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4 changes: 2 additions & 2 deletions requirements.txt
Original file line number Diff line number Diff line change
Expand Up @@ -2,10 +2,10 @@
Django==6.0.8
#### Python PostgreSQL library ####
# psycopg2-binary==2.9.11
psycopg[binary]==3.3.4
psycopg[binary]==3.3.5
# psycopg==3.2.10
#### Django REST API libraries ####
djangorestframework==3.17.2
djangorestframework==3.18.1
django-cors-headers==4.9.0
#### Elasticsearch libraries ####
elasticsearch==8.19.3
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2 changes: 1 addition & 1 deletion requirements_local.txt
Original file line number Diff line number Diff line change
Expand Up @@ -6,4 +6,4 @@ openpyxl==3.1.5
PyYAML==6.0.3

# For testing only:
django-debug-toolbar==7.0.0
django-debug-toolbar==8.0.0
8 changes: 3 additions & 5 deletions search_es/documents/pathway.py
Original file line number Diff line number Diff line change
Expand Up @@ -26,11 +26,9 @@ def fetch_mt_data(objects_list):
@registry.register_document
class PathwayDocument(Document):
""" Pathway elasticsearch document """
name = fields.TextField(
analyzer=name_delimiter#,
# fields={
# 'raw': fields.KeywordField()
# }
pathway_name = fields.TextField(
attr="name",
analyzer=name_delimiter
)
id = fields.TextField(attr="external_id", analyzer=id_analyzer)
external_id_source = fields.TextField(index=False)
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11 changes: 6 additions & 5 deletions search_es/documents/score.py
Original file line number Diff line number Diff line change
Expand Up @@ -23,11 +23,9 @@ class ScoreDocument(Document):
""" Score elasticsearch document """

id = fields.TextField(analyzer=id_analyzer)
name = fields.TextField(
analyzer=name_delimiter#,
# fields={
# 'raw': fields.KeywordField()
# }
score_name = fields.TextField(
attr="name",
analyzer=name_delimiter
)
variants_number = fields.IntegerField(index=False, doc_values=False)
platform_name = fields.TextField(index=False)
Expand All @@ -51,6 +49,9 @@ class ScoreDocument(Document):
}
)

def prepare_genes_data(self, instance):
return instance.name

def prepare_genes_data(self, instance):
# Limit fetch of gene data to protein and gene platforms
omics_type = self.get_omics_type(instance)
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2 changes: 1 addition & 1 deletion search_es/views.py
Original file line number Diff line number Diff line change
Expand Up @@ -9,7 +9,7 @@
result_size = 50

def query_fields():
return ['id^5','id_colon^5','label^6','name^4','categories_list','synonyms_list^3','description^3',
return ['id^5','id_colon^5','label^6','name^4','pathway_name^3','score_name','categories_list','synonyms_list^3','description^3',
'trait_reported', 'trait_reported_id', 'traits_reported_list^2',
'genes.external_id^2','genes.name^2','genes.synonyms_list^2','genes.description',
'proteins.external_id^2','proteins.names^2','proteins.synonyms_list^2','proteins.description',
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