1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
|
"""Miscellaneous functions dealing with publications."""
def publications_differences(
filedata: tuple[dict, ...],
dbdata: tuple[dict, ...],
pubmedid2pubidmap: tuple[dict, ...]
) -> tuple[dict, ...]:
"""Compute the differences between file data and db data"""
diff = tuple()
for filerow, dbrow in zip(
sorted(filedata, key=lambda item: (
item["phenotype_id"], item["xref_id"])),
sorted(dbdata, key=lambda item: (
item["PhenotypeId"], item["xref_id"]))):
if filerow["PubMed_ID"] == dbrow["PubMed_ID"]:
continue
newpubmed = filerow["PubMed_ID"]
diff = diff + ({
**dbrow,
"PubMed_ID": newpubmed,
"PublicationId": pubmedid2pubidmap.get(newpubmed)},)
return diff
|
