Multiple DICOM to NIfTI converter using dcm2nii and AppleScript

dcm2nii is used to convert from DICOM format to various data format such as; 

Compressed 4D NIfTI nii.gz, 4D NIfTI nii, 3D NIfTI hdr/img and 3D Anlyze hdr/img. Or even it modify NIfTI format. There are two versions; the dcm2niigui and command line dcm2nii. This software was written by Dr. Chris Rorden. It can be downloaded with mricron package;
(http://www.cabiatl.com/mricro/mricron/install.html), 

where mac version link is;

http://www.nitrc.org/frs/download.php/1976/mricronmac.zip

For more information about dcm2nii please visit 

http://www.cabiatl.com/mricro/mricron/dcm2nii.html

MAC gui version is user friendly but it can convert one data set at a time. Therefore, I wrote an applescript to convert multiple DICOM data sets to NIfTI/Analyze format at one instance using dcm2nii command.


Click below to download script

Multiple dcm2nii converter

For converting Nifti to Analyze and vice versa please visit the following entry;
http://www.easyneuroimaging.com/2012/01/batching-fsl-tools-and-utilities-using.html

And for splitting compressed or single images please visit the following entry;
http://www.easyneuroimaging.com/2011/12/batching-fsl-tools-and-utilities-using.html




Bash script works on both Linux and MAC.

user needs to copy this script to data directory and execute it from there using chmod +x to make it executable as following;

chmod +x dicom2nii.command or chmod +x dicom2nii.sh 

If you will use dicom2nii.command file copy it to your subjects' directory then execute it using dicom2nii.command. dicom2nii.sh you can do the same thing but you cant double click dicom2nii.sh.

Note: If mricron directory is not **** /Applications/mricronmac ****

Please do not forget to change it in **dicom2nii.command**  or  **dicom2nii.command** using any text editor

Please leave your feedback if you like this tool or a suggestion if you think it needs to be improved!