Errors if results directory is outside the open-gira repo path on machine

[itrcrisks]

Snakemake rules assume that the 'results' directory should be in the path /open-gira/results.
However if I want to create results in a path ex: /Desktop/project/results, I get an error.
It happened when executing the workflow:
snakemake --cores 1 -- /Desktop/project/results/jamaica-latest_filter-road/edges.geoparquet

[thomas-fred]

Hey Raghav, which rule was it that broke? Can you post the relevant few lines of output?

[itrcrisks]

Error while reading config file '../../..//Users/raghavpant/Desktop/Jamaica_project/results/json/jamaica-latest_extracts/slice-0.geojson':
JSON error at offset 0: The document is empty.
[Thu Jul 27 17:07:06 2023]
Error in rule slice:
jobid: 3
input: /Users/raghavpant/Desktop/Jamaica_project/results/input/OSM/jamaica-latest_filter-road.osm.pbf, /Users/raghavpant/Desktop/Jamaica_project/results/json/jamaica-latest_extracts/slice-0.geojson
output: /Users/raghavpant/Desktop/Jamaica_project/results/slices/jamaica-latest_filter-road/slice-0.osm.pbf
shell:

    WORKDIR=$(dirname /Users/raghavpant/Desktop/Jamaica_project/results/slices/jamaica-latest_filter-road/slice-0.osm.pbf)
    mkdir -p $WORKDIR &&
    cd $WORKDIR &&
    osmium extract --set-bounds --overwrite --no-progress --config ../../..//Users/raghavpant/Desktop/Jamaica_project/results/json/jamaica-latest_extracts/slice-0.geojson ../../..//Users/raghavpant/Desktop/Jamaica_project/results/input/OSM/jamaica-latest_filter-road.osm.pbf
    
    (one of the commands exited with non-zero exit code; note that snakemake uses bash strict mode!)

Shutting down, this might take some time.
Exiting because a job execution failed. Look above for error message
Complete log: .snakemake/log/2023-07-27T170505.269345.snakemake.log