Just to let you know that /tmp becomes full after a day of consistent use, on my machine filling 16GB. It looks like mrtrix does not correctly remove some temporary files when finished. It gives errors like these due to the lack of space in tmp.
dwinormalise: [ERROR] dwiextract /home/tom/.temp_dmri_preprocessing.sh_2020070715141466/4_unwarped.mif -bzero - | mrmath - mean - -axis 3 | mrstats - -mask /home/tom/.temp_dmri_preprocessing.sh_2020070715141466/csf_mask.mif -output median (individual.py:66)
dwinormalise: [ERROR] Information from failed command:
dwiextract: extracting volumes… [=================
dwiextract: [SYSTEM FATAL CODE: SIGBUS (7)] Bus error: Accessing invalid address (out of storage space?)
mrmath: [ERROR] no filename supplied to standard input (broken pipe?)
mrmath: [ERROR] error opening image “-”
mrstats: [ERROR] no filename supplied to standard input (broken pipe?)
mrstats: [ERROR] error opening image “-”
mrtrix_cleanup the current suggested solution? On a cron job? Will changing the TmpFileDir fix it? Even if I move the TempFileDir, i would not want that space to be eaten eventually.
== mrview 3.0.0-33-g5b4aef85-dirty ==
64 bit release version, built Jun 11 2020, using Eigen 3.3.7