Dear Michael and Matt,
I reconfigured R, updated sICA+FIX and FSL but I still continue to get the previous error: No valid labelling file specified Could not find a supported file with prefix "rfMRI_REST1_AP_hp2000.ica/filtered_func_data_clean" Could not find a supported file with prefix "rfMRI_REST1_AP_hp2000.ica/filtered_func_data_clean_vn" Do you have any other suggestions? Kind regards, Dinal Jayasekera PhD Candidate | InSITE Fellow Ammar Hawasli Lab Department of Biomedical Engineering | Washington University in St. Louis ________________________________ From: Jayasekera, Dinal Sent: Thursday, November 1, 2018 8:35:28 PM To: Glasser, Matthew; Harms, Michael; hcp-users@humanconnectome.org Cc: NEUROSCIENCE tim Subject: Re: [HCP-Users] Debugging IcaFIxProcessingBatch.sh Oh yes definitely not. I also upgraded my R packages. Kind regards, Dinal Jayasekera PhD Candidate | InSITE Fellow Ammar Hawasli Lab Department of Biomedical Engineering | Washington University in St. Louis ________________________________ From: Glasser, Matthew Sent: Thursday, November 1, 2018 8:33:58 PM To: Jayasekera, Dinal; Harms, Michael; hcp-users@humanconnectome.org Cc: NEUROSCIENCE tim Subject: Re: [HCP-Users] Debugging IcaFIxProcessingBatch.sh That doesn’t discount Mike’s advice on needing to sort out R packages. Matt. From: "Jayasekera, Dinal" <dinal.jayasek...@wustl.edu<mailto:dinal.jayasek...@wustl.edu>> Date: Thursday, November 1, 2018 at 8:32 PM To: Matt Glasser <glass...@wustl.edu<mailto:glass...@wustl.edu>>, "Harms, Michael" <mha...@wustl.edu<mailto:mha...@wustl.edu>>, "hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org>" <hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org>> Cc: Timothy Coalson <tsc...@mst.edu<mailto:tsc...@mst.edu>> Subject: Re: [HCP-Users] Debugging IcaFIxProcessingBatch.sh Matt, I will update my version of sICA+FIX as well and upgrade to FSL 6.0 and let you know how things change. Kind regards, Dinal Jayasekera PhD Candidate | InSITE Fellow Ammar Hawasli Lab Department of Biomedical Engineering | Washington University in St. Louis ________________________________ From: Glasser, Matthew Sent: Thursday, November 1, 2018 6:56:26 PM To: Harms, Michael; Jayasekera, Dinal; hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org> Cc: NEUROSCIENCE tim Subject: Re: [HCP-Users] Debugging IcaFIxProcessingBatch.sh Hi Dinal, Also make sure you have the absolutely latest version of sICA+FIX, as there were recent changes and upgrade to FSL 6.0. Finally, we are testing some updates to hcp_multi_run_fix that you will need to be using for your project, and we can let you know when that is available. For your project you will be cleaning all of the fMRI runs at the same time with multi-run fix. 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, November 1, 2018 at 4:18 PM To: "Jayasekera, Dinal" <dinal.jayasek...@wustl.edu<mailto:dinal.jayasek...@wustl.edu>>, "hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org>" <hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org>> Subject: Re: [HCP-Users] Debugging IcaFIxProcessingBatch.sh Hi, Have you configured your R installation correctly, per the FSL FIX Wiki page? https://fsl.fmrib.ox.ac.uk/fsl/fslwiki/FIX/UserGuide 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 "Jayasekera, Dinal" <dinal.jayasek...@wustl.edu<mailto:dinal.jayasek...@wustl.edu>> Date: Thursday, November 1, 2018 at 4:10 PM To: "hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org>" <hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org>> Subject: [HCP-Users] Debugging IcaFIxProcessingBatch.sh Dear HCP community, I am currently running the IcaFixProcessingBatch script on the data processing using the minimal functional pipelines. However, for each of my resting state conditions, I get the following error: /home/Desktop/Applications/fix1.066/fix: 252: /home/Desktop/Applications/fix1.066/fix: R: not found No valid labelling file specified Could not find a supported file with prefix "rfMRI_REST1_AP_hp2000.ica/filtered_func_data_clean" Has anyone had any experience with a similar issue? Is this error indicative of a missing step from before? Kind regards, Dinal Jayasekera PhD Candidate | InSITE Fellow Ammar Hawasli Lab Department of Biomedical Engineering | Washington University in St. Louis _______________________________________________ HCP-Users mailing list HCP-Users@humanconnectome.org<mailto:HCP-Users@humanconnectome.org> http://lists.humanconnectome.org/mailman/listinfo/hcp-users ________________________________ The materials in this message are private and may contain Protected Healthcare Information or other information of a sensitive nature. 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