diff --git a/frangiPANe/snakefiles/generate_jupyter_book.smk b/frangiPANe/snakefiles/generate_jupyter_book.smk index 38c35ce54ab96b41f08fad2e0c30a4698f217d2d..308016be2309b879a8746753af9520df05980be8 100644 --- a/frangiPANe/snakefiles/generate_jupyter_book.smk +++ b/frangiPANe/snakefiles/generate_jupyter_book.smk @@ -5,6 +5,8 @@ rule generate_jupyter_book: ref_csv = f"{frangipane_obj.path_stat_sum}/00_ref.txt" output: jb_file=f"{ frangipane_obj.path_output }/report/frangiPANe_stats.ipynb" + params: + group_file = f"{frangipane_obj.path_group}" log: output = f"{frangipane_obj.path_logs}/report/jupyterBook.o", error = f"{frangipane_obj.path_logs}/report/jupyterBook.e" diff --git a/frangiPANe/snakemake_scripts/generate_jb_frangiPANe.py b/frangiPANe/snakemake_scripts/generate_jb_frangiPANe.py index 9b112bd38d6f07885e55839633b14000062575be..d802b293d49d42add5450dfef2874e4f19abda7c 100644 --- a/frangiPANe/snakemake_scripts/generate_jb_frangiPANe.py +++ b/frangiPANe/snakemake_scripts/generate_jb_frangiPANe.py @@ -12,7 +12,7 @@ jb_output = snakemake.output.jb_file # TODO26/11 : use class snakecdysis dico = { - "group_file": frangipane_obj.path_group, + "group_file": snakemake.params.group_file, "ref_file": frangipane_obj.path_reference_dir, "out_dir": frangipane_obj.path_output, "ref_png" : snakemake.input.ref_png,