Error creating DAG of pipeline

[slsevilla]

when running DAG sub-command on iCLIP v2.0, getting two errors

1. related to graphviz not be loaded
2. related to print message within pipeline

Command run:

snakemake -s "../config/Snakefile" --configfile "../config/snakemake_config.yaml" --rulegraph | dot -Tpdf

Error

Config file /data/RBL_NCI/Wolin/mES_fclip_1_YL_011622_v2.0/config/snakemake_config.yaml is extended by additional config specified via the command line.
localrules directive specifies rules that are not present in the Snakefile:
    nondemux

Building DAG of jobs...
Error: <stdin>: syntax error in line 1 near '/'

Solution

• Found that graphviz cannot accept any "print" messages within pipeline from this issue. Once print was removed, DAG was created as expected.

[slsevilla]

Complete with commit 5a4dc30fb0edcdc0177dd57f390d1c91c59be1cb