changed log and benchmark to ensure consistency with output wildccard…

… - requirement for snakemake v5
SnakeChunks · Aug 19, 2018 · 96c6d6c · 96c6d6c
1 parent d83f3ea
commit 96c6d6c
Showing 1 changed file with 2 additions and 2 deletions.
diff --git a/scripts/snakefiles/rules/rnaseq_deg.rules b/scripts/snakefiles/rules/rnaseq_deg.rules
@@ -49,8 +49,8 @@ rule rnaseq_deg:
         qsub = config["qsub"] \
           + " -e " + "{diffexpr_dir}/{preprocess,.*}rna-seq_deg_qsub.err" \
           + " -o " + "{diffexpr_dir}/{preprocess,.*}rna-seq_deg_qsub.out"
-    log: "{diffexpr_dir}/{preprocess,.*}rna-seq_deg.log"
-    benchmark: "{diffexpr_dir}/{preprocess,.*}rna-seq_deg_benchmark.txt"
+    log: "{diffexpr_dir}/{test}_vs_{ref}/{preprocess,.*}{test}_vs_{ref}.log"
+    benchmark: "{diffexpr_dir}/{test}_vs_{ref}/{preprocess,.*}{test}_vs_{ref}_benchmark.txt"
     conda: "../envs/rnaseq_deg.yaml"
     shell: """
 Rscript --vanilla  {params.rscript} -v 1 --config_file={input.config_file} --count_table={input.count_file} --output_dir={params.outdir} --rsnakechunks_dir={params.rsnakechunks_dir} --report {params.rmd_report} --prefix {params.prefix} &> {log}