removing pynanomapper references

ideaconsult · Aug 8, 2024 · 6ff2b17 · 6ff2b17
1 parent ffc874a
commit 6ff2b17
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Showing 3 changed files with 11 additions and 11 deletions.
diff --git a/src/datamodel/ambit.py b/src/datamodel/ambit.py
@@ -347,7 +347,7 @@ def custom_encoder(obj):
 
     Examples:
         from typing import List
-        from pynanomapper.datamodel.ambit import EffectRecord, Protocol, EndpointCategory, ProtocolApplication
+        from pyambit.datamodel.ambit import EffectRecord, Protocol, EndpointCategory, ProtocolApplication
         effect_list: List[EffectRecord] = []
         effect_list.append(EffectRecord(endpoint="Endpoint 1", unit="Unit 1", loValue=5.0))
         effect_list.append(EffectRecord(endpoint="Endpoint 2", unit="Unit 2", loValue=10.0))
@@ -433,7 +433,7 @@ class Study(AmbitModel):
     Example:
         # Creating an instance of Substances, with studies
         # Parse json retrieved from AMBIT services
-        from  pynanomapper.datamodel.measurements import Study
+        from  pyambit.datamodel.measurements import Study
         import requests
         url = "https://apps.ideaconsult.net/gracious/substance/GRCS-7bd6de68-a312-3254-8b3f-9f46d6976ce6"
         response = requests.get(url+"/study?media=application/json")
@@ -569,7 +569,7 @@ class Substances(AmbitModel):
     Example:
         # Creating an instance of Substances, with studies
         # Parse json retrieved from AMBIT services
-        from  pynanomapper.datamodel.measurements import Substances
+        from  pyambit.datamodel.measurements import Substances
         _p = Substances(**parsed_json)
         for substance in _p.substance:
             papps = substance.study

diff --git a/src/datamodel/nexus_spectra.py b/src/datamodel/nexus_spectra.py
@@ -7,9 +7,9 @@
 import nexusformat.nexus.tree as nx
 import numpy as np
 import numpy.typing as npt
-import pynanomapper.datamodel.ambit as mx
+import pyambit.datamodel.ambit as mx
 import ramanchada2 as rc2
-from pynanomapper.datamodel.nexus_writer import to_nexus
+from pyambit.datamodel.nexus_writer import to_nexus
 from ramanchada2.misc.types.fit_peaks_result import FitPeaksResult
 
 

diff --git a/src/datamodel/nexus_writer.py b/src/datamodel/nexus_writer.py
@@ -28,8 +28,8 @@
         Exception: on parse
 
     Examples:
-        from  pynanomapper.datamodel.nexus_writer import to_nexus
-        from  pynanomapper.datamodel.measurements import ProtocolApplication
+        from  pyambit.datamodel.nexus_writer import to_nexus
+        from  pyambit.datamodel.measurements import ProtocolApplication
         pa = ProtocolApplication(**json_data)
         import nexusformat.nexus.tree as nx
         ne = pa.to_nexus(nx.NXroot())
@@ -273,8 +273,8 @@ def to_nexus(study: mx.Study, nx_root: nx.NXroot() = None):
         Exception: on parse
 
     Examples:
-        import  pynanomapper.datamodel.measurements as m2n
-        from pynanomapper.datamodel.nexus_writer import to_nexus
+        import  pyambit.datamodel.measurements as m2n
+        from pyambit.datamodel.nexus_writer import to_nexus
         import nexusformat.nexus.tree as nx
         substance="GRCS-18f0f0e8-b5f4-39bc-b8f8-9c869c8bd82f"
         url = "https://apps.ideaconsult.net/gracious/substance/{}?media=application/json".format(substance)
@@ -717,9 +717,9 @@ def papp_mash(df, dfcols, condcols, drop_parsed_cols=True):
     return df
 
 
-# from  pynanomapper.datamodel.measurements import ProtocolApplication
+# from  pyambit.datamodel.measurements import ProtocolApplication
 # pa = ProtocolApplication(**json_data)
-# from pynanomapper.datamodel import measurements2nexus as m2n
+# from pyambit.datamodel import measurements2nexus as m2n
 # df_samples, df_controls = m2n.papp2df(pa, _col="CONCENTRATION")
 def papp2df(pa: mx.ProtocolApplication, _cols=["CONCENTRATION"], drop_parsed_cols=True):
     df, dfcols, resultcols, condcols = effects2df(pa.effects, drop_parsed_cols)