Ignore any optional files that are not provided.

1 files changed, 9 insertions, 4 deletions

diff --git a/uploader/phenotypes/views.py b/uploader/phenotypes/views.py
index 97bcafe..8e47242 100644
--- a/uploader/phenotypes/views.py
+++ b/uploader/phenotypes/views.py
@@ -374,10 +374,15 @@ def process_phenotypes_individual_files(error_uri):
     bundlepath = Path(app.config["UPLOAD_FOLDER"],
                       f"{str(uuid.uuid4()).replace('-', '')}.zip")
     with ZipFile(bundlepath,mode="w") as zfile:
-        for rqtlkey, formkey in (("phenocovar", "phenotype-descriptions"),
-                                 ("pheno", "phenotype-data"),
-                                 ("phenose", "phenotype-se"),
-                                 ("phenonum", "phenotype-n")):
+        for rqtlkey, formkey, _type in (
+                ("phenocovar", "phenotype-descriptions", "mandatory"),
+                ("pheno", "phenotype-data", "mandatory"),
+                ("phenose", "phenotype-se", "optional"),
+                ("phenonum", "phenotype-n", "optional")):
+            if _type == "optional" and not bool(form.get(formkey)):
+                # skip if an optional key does not exist.
+                continue
+
             cdata[f"{rqtlkey}_transposed"] = (
                 (form.get(f"{formkey}-transposed") or "off") == "on")