biocypher 0.10.0__py3-none-any.whl → 0.10.1__py3-none-any.whl

biocypher/_metadata.py

@@ -10,7 +10,7 @@ import pathlib
 
 import toml
 
-_VERSION = "0.10.0"
+_VERSION = "0.10.1"
 
 
 def get_metadata():

biocypher/output/in_memory/_airr.py

@@ -1,10 +1,15 @@
-from typing import Any, Optional
+from __future__ import annotations
+
+from typing import TYPE_CHECKING, Any, Optional
 
 from biocypher._create import BioCypherEdge, BioCypherNode
 from biocypher._deduplicate import Deduplicator
 from biocypher._logger import logger
 from biocypher.output.in_memory._in_memory_kg import _InMemoryKG
 
+if TYPE_CHECKING:
+    from scirpy.io import AirrCell
+
 try:
     from scirpy.io import AirrCell
 
@@ -354,6 +359,7 @@ class AirrKG(_InMemoryKG):
             list: List of generated AIRR cells
 
         """
+        self._check_dependencies()
         if not entities:
             msg = "No entities provided for conversion."
             raise ValueError(msg)
@@ -419,6 +425,7 @@ class AirrKG(_InMemoryKG):
         paired: bool,
         receptor_epitope_mapping: dict[str, set] | None = None,
     ) -> list[AirrCell]:
+        self._check_dependencies()
         cell = AirrCell(cell_id=cell_id)
 
         # Process both chains
@@ -464,6 +471,7 @@ class AirrKG(_InMemoryKG):
             List of cells with metadata added
 
         """
+        self._check_dependencies()
         cells = []
         if not metadata_nodes:
             cell["data_source"] = "BioCypher"

{biocypher-0.10.0.dist-info → biocypher-0.10.1.dist-info}/METADATA

@@ -1,6 +1,6 @@
 Metadata-Version: 2.1
 Name: biocypher
-Version: 0.10.0
+Version: 0.10.1
 Summary: A unifying framework for biomedical research knowledge graphs
 Home-page: https://github.com/biocypher/biocypher
 License: MIT
@@ -81,7 +81,7 @@ Board](https://github.com/orgs/biocypher/projects/3/views/2).
 
 Install the package from PyPI using `pip install biocypher`. More comprehensive
 installation and configuration instructions can be found
-[here](https://biocypher.org/installation.html).
+[here](https://biocypher.org/BioCypher/installation/).
 
 Exemplary usage of BioCypher to build a graph database is shown in our tutorial
 and the various pipelines we have created. You can find these on the [Components

{biocypher-0.10.0.dist-info → biocypher-0.10.1.dist-info}/RECORD

@@ -11,7 +11,7 @@ biocypher/_deduplicate.py,sha256=rtglcaLRaVzNjLtaPwTGP8VvCM4PHYQ5CZ-cm32CrKQ,484
 biocypher/_get.py,sha256=_wUjhRjH2J6Qhq0Ndy3kdfaWhHDTT-dxyCvtuH36My4,14868
 biocypher/_logger.py,sha256=y9dh3SPJOCWXnkFSYSK7aj_-pB7zlAkNCf43Dp1lt74,2941
 biocypher/_mapping.py,sha256=ntspG2C_NaQODhWTBFk0CDvolkOCjtqlQ9E-NkJAuTg,9030
-biocypher/_metadata.py,sha256=m8xeGsUl8MT9Tdlh_KKcPCa8Pf8Tn84yUlsWkJoxi2M,1416
+biocypher/_metadata.py,sha256=dz_VeWCq0wx6Cr1hCzscvEVPLSRY1F8Tecu2saeAhkg,1416
 biocypher/_misc.py,sha256=YzlY7zwa0mim9QFg9HwXErkJFIH3cvLrbgjF8tKOIT8,6353
 biocypher/_ontology.py,sha256=lipZxU3aj6zrTbBrJZmCW6IRCuz-KQG3AfbYCVq6aFE,33133
 biocypher/_translate.py,sha256=NKSM9lxNjNNbgQrK_24eWYh3B41TS7kjnSwjySnK3s0,16851
@@ -20,7 +20,7 @@ biocypher/output/connect/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZ
 biocypher/output/connect/_get_connector.py,sha256=Qimv3kTkXYkhJZRT6nq8mwIM2wORCnyqqHqF2IByuuc,1152
 biocypher/output/connect/_neo4j_driver.py,sha256=kXjOXW12wZFfEp7plAuo40bPSvOfd-i9m4YaXoMq-p0,12357
 biocypher/output/in_memory/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
-biocypher/output/in_memory/_airr.py,sha256=tOYww8eHaH4EOElRKFxwShlVW83tXx4xbv7ZfrInphg,20461
+biocypher/output/in_memory/_airr.py,sha256=wOYg2x1WCs7DTImtdxNyyoCmjDUVg1Ovh29kzMOQ688,20671
 biocypher/output/in_memory/_get_in_memory_kg.py,sha256=NQ-AT8jgAvb-aTK7zsYrItvlDEow_Mfni5tKEJjwjx0,1256
 biocypher/output/in_memory/_in_memory_kg.py,sha256=BTBtqb2ZC_zxXdOJ59BQKUoGXZSpiaRG6VecjZGWCm0,3526
 biocypher/output/in_memory/_networkx.py,sha256=cSOSAreP7S3oeGT6noZ1kAIvSnkVnU3NUp1OY4yqzn0,1515
@@ -40,7 +40,7 @@ biocypher/output/write/relational/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeR
 biocypher/output/write/relational/_csv.py,sha256=m0BSQXts88Qu5AEvoIgnwRz54ia38g4VN3PaA3LCYM8,2807
 biocypher/output/write/relational/_postgresql.py,sha256=75iJvv-0ewSsQXhVeoYoGnmYQnKY_B4iItZV7DpEBto,12190
 biocypher/output/write/relational/_sqlite.py,sha256=BuGWOeeNA83lbUvjpkzqcR9_baWLsbfmLXBKe4O1EPE,2105
-biocypher-0.10.0.dist-info/LICENSE,sha256=oejgxuxyjSnyPw3YPloz6-dCBB_nYizJ4jDQnr-xZUU,1082
-biocypher-0.10.0.dist-info/METADATA,sha256=TAd1YjHL94Sdp0_aW0ag7Qkbr5cJOCm7zvc6DqvG_ko,10706
-biocypher-0.10.0.dist-info/WHEEL,sha256=FMvqSimYX_P7y0a7UY-_Mc83r5zkBZsCYPm7Lr0Bsq4,88
-biocypher-0.10.0.dist-info/RECORD,,
+biocypher-0.10.1.dist-info/LICENSE,sha256=oejgxuxyjSnyPw3YPloz6-dCBB_nYizJ4jDQnr-xZUU,1082
+biocypher-0.10.1.dist-info/METADATA,sha256=Pxq7NgLmZcVn5zrge_QpB0xozDZWrtghWm2RMuOWZGU,10712
+biocypher-0.10.1.dist-info/WHEEL,sha256=FMvqSimYX_P7y0a7UY-_Mc83r5zkBZsCYPm7Lr0Bsq4,88
+biocypher-0.10.1.dist-info/RECORD,,