I am running the script ${HOME}/projects/Pipelines/ICAFIX/hcp_fix.
Is there a point to modify the script in order for working FIX?
Thanks.
Sang-Young
> On Sep 11, 2017, at 6:28 PM, Keith Jamison <kjami...@umn.edu> wrote:
>
> Try changing line #381 in ReApplyFix/ReApplyFixPipeline.sh from:
>
> ML_PATHS="addpath('${FSL_MATLAB_PATH}'); addpath('${FSL_FIX_CIFTIRW}');"
>
> to
>
> ML_PATHS="restoredefaultpath; addpath('${FSL_MATLAB_PATH}');
> addpath('${FSL_FIX_CIFTIRW}');"
>
> -Keith
>
> On Mon, Sep 11, 2017 at 5:54 PM, Sang-Young Kim <sykim...@gmail.com
> <mailto:sykim...@gmail.com>> wrote:
> Yes, I’m using CIFTI data. This is the interpreted version.
>
> Sang-Young
>
>
>> On Sep 11, 2017, at 5:59 PM, Glasser, Matthew <glass...@wustl.edu
>> <mailto:glass...@wustl.edu>> wrote:
>>
>> Are you using CIFTI data? Is this the compiled version of matlab or the
>> interpreted version?
>>
>> Peace,
>>
>> Matt.
>>
>> On 9/11/17, 4:19 PM, "hcp-users-boun...@humanconnectome.org
>> <mailto:hcp-users-boun...@humanconnectome.org> on behalf of
>> Sang-Young Kim" <hcp-users-boun...@humanconnectome.org
>> <mailto:hcp-users-boun...@humanconnectome.org> on behalf of
>> sykim...@gmail.com <mailto:sykim...@gmail.com>> wrote:
>>
>>> Dear HCP experts:
>>>
>>> I¹m struggling with FIX for many days. The problem is that FIX does not
>>> generate cleaned data.
>>> So I found error message in .fix.log file as shown below.
>>> ****************************************************************
>>> TR =
>>>
>>> 1
>>>
>>> Elapsed time is 2.053048 seconds.
>>> {?Error using file_array/permute (line 10)
>>> file_array objects can not be permuted.
>>>
>>> Error in read_gifti_file>gifti_Data (line 191)
>>> d = permute(reshape(d,fliplr(s.Dim)),length(s.Dim):-1:1);
>>>
>>> Error in read_gifti_file>gifti_DataArray (line 122)
>>> s(1).data = gifti_Data(t,c(i),s(1).attributes);
>>>
>>> Error in read_gifti_file (line 45)
>>> this.data{end+1} = gifti_DataArray(t,uid(i),filename);
>>>
>>> Error in gifti (line 74)
>>> this = read_gifti_file(varargin{1},giftistruct);
>>>
>>> Error in ciftiopen (line 16)
>>> cifti = gifti([tmpname '.gii']);
>>>
>>> Error in fix_3_clean (line 48)
>>> BO=ciftiopen('Atlas.dtseries.nii',WBC);
>>> }?
>>> **********************************************************************
>>>
>>> Actually I saw many posts with the same error. But no clear solution is
>>> provided. I believe I set the path correctly and use last version of
>>> GIFTI toolbox. And I have tested "ciftiopen" function directly on the
>>> matlab. It worked in matlab.
>>> But I have no idea why above error came up while running FIX.
>>>
>>> Any insights would be greatly appreciated.
>>>
>>> Thanks.
>>>
>>> Sang-Young Kim, Ph.D.
>>>
>>> Postdoctoral Fellow
>>> Department of Radiology, University of Pittsburgh
>>> _______________________________________________
>>> HCP-Users mailing list
>>> HCP-Users@humanconnectome.org <mailto:HCP-Users@humanconnectome.org>
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