updated snp workflow to include log [skip ci]

lusSTR/workflows/snps.smk

@@ -1,3 +1,4 @@
+from datetime import datetime
 import lusSTR
 
 
@@ -14,6 +15,18 @@ def format_filename(id, refs):
         return f"{id}_snp_reference"
 
 
+def create_log(log):
+    now = datetime.now()
+    dt = now.strftime("%m%d%Y_%H_%M_%S")
+    shell("mkdir -p logs/{dt}/input/")
+    shell("cp {log} logs/{dt}/strs.log")
+    if os.path.isdir(input_name):
+        shell("cp {input_name}/* logs/{dt}/input/")
+    else:
+        shell("cp '{input_name}' logs/{dt}/input/")
+    shell("cp snp_config.yaml logs/{dt}/")
+
+
 rule all:
     input:
         expand("{name}.txt", name=output_name),
@@ -49,3 +62,10 @@ rule convert:
         thresh=config["thresh"]
     script:
         lusSTR.wrapper("snps_convert")
+
+
+onsuccess:
+    create_log(log)
+
+onerror:
+    create_log(log)