add dummy file to wait for rule completion

satijalab · Aug 18, 2022 · 29c1907 · 29c1907
1 parent e60d07b
commit 29c1907
Showing 1 changed file with 9 additions and 7 deletions.
diff --git a/human_tonsil/Snakefile b/human_tonsil/Snakefile
@@ -36,12 +36,13 @@ rule build_reference:
 ################################ Demo ########################################
 rule download_demo:
     output:
-        tonsil_1a = "data/Tonsil1a_count",
-        tonsil_1b = "data/Tonsil1b_count",
-        tonsil_2a = "data/Tonsil2a_count",
-        tonsil_2b = "data/Tonsil2b_count",
-        tonsil_3a = "data/Tonsil3a_count",
-        tonsil_3b = "data/Tonsil3b_count",   
+        tonsil_1a = directory("data/Tonsil1a_count"),
+        tonsil_1b = directory("data/Tonsil1b_count"),
+        tonsil_2a = directory("data/Tonsil2a_count"),
+        tonsil_2b = directory("data/Tonsil2b_count"),
+        tonsil_3a = directory("data/Tonsil3a_count"),
+        tonsil_3b = directory("data/Tonsil3b_count"),
+        demo_complete = touch("data/download_demo_complete.txt") # dummy file to reuquire rule completion before running build_demo rule
     shell:
         """
         wget https://ftp.ncbi.nlm.nih.gov/geo/samples/GSM5051nnn/GSM5051493/suppl/GSM5051493_Tonsil_1a_scRNA_seq_raw_feature_bc_matrix_mtx.tsv.tar.gz -P data
@@ -63,7 +64,8 @@ rule build_demo:
     input:
         demo_counts_dir = directory("data/"),
         demo_cell_calls_dir = directory("data/demo_cell_calls/"),
-        demo_script = "scripts/build_demo.R"
+        demo_script = "scripts/build_demo.R",
+        demo_complete = "data/download_demo_complete.txt"
     output:
         demo = "reference/demo.rds"
     shell: