trgets changed

SnakeChunks · Aug 15, 2018 · 4999d8b · 4999d8b
1 parent a0d15e8
commit 4999d8b
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
@@ -34,9 +34,9 @@ rule rnaseq_deg:
         count_file = "{diffexpr_dir}/{preprocess,.*}all.tsv",
         config_file = config["metadata"]["configfile"]
     output: 
-        rmd_report = "{diffexpr_dir}/{preprocess,.*}rna-seq_deg_report.Rmd",
         html_report = "{diffexpr_dir}/{preprocess,.*}rna-seq_deg_report.html"
     params:
+        rmd_report = "{diffexpr_dir}/{preprocess,.*}rna-seq_deg_report.Rmd",
         rsnakechunks_dir = "SnakeChunks/scripts/RSnakeChunks",
         rscript = "SnakeChunks/scripts/RSnakeChunks/misc/rna-seq_deg.R",
         outdir = "{diffexpr_dir}/",
@@ -48,6 +48,6 @@ rule rnaseq_deg:
     benchmark: "{diffexpr_dir}/{preprocess,.*}rna-seq_deg_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 {output.rmd_report} &> {log} 
+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} &> {log} 
 """