added export line

kbpi314 · kbpi314 · commit b01d6358d493 · 2025-06-13T14:05:22.000-04:00
diff --git a/mmeds/snakemake/rules/differential_abundance.smk b/mmeds/snakemake/rules/differential_abundance.smk
@@ -73,6 +73,7 @@ rule plot_lefse_results_strict:
     shell:
         """
         ml R/4.1.0
+        export R_LIBS="/hpc/users/mmedsadmin/.Rlib:$R_LIBS"
         Rscript {params.tool_dir}/plot_lefse.R {input} {output} --strict {params.plot_options}
         """
 
