feat!: generalize script by removing organizational metadata

Remove Phase class, organizational metadata blocks, and unused project fields. Update configuration
to use 'default_grants' and simplify PI usage to fallback corresponding author determination only.

BREAKING CHANGES: - Remove 'phase' and 'project' fields from configuration - Use 'default_grants'
instead of 'default_grant' - Generate only standard Dataverse citation metadata

tests/test_fetch_doi_mock.py

@@ -4,16 +4,15 @@ import os
 import pytest
 
 from doi2dataset import (
-    AbstractProcessor, 
+    AbstractProcessor,
     APIClient,
-    CitationBuilder, 
-    Config, 
-    License,
-    LicenseProcessor, 
+    CitationBuilder,
+    Config,
+    LicenseProcessor,
     MetadataProcessor,
     Person,
     PIFinder,
-    SubjectMapper
+    SubjectMapper,
 )
 
 
@@ -78,16 +77,16 @@ def test_openalex_abstract_extraction(mocker, fake_openalex_response):
     """Test the extraction of abstracts from OpenAlex inverted index data."""
     # Create API client for AbstractProcessor
     api_client = APIClient()
-    
+
     # Create processor
     processor = AbstractProcessor(api_client=api_client)
-    
+
     # Call the protected method directly with the fake response
     abstract_text = processor._get_openalex_abstract(fake_openalex_response)
-    
+
     # Verify abstract was extracted
     assert abstract_text is not None
-    
+
     # If abstract exists in the response, it should be properly extracted
     if 'abstract_inverted_index' in fake_openalex_response:
         assert len(abstract_text) > 0
@@ -97,15 +96,15 @@ def test_subject_mapper(fake_openalex_response):
     """Test that the SubjectMapper correctly maps OpenAlex topics to subjects."""
     # Extract topics from the OpenAlex response
     topics = fake_openalex_response.get("topics", [])
-    
+
     # Convert topics to strings - we'll use display_name
     topic_names = []
     if topics:
         topic_names = [topic.get("display_name") for topic in topics if topic.get("display_name")]
-    
+
     # Get subjects using the class method
     subjects = SubjectMapper.get_subjects({"topics": topics})
-    
+
     # Verify subjects were returned
     assert subjects is not None
     assert isinstance(subjects, list)
@@ -114,21 +113,21 @@ def test_subject_mapper(fake_openalex_response):
 def test_citation_builder(fake_openalex_response):
     """Test that the CitationBuilder correctly builds author information."""
     doi = "10.1038/srep45389"
-    
+
     # Mock PIFinder with an empty list of PIs
     pi_finder = PIFinder(pis=[])
-    
+
     # Create builder with required arguments
     builder = CitationBuilder(data=fake_openalex_response, doi=doi, pi_finder=pi_finder)
-    
+
     # Test building other IDs
     other_ids = builder.build_other_ids()
     assert isinstance(other_ids, list)
-    
+
     # Test building grants
     grants = builder.build_grants()
     assert isinstance(grants, list)
-    
+
     # Test building topics
     topics = builder.build_topics()
     assert isinstance(topics, list)
@@ -140,10 +139,10 @@ def test_license_processor(fake_openalex_response):
     license_data = {
         "primary_location": fake_openalex_response.get("primary_location", {})
     }
-    
+
     # Process the license
     license_obj = LicenseProcessor.process_license(license_data)
-    
+
     # Verify license processing
     assert license_obj is not None
     assert hasattr(license_obj, "name")
@@ -158,16 +157,15 @@ def test_pi_finder_find_by_orcid():
         given_name="Jon",
         orcid="0000-0000-0000-0000",
         email="jon.doe@iana.org",
-        affiliation="Institute of Science, Some University",
-        project=["Project A01"]
+        affiliation="Institute of Science, Some University"
     )
-    
+
     # Create PIFinder with our test PI
     finder = PIFinder(pis=[test_pi])
-    
+
     # Find PI by ORCID
     pi = finder._find_by_orcid("0000-0000-0000-0000")
-    
+
     # Verify the PI was found
     assert pi is not None
     assert pi.family_name == "Doe"
@@ -177,7 +175,7 @@ def test_pi_finder_find_by_orcid():
 def test_config_load_invalid_path():
     """Test that Config.load_config raises an error when an invalid path is provided."""
     invalid_path = "non_existent_config.yaml"
-    
+
     # Verify that attempting to load a non-existent config raises an error
     with pytest.raises(FileNotFoundError):
         Config.load_config(config_path=invalid_path)
@@ -186,20 +184,20 @@ def test_config_load_invalid_path():
 def test_metadata_processor_fetch_data(mocker, fake_openalex_response):
     """Test the _fetch_data method of the MetadataProcessor class with mocked responses."""
     doi = "10.1038/srep45389"
-    
+
     # Mock API response
-    mocker.patch("doi2dataset.APIClient.make_request", 
+    mocker.patch("doi2dataset.APIClient.make_request",
                  return_value=FakeResponse(fake_openalex_response, 200))
-    
+
     # Create processor with upload disabled and progress disabled
     processor = MetadataProcessor(doi=doi, upload=False, progress=False)
-    
+
     # Test the _fetch_data method directly
     data = processor._fetch_data()
-    
+
     # Verify that data was fetched correctly
     assert data is not None
     assert data == fake_openalex_response
-    
+
     # Verify the DOI is correctly stored
     assert processor.doi == doi