Refactor Reference schema to be based on a basesection

src/perovskite_tandem_database/schema_sections/ref.py

@@ -1,15 +1,18 @@
 import numpy as np
 from nomad.datamodel.data import ArchiveSection
+from nomad.datamodel.metainfo.basesections import PublicationReference
 from nomad.metainfo import Datetime, Quantity, Section
 
 
-class Reference(ArchiveSection):
+class Reference(PublicationReference):
     """Information about the source of the data. It describes who curated the data,
     the journal in which the data was published,
     the DOI number of the publication, the lead author and the publication date."""
 
     m_def = Section(a_eln=dict(lane_width='800px'))
 
+    # custom fields for the tandem database
+
     ID_temp = Quantity(
         type=np.dtype(np.int64),
         shape=[],
@@ -35,7 +38,6 @@ class Reference(ArchiveSection):
         a_eln=dict(component='RichTextEditQuantity'),
     )    
 
-    # Add in the future auto filling from metadata.author
     name_of_person_entering_the_data = Quantity(
         type=str,
         shape=[],
@@ -53,77 +55,6 @@ class Reference(ArchiveSection):
         a_eln=dict(component='BoolEditQuantity'),
     )
 
-    DOI_number = Quantity(
-        type=str,
-        shape=[],
-        description="""
-        The DOI number referring to the published paper or dataset where the data can be found. If the data is unpublished, enter “Unpublished”
-        Examples:
-            10.1021/jp5126624
-            10.1016/j.electacta.2017.06.032
-            Unpublished
-                    """,
-        a_eln=dict(component='EnumEditQuantity', props=dict(suggestions=[])),
-    )
-
-    lead_author = Quantity(
-        type=str,
-        shape=[],
-        description="""
-    The surname of the first author. If several authors, end with et al. If the DOI number is given correctly, this will be extracted automatically from www.crossref.org
-                    """,
-        a_eln=dict(component='EnumEditQuantity', props=dict(suggestions=[])),
-    )
-
-    publication_date = Quantity(
-        type=Datetime,
-        shape=[],
-        description="""
-    Publication date. If the DOI number is given correctly, this will be extracted automatically from www.crossref.org
-                    """,
-    )
-
-    # journal = Quantity(
-    #     type=str,
-    #     shape=[],
-    #     description="""
-    # nan
-    #                 """,
-    # )
-
     def normalize(self, archive, logger):
-        import dateutil.parser
-        import requests
-        from nomad.datamodel.datamodel import EntryMetadata
-
-        # Parse journal name, lead author and publication date from crossref
-        if self.DOI_number:
-            if not self.ID_temp:
-                r = requests.get(f'https://api.crossref.org/works/{self.DOI_number}')
-                temp_dict = r.json()
-                # make sure the doi has the prefix https://doi.org/
-                if self.DOI_number.startswith('10.'):
-                    self.DOI_number = 'https://doi.org/' + self.DOI_number
-                given_name = temp_dict['message']['author'][0]['given']
-                familiy_name = temp_dict['message']['author'][0]['family']
-                self.journal = temp_dict['message']['container-title'][0]
-                self.publication_date = dateutil.parser.parse(
-                    temp_dict['message']['created']['date-time']
-                )
-                self.lead_author = given_name + ' ' + familiy_name
-            if not archive.metadata:
-                archive.metadata = EntryMetadata()
-            if not archive.metadata.references:
-                archive.metadata.references = []
-                archive.metadata.references.append(self.DOI_number)
-                if self.ID_temp is not None:
-                    archive.metadata.references.append(
-                        'https://doi.org/10.1038/s41560-021-00941-3'
-                    )
-                    archive.metadata.references.append(
-                        'https://www.perovskitedatabase.com/'
-                    )
-                    archive.metadata.external_db = 'The Perovskite Database Project'
-            for i, ref in enumerate(archive.metadata.references):
-                if ref.startswith('10.'):
-                    archive.metadata.references[i] = 'https://doi.org/' + ref
+        """Normalize the reference section."""
+        super(PublicationReference, self).normalize(archive, logger)