changed names to rarelink cdm

BIH-CEI · Sep 21, 2024 · 7ef80fc · 7ef80fc
1 parent 50dd626
commit 7ef80fc
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Showing 3 changed files with 5 additions and 5 deletions.
diff --git a/src/rarelink/pipelines/__init__.py b/src/rarelink/pipelines/__init__.py
@@ -1,13 +1,13 @@
 """This module includes the codes for the different pipelines"""
 
-from .rarelink_data_model import RARELINK_DATAMODEL_2_0
+from .rarelink_cdm import RARELINK_CDM_2_0
 from . import redcap_fhir_pipeline
 from . import redcap_phenopacket_pipeline
 from . import tabular_redcap_pipeline
 
 __all__ = [
 
-    "RARELINK_DATAMODEL_2_0",
+    "RARELINK_CDM_2_0",
     "redcap_fhir_pipeline",
     "redcap_phenopacket_pipeline",
     "tabular_redcap_pipeline",

diff --git a/src/rarelink/pipelines/redcap_phenopacket_pipeline/phenopacket_pipeline.py b/src/rarelink/pipelines/redcap_phenopacket_pipeline/phenopacket_pipeline.py
@@ -3,12 +3,12 @@
 
 from phenopackets.schema.v2 import Phenopacket
 
-from rarelink.pipelines import RARELINK_DATAMODEL_2_0
+from rarelink.pipelines import RARELINK_CDM_2_0
 
 from rarelink.preprocessing import preprocess_redcap_for_phenopacket_pipeline
 
 
-def phenopacket_pipeline(path: Union[str, Path], rarelink_data_model=RARELINK_DATAMODEL_2_0) -> List[Phenopacket]:
+def phenopacket_pipeline(path: Union[str, Path], rarelink_data_model=RARELINK_CDM_2_0) -> List[Phenopacket]:
     # 0. load data using data model
     # rl_data_set = rarelink_data_model.load_data(path)  # TODO: once implemented in phenopacket_mapper,
                                                         #  TODO: uncomment this line

diff --git a/src/rarelink/pipelines/tabular_redcap_pipeline/__init__.py b/src/rarelink/pipelines/tabular_redcap_pipeline/__init__.py
@@ -1,4 +1,4 @@
-"""This module implements the pipeline from any tabular medical data set to the RareLink REDCap CDM."""
+"""This module implements the pipeline from any tabular medical data set to the RareLink CDM."""
 
 __all__ = [