The current script file ibd-windowed.py assumes that the genetic map is tab-separated. Fortunately, this is at the end of the Snakefile-scan.smk directives, so, until I fix this, it is possible to follow the remaining rules in scan.smk and interesting.smk by running python in the terminal.
The genetic map could have any arbitrary whitespace or comma spacing. I will not provide a fix for this. The user should in pre-processing adjust their genetic map files to have tab-separated spacing.
The current script file
ibd-windowed.py
assumes that the genetic map is tab-separated. Fortunately, this is at the end of theSnakefile-scan.smk
directives, so, until I fix this, it is possible to follow the remaining rules inscan.smk
andinteresting.smk
by runningpython
in the terminal.