Hello,
I would like to run TractoFlow on HPC on a single test dataset using the root options (i.e. no bidsifying). However, the execution fails and I get the following message:
Error executing process > ‘Denoise_DWI (S1)’
Caused by:
Failed to pull singularity image
command: singularity pull --name scilus_1.6.0.sif.pulling.1750270537906 docker://scilus_1.6.0.sif > /dev/null
status : 127
message:
bash: singularity: command not found
I am following the instructions provided at the end of this thread; using version 21.10.3 due to a previous error (similar to the one in the thread) I was getting.
I was wondering if you could point to what I might be doing wrong.
For reference, I’m using the root option, with my folder including only one subject with the correct file names. And here’s my bash command is similar to (the input folder name has changed):
nextflow run ~/.nextflow/assets/scilus/tractoflow/main.nf --input input_folder -with-singularity scilus_1.6.0.sif -resume
PS. Apologies, I did try to provide more information visually but it seems like I’m unable to perform certain functions on the forum since I’m a new user. I’d be happy to provide more information as required.