How to load the module

[ewijaya]

I installed the henipipe using this command:

module load Python/3.6.7-foss-2016b-fh1
python3 -m pip install --user pipx
python3 -m pipx ensurepath
pipx install --include-deps henipipe

However when I run the align:

henipipe ALIGN -t 5 -r runsheet.csv

The alignment process is not being executed.
I notice there is this line in the log:

module load Bowtie2
module load SAMtools
module load Python

module load Python especially is inconsistent with the initial module load Python/3.6.7-foss-2016b-fh1.

How can I resolve the issue?

Ed

[scfurl]

Try loading python before running henipipe