Hello FreeSurfer Developers,
I’m attempting to convert a dlabel file from the Human Connectome Project to a volumetric ROI that I can use for fiber tractography on other platforms. I followed the tutorial provided by HCP (hcp-users FAQ #9: How do I map data between FreeSurfer ... - HCP Wikihttps://www.google.com/url?sa=t&rct=j&q=&esrc=s&source=web&cd=1&cad=rja&uact=8&ved=0ahUKEwj3kK2snsjSAhVCMSYKHRJfBFAQFggcMAA&url=https%3A%2F%2Fwiki.humanconnectome.org%2Fdownload%2Fattachments%2F63078513%2FResampling-FreeSurfer-HCP.pdf%3Fversion%3D1%26modificationDate%3D1472225460934%26api%3Dv2&usg=AFQjCNF5wUtMevIQ5umsnqe87RzJN9ndXw&sig2=DtNFEuTCbps9LemwkJRseg) for resampling HCP-derived data for use in FreeSurfer.
When I run the mri_label2vol command:
mri_label2vol: could not scan # of lines from label file ERROR reading /home/neuroresearch/workbench/test1.label.gii
Does anyone have thoughts on how to troubleshoot this? I have not seen any similar errors described in the list.
1) FreeSurfer version: freesurfer-x86_64-apple-darwin16.4.0-dev-20170302 2) Platform: MacOS 10.12.3
Hi Joshua
hmmm, label2vol takes our text label file format as input, not a .gii file. You probably need to ask the Wash U HCP folks how to do this conversion as I believe there should be a step before label2vol
cheers Bruce
On Thu, 9 Mar 2017, Burks, Joshua D (HSC) wrote:
Hello FreeSurfer Developers, I’m attempting to convert a dlabel file from the Human Connectome Project to a volumetric ROI that I can use for fiber tractography on other platforms. I followed the tutorial provided by HCP (hcp-users FAQ #9: How do I map data between FreeSurfer ... - HCP Wiki) for resampling HCP-derived data for use in FreeSurfer.
When I run the mri_label2vol command:
mri_label2vol: could not scan # of lines from label file ERROR reading /home/neuroresearch/workbench/test1.label.gii
Does anyone have thoughts on how to troubleshoot this? I have not seen any similar errors described in the list.
- FreeSurfer version: freesurfer-x86_64-apple-darwin16.4.0-dev-20170302
- Platform: MacOS 10.12.3
freesurfer@nmr.mgh.harvard.edu
-
Bruce Fischl -
Burks, Joshua D (HSC)