Basic Execution
Contents
Basic Execution¶
ShapePipe pipelines are launched and managed via the shapepipe_run script.
A list of command line arguments can be displayed using the --help
option:
See also
The shapepipe environment will need to be built and activated in order to run this script (see Installation).
shapepipe_run --help
The options for defining a pipeline are managed via a configuration file.
Running ShapePipe with Joblib¶
By default ShapePipe is run using
Joblib to manage parallel
processes. The shapepipe_run script can run as follows
shapepipe_run
which will by default look for a file called config.ini in the current
directory. To specify the path to a given configuration file (with any name)
you would run
shapepipe_run -c <PATH TO CONFIG FILE>