Matt/Michael,
When I run g = gifti, I get g = gifti object 1-by-1. I have confirmed that I
have the correct file paths to the wb_command, however, it seems to duplicate
part of a file path string, which is why it cannot find the file. Is this a
known issue?
This is what I'm running:
y = '/.../.../CM.dtseries.nii';
ciftiFile = ciftiopen(y,'Z:/.../workbench/bin_windows64/wb_command');
CM = ciftiFile.cdata;
and receive the same error:
Error using read_gifti_file_standalone (line 20)
[GIFTI] Loading of XML file
C:\Users\AMS217\AppData\Local\Temp\tp366ef3da_4687_4d6e_9b4a_bb7f0ce6fd8e.gii
failed.
Error in gifti (line 100)
this = read_gifti_file_standalone(varargin{1},giftistruct);
Error in ciftiopen (line 34)
cifti = gifti([tmpfile '.gii']);
Do I need to convert it to char or something so it is read in correctly?
Regards,
Anita Sinha
Biomedical Engineering Graduate Student
University of Wisconsin-Madison
amsi...@wisc.edu
________________________________
From: Glasser, Matthew <glass...@wustl.edu>
Sent: Thursday, January 17, 2019 4:27:17 PM
To: Harms, Michael; Anita Sinha; hcp-users@humanconnectome.org
Subject: Re: [HCP-Users] CIFTI to Matlab
That could also be due to it not finding the file or not finding wb_command.
Matt.
From:
<hcp-users-boun...@humanconnectome.org<mailto:hcp-users-boun...@humanconnectome.org>>
on behalf of "Harms, Michael" <mha...@wustl.edu<mailto:mha...@wustl.edu>>
Date: Thursday, January 17, 2019 at 4:05 PM
To: Anita Sinha <amsi...@wisc.edu<mailto:amsi...@wisc.edu>>,
"hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org>"
<hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org>>
Subject: Re: [HCP-Users] CIFTI to Matlab
Hi,
It sounds like you don’t have the gifti library properly installed.
Within matlab, what happens when you type
g = gifti
Do you get a gifti structure?
Cheers,
-MH
--
Michael Harms, Ph.D.
-----------------------------------------------------------
Associate Professor of Psychiatry
Washington University School of Medicine
Department of Psychiatry, Box 8134
660 South Euclid Ave. Tel: 314-747-6173
St. Louis, MO 63110 Email:
mha...@wustl.edu<mailto:mha...@wustl.edu>
From:
<hcp-users-boun...@humanconnectome.org<mailto:hcp-users-boun...@humanconnectome.org>>
on behalf of Anita Sinha <amsi...@wisc.edu<mailto:amsi...@wisc.edu>>
Date: Thursday, January 17, 2019 at 3:37 PM
To: "hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org>"
<hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org>>
Subject: [HCP-Users] CIFTI to Matlab
To Whom It May Concern,
I am attempting to open up a dtseries.nii CIFTI file into Matlab to extract the
time series matrix from rs-fMRI data. I have downloaded workbench and gifti-1.8
and am following the directions outlined in
https://wiki.humanconnectome.org/pages/viewpage.action?pageId=63963178 in #2
"How do you get CIFTI files into Matlab, but it isn't working.
When I run this command:
cii = ciftiopen('path/to/file','path/to/wb_command'); CIFTIdata = cii.cdata
with the appropriate file paths, I keep receiving this error:
Error using read_gifti_file_standalone (line 20)
[GIFTI] Loading of XML file
C:\Users\...\AppData\Local\Temp\tp904b5934_f040_4259_8a21_0b10e15aecc8.gii
failed.
Error in gifti (line 100)
this = read_gifti_file_standalone(varargin{1},giftistruct);
Error in ciftiopen (line 34)
cifti = gifti([tmpfile '.gii']);
I have added workbench and gifti to the path and saved everything in the same
directory to mitigate file directory mismatch, but cannot past this error.
Could you provide some help on how to resolve this?
Thank you for your time.
Regards,
Anita
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