Your attachment says that none of the commands could be found. Make sure
you set up your environment correctly
On 5/20/19 4:53 AM, mustafa amin wrote:
>
> External Email - Use Caution
>
> Hi Bruce,
>
> Thank you for your swift response as always, may I know how to convert
> the more than
Hi Mustafa
I believe I did:
mri_convert -it dicom IMAGE001 mprage.mgz
recon-all -i mprage.mgz -sd -s -all
you can give it any *single* image in the correct series (don't give it
more than one)
cheers
Bruce
On Mon, 20 May 2019, mustafa amin wrote:
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Hi Bruce,
Thank you for your swift response as always, may I know how to convert the more
than 100 DICOM files to mgz or nifti? I noticed that the command is for 1
file/image, please correct me if I am wrong. The MP-RAGE file that I sent you
is mor
Hi Mustafa
1. Your mprage ran through recon-all fine and the results look good. The
saggital field of view is tight, so make sure that they don't crop brain in
that direction.
2. Your recon-all command line is incorrect. You should point the
SUBJECTS_DIR environment variable to whereever you
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Hi Bruce,
Herewith I attach within the email the command that didn't work when I wanted
to reconall. Please have a look. What about the previous dicom that I have sent
to you? Please share some thoughts.Thank you very much.
Yours faithfully,
Mustaf
Hi Mustafa
can you give us some detials? What didn't work? Can you send us the full
command line, screen output and recon-all.log?
cheers
Bruce
On Thu, 16 May 2019, mustafa amin wrote:
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Hi Douglas,
I tried to follow the instruction to recon-al
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Hi Douglas,
I tried to follow the instruction to recon-all the data however it didn't work.
Please give some thoughts. Thank you in advance.
Yours faithfully,
Mustafa
Pada Rabu, 17 April 2019 01.02.12 WIB, Greve, Douglas N.,Ph.D.
menulis:
H
Hi Mustafa, why not just run recon-all on the data you have and see
whether it looks ok?
On 4/15/19 7:06 AM, mustafa amin wrote:
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>
> Hi Bruce,
>
> I’ve talked to the MRI operator and she told me that the best thing to do the
> MP-RAGE protocol is doing the
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Hi Bruce,
I’ve talked to the MRI operator and she told me that the best thing to do the
MP-RAGE protocol is doing the T1 weighted 3D gradient echo with SENSE, she
can’t set the TE, TR, TI just like the ADNI protocol asked, though. She can set
the th
Hi Mustafa
MRI is an amazingly versatile technology that can be messed up in an
astonishing number of ways. By far the best thing to do would be to acquire
a dataset and run it through recon-all and see if the results look
accurate. If you have permission to do so, you are welcome to acquire on
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Dear Freesurfer experts,
I need advice, the MRI operator need to confirm whether she had done the right
protocol of MP-RAGE. I have attached the picture that has been taken by her.
Please share some thoughts. Thank you in advance.
Yours faithfully
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