Fix dash to dot issue in samplesheets when parsing usernames from project IDs

wetlab/utils/common.py

@@ -5,6 +5,7 @@
 import socket
 import traceback
 from datetime import datetime, timezone
+from itertools import product
 from logging.config import fileConfig
 
 from django.contrib.auth.models import User
@@ -501,3 +502,29 @@ def open_log(config_file):
     fileConfig(config_file, disable_existing_loggers=False)
     logger = logging.getLogger()
     return logger
+
+
+def get_all_string_replacement_combinations(
+    string: str, old: str, new: str
+) -> list[str]:
+    """
+    Description:
+        Get all replacement combinations for a string. This is used to validate user IDs.
+    Input:
+        string      # string to return replacements
+        old         # Substring to be replaced
+        new         # Substring to replace old by
+    Return:
+        list of strings containing all possible combinations for the replacement
+    """
+    positions = [i for i, ch in enumerate(string) if ch == old]
+    results = [string]
+
+    for combo in product([False, True], repeat=len(positions)):
+        s_list = list(string)
+        for replace, pos in zip(combo, positions):
+            if replace:
+                s_list[pos] = new
+        results.append("".join(s_list))
+
+    return results

wetlab/utils/crontab_process.py

@@ -2185,6 +2185,7 @@ def _get_existing_stats_folder(conn, run_folder, experiment_name=""):
     logger = logging.getLogger(__name__)
     shared_folder = get_samba_shared_folder()
     base_folder = get_samba_application_shared_folder()
+
     stats_file_paths = getattr(
         wetlab.config, "STATS_FILE_PATHS", [wetlab.config.STATS_FILE_PATH]
     )

wetlab/utils/samplesheet.py

@@ -10,6 +10,7 @@
 
 # Local imports
 import wetlab.config
+import wetlab.utils.common
 
 # import wetlab.models
 
@@ -345,6 +346,8 @@ def get_user_ids_from_samplesheet(
     version = samplesheet_version(samplesheet)
     iskylims_user_column = wetlab.config.TABULAR_DATA_ISKYLIMS_USER_COLUMN.get(version)
 
+    user_id_list_db = wetlab.utils.common.get_userid_list()
+
     user_ids = []
     if iskylims_user_column:
         user_ids = get_column_from_tabular_data(data, iskylims_user_column)
@@ -357,7 +360,22 @@ def get_user_ids_from_samplesheet(
     if not user_ids and version == "2":
         user_ids = get_user_ids_from_project_name(samplesheet)
 
-    return user_ids
+    # FIXME: Due to samplesheet limitations, we need to check all possible combinations of "dash to dot"
+    # FIXME: When we develop a final solution, change below.
+    userid_names = []
+
+    for user in user_ids:
+        all_user_replacement_combinations = (
+            wetlab.utils.common.get_all_string_replacement_combinations(
+                user, old="-", new="."
+            )
+        )
+        for user_permutation in all_user_replacement_combinations:
+            if user_permutation in user_id_list_db:
+                userid_names.append(user_permutation)
+                break
+
+    return userid_names
 
 
 def get_projects_in_sample_sheet(samplesheet) -> list: