pharmaobservatory 0.1.9 → 0.1.10

checksums.yaml

@@ -1,7 +1,7 @@
 ---
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+  metadata.gz: cb60f4f5f451e27e537257b6d86965701340469a40f7bfa77d3ae745adb57e0a
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data/README.md

@@ -39,7 +39,7 @@ Read-only REST API over the Pharma Observatory biomedical data platform. Referen
 This SDK is automatically generated by the [OpenAPI Generator](https://openapi-generator.tech) project:
 
 - API version: 1.0.0
-- Package version: 0.1.9
+- Package version: 0.1.10
 - Generator version: 7.13.0
 - Build package: org.openapitools.codegen.languages.RubyClientCodegen
 
@@ -56,16 +56,16 @@ gem build pharmaobservatory.gemspec
 Then either install the gem locally:
 
 ```shell
-gem install ./pharmaobservatory-0.1.9.gem
+gem install ./pharmaobservatory-0.1.10.gem
 ```
 
-(for development, run `gem install --dev ./pharmaobservatory-0.1.9.gem` to install the development dependencies)
+(for development, run `gem install --dev ./pharmaobservatory-0.1.10.gem` to install the development dependencies)
 
 or publish the gem to a gem hosting service, e.g. [RubyGems](https://rubygems.org/).
 
 Finally add this to the Gemfile:
 
-    gem 'pharmaobservatory', '~> 0.1.9'
+    gem 'pharmaobservatory', '~> 0.1.10'
 
 ### Install from Git
 

data/docs/BiomarkerAssayEvidenceRow.md

@@ -20,7 +20,7 @@
 | **comparator_method** | **String** | The reference method the performance was measured against, when reported. | [optional] |
 | **reported_performance** | **String** | The performance as the paper states it (sensitivity, specificity, area under the curve), as text and not computed. | [optional] |
 | **validation_type_mentioned** | **String** | What the paper claims about the validation type: a fact about the text, not a tier. | [optional] |
-| **assay_provider_company** | **Array<String>** | Organization names as extracted that run or provide the assay. Not resolved to a company. | [optional] |
+| **assay_provider_company** | **Array<String>** | The first extraction's flat list of organization names, as extracted, with no role. Not resolved to a company, and it names any company a paper mentions. Who makes or runs an assay for a biomarker, with the role, is the biomarker_assay_providers dataset. | [optional] |
 | **funding_organizations** | **Array<String>** | Organization names as extracted that funded the study. Never merged with the assay provider. | [optional] |
 | **evidence_type** | **String** | Always literature_assay_validation, which tells these rows from the other evidence types. | [optional] |
 | **evidence_quote** | **Array<String>** | The sentences of the paper the facts were read from. Null when the extraction gave none. | [optional] |

data/docs/BiomarkerAssayProvidersRow.md

@@ -9,9 +9,12 @@
 | **biomarker_id** | **String** | The biomarker's own key; null for a pair whose gene did not resolve. | [optional] |
 | **biomarker_display_name** | **String** | The biomarker's name, as resolved or else as extracted. | [optional] |
 | **gene_resolution_status** | **String** | resolved: the gene resolved. unresolved: a gene symbol was extracted and matched nothing. not_applicable: no gene symbol was extracted. | [optional] |
-| **company_name_key** | **String** | The normalised company name the provider rows are grouped on. | [optional] |
+| **provider_key** | **String** | The provider the rows are grouped on. org: followed by the organization key when the company resolves to an organization, otherwise name: followed by the normalised company name. | [optional] |
+| **provider_role** | **String** | What the papers name the provider as. assay_or_test_maker makes the assay or test; testing_service runs it as a service; both when the pair has papers of each kind. | [optional] |
 | **provider_name** | **String** | The provider company name as it appears in the papers. | [optional] |
 | **provider_org_id** | **String** | The provider's legal entity key, where the marketplace match resolves one. | [optional] |
+| **provider_org_match_tier** | **String** | How the provider was resolved to an organization. rx_provider_link: through its marketplace supplier. unresolved: no organization, the provider stays a name. The remaining values are reserved for resolution rungs that have not shipped. | [optional] |
+| **provider_parent_org_id** | **String** | The ultimate parent organization of the provider's organization; null when the provider has no organization. | [optional] |
 | **provider_company_id** | **String** | The provider's company key. | [optional] |
 | **provider_company_name** | **String** | The provider's company name. | [optional] |
 | **provider_group_id** | **String** | The provider's current ultimate parent group key. | [optional] |
@@ -44,9 +47,12 @@ instance = PharmaObservatory::BiomarkerAssayProvidersRow.new(
   biomarker_id: null,
   biomarker_display_name: null,
   gene_resolution_status: null,
-  company_name_key: null,
+  provider_key: null,
+  provider_role: null,
   provider_name: null,
   provider_org_id: null,
+  provider_org_match_tier: null,
+  provider_parent_org_id: null,
   provider_company_id: null,
   provider_company_name: null,
   provider_group_id: null,

data/lib/pharmaobservatory/models/biomarker_assay_evidence_row.rb

@@ -64,7 +64,7 @@ module PharmaObservatory
     # What the paper claims about the validation type: a fact about the text, not a tier.
     attr_accessor :validation_type_mentioned
 
-    # Organization names as extracted that run or provide the assay. Not resolved to a company.
+    # The first extraction's flat list of organization names, as extracted, with no role. Not resolved to a company, and it names any company a paper mentions. Who makes or runs an assay for a biomarker, with the role, is the biomarker_assay_providers dataset.
     attr_accessor :assay_provider_company
 
     # Organization names as extracted that funded the study. Never merged with the assay provider.

data/lib/pharmaobservatory/models/biomarker_assay_providers_row.rb

@@ -14,7 +14,7 @@ require 'date'
 require 'time'
 
 module PharmaObservatory
-  # One row of the biomarker_assay_providers dataset: one row per biomarker key and assay-provider company name key. A grouped request returns the group columns and the measures instead, as additional properties.
+  # One row of the biomarker_assay_providers dataset: one row per biomarker key and provider key. A grouped request returns the group columns and the measures instead, as additional properties.
   class BiomarkerAssayProvidersRow
     # The route key of the gene the biomarker resolved to, the entry key for the biomarkers object type. Null when the extraction did not resolve a gene.
     attr_accessor :route_key
@@ -31,8 +31,11 @@ module PharmaObservatory
     # resolved: the gene resolved. unresolved: a gene symbol was extracted and matched nothing. not_applicable: no gene symbol was extracted.
     attr_accessor :gene_resolution_status
 
-    # The normalised company name the provider rows are grouped on.
-    attr_accessor :company_name_key
+    # The provider the rows are grouped on. org: followed by the organization key when the company resolves to an organization, otherwise name: followed by the normalised company name.
+    attr_accessor :provider_key
+
+    # What the papers name the provider as. assay_or_test_maker makes the assay or test; testing_service runs it as a service; both when the pair has papers of each kind.
+    attr_accessor :provider_role
 
     # The provider company name as it appears in the papers.
     attr_accessor :provider_name
@@ -40,6 +43,12 @@ module PharmaObservatory
     # The provider's legal entity key, where the marketplace match resolves one.
     attr_accessor :provider_org_id
 
+    # How the provider was resolved to an organization. rx_provider_link: through its marketplace supplier. unresolved: no organization, the provider stays a name. The remaining values are reserved for resolution rungs that have not shipped.
+    attr_accessor :provider_org_match_tier
+
+    # The ultimate parent organization of the provider's organization; null when the provider has no organization.
+    attr_accessor :provider_parent_org_id
+
     # The provider's company key.
     attr_accessor :provider_company_id
 
@@ -108,9 +117,12 @@ module PharmaObservatory
         :'biomarker_id' => :'biomarker_id',
         :'biomarker_display_name' => :'biomarker_display_name',
         :'gene_resolution_status' => :'gene_resolution_status',
-        :'company_name_key' => :'company_name_key',
+        :'provider_key' => :'provider_key',
+        :'provider_role' => :'provider_role',
         :'provider_name' => :'provider_name',
         :'provider_org_id' => :'provider_org_id',
+        :'provider_org_match_tier' => :'provider_org_match_tier',
+        :'provider_parent_org_id' => :'provider_parent_org_id',
         :'provider_company_id' => :'provider_company_id',
         :'provider_company_name' => :'provider_company_name',
         :'provider_group_id' => :'provider_group_id',
@@ -152,9 +164,12 @@ module PharmaObservatory
         :'biomarker_id' => :'String',
         :'biomarker_display_name' => :'String',
         :'gene_resolution_status' => :'String',
-        :'company_name_key' => :'String',
+        :'provider_key' => :'String',
+        :'provider_role' => :'String',
         :'provider_name' => :'String',
         :'provider_org_id' => :'String',
+        :'provider_org_match_tier' => :'String',
+        :'provider_parent_org_id' => :'String',
         :'provider_company_id' => :'String',
         :'provider_company_name' => :'String',
         :'provider_group_id' => :'String',
@@ -186,9 +201,12 @@ module PharmaObservatory
         :'biomarker_id',
         :'biomarker_display_name',
         :'gene_resolution_status',
-        :'company_name_key',
+        :'provider_key',
+        :'provider_role',
         :'provider_name',
         :'provider_org_id',
+        :'provider_org_match_tier',
+        :'provider_parent_org_id',
         :'provider_company_id',
         :'provider_company_name',
         :'provider_group_id',
@@ -248,8 +266,12 @@ module PharmaObservatory
         self.gene_resolution_status = attributes[:'gene_resolution_status']
       end
 
-      if attributes.key?(:'company_name_key')
-        self.company_name_key = attributes[:'company_name_key']
+      if attributes.key?(:'provider_key')
+        self.provider_key = attributes[:'provider_key']
+      end
+
+      if attributes.key?(:'provider_role')
+        self.provider_role = attributes[:'provider_role']
       end
 
       if attributes.key?(:'provider_name')
@@ -260,6 +282,14 @@ module PharmaObservatory
         self.provider_org_id = attributes[:'provider_org_id']
       end
 
+      if attributes.key?(:'provider_org_match_tier')
+        self.provider_org_match_tier = attributes[:'provider_org_match_tier']
+      end
+
+      if attributes.key?(:'provider_parent_org_id')
+        self.provider_parent_org_id = attributes[:'provider_parent_org_id']
+      end
+
       if attributes.key?(:'provider_company_id')
         self.provider_company_id = attributes[:'provider_company_id']
       end
@@ -366,9 +396,12 @@ module PharmaObservatory
           biomarker_id == o.biomarker_id &&
           biomarker_display_name == o.biomarker_display_name &&
           gene_resolution_status == o.gene_resolution_status &&
-          company_name_key == o.company_name_key &&
+          provider_key == o.provider_key &&
+          provider_role == o.provider_role &&
           provider_name == o.provider_name &&
           provider_org_id == o.provider_org_id &&
+          provider_org_match_tier == o.provider_org_match_tier &&
+          provider_parent_org_id == o.provider_parent_org_id &&
           provider_company_id == o.provider_company_id &&
           provider_company_name == o.provider_company_name &&
           provider_group_id == o.provider_group_id &&
@@ -400,7 +433,7 @@ module PharmaObservatory
     # Calculates hash code according to all attributes.
     # @return [Integer] Hash code
     def hash
-      [route_key, biomarker_key, biomarker_id, biomarker_display_name, gene_resolution_status, company_name_key, provider_name, provider_org_id, provider_company_id, provider_company_name, provider_group_id, provider_group_name, rx_matched, rx_provider_id, rx_provider_name, rx_provider_slug, has_clinical_validation, has_analytical_validation, n_papers, n_dated_papers, n_undated_papers, most_recent_published_at, most_recent_pmid, most_recent_title, meets_curated_threshold, assay_provider_class, assay_provider_class_source, assay_provider_class_decided_at].hash
+      [route_key, biomarker_key, biomarker_id, biomarker_display_name, gene_resolution_status, provider_key, provider_role, provider_name, provider_org_id, provider_org_match_tier, provider_parent_org_id, provider_company_id, provider_company_name, provider_group_id, provider_group_name, rx_matched, rx_provider_id, rx_provider_name, rx_provider_slug, has_clinical_validation, has_analytical_validation, n_papers, n_dated_papers, n_undated_papers, most_recent_published_at, most_recent_pmid, most_recent_title, meets_curated_threshold, assay_provider_class, assay_provider_class_source, assay_provider_class_decided_at].hash
     end
 
     # Builds the object from hash

data/lib/pharmaobservatory/version.rb

@@ -11,5 +11,5 @@ Generator version: 7.13.0
 =end
 
 module PharmaObservatory
-  VERSION = '0.1.9'
+  VERSION = '0.1.10'
 end

metadata

@@ -1,14 +1,14 @@
 --- !ruby/object:Gem::Specification
 name: pharmaobservatory
 version: !ruby/object:Gem::Version
-  version: 0.1.9
+  version: 0.1.10
 platform: ruby
 authors:
 - Scientist.com
 autorequire:
 bindir: bin
 cert_chain: []
-date: 2026-10-24 00:00:00.000000000 Z
+date: 2026-10-28 00:00:00.000000000 Z
 dependencies:
 - !ruby/object:Gem::Dependency
   name: faraday