Hello to everyone! Hope the new month is bringing better weather to all of you.
I am trying to load new data. I cd-d to the location of the files (.hdr and .img). Now I am trying to convert the data. It doesn't recognise the information. I've manually created the files JS, MRI, and Orig within to allocate an appropriate path for it. Here is a copy of what I did. Please let me knwo what I need to do.
Thank you!
s0964091@CRIC-0012:~/Desktop/Newdata/RAW_DATA$ cd 1_1 s0964091@CRIC-0012:~/Desktop/Newdata/RAW_DATA/1_1$ mri_convert /Desktop/Newdata/RAW_DATA/1_1 /Desktop/Newdata/JS mri_convert /Desktop/Newdata/RAW_DATA/1_1 /Desktop/Newdata/JS mri_convert: can't determine type of output volume s0964091@CRIC-0012:~/Desktop/Newdata/RAW_DATA/1_1$ mri_convert /Desktop/Newdata/RAW_DATA/1_1 /Desktop/Newdata/JS/001.mgz mri_convert /Desktop/Newdata/RAW_DATA/1_1 /Desktop/Newdata/JS/001.mgz file not found or unknown file type for file /Desktop/Newdata/RAW_DATA/1_1 s0964091@CRIC-0012:~/Desktop/Newdata/RAW_DATA/1_1$ mri_convert /Desktop/Newdata/RAW_DATA/1_1 /Desktop/Newdata/JS/mri/orig/001.mgz mri_convert /Desktop/Newdata/RAW_DATA/1_1 /Desktop/Newdata/JS/mri/orig/001.mgz file not found or unknown file type for file /Desktop/Newdata/RAW_DATA/1_1
did you try giving it the .img file as input and the .mgz as output?
On Tue, 2 Mar 2010, Janani Dhinakaran wrote:
Hello to everyone! Hope the new month is bringing better weather to all of you.
I am trying to load new data. I cd-d to the location of the files (.hdr and .img). Now I am trying to convert the data. It doesn't recognise the information. I've manually created the files JS, MRI, and Orig within to allocate an appropriate path for it. Here is a copy of what I did. Please let me knwo what I need to do.
Thank you!
s0964091@CRIC-0012:~/Desktop/Newdata/RAW_DATA$ cd 1_1 s0964091@CRIC-0012:~/Desktop/Newdata/RAW_DATA/1_1$ mri_convert /Desktop/Newdata/RAW_DATA/1_1 /Desktop/Newdata/JS mri_convert /Desktop/Newdata/RAW_DATA/1_1 /Desktop/Newdata/JS mri_convert: can't determine type of output volume s0964091@CRIC-0012:~/Desktop/Newdata/RAW_DATA/1_1$ mri_convert /Desktop/Newdata/RAW_DATA/1_1 /Desktop/Newdata/JS/001.mgz mri_convert /Desktop/Newdata/RAW_DATA/1_1 /Desktop/Newdata/JS/001.mgz file not found or unknown file type for file /Desktop/Newdata/RAW_DATA/1_1 s0964091@CRIC-0012:~/Desktop/Newdata/RAW_DATA/1_1$ mri_convert /Desktop/Newdata/RAW_DATA/1_1 /Desktop/Newdata/JS/mri/orig/001.mgz mri_convert /Desktop/Newdata/RAW_DATA/1_1 /Desktop/Newdata/JS/mri/orig/001.mgz file not found or unknown file type for file /Desktop/Newdata/RAW_DATA/1_1
Yes, just did. This is what I got.
s0964091@CRIC-0012:~/Desktop/Newdata/RAW_DATA/1_1$ mri_convert Desktop/Newdata/RAW_DATA/1_1/******^******_1_1_1.img Desktop/Newdata/JS/mri/orig/001.mgz mri_convert Desktop/Newdata/RAW_DATA/1_1/******^******_1_1_1.img Desktop/Newdata/JS/mri/orig/001.mgz $Id: mri_convert.c,v 1.146.2.5 2009/04/08 18:40:23 nicks Exp $ reading from Desktop/Newdata/RAW_DATA/1_1/*******^******_1_1_1.img... ERROR: analyzeRead(): cannot find any files for Desktop/Newdata/RAW_DATA/1_1/*******^******_1_1_1.img
Jan
On 2 March 2010 15:59, Bruce Fischl fischl@nmr.mgh.harvard.edu wrote:
did you try giving it the .img file as input and the .mgz as output?
On Tue, 2 Mar 2010, Janani Dhinakaran wrote:
Hello to everyone!
Hope the new month is bringing better weather to all of you.
I am trying to load new data. I cd-d to the location of the files (.hdr and .img). Now I am trying to convert the data. It doesn't recognise the information. I've manually created the files JS, MRI, and Orig within to allocate an appropriate path for it. Here is a copy of what I did. Please let me knwo what I need to do.
Thank you!
s0964091@CRIC-0012:~/Desktop/Newdata/RAW_DATA$ cd 1_1 s0964091@CRIC-0012:~/Desktop/Newdata/RAW_DATA/1_1$ mri_convert /Desktop/Newdata/RAW_DATA/1_1 /Desktop/Newdata/JS mri_convert /Desktop/Newdata/RAW_DATA/1_1 /Desktop/Newdata/JS mri_convert: can't determine type of output volume s0964091@CRIC-0012:~/Desktop/Newdata/RAW_DATA/1_1$ mri_convert /Desktop/Newdata/RAW_DATA/1_1 /Desktop/Newdata/JS/001.mgz mri_convert /Desktop/Newdata/RAW_DATA/1_1 /Desktop/Newdata/JS/001.mgz file not found or unknown file type for file /Desktop/Newdata/RAW_DATA/1_1 s0964091@CRIC-0012:~/Desktop/Newdata/RAW_DATA/1_1$ mri_convert /Desktop/Newdata/RAW_DATA/1_1 /Desktop/Newdata/JS/mri/orig/001.mgz mri_convert /Desktop/Newdata/RAW_DATA/1_1 /Desktop/Newdata/JS/mri/orig/001.mgz file not found or unknown file type for file /Desktop/Newdata/RAW_DATA/1_1
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are there really all those '*'s in the name? And the ^? Those are probably messing things up.
On Tue, 2 Mar 2010, Janani Dhinakaran wrote:
Yes, just did. This is what I got.
s0964091@CRIC-0012:~/Desktop/Newdata/RAW_DATA/1_1$ mri_convert Desktop/Newdata/RAW_DATA/1_1/******^******_1_1_1.img Desktop/Newdata/JS/mri/orig/001.mgz mri_convert Desktop/Newdata/RAW_DATA/1_1/******^******_1_1_1.img Desktop/Newdata/JS/mri/orig/001.mgz $Id: mri_convert.c,v 1.146.2.5 2009/04/08 18:40:23 nicks Exp $ reading from Desktop/Newdata/RAW_DATA/1_1/*******^******_1_1_1.img... ERROR: analyzeRead(): cannot find any files for Desktop/Newdata/RAW_DATA/1_1/*******^******_1_1_1.img
Jan
On 2 March 2010 15:59, Bruce Fischl fischl@nmr.mgh.harvard.edu wrote:
did you try giving it the .img file as input and the .mgz as output?
On Tue, 2 Mar 2010, Janani Dhinakaran wrote:
Hello to everyone!
Hope the new month is bringing better weather to all of you.
I am trying to load new data. I cd-d to the location of the files (.hdr and .img). Now I am trying to convert the data. It doesn't recognise the information. I've manually created the files JS, MRI, and Orig within to allocate an appropriate path for it. Here is a copy of what I did. Please let me knwo what I need to do.
Thank you!
s0964091@CRIC-0012:~/Desktop/Newdata/RAW_DATA$ cd 1_1 s0964091@CRIC-0012:~/Desktop/Newdata/RAW_DATA/1_1$ mri_convert /Desktop/Newdata/RAW_DATA/1_1 /Desktop/Newdata/JS mri_convert /Desktop/Newdata/RAW_DATA/1_1 /Desktop/Newdata/JS mri_convert: can't determine type of output volume s0964091@CRIC-0012:~/Desktop/Newdata/RAW_DATA/1_1$ mri_convert /Desktop/Newdata/RAW_DATA/1_1 /Desktop/Newdata/JS/001.mgz mri_convert /Desktop/Newdata/RAW_DATA/1_1 /Desktop/Newdata/JS/001.mgz file not found or unknown file type for file /Desktop/Newdata/RAW_DATA/1_1 s0964091@CRIC-0012:~/Desktop/Newdata/RAW_DATA/1_1$ mri_convert /Desktop/Newdata/RAW_DATA/1_1 /Desktop/Newdata/JS/mri/orig/001.mgz mri_convert /Desktop/Newdata/RAW_DATA/1_1 /Desktop/Newdata/JS/mri/orig/001.mgz file not found or unknown file type for file /Desktop/Newdata/RAW_DATA/1_1
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@nmr.mgh.harvard.edu
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Bruce Fischl -
Janani Dhinakaran