lamindb 0.77.2__py3-none-any.whl → 0.77.4__py3-none-any.whl

lamindb/__init__.py

@@ -43,7 +43,7 @@ Modules and settings.
 """
 
 # denote a release candidate for 0.1.0 with 0.1rc1, 0.1a1, 0.1b1, etc.
-__version__ = "0.77.2"
+__version__ = "0.77.4"
 
 import os as _os
 

lamindb/_can_curate.py

@@ -10,7 +10,7 @@ from lamin_utils import colors, logger
 from lamindb_setup.core._docs import doc_args
 from lnschema_core import CanCurate, Record
 
-from ._from_values import _has_organism_field, _print_values, get_or_create_records
+from ._from_values import _format_values, _has_organism_field, get_or_create_records
 from ._record import _queryset, get_name_field
 from ._utils import attach_func_to_class_method
 from .core.exceptions import ValidationError
@@ -168,7 +168,7 @@ def _inspect(
             bionty_mapper = bionty_result.synonyms_mapper
             hint = False
             if len(bionty_validated) > 0 and not mute:
-                print_values = _print_values(bionty_validated)
+                print_values = _format_values(bionty_validated)
                 s = "" if len(bionty_validated) == 1 else "s"
                 labels = colors.yellow(f"{len(bionty_validated)} {model_name} term{s}")
                 logger.print(
@@ -178,7 +178,7 @@ def _inspect(
                 hint = True
 
             if len(bionty_mapper) > 0 and not mute:
-                print_values = _print_values(list(bionty_mapper.keys()))
+                print_values = _format_values(list(bionty_mapper.keys()))
                 s = "" if len(bionty_mapper) == 1 else "s"
                 labels = colors.yellow(f"{len(bionty_mapper)} {model_name} term{s}")
                 logger.print(
@@ -199,7 +199,7 @@ def _inspect(
             logger.warning("no Bionty source found, skipping Bionty validation")
 
     if len(nonval) > 0 and not mute:
-        print_values = _print_values(list(nonval))
+        print_values = _format_values(list(nonval))
         s = "" if len(nonval) == 1 else "s"
         labels = colors.red(f"{len(nonval)} term{s}")
         logger.print(f"   couldn't validate {labels}: {colors.red(print_values)}")
@@ -383,6 +383,8 @@ def _standardize(
         organism = (
             organism_record.name if organism_record is not None else organism_record
         )
+    else:
+        organism = None
 
     # only perform synonym mapping if field is the name field
     if hasattr(registry, "_name_field") and field != registry._name_field: