Joseph M. Orr

This issue with resources continuously loading seems to be resolved in 2022.2, but I have remaining issues with image loading during an ISI. Specifically, the image file seems to be...

I tried running ciftify_subject_fmri using the *bold_space-MNI152NLin2009cAsym_variant-smoothAROMAnonaggr_preproc.nii.gz data and I get an error: > While running: > /apps/psyc/workbench/1.3.1/bin_rh_linux64/../exe_rh_linux64/wb_command -cifti-create-dense-timeseries /tmp/SLURM_21418914_20078/tmpoggbctu1/t > emp_subject.dtseries.nii -volume /fdata/scratch/joseph.orr/adaptcog/fmri/hcp/sub-M80318505/MNINonLinear/Results/task-ritl_acq-MB_run-01/task- > ritl_acq-MB_run-01.nii.gz /fdata/scratch/joseph.orr/adaptcog/fmri/hcp/sub-M80318505/MNINonLinear/ROIs/ROIs.2.nii.gz > > ERROR:...

Ahh weird. Sure, here's a logfile. Let me know if you need the accompanying recon_all.log file. I have ciftify 2.0.2 [ciftify_subject_fmri.log](https://github.com/edickie/ciftify/files/2113478/ciftify_subject_fmri.log)

I ran fslroi on the input files to trim the first 6 volumes and for some reason it messed up a lot of the files causing this problem. So I'll...

I have the v.1 release of msm_centos (renamed to msm) from https://github.com/ecr05/MSM_HOCR/releases that has worked for me with the HCP Pipeline Scripts. I tried to run ciftify_recon_all using 'singularity exec'...

Sure - I'm running the following: [joseph.orr@login01 1.3.2-2.3.2$ singularity exec --cleanenv /apps/psyc/containers/fmriprep_ciftify/1.3.2-2.3.2 ciftify_recon_all --ciftify-work-dir /fdata/scratch/joseph.orr/t3/cifti --fs-subjects-dir /fdata/scratch/joseph.orr/t3/preproc/freesurfer --fs-license $PWD/license.txt --no-symlinks sub-1037 WARNING: Non existent 'bind path' source: '/cms' /.singularity.d/actions/exec: 9:...

Adding to this - after manually adding the missing default_eyetracker.yaml and supported_config_settings.yaml files, calibration still does not work correctly. The initial calibration screen appears briefly (with the position information on...