Update maintenance/main.py

Co-authored-by: Peter Ralph <[email protected]>

maintenance/main.py

@@ -183,17 +183,13 @@ def black_format(code):
 
 
 def ensembl_stdpopsim_id(ensembl_id):
-    # below is do deal with name changes in Ensembl
-    # TODO: remove this once we have moved to the new names
-    # this was added as a temporary fix to allow the release to be
-    # updated to 113, where the names of these species were changed
-    # in the future we might keep this code block, but comment it out
-    # to show others how maintenance updates were performed in the case
-    # where the species name changed in Ensembl
-    if ensembl_id == "canis_lupus_familiaris":
-        ensembl_id = "canis_familiaris"
-    elif ensembl_id == "escherichia_coli_str_k_12_substr_mg1655_gca_000005845":
-        ensembl_id = "escherichia_coli"
+    # Here is commented-out example code for dealing with name changes
+    # in Ensembl: when they changed the Ensembl ID of 'dog' from
+    # 'canis_familiaris' to 'canis_lupus_familiaris", we inserted these two lines;
+    # used this script to update `CanFam/genome_data.py` (which also put in
+    # the new Ensembl ID); and then removed the lines. The code:
+    # if ensembl_id == "canis_lupus_familiaris":
+    #     ensembl_id = "canis_familiaris"
     tmp = ensembl_id.split("_")[:2]
     sps_id = "".join([x[0:3].capitalize() for x in tmp])
     if len(sps_id) != 6: