Thanks for letting us know that it worked. Peace,
Matt. From: Sang-Young Kim <sykim...@gmail.com<mailto:sykim...@gmail.com>> Date: Tuesday, September 12, 2017 at 10:00 AM To: Keith Jamison <kjami...@umn.edu<mailto:kjami...@umn.edu>> Cc: Matt Glasser <glass...@wustl.edu<mailto:glass...@wustl.edu>>, "HCP-Users@humanconnectome.org<mailto:HCP-Users@humanconnectome.org>" <HCP-Users@humanconnectome.org<mailto:HCP-Users@humanconnectome.org>> Subject: Re: [HCP-Users] FIX error in fix_3_clean.m Hello, Keith: After making change in the script of call_matlab.sh in FIX installation folder, the FIX is working without the error. I hope someone who have the same issue with me see this post. I really appreciate your help. Best, Sang-Young On Sep 11, 2017, at 6:51 PM, Keith Jamison <kjami...@umn.edu<mailto:kjami...@umn.edu>> wrote: In your FSL FIX installation, you can try making the same change in line #307 of call_matlab.sh -Keith On Mon, Sep 11, 2017 at 6:34 PM, Sang-Young Kim <sykim...@gmail.com<mailto:sykim...@gmail.com>> wrote: I am running the script ${HOME}/projects/Pipelines/ICAFIX/hcp_fix. Is there a point to modify the script in order for working FIX? Thanks. Sang-Young On Sep 11, 2017, at 6:28 PM, Keith Jamison <kjami...@umn.edu<mailto:kjami...@umn.edu>> wrote: Try changing line #381 in ReApplyFix/ReApplyFixPipeline.sh from: ML_PATHS="addpath('${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> http://lists.humanconnectome.org/mailman/listinfo/hcp-users _______________________________________________ HCP-Users mailing list HCP-Users@humanconnectome.org<mailto:HCP-Users@humanconnectome.org> http://lists.humanconnectome.org/mailman/listinfo/hcp-users _______________________________________________ HCP-Users mailing list HCP-Users@humanconnectome.org http://lists.humanconnectome.org/mailman/listinfo/hcp-users
