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A lack of traceback makes it difficult to see where the error is occurring, but I believe the issue is that you're passing a numpy array to a nilearn function that expects an image.
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<div id="divRplyFwdMsg" dir="ltr"><font face="Calibri, sans-serif" style="font-size:11pt" color="#000000"><b>From:</b> Neuroimaging <neuroimaging-bounces+markiewicz=stanford.edu@python.org> on behalf of נתי שטרן <nsh531@gmail.com><br>
<b>Sent:</b> Friday, July 8, 2022 9:38:57 AM<br>
<b>To:</b> Neuroimaging analysis in Python <neuroimaging@python.org><br>
<b>Subject:</b> Re: [Neuroimaging] NILEARN - WHY THIS CODE THROWS AN ERROR?????</font>
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<div dir="ltr">it's a fullpath to nifti image </div>
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<div dir="rtl" class="x_gmail_attr">בתאריך יום ו׳, 8 ביולי 2022 ב-16:27 מאת Matthew Brett <<a href="mailto:matthew.brett@gmail.com">matthew.brett@gmail.com</a>>:<br>
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<blockquote class="x_gmail_quote" style="margin:0px 0px 0px 0.8ex; border-left:1px solid rgb(204,204,204); padding-left:1ex">
Hi,<br>
<br>
On Fri, Jul 8, 2022 at 2:05 PM נתי שטרן <<a href="mailto:nsh531@gmail.com" target="_blank">nsh531@gmail.com</a>> wrote:<br>
><br>
> fullcode:<br>
><br>
><br>
><br>
> import nilearn.plotting as plot<br>
> import os,gzip,io<br>
> import nibabel as nib<br>
> path="C:/users/administrator/desktop/nii"<br>
> path2="C:/users/administrator/desktop/nii/out/"<br>
> for i in os.listdir(path):<br>
> if(".nii.gz" in i):<br>
> pass<br>
> else:<br>
><br>
> if(".nii" in i):<br>
> img = nib.load(path+"/"+i)<br>
> data = img.get_fdata()<br>
> print(data)<br>
> import imageio<br>
> X=0<br>
> for s in data:<br>
> import numpy<br>
> aleph=numpy.array(s,dtype=numpy.int8)<br>
> X=X+1<br>
> plot.plot_img(aleph)<br>
><br>
> imageio.imwrite("C:\\users\\administrator\\desktop\\nii\\"+i+str(X)+'.jpg', s)<br>
><br>
><br>
><br>
><br>
><br>
><br>
> error:<br>
> Data given cannot be loaded because it is not compatible with nibabel format<br>
<br>
Honestly - I wouldn't email python-list - this is a neuroimaging question.<br>
<br>
The obvious debugging step here is to see what "path+"/"+i" is. Is it<br>
in fact a filename of a nifti image? Try loading it in some other<br>
Nifti reader. If you get stuck, put the file up somewhere where we<br>
can get it and try loading it.<br>
<br>
Cheers,<br>
<br>
Matthew<br>
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