I’m currently trying to set up a registration pipeline with
sct_register_multimodal. I have a small piece of the bash script written already and would like to test it before writing the rest. However, whenever I call
sct_run_batch -jobs 1 -path-data <path> -path-output "./" -script <script.sh>, all jobs finish/fail instantly. The
./log/ folder is full of ‘err.script_sub_<…>.log’ files, but each of these individual files is completely empty, i.e. no error is returned.
I have tried various inputs for
script.sh, the simplest of which was simply
#!/bin/bash SUBJECT=$1 echo "Hello world!"
which I expect to simply return “Hello world!” in the log file of each subject. I assume I’m doing something wrong in the script, because using this script from the spine-generic repo on my dataset seems to work as intended. What is the minimal functional script required as input to