Use version 3.0.0 in GitHub. The one used in FSL is not supported by the HCP Pipelines as it does not have the HOCR options. All that is needed is the MSM binary.
Matt. From: <hcp-users-boun...@humanconnectome.org<mailto:hcp-users-boun...@humanconnectome.org>> on behalf of Timothy Coalson <tsc...@mst.edu<mailto:tsc...@mst.edu>> Date: Thursday, April 4, 2019 at 2:15 PM To: Moataz Assem <moataz.as...@mrc-cbu.cam.ac.uk<mailto:moataz.as...@mrc-cbu.cam.ac.uk>> Cc: "hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org>" <hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org>> Subject: Re: [HCP-Users] MSM binaries versions The 1.0 and 3.0 versions on github are nearly identical, that was just a naming issue. The version in FSL may be based on version 2, and is missing a library needed for HOCR, so some options in v3 aren't available. You should be able to use the fsl versions of the executables other than msm (so, msmresample, etc) with any version of msm. I'm not sure about your other questions. Tim On Thu, Apr 4, 2019 at 1:29 PM Moataz Assem <moataz.as...@mrc-cbu.cam.ac.uk<mailto:moataz.as...@mrc-cbu.cam.ac.uk>> wrote: Hi, What is the recommended version of the MSM binaries to use? The rep directory (https://github.com/ecr05/MSM_HOCR/releases) has v1.0.0 and v3.0.0 and I was previously using v2 from here: https://www.doc.ic.ac.uk/~ecr05/MSM_HOCR_v2/ Also what is the difference between these binaries and the ones downloaded with fsl? In otherwords, can I just point the MSMBINDIR in the SetUpHCPPipeline.sh to ~/fsl/bin/ since it contains all the msm related functions? Also I would appreciate a clarification on the list of compiled files to make sure exist in the directory pointed to for the MSMBINDIR variable. Thanks Moataz _______________________________________________ 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 ________________________________ The materials in this message are private and may contain Protected Healthcare Information or other information of a sensitive nature. If you are not the intended recipient, be advised that any unauthorized use, disclosure, copying or the taking of any action in reliance on the contents of this information is strictly prohibited. If you have received this email in error, please immediately notify the sender via telephone or return mail. _______________________________________________ HCP-Users mailing list HCP-Users@humanconnectome.org http://lists.humanconnectome.org/mailman/listinfo/hcp-users
