be able to extract an image, they will have impoverished meta data. You may want to use a tool like gdcmdump to identify your manufacturer and dcmodify to re-instate this crucial information.
Mar 10, 2022 02:03 PM | Qiushuo Cheng
RE: Can't download dcm2nii.exe
Thank you for you response.
I have downloaded and unzipped every version on the website, however, there is no dcm2nii.exe in any packages.
I have downloaded and unzipped every version on the website, however, there is no dcm2nii.exe in any packages.
Mar 10, 2022 02:03 PM | Qiushuo Cheng
RE: Can't download dcm2nii.exe
There is no 2016 version of MRIcron, either.
Mar 11, 2022 01:03 PM | Chris Rorden
RE: Can't download dcm2nii.exe
Good point, the release was hidden. If you check again you will
find
MRIcron/NPM/dcm2nii 2MAY2016
The project is open source so you can build it yourself.
https://github.com/neurolabusc/MRIcron/tree/master/dcm2nii
Please bear in mind that I have a heavy teaching, service and administration load, and while I am happy my legacy tools have proved popular and robust, I am not in a position to support them. That software was developed before enhanced DICOM was popular, and before the BIDS standard.
MRIcron/NPM/dcm2nii 2MAY2016
The project is open source so you can build it yourself.
https://github.com/neurolabusc/MRIcron/tree/master/dcm2nii
Please bear in mind that I have a heavy teaching, service and administration load, and while I am happy my legacy tools have proved popular and robust, I am not in a position to support them. That software was developed before enhanced DICOM was popular, and before the BIDS standard.