Merge pull request #56 from jts/change_annotate_variant_rule

jts · web-flow · commit 8a1841e1b989 · 2020-12-17T10:32:05.000-05:00
Change annotate variant rule
diff --git a/README.md b/README.md
@@ -206,7 +206,7 @@ snakemake -s workflow/Snakefile --cores 1 build_snpeff_db
 Once the database has been built, the workflow can be run using:
 
 ```
-snakemake -s workflow/Snakefile --cores 2 annotate_variants
+snakemake -s workflow/Snakefile --cores 2 all_qc_annotation
 ```
 
 Variant annotation output can be found in `qc_annotation` and the recurrent
diff --git a/workflow/rules/annotation.smk b/workflow/rules/annotation.smk
@@ -34,7 +34,7 @@ def get_recurrent_heatmap_plot(wildcards):
 #
 # Rules for annotating variants with functional consequence
 #
-rule annotate_variants:
+rule all_qc_annotation:
     input:
         get_recurrent_heatmap_plot
 

Original file line number	Diff line number	Diff line change
`@@ -34,7 +34,7 @@ def get_recurrent_heatmap_plot(wildcards):`
`34`	`34`	`#`
`35`	`35`	`# Rules for annotating variants with functional consequence`
`36`	`36`	`#`
`37`		`-rule annotate_variants:`
	`37`	`+rule all_qc_annotation:`
`38`	`38`	`input:`
`39`	`39`	`get_recurrent_heatmap_plot`
`40`	`40`