Set the timezone.csv path in config.

Take into account that TZCODES_FILE can be created with a rule.

config.yaml

@@ -31,6 +31,7 @@ TIMEZONE:
     SINGLE:
       TZCODE: Europe/Ljubljana
     MULTIPLE:
+      TZ_FILE: data/external/timezone.csv
       TZCODES_FILE: data/external/multiple_timezones.csv
       IF_MISSING_TZCODE: USE_DEFAULT
       DEFAULT_TZCODE: Europe/Ljubljana

rules/common.smk

@@ -114,7 +114,16 @@ def input_tzcodes_file(wilcards):
         if not config["TIMEZONE"]["MULTIPLE"]["TZCODES_FILE"].lower().endswith(".csv"):
             raise ValueError("[TIMEZONE][MULTIPLE][TZCODES_FILE] should point to a CSV file, instead you typed: " + config["TIMEZONE"]["MULTIPLE"]["TZCODES_FILE"])
         if not Path(config["TIMEZONE"]["MULTIPLE"]["TZCODES_FILE"]).exists():
-            raise ValueError("[TIMEZONE][MULTIPLE][TZCODES_FILE] should point to a CSV file, the file in the path you typed does not exist: " + config["TIMEZONE"]["MULTIPLE"]["TZCODES_FILE"])
+            try:
+                config["TIMEZONE"]["MULTIPLE"]["TZ_FILE"]
+            except KeyError:
+                raise ValueError("To create TZCODES_FILE, a list of timezones should be created " +
+                                 "with the rule preprocessing.smk/prepare_tzcodes_file " +
+                                 "which will create a file specified as config['TIMEZONE']['MULTIPLE']['TZ_FILE']." +
+                                 "\n An alternative is to provide the file manually:" +
+                                 "[TIMEZONE][MULTIPLE][TZCODES_FILE] should point to a CSV file," +
+                                 "but the file in the path you typed does not exist: " +
+                                 config["TIMEZONE"]["MULTIPLE"]["TZCODES_FILE"])
         return [config["TIMEZONE"]["MULTIPLE"]["TZCODES_FILE"]]
     return []
 

rules/preprocessing.smk

@@ -9,13 +9,13 @@ rule query_usernames_device_empatica_ids:
         baseline_folder = "/mnt/e/STRAWbaseline/"
     output:
         usernames_file = config["CREATE_PARTICIPANT_FILES"]["USERNAMES_CSV"],
-        timezone_file = "data/external/timezone.csv"
+        timezone_file = config["TIMEZONE"]["MULTIPLE"]["TZ_FILE"]
     script:
         "../../participants/prepare_usernames_file.py"
 
 rule prepare_tzcodes_file:
     input:
-        timezone_file = "data/external/timezone.csv"
+        timezone_file = config["TIMEZONE"]["MULTIPLE"]["TZ_FILE"]
     output:
         tzcodes_file = config["TIMEZONE"]["MULTIPLE"]["TZCODES_FILE"]
     script: