diff --git a/_modules/sssom/parsers.html b/_modules/sssom/parsers.html index 845e6727..62ea361b 100644 --- a/_modules/sssom/parsers.html +++ b/_modules/sssom/parsers.html @@ -991,6 +991,16 @@

Source code for sssom.parsers

 
     try:
         m = Mapping(**mdict)
+        if m.subject_type == "rdfs literal":
+            if m.subject_label is None:
+                raise ValueError("Missing subject_label")
+        elif m.subject_id is None:
+            raise ValueError("Missing subject_id")
+        if m.object_type == "rdfs literal":
+            if m.object_label is None:
+                raise ValueError("Missing object_label")
+        elif m.object_id is None:
+            raise ValueError("Missing object_id")
     except ValueError as e:
         logging.warning(
             f"One mapping in the mapping set is not well-formed, "
diff --git a/cli_usage.html b/cli_usage.html
index 7c00fcac..c2305905 100644
--- a/cli_usage.html
+++ b/cli_usage.html
@@ -372,7 +372,7 @@ 
convert
 
Options:

-
tsv | owl | ontoportal_json | fhir_json | json | rdf | turtle | ttl | nt | xml

+
tsv | owl | ontoportal_json | fhir_json | json | rdf | xml | ttl | nt | turtle

 

 
 
diff --git a/searchindex.js b/searchindex.js
index 1fbb4ddc..cf76c7aa 100644
--- a/searchindex.js
+++ b/searchindex.js
@@ -1 +1 @@
-Search.setIndex({"docnames": ["cli_usage", "developer_docs/api", "developer_docs/modules", "developer_docs/sphinx", "developer_docs/sssom", "examples", "index", "installation", "modules", "sphinx", "sssom"], "filenames": ["cli_usage.rst", "developer_docs/api.rst", "developer_docs/modules.rst", "developer_docs/sphinx.rst", "developer_docs/sssom.rst", "examples.rst", "index.rst", "installation.rst", "modules.rst", "sphinx.rst", "sssom.rst"], "titles": ["CLI", "Python API", "Technical Documentation", "Update Documentation", "SSSOM Submodules", "Examples", "SSSOM Mapping Format Python Utilities", "Quick Install Guide", "sssom", "Update Documentation", "sssom package"], "terms": {"The": [0, 1, 4, 5, 7, 10], "script": [0, 4, 10], "i": [0, 2, 3, 4, 5, 6, 7, 9, 10], "wrapper": 0, "multipl": [0, 1, 4, 10], "sub": 0, "command": [0, 4, 6, 10], "main": [0, 1, 4, 10], "one": [0, 1, 4, 5, 10], "test": [0, 1, 4, 10], "data": [0, 1, 4, 10], "basic": [0, 1, 4, 5, 10], "tsv": [0, 1, 4, 5, 6, 10], "o": 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"module-sssom"]], "Examples": [[5, "examples"]], "parse command": [[5, "parse-command"]], "convert command": [[5, "convert-command"]], "diff command": [[5, "diff-command"]], "SSSOM Mapping Format Python Utilities": [[6, "sssom-mapping-format-python-utilities"]], "Contents": [[6, "contents"]], "Contents:": [[6, null]], "Indices and tables": [[6, "indices-and-tables"]], "Quick Install Guide": [[7, "quick-install-guide"]], "Install Python": [[7, "install-python"]], "Install SSSOM-Py for users": [[7, "install-sssom-py-for-users"]], "Install SSSOM-Py for developers": [[7, "install-sssom-py-for-developers"]], "sssom package": [[10, "sssom-package"]], "Submodules": [[10, "submodules"]], "sssom.cliquesummary module": [[10, "sssom-cliquesummary-module"]], "sssom.constants module": [[10, "module-sssom.constants"]], "sssom.rdf_util module": [[10, "module-sssom.rdf_util"]], "sssom.validators module": [[10, "module-sssom.validators"]]}, "indexentries": {"--author_id": [[0, "cmdoption-sssom-filter-author_id"]], "--author_label": [[0, "cmdoption-sssom-filter-author_label"]], "--by-columns": [[0, "cmdoption-sssom-sort-k"]], "--by-rows": [[0, "cmdoption-sssom-sort-r"]], "--clean-prefixes": [[0, "cmdoption-sssom-parse-p"]], "--comment": [[0, "cmdoption-sssom-annotate-comment"], [0, "cmdoption-sssom-filter-comment"]], "--confidence": [[0, "cmdoption-sssom-filter-confidence"]], "--config": [[0, "cmdoption-sssom-sparql-c"]], "--creator_id": [[0, "cmdoption-sssom-annotate-creator_id"], [0, "cmdoption-sssom-filter-creator_id"]], "--creator_label": [[0, "cmdoption-sssom-annotate-creator_label"], [0, "cmdoption-sssom-filter-creator_label"]], "--curation_rule": [[0, "cmdoption-sssom-filter-curation_rule"]], "--curation_rule_text": [[0, "cmdoption-sssom-filter-curation_rule_text"]], "--default-confidence": [[0, "cmdoption-sssom-ptable-default-confidence"]], "--embedded-mode": [[0, "cmdoption-sssom-parse-E"]], "--fields": [[0, "cmdoption-sssom-correlations-f"], [0, "cmdoption-sssom-crosstab-f"]], "--graph": [[0, "cmdoption-sssom-sparql-g"]], "--input-format": [[0, "cmdoption-sssom-parse-I"], [0, "cmdoption-sssom-rewire-I"]], "--inverse-factor": [[0, "cmdoption-sssom-ptable-W"]], "--inverse-map": [[0, "cmdoption-sssom-invert-inverse-map"]], "--issue_tracker": [[0, "cmdoption-sssom-annotate-issue_tracker"]], "--issue_tracker_item": [[0, "cmdoption-sssom-filter-issue_tracker_item"]], "--license": [[0, "cmdoption-sssom-annotate-license"], [0, "cmdoption-sssom-filter-license"]], "--limit": [[0, "cmdoption-sssom-sparql-l"]], "--mapping-file": [[0, "cmdoption-sssom-rewire-m"]], "--mapping-predicate-filter": [[0, "cmdoption-sssom-parse-F"]], "--mapping_cardinality": [[0, "cmdoption-sssom-filter-mapping_cardinality"]], "--mapping_date": [[0, "cmdoption-sssom-annotate-mapping_date"], [0, "cmdoption-sssom-filter-mapping_date"]], "--mapping_justification": [[0, "cmdoption-sssom-filter-mapping_justification"]], "--mapping_provider": [[0, "cmdoption-sssom-annotate-mapping_provider"], [0, "cmdoption-sssom-filter-mapping_provider"]], "--mapping_set_description": [[0, "cmdoption-sssom-annotate-mapping_set_description"]], "--mapping_set_id": [[0, "cmdoption-sssom-annotate-mapping_set_id"]], "--mapping_set_source": [[0, "cmdoption-sssom-annotate-mapping_set_source"]], "--mapping_set_title": [[0, "cmdoption-sssom-annotate-mapping_set_title"]], "--mapping_set_version": [[0, "cmdoption-sssom-annotate-mapping_set_version"]], "--mapping_source": [[0, "cmdoption-sssom-filter-mapping_source"]], "--mapping_tool": [[0, "cmdoption-sssom-annotate-mapping_tool"], [0, "cmdoption-sssom-filter-mapping_tool"]], "--mapping_tool_version": [[0, "cmdoption-sssom-annotate-mapping_tool_version"], [0, "cmdoption-sssom-filter-mapping_tool_version"]], "--mappings": [[0, "cmdoption-sssom-annotate-mappings"]], "--match_string": [[0, "cmdoption-sssom-filter-match_string"]], "--merge-inverted": [[0, "cmdoption-sssom-invert-merge-inverted"]], "--metadata": [[0, "cmdoption-sssom-cliquesummary-m"], [0, "cmdoption-sssom-parse-m"]], "--no-clean-prefixes": [[0, "cmdoption-sssom-parse-p"]], "--no-merge-inverted": [[0, "cmdoption-sssom-invert-merge-inverted"]], "--no-object-labels": [[0, "cmdoption-sssom-sparql-object-labels"]], "--no-strict-clean-prefixes": [[0, "cmdoption-sssom-parse-strict-clean-prefixes"]], "--no-update-justification": [[0, "cmdoption-sssom-invert-update-justification"]], "--non-embedded-mode": [[0, "cmdoption-sssom-parse-E"]], "--object-labels": [[0, "cmdoption-sssom-sparql-object-labels"]], "--object_category": [[0, "cmdoption-sssom-filter-object_category"]], "--object_id": [[0, "cmdoption-sssom-filter-object_id"]], "--object_label": [[0, "cmdoption-sssom-filter-object_label"]], "--object_match_field": [[0, "cmdoption-sssom-annotate-object_match_field"], [0, "cmdoption-sssom-filter-object_match_field"]], "--object_preprocessing": [[0, "cmdoption-sssom-annotate-object_preprocessing"], [0, "cmdoption-sssom-filter-object_preprocessing"]], "--object_source": [[0, "cmdoption-sssom-annotate-object_source"], [0, "cmdoption-sssom-filter-object_source"]], "--object_source_version": [[0, "cmdoption-sssom-annotate-object_source_version"], [0, "cmdoption-sssom-filter-object_source_version"]], "--object_type": [[0, "cmdoption-sssom-annotate-object_type"], [0, "cmdoption-sssom-filter-object_type"]], "--other": [[0, "cmdoption-sssom-annotate-other"], [0, "cmdoption-sssom-filter-other"]], "--output": [[0, "cmdoption-sssom-annotate-o"], [0, "cmdoption-sssom-cliquesummary-o"], [0, "cmdoption-sssom-convert-o"], [0, "cmdoption-sssom-correlations-o"], [0, "cmdoption-sssom-crosstab-o"], [0, "cmdoption-sssom-dedupe-o"], [0, "cmdoption-sssom-diff-o"], [0, "cmdoption-sssom-dosql-o"], [0, "cmdoption-sssom-filter-o"], [0, "cmdoption-sssom-invert-o"], [0, "cmdoption-sssom-merge-o"], [0, "cmdoption-sssom-parse-o"], [0, "cmdoption-sssom-ptable-o"], [0, "cmdoption-sssom-reconcile-prefixes-o"], [0, "cmdoption-sssom-remove-o"], [0, "cmdoption-sssom-rewire-o"], [0, "cmdoption-sssom-sort-o"], [0, "cmdoption-sssom-sparql-o"]], "--output-directory": [[0, "cmdoption-sssom-partition-d"], [0, "cmdoption-sssom-split-d"]], "--output-format": [[0, "cmdoption-sssom-convert-O"], [0, "cmdoption-sssom-rewire-O"]], "--precedence": [[0, "cmdoption-sssom-rewire-precedence"]], "--predicate_id": [[0, "cmdoption-sssom-filter-predicate_id"]], "--predicate_label": [[0, "cmdoption-sssom-filter-predicate_label"]], "--predicate_modifier": [[0, "cmdoption-sssom-filter-predicate_modifier"]], "--prefix": [[0, "cmdoption-sssom-sparql-P"]], "--prefix-map-mode": [[0, "cmdoption-sssom-parse-C"]], "--publication_date": [[0, "cmdoption-sssom-annotate-publication_date"], [0, "cmdoption-sssom-filter-publication_date"]], "--query": [[0, "cmdoption-sssom-dosql-Q"]], "--quiet": [[0, "cmdoption-sssom-q"]], "--reconcile": [[0, "cmdoption-sssom-merge-R"]], "--reconcile-prefix-file": [[0, "cmdoption-sssom-reconcile-prefixes-p"]], "--remove-map": [[0, "cmdoption-sssom-remove-remove-map"]], "--replace-multivalued": [[0, "cmdoption-sssom-annotate-replace-multivalued"]], "--reviewer_id": [[0, "cmdoption-sssom-filter-reviewer_id"]], "--reviewer_label": [[0, "cmdoption-sssom-filter-reviewer_label"]], "--see_also": [[0, "cmdoption-sssom-annotate-see_also"], [0, "cmdoption-sssom-filter-see_also"]], "--semantic_similarity_measure": [[0, "cmdoption-sssom-filter-semantic_similarity_measure"]], "--semantic_similarity_score": [[0, "cmdoption-sssom-filter-semantic_similarity_score"]], "--statsfile": [[0, "cmdoption-sssom-cliquesummary-s"]], "--strict-clean-prefixes": [[0, "cmdoption-sssom-parse-strict-clean-prefixes"]], "--subject-prefix": [[0, "cmdoption-sssom-invert-P"]], "--subject_category": [[0, "cmdoption-sssom-filter-subject_category"]], "--subject_id": [[0, "cmdoption-sssom-filter-subject_id"]], "--subject_label": [[0, "cmdoption-sssom-filter-subject_label"]], "--subject_match_field": [[0, "cmdoption-sssom-annotate-subject_match_field"], [0, "cmdoption-sssom-filter-subject_match_field"]], "--subject_preprocessing": [[0, "cmdoption-sssom-annotate-subject_preprocessing"], [0, "cmdoption-sssom-filter-subject_preprocessing"]], "--subject_source": [[0, "cmdoption-sssom-annotate-subject_source"], [0, "cmdoption-sssom-filter-subject_source"]], "--subject_source_version": [[0, "cmdoption-sssom-annotate-subject_source_version"], [0, "cmdoption-sssom-filter-subject_source_version"]], "--subject_type": [[0, "cmdoption-sssom-annotate-subject_type"], [0, "cmdoption-sssom-filter-subject_type"]], "--transpose": [[0, "cmdoption-sssom-correlations-t"], [0, "cmdoption-sssom-crosstab-t"]], "--update-justification": [[0, "cmdoption-sssom-invert-update-justification"]], "--url": [[0, "cmdoption-sssom-sparql-e"]], "--validation-types": [[0, "cmdoption-sssom-validate-V"]], "--verbose": [[0, "cmdoption-sssom-v"]], "--version": [[0, "cmdoption-sssom-version"]], "-c": [[0, "cmdoption-sssom-parse-C"], [0, "cmdoption-sssom-sparql-c"]], "-e": [[0, "cmdoption-sssom-parse-E"], [0, "cmdoption-sssom-sparql-e"]], "-f": [[0, "cmdoption-sssom-parse-F"], [0, "cmdoption-sssom-correlations-f"], [0, "cmdoption-sssom-crosstab-f"]], "-i": [[0, "cmdoption-sssom-parse-I"], [0, "cmdoption-sssom-rewire-I"]], "-o": [[0, "cmdoption-sssom-convert-O"], [0, "cmdoption-sssom-rewire-O"], [0, "cmdoption-sssom-annotate-o"], [0, "cmdoption-sssom-cliquesummary-o"], [0, "cmdoption-sssom-convert-o"], [0, "cmdoption-sssom-correlations-o"], [0, "cmdoption-sssom-crosstab-o"], [0, "cmdoption-sssom-dedupe-o"], [0, "cmdoption-sssom-diff-o"], [0, "cmdoption-sssom-dosql-o"], [0, "cmdoption-sssom-filter-o"], [0, "cmdoption-sssom-invert-o"], [0, "cmdoption-sssom-merge-o"], [0, "cmdoption-sssom-parse-o"], [0, "cmdoption-sssom-ptable-o"], [0, "cmdoption-sssom-reconcile-prefixes-o"], [0, "cmdoption-sssom-remove-o"], [0, "cmdoption-sssom-rewire-o"], [0, "cmdoption-sssom-sort-o"], [0, "cmdoption-sssom-sparql-o"]], "-p": [[0, "cmdoption-sssom-invert-P"], [0, "cmdoption-sssom-sparql-P"], [0, "cmdoption-sssom-parse-p"], [0, "cmdoption-sssom-reconcile-prefixes-p"]], "-q": [[0, "cmdoption-sssom-dosql-Q"], [0, "cmdoption-sssom-q"]], "-r": [[0, "cmdoption-sssom-merge-R"], [0, "cmdoption-sssom-sort-r"]], "-v": [[0, "cmdoption-sssom-validate-V"], [0, "cmdoption-sssom-v"]], "-w": [[0, "cmdoption-sssom-ptable-W"]], "-d": [[0, "cmdoption-sssom-partition-d"], [0, "cmdoption-sssom-split-d"]], "-g": [[0, "cmdoption-sssom-sparql-g"]], "-k": [[0, "cmdoption-sssom-sort-k"]], "-l": [[0, "cmdoption-sssom-sparql-l"]], "-m": [[0, "cmdoption-sssom-cliquesummary-m"], [0, "cmdoption-sssom-parse-m"], [0, "cmdoption-sssom-rewire-m"]], "-s": [[0, "cmdoption-sssom-cliquesummary-s"]], "-t": [[0, "cmdoption-sssom-correlations-t"], [0, "cmdoption-sssom-crosstab-t"]], "input": [[0, "cmdoption-sssom-annotate-arg-INPUT"], [0, "cmdoption-sssom-cliquesummary-arg-INPUT"], [0, "cmdoption-sssom-convert-arg-INPUT"], [0, "cmdoption-sssom-correlations-arg-INPUT"], [0, "cmdoption-sssom-crosstab-arg-INPUT"], [0, "cmdoption-sssom-dedupe-arg-INPUT"], [0, "cmdoption-sssom-filter-arg-INPUT"], [0, "cmdoption-sssom-invert-arg-INPUT"], [0, "cmdoption-sssom-parse-arg-INPUT"], [0, "cmdoption-sssom-ptable-arg-INPUT"], [0, "cmdoption-sssom-reconcile-prefixes-arg-INPUT"], [0, "cmdoption-sssom-remove-arg-INPUT"], [0, "cmdoption-sssom-rewire-arg-INPUT"], [0, "cmdoption-sssom-sort-arg-INPUT"], [0, "cmdoption-sssom-split-arg-INPUT"], [0, "cmdoption-sssom-validate-arg-INPUT"]], "inputs": [[0, "cmdoption-sssom-diff-arg-INPUTS"], [0, "cmdoption-sssom-dosql-arg-INPUTS"], [0, "cmdoption-sssom-merge-arg-INPUTS"], [0, "cmdoption-sssom-partition-arg-INPUTS"]], "subcommand": [[0, "cmdoption-sssom-help-arg-SUBCOMMAND"]], "sssom command line option": [[0, "cmdoption-sssom-q"], [0, "cmdoption-sssom-v"], [0, "cmdoption-sssom-version"]], "sssom-annotate command line option": [[0, "cmdoption-sssom-annotate-arg-INPUT"], [0, "cmdoption-sssom-annotate-comment"], [0, "cmdoption-sssom-annotate-creator_id"], [0, "cmdoption-sssom-annotate-creator_label"], [0, "cmdoption-sssom-annotate-issue_tracker"], [0, "cmdoption-sssom-annotate-license"], [0, "cmdoption-sssom-annotate-mapping_date"], [0, "cmdoption-sssom-annotate-mapping_provider"], [0, "cmdoption-sssom-annotate-mapping_set_description"], [0, "cmdoption-sssom-annotate-mapping_set_id"], [0, "cmdoption-sssom-annotate-mapping_set_source"], [0, "cmdoption-sssom-annotate-mapping_set_title"], [0, "cmdoption-sssom-annotate-mapping_set_version"], [0, "cmdoption-sssom-annotate-mapping_tool"], [0, "cmdoption-sssom-annotate-mapping_tool_version"], [0, "cmdoption-sssom-annotate-mappings"], [0, "cmdoption-sssom-annotate-o"], [0, "cmdoption-sssom-annotate-object_match_field"], [0, "cmdoption-sssom-annotate-object_preprocessing"], [0, "cmdoption-sssom-annotate-object_source"], [0, "cmdoption-sssom-annotate-object_source_version"], [0, "cmdoption-sssom-annotate-object_type"], [0, "cmdoption-sssom-annotate-other"], [0, "cmdoption-sssom-annotate-publication_date"], [0, "cmdoption-sssom-annotate-replace-multivalued"], [0, "cmdoption-sssom-annotate-see_also"], [0, "cmdoption-sssom-annotate-subject_match_field"], [0, "cmdoption-sssom-annotate-subject_preprocessing"], [0, "cmdoption-sssom-annotate-subject_source"], [0, "cmdoption-sssom-annotate-subject_source_version"], [0, "cmdoption-sssom-annotate-subject_type"]], "sssom-cliquesummary command line option": [[0, "cmdoption-sssom-cliquesummary-arg-INPUT"], [0, "cmdoption-sssom-cliquesummary-m"], [0, "cmdoption-sssom-cliquesummary-o"], [0, "cmdoption-sssom-cliquesummary-s"]], "sssom-convert command line option": [[0, "cmdoption-sssom-convert-O"], [0, "cmdoption-sssom-convert-arg-INPUT"], [0, "cmdoption-sssom-convert-o"]], "sssom-correlations command line option": [[0, "cmdoption-sssom-correlations-arg-INPUT"], [0, "cmdoption-sssom-correlations-f"], [0, "cmdoption-sssom-correlations-o"], [0, "cmdoption-sssom-correlations-t"]], "sssom-crosstab command line option": [[0, "cmdoption-sssom-crosstab-arg-INPUT"], [0, "cmdoption-sssom-crosstab-f"], [0, "cmdoption-sssom-crosstab-o"], [0, "cmdoption-sssom-crosstab-t"]], "sssom-dedupe command line option": [[0, "cmdoption-sssom-dedupe-arg-INPUT"], [0, "cmdoption-sssom-dedupe-o"]], "sssom-diff command line option": [[0, "cmdoption-sssom-diff-arg-INPUTS"], [0, "cmdoption-sssom-diff-o"]], "sssom-dosql command line option": [[0, "cmdoption-sssom-dosql-Q"], [0, "cmdoption-sssom-dosql-arg-INPUTS"], [0, "cmdoption-sssom-dosql-o"]], "sssom-filter command line option": [[0, "cmdoption-sssom-filter-arg-INPUT"], [0, "cmdoption-sssom-filter-author_id"], [0, "cmdoption-sssom-filter-author_label"], [0, "cmdoption-sssom-filter-comment"], [0, "cmdoption-sssom-filter-confidence"], [0, "cmdoption-sssom-filter-creator_id"], [0, "cmdoption-sssom-filter-creator_label"], [0, "cmdoption-sssom-filter-curation_rule"], [0, "cmdoption-sssom-filter-curation_rule_text"], [0, "cmdoption-sssom-filter-issue_tracker_item"], [0, "cmdoption-sssom-filter-license"], [0, "cmdoption-sssom-filter-mapping_cardinality"], [0, "cmdoption-sssom-filter-mapping_date"], [0, "cmdoption-sssom-filter-mapping_justification"], [0, "cmdoption-sssom-filter-mapping_provider"], [0, "cmdoption-sssom-filter-mapping_source"], [0, "cmdoption-sssom-filter-mapping_tool"], [0, "cmdoption-sssom-filter-mapping_tool_version"], [0, "cmdoption-sssom-filter-match_string"], [0, "cmdoption-sssom-filter-o"], [0, "cmdoption-sssom-filter-object_category"], [0, "cmdoption-sssom-filter-object_id"], [0, "cmdoption-sssom-filter-object_label"], [0, "cmdoption-sssom-filter-object_match_field"], [0, "cmdoption-sssom-filter-object_preprocessing"], [0, "cmdoption-sssom-filter-object_source"], [0, "cmdoption-sssom-filter-object_source_version"], [0, "cmdoption-sssom-filter-object_type"], [0, "cmdoption-sssom-filter-other"], [0, "cmdoption-sssom-filter-predicate_id"], [0, "cmdoption-sssom-filter-predicate_label"], [0, "cmdoption-sssom-filter-predicate_modifier"], [0, "cmdoption-sssom-filter-publication_date"], [0, "cmdoption-sssom-filter-reviewer_id"], [0, "cmdoption-sssom-filter-reviewer_label"], [0, "cmdoption-sssom-filter-see_also"], [0, "cmdoption-sssom-filter-semantic_similarity_measure"], [0, "cmdoption-sssom-filter-semantic_similarity_score"], [0, "cmdoption-sssom-filter-subject_category"], [0, "cmdoption-sssom-filter-subject_id"], [0, "cmdoption-sssom-filter-subject_label"], [0, "cmdoption-sssom-filter-subject_match_field"], [0, "cmdoption-sssom-filter-subject_preprocessing"], [0, "cmdoption-sssom-filter-subject_source"], [0, "cmdoption-sssom-filter-subject_source_version"], [0, "cmdoption-sssom-filter-subject_type"]], "sssom-help command line option": [[0, "cmdoption-sssom-help-arg-SUBCOMMAND"]], "sssom-invert command line option": [[0, "cmdoption-sssom-invert-P"], [0, "cmdoption-sssom-invert-arg-INPUT"], [0, "cmdoption-sssom-invert-inverse-map"], [0, "cmdoption-sssom-invert-merge-inverted"], [0, "cmdoption-sssom-invert-o"], [0, "cmdoption-sssom-invert-update-justification"]], "sssom-merge command line option": [[0, "cmdoption-sssom-merge-R"], [0, "cmdoption-sssom-merge-arg-INPUTS"], [0, "cmdoption-sssom-merge-o"]], "sssom-parse command line option": [[0, "cmdoption-sssom-parse-C"], [0, "cmdoption-sssom-parse-E"], [0, "cmdoption-sssom-parse-F"], [0, "cmdoption-sssom-parse-I"], [0, "cmdoption-sssom-parse-arg-INPUT"], [0, "cmdoption-sssom-parse-m"], [0, "cmdoption-sssom-parse-o"], [0, "cmdoption-sssom-parse-p"], [0, "cmdoption-sssom-parse-strict-clean-prefixes"]], "sssom-partition command line option": [[0, "cmdoption-sssom-partition-arg-INPUTS"], [0, "cmdoption-sssom-partition-d"]], "sssom-ptable command line option": [[0, "cmdoption-sssom-ptable-W"], [0, "cmdoption-sssom-ptable-arg-INPUT"], [0, "cmdoption-sssom-ptable-default-confidence"], [0, "cmdoption-sssom-ptable-o"]], "sssom-reconcile-prefixes command line option": [[0, "cmdoption-sssom-reconcile-prefixes-arg-INPUT"], [0, "cmdoption-sssom-reconcile-prefixes-o"], [0, "cmdoption-sssom-reconcile-prefixes-p"]], "sssom-remove command line option": [[0, "cmdoption-sssom-remove-arg-INPUT"], [0, "cmdoption-sssom-remove-o"], [0, "cmdoption-sssom-remove-remove-map"]], "sssom-rewire command line option": [[0, "cmdoption-sssom-rewire-I"], [0, "cmdoption-sssom-rewire-O"], [0, "cmdoption-sssom-rewire-arg-INPUT"], [0, "cmdoption-sssom-rewire-m"], [0, "cmdoption-sssom-rewire-o"], [0, "cmdoption-sssom-rewire-precedence"]], "sssom-sort command line option": [[0, "cmdoption-sssom-sort-arg-INPUT"], [0, "cmdoption-sssom-sort-k"], [0, "cmdoption-sssom-sort-o"], [0, "cmdoption-sssom-sort-r"]], "sssom-sparql command line option": [[0, "cmdoption-sssom-sparql-P"], [0, "cmdoption-sssom-sparql-c"], [0, "cmdoption-sssom-sparql-e"], [0, "cmdoption-sssom-sparql-g"], [0, "cmdoption-sssom-sparql-l"], [0, "cmdoption-sssom-sparql-o"], [0, "cmdoption-sssom-sparql-object-labels"]], "sssom-split command line option": [[0, "cmdoption-sssom-split-arg-INPUT"], [0, "cmdoption-sssom-split-d"]], "sssom-validate command line option": [[0, "cmdoption-sssom-validate-V"], [0, "cmdoption-sssom-validate-arg-INPUT"]], "entitypair (class in sssom.util)": [[1, "sssom.util.EntityPair"], [10, "sssom.util.EntityPair"]], "key_features (in module sssom.util)": [[1, "sssom.util.KEY_FEATURES"], [10, "sssom.util.KEY_FEATURES"]], "mappingsetdataframe (class in sssom.util)": [[1, "sssom.util.MappingSetDataFrame"], [10, "sssom.util.MappingSetDataFrame"]], "mappingsetdiff (class in sssom.util)": [[1, "sssom.util.MappingSetDiff"], [10, "sssom.util.MappingSetDiff"]], "mappingsetdocument (class in sssom.sssom_document)": [[1, "sssom.sssom_document.MappingSetDocument"], [10, "sssom.sssom_document.MappingSetDocument"]], "add_default_confidence() (in module sssom.util)": [[1, "sssom.util.add_default_confidence"], [10, "sssom.util.add_default_confidence"]], "annotate_file() (in module sssom.io)": [[1, "sssom.io.annotate_file"], [10, "sssom.io.annotate_file"]], "are_params_slots() (in module sssom.util)": [[1, "sssom.util.are_params_slots"], [10, "sssom.util.are_params_slots"]], "assign_default_confidence() (in module sssom.util)": [[1, "sssom.util.assign_default_confidence"], [10, "sssom.util.assign_default_confidence"]], "augment_metadata() (in module sssom.util)": [[1, "sssom.util.augment_metadata"], [10, "sssom.util.augment_metadata"]], "clean_context() (sssom.util.mappingsetdataframe method)": [[1, "sssom.util.MappingSetDataFrame.clean_context"], [10, "sssom.util.MappingSetDataFrame.clean_context"]], "clean_prefix_map() (sssom.util.mappingsetdataframe method)": [[1, "sssom.util.MappingSetDataFrame.clean_prefix_map"], [10, "sssom.util.MappingSetDataFrame.clean_prefix_map"]], "collapse() (in module sssom.util)": [[1, "sssom.util.collapse"], [10, "sssom.util.collapse"]], "combined_dataframe (sssom.util.mappingsetdiff attribute)": [[1, "sssom.util.MappingSetDiff.combined_dataframe"], [10, "sssom.util.MappingSetDiff.combined_dataframe"]], "compare_dataframes() (in module sssom.util)": [[1, "sssom.util.compare_dataframes"], [10, "sssom.util.compare_dataframes"]], "convert_file() (in module sssom.io)": [[1, "sssom.io.convert_file"], [10, "sssom.io.convert_file"]], "create_entity() (in module sssom.util)": [[1, "sssom.util.create_entity"], [10, "sssom.util.create_entity"]], "dataframe_to_ptable() (in module sssom.util)": [[1, "sssom.util.dataframe_to_ptable"], [10, "sssom.util.dataframe_to_ptable"]], "deal_with_negation() (in module sssom.util)": [[1, "sssom.util.deal_with_negation"], [10, "sssom.util.deal_with_negation"]], "extract_iris() (in module sssom.io)": [[1, "sssom.io.extract_iris"], [10, "sssom.io.extract_iris"]], "filter_file() (in module sssom.io)": [[1, "sssom.io.filter_file"], [10, "sssom.io.filter_file"]], "filter_out_prefixes() (in module sssom.util)": [[1, "sssom.util.filter_out_prefixes"], [10, "sssom.util.filter_out_prefixes"]], "filter_prefixes() (in module sssom.util)": [[1, "sssom.util.filter_prefixes"], [10, "sssom.util.filter_prefixes"]], "filter_redundant_rows() (in module sssom.util)": [[1, "sssom.util.filter_redundant_rows"], [10, "sssom.util.filter_redundant_rows"]], "from_mapping_set() (sssom.util.mappingsetdataframe class method)": [[1, "sssom.util.MappingSetDataFrame.from_mapping_set"], [10, "sssom.util.MappingSetDataFrame.from_mapping_set"]], "from_mapping_set_document() (sssom.util.mappingsetdataframe class method)": [[1, "sssom.util.MappingSetDataFrame.from_mapping_set_document"], [10, "sssom.util.MappingSetDataFrame.from_mapping_set_document"]], "from_mappings() (sssom.util.mappingsetdataframe class method)": [[1, "sssom.util.MappingSetDataFrame.from_mappings"], [10, "sssom.util.MappingSetDataFrame.from_mappings"]], "get_all_prefixes() (in module sssom.util)": [[1, "sssom.util.get_all_prefixes"], [10, "sssom.util.get_all_prefixes"]], "get_dict_from_mapping() (in module sssom.util)": [[1, "sssom.util.get_dict_from_mapping"], [10, "sssom.util.get_dict_from_mapping"]], "get_file_extension() (in module sssom.util)": [[1, "sssom.util.get_file_extension"], [10, "sssom.util.get_file_extension"]], "get_metadata_and_prefix_map() (in module sssom.io)": [[1, "sssom.io.get_metadata_and_prefix_map"], [10, "sssom.io.get_metadata_and_prefix_map"]], "get_prefix_from_curie() (in module sssom.util)": [[1, "sssom.util.get_prefix_from_curie"], [10, "sssom.util.get_prefix_from_curie"]], "get_prefixes_used_in_metadata() (in module sssom.util)": [[1, "sssom.util.get_prefixes_used_in_metadata"], [10, "sssom.util.get_prefixes_used_in_metadata"]], "get_prefixes_used_in_table() (in module sssom.util)": [[1, "sssom.util.get_prefixes_used_in_table"], [10, "sssom.util.get_prefixes_used_in_table"]], "get_row_based_on_hierarchy() (in module sssom.util)": [[1, "sssom.util.get_row_based_on_hierarchy"], [10, "sssom.util.get_row_based_on_hierarchy"]], "group_mappings() (in module sssom.util)": [[1, "sssom.util.group_mappings"], [10, "sssom.util.group_mappings"]], "inject_metadata_into_df() (in module sssom.util)": [[1, "sssom.util.inject_metadata_into_df"], [10, "sssom.util.inject_metadata_into_df"]], "invert_mappings() (in module sssom.util)": [[1, "sssom.util.invert_mappings"], [10, "sssom.util.invert_mappings"]], "is_multivalued_slot() (in module sssom.util)": [[1, "sssom.util.is_multivalued_slot"], [10, "sssom.util.is_multivalued_slot"]], "mapping_set (sssom.sssom_document.mappingsetdocument attribute)": [[1, "sssom.sssom_document.MappingSetDocument.mapping_set"], [10, "sssom.sssom_document.MappingSetDocument.mapping_set"]], "merge() (sssom.util.mappingsetdataframe method)": [[1, "sssom.util.MappingSetDataFrame.merge"], [10, "sssom.util.MappingSetDataFrame.merge"]], "merge_msdf() (in module sssom.util)": [[1, "sssom.util.merge_msdf"], [10, "sssom.util.merge_msdf"]], "module": [[1, "module-sssom.io"], [1, "module-sssom.sssom_document"], [1, "module-sssom.util"], [4, "module-sssom"], [4, "module-sssom.cli"], [4, "module-sssom.cliques"], [4, "module-sssom.context"], [4, "module-sssom.parsers"], [4, "module-sssom.writers"], [10, "module-sssom"], [10, "module-sssom.cli"], [10, "module-sssom.cliques"], [10, "module-sssom.constants"], [10, "module-sssom.context"], [10, "module-sssom.io"], [10, "module-sssom.parsers"], [10, "module-sssom.rdf_util"], [10, "module-sssom.sparql_util"], [10, "module-sssom.sssom_document"], [10, "module-sssom.util"], [10, "module-sssom.validators"], [10, "module-sssom.writers"]], "parse() (in module sssom.util)": [[1, "sssom.util.parse"], [10, "sssom.util.parse"]], "parse_file() (in module sssom.io)": [[1, "sssom.io.parse_file"], [10, "sssom.io.parse_file"]], "prefix_map (sssom.sssom_document.mappingsetdocument property)": [[1, "sssom.sssom_document.MappingSetDocument.prefix_map"], [10, "sssom.sssom_document.MappingSetDocument.prefix_map"]], "prefix_map (sssom.util.mappingsetdataframe property)": [[1, "sssom.util.MappingSetDataFrame.prefix_map"], [10, "sssom.util.MappingSetDataFrame.prefix_map"]], "raise_for_bad_path() (in module sssom.util)": [[1, "sssom.util.raise_for_bad_path"], [10, "sssom.util.raise_for_bad_path"]], "reconcile_prefix_and_data() (in module sssom.util)": [[1, "sssom.util.reconcile_prefix_and_data"], [10, "sssom.util.reconcile_prefix_and_data"]], "remove_mappings() (sssom.util.mappingsetdataframe method)": [[1, "sssom.util.MappingSetDataFrame.remove_mappings"], [10, "sssom.util.MappingSetDataFrame.remove_mappings"]], "remove_unmatched() (in module sssom.util)": [[1, "sssom.util.remove_unmatched"], [10, "sssom.util.remove_unmatched"]], "run_sql_query() (in module sssom.io)": [[1, "sssom.io.run_sql_query"], [10, "sssom.io.run_sql_query"]], "safe_compress() (in module sssom.util)": [[1, "sssom.util.safe_compress"], [10, "sssom.util.safe_compress"]], "sort_df_rows_columns() (in module sssom.util)": [[1, "sssom.util.sort_df_rows_columns"], [10, "sssom.util.sort_df_rows_columns"]], "sort_sssom() (in module sssom.util)": [[1, "sssom.util.sort_sssom"], [10, "sssom.util.sort_sssom"]], "split_file() (in module sssom.io)": [[1, "sssom.io.split_file"], [10, "sssom.io.split_file"]], "sssom.io": [[1, "module-sssom.io"], [10, "module-sssom.io"]], "sssom.sssom_document": [[1, "module-sssom.sssom_document"], [10, "module-sssom.sssom_document"]], "sssom.util": [[1, "module-sssom.util"], [10, "module-sssom.util"]], "standardize_references() (sssom.util.mappingsetdataframe method)": [[1, "sssom.util.MappingSetDataFrame.standardize_references"], [10, "sssom.util.MappingSetDataFrame.standardize_references"]], "to_mapping_set() (sssom.util.mappingsetdataframe method)": [[1, "sssom.util.MappingSetDataFrame.to_mapping_set"], [10, "sssom.util.MappingSetDataFrame.to_mapping_set"]], "to_mapping_set_dataframe() (in module sssom.util)": [[1, "sssom.util.to_mapping_set_dataframe"], [10, "sssom.util.to_mapping_set_dataframe"]], "to_mapping_set_document() (sssom.util.mappingsetdataframe method)": [[1, "sssom.util.MappingSetDataFrame.to_mapping_set_document"], [10, "sssom.util.MappingSetDataFrame.to_mapping_set_document"]], "to_mappings() (sssom.util.mappingsetdataframe method)": [[1, "sssom.util.MappingSetDataFrame.to_mappings"], [10, "sssom.util.MappingSetDataFrame.to_mappings"]], "validate_file() (in module sssom.io)": [[1, "sssom.io.validate_file"], [10, "sssom.io.validate_file"]], "with_converter() (sssom.util.mappingsetdataframe class method)": [[1, "sssom.util.MappingSetDataFrame.with_converter"], [10, "sssom.util.MappingSetDataFrame.with_converter"]], "converterhint (in module sssom.context)": [[4, "sssom.context.ConverterHint"], [10, "sssom.context.ConverterHint"]], "dynamically_generate_sssom_options() (in module sssom.cli)": [[4, "sssom.cli.dynamically_generate_sssom_options"], [10, "sssom.cli.dynamically_generate_sssom_options"]], "ensure_converter() (in module sssom.context)": [[4, "sssom.context.ensure_converter"], [10, "sssom.context.ensure_converter"]], "from_alignment_minidom() (in module sssom.parsers)": [[4, "sssom.parsers.from_alignment_minidom"], [10, "sssom.parsers.from_alignment_minidom"]], "from_obographs() (in module sssom.parsers)": [[4, "sssom.parsers.from_obographs"], [10, "sssom.parsers.from_obographs"]], "from_sssom_dataframe() (in module sssom.parsers)": [[4, "sssom.parsers.from_sssom_dataframe"], [10, "sssom.parsers.from_sssom_dataframe"]], "from_sssom_json() (in module sssom.parsers)": [[4, "sssom.parsers.from_sssom_json"], [10, "sssom.parsers.from_sssom_json"]], "from_sssom_rdf() (in module sssom.parsers)": [[4, "sssom.parsers.from_sssom_rdf"], [10, "sssom.parsers.from_sssom_rdf"]], "get_converter() (in module sssom.context)": [[4, "sssom.context.get_converter"], [10, "sssom.context.get_converter"]], "get_parsing_function() (in module sssom.parsers)": [[4, "sssom.parsers.get_parsing_function"], [10, "sssom.parsers.get_parsing_function"]], "get_src() (in module sssom.cliques)": [[4, "sssom.cliques.get_src"], [10, "sssom.cliques.get_src"]], "get_writer_function() (in module sssom.writers)": [[4, "sssom.writers.get_writer_function"], [10, "sssom.writers.get_writer_function"]], "group_values() (in module sssom.cliques)": [[4, "sssom.cliques.group_values"], [10, "sssom.cliques.group_values"]], "parse_alignment_xml() (in module sssom.parsers)": [[4, "sssom.parsers.parse_alignment_xml"], [10, "sssom.parsers.parse_alignment_xml"]], "parse_obographs_json() (in module sssom.parsers)": [[4, "sssom.parsers.parse_obographs_json"], [10, "sssom.parsers.parse_obographs_json"]], "parse_sssom_json() (in module sssom.parsers)": [[4, "sssom.parsers.parse_sssom_json"], [10, "sssom.parsers.parse_sssom_json"]], "parse_sssom_rdf() (in module sssom.parsers)": [[4, "sssom.parsers.parse_sssom_rdf"], [10, "sssom.parsers.parse_sssom_rdf"]], "parse_sssom_table() (in module sssom.parsers)": [[4, "sssom.parsers.parse_sssom_table"], [10, "sssom.parsers.parse_sssom_table"]], "split_dataframe() (in module sssom.parsers)": [[4, "sssom.parsers.split_dataframe"], [10, "sssom.parsers.split_dataframe"]], "split_dataframe_by_prefix() (in module sssom.parsers)": [[4, "sssom.parsers.split_dataframe_by_prefix"], [10, "sssom.parsers.split_dataframe_by_prefix"]], "split_into_cliques() (in module sssom.cliques)": [[4, "sssom.cliques.split_into_cliques"], [10, "sssom.cliques.split_into_cliques"]], "sssom": [[4, "module-sssom"], [10, "module-sssom"]], "sssom.cli": [[4, "module-sssom.cli"], [10, "module-sssom.cli"]], "sssom.cliques": [[4, "module-sssom.cliques"], [10, "module-sssom.cliques"]], "sssom.context": [[4, "module-sssom.context"], [10, "module-sssom.context"]], "sssom.parsers": [[4, "module-sssom.parsers"], [10, "module-sssom.parsers"]], "sssom.writers": [[4, "module-sssom.writers"], [10, "module-sssom.writers"]], "summarize_cliques() (in module sssom.cliques)": [[4, "sssom.cliques.summarize_cliques"], [10, "sssom.cliques.summarize_cliques"]], "to_digraph() (in module sssom.cliques)": [[4, "sssom.cliques.to_digraph"], [10, "sssom.cliques.to_digraph"]], "to_fhir_json() (in module sssom.writers)": [[4, "sssom.writers.to_fhir_json"], [10, "sssom.writers.to_fhir_json"]], "to_json() (in module sssom.writers)": [[4, "sssom.writers.to_json"], [10, "sssom.writers.to_json"]], "to_mapping_set_document() (in module sssom.parsers)": [[4, "sssom.parsers.to_mapping_set_document"], [10, "sssom.parsers.to_mapping_set_document"]], "to_ontoportal_json() (in module sssom.writers)": [[4, "sssom.writers.to_ontoportal_json"], [10, "sssom.writers.to_ontoportal_json"]], "to_owl_graph() (in module sssom.writers)": [[4, "sssom.writers.to_owl_graph"], [10, "sssom.writers.to_owl_graph"]], "to_rdf_graph() (in module sssom.writers)": [[4, "sssom.writers.to_rdf_graph"], [10, "sssom.writers.to_rdf_graph"]], "write_fhir_json() (in module sssom.writers)": [[4, "sssom.writers.write_fhir_json"], [10, "sssom.writers.write_fhir_json"]], "write_json() (in module sssom.writers)": [[4, "sssom.writers.write_json"], [10, "sssom.writers.write_json"]], "write_ontoportal_json() (in module sssom.writers)": [[4, "sssom.writers.write_ontoportal_json"], [10, "sssom.writers.write_ontoportal_json"]], "write_owl() (in module sssom.writers)": [[4, "sssom.writers.write_owl"], [10, "sssom.writers.write_owl"]], "write_rdf() (in module sssom.writers)": [[4, "sssom.writers.write_rdf"], [10, "sssom.writers.write_rdf"]], "write_table() (in module sssom.writers)": [[4, "sssom.writers.write_table"], [10, "sssom.writers.write_table"]], "write_tables() (in module sssom.writers)": [[4, "sssom.writers.write_tables"], [10, "sssom.writers.write_tables"]], "compositematching (sssom.constants.semapv attribute)": [[10, "sssom.constants.SEMAPV.CompositeMatching"]], "crossspeciesbroadmatch (sssom.constants.semapv attribute)": [[10, "sssom.constants.SEMAPV.CrossSpeciesBroadMatch"]], "crossspeciesexactmatch (sssom.constants.semapv attribute)": [[10, "sssom.constants.SEMAPV.CrossSpeciesExactMatch"]], "crossspeciesnarrowmatch (sssom.constants.semapv attribute)": [[10, "sssom.constants.SEMAPV.CrossSpeciesNarrowMatch"]], "endpointconfig (class in sssom.sparql_util)": [[10, "sssom.sparql_util.EndpointConfig"]], "jsonschema (sssom.constants.schemavalidationtype attribute)": [[10, "sssom.constants.SchemaValidationType.JsonSchema"]], "lexicalmatching (sssom.constants.semapv attribute)": [[10, "sssom.constants.SEMAPV.LexicalMatching"]], "lexicalsimilaritythresholdmatching (sssom.constants.semapv attribute)": [[10, "sssom.constants.SEMAPV.LexicalSimilarityThresholdMatching"]], "logicalreasoning (sssom.constants.semapv attribute)": [[10, "sssom.constants.SEMAPV.LogicalReasoning"]], "manualmappingcuration (sssom.constants.semapv attribute)": [[10, "sssom.constants.SEMAPV.ManualMappingCuration"]], "mappingchaining (sssom.constants.semapv attribute)": [[10, "sssom.constants.SEMAPV.MappingChaining"]], "mappinginversion (sssom.constants.semapv attribute)": [[10, "sssom.constants.SEMAPV.MappingInversion"]], "mappingreview (sssom.constants.semapv attribute)": [[10, "sssom.constants.SEMAPV.MappingReview"]], "metadatatype (in module sssom.constants)": [[10, "sssom.constants.MetadataType"]], "prefixmapcompleteness (sssom.constants.schemavalidationtype attribute)": [[10, "sssom.constants.SchemaValidationType.PrefixMapCompleteness"]], "semapv (class in sssom.constants)": [[10, "sssom.constants.SEMAPV"]], "sssomschemaview (class in sssom.constants)": [[10, "sssom.constants.SSSOMSchemaView"]], "schemavalidationtype (class in sssom.constants)": [[10, "sssom.constants.SchemaValidationType"]], "semanticsimilaritythresholdmatching (sssom.constants.semapv attribute)": [[10, "sssom.constants.SEMAPV.SemanticSimilarityThresholdMatching"]], "shacl (sssom.constants.schemavalidationtype attribute)": [[10, "sssom.constants.SchemaValidationType.Shacl"]], "sparql (sssom.constants.schemavalidationtype attribute)": [[10, "sssom.constants.SchemaValidationType.Sparql"]], "strictcurieformat (sssom.constants.schemavalidationtype attribute)": [[10, "sssom.constants.SchemaValidationType.StrictCurieFormat"]], "unspecifiedmatching (sssom.constants.semapv attribute)": [[10, "sssom.constants.SEMAPV.UnspecifiedMatching"]], "__new__() (sssom.constants.sssomschemaview static method)": [[10, "sssom.constants.SSSOMSchemaView.__new__"]], "check_all_prefixes_in_curie_map() (in module sssom.validators)": [[10, "sssom.validators.check_all_prefixes_in_curie_map"]], "check_strict_curie_format() (in module sssom.validators)": [[10, "sssom.validators.check_strict_curie_format"]], "common_tuples (sssom.util.mappingsetdiff attribute)": [[10, "sssom.util.MappingSetDiff.common_tuples"]], "converter (sssom.sparql_util.endpointconfig attribute)": [[10, "sssom.sparql_util.EndpointConfig.converter"]], "converter (sssom.sssom_document.mappingsetdocument attribute)": [[10, "sssom.sssom_document.MappingSetDocument.converter"]], "converter (sssom.util.mappingsetdataframe attribute)": [[10, "sssom.util.MappingSetDataFrame.converter"]], "df (sssom.util.mappingsetdataframe attribute)": [[10, "sssom.util.MappingSetDataFrame.df"]], "dict (sssom.constants.sssomschemaview property)": [[10, "sssom.constants.SSSOMSchemaView.dict"]], "double_slots (sssom.constants.sssomschemaview property)": [[10, "sssom.constants.SSSOMSchemaView.double_slots"]], "entity_reference_slots (sssom.constants.sssomschemaview property)": [[10, "sssom.constants.SSSOMSchemaView.entity_reference_slots"]], "generate_mapping_set_id() (in module sssom.constants)": [[10, "sssom.constants.generate_mapping_set_id"]], "get_default_metadata() (in module sssom.constants)": [[10, "sssom.constants.get_default_metadata"]], "graph (sssom.sparql_util.endpointconfig attribute)": [[10, "sssom.sparql_util.EndpointConfig.graph"]], "include_object_labels (sssom.sparql_util.endpointconfig attribute)": [[10, "sssom.sparql_util.EndpointConfig.include_object_labels"]], "instance (sssom.constants.sssomschemaview attribute)": [[10, "sssom.constants.SSSOMSchemaView.instance"]], "limit (sssom.sparql_util.endpointconfig attribute)": [[10, "sssom.sparql_util.EndpointConfig.limit"]], "mapping_enum_keys (sssom.constants.sssomschemaview property)": [[10, "sssom.constants.SSSOMSchemaView.mapping_enum_keys"]], "mapping_set_slots (sssom.constants.sssomschemaview property)": [[10, "sssom.constants.SSSOMSchemaView.mapping_set_slots"]], "mapping_slots (sssom.constants.sssomschemaview property)": [[10, "sssom.constants.SSSOMSchemaView.mapping_slots"]], "metadata (sssom.util.mappingsetdataframe attribute)": [[10, "sssom.util.MappingSetDataFrame.metadata"]], "multivalued_slots (sssom.constants.sssomschemaview property)": [[10, "sssom.constants.SSSOMSchemaView.multivalued_slots"]], "object_entity (sssom.util.entitypair attribute)": [[10, "sssom.util.EntityPair.object_entity"]], "predicates (sssom.sparql_util.endpointconfig attribute)": [[10, "sssom.sparql_util.EndpointConfig.predicates"]], "predmap (sssom.sparql_util.endpointconfig attribute)": [[10, "sssom.sparql_util.EndpointConfig.predmap"]], "print_linkml_report() (in module sssom.validators)": [[10, "sssom.validators.print_linkml_report"]], "query_mappings() (in module sssom.sparql_util)": [[10, "sssom.sparql_util.query_mappings"]], "rewire_graph() (in module sssom.rdf_util)": [[10, "sssom.rdf_util.rewire_graph"]], "slots (sssom.constants.sssomschemaview property)": [[10, "sssom.constants.SSSOMSchemaView.slots"]], "sssom.constants": [[10, "module-sssom.constants"]], "sssom.rdf_util": [[10, "module-sssom.rdf_util"]], "sssom.sparql_util": [[10, "module-sssom.sparql_util"]], "sssom.validators": [[10, "module-sssom.validators"]], "subject_entity (sssom.util.entitypair attribute)": [[10, "sssom.util.EntityPair.subject_entity"]], "unique_tuples1 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\ No newline at end of file
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"deploy": [3, 9], "submodul": [4, 10], "modul": [4, 10], "cliqu": [4, 10], "context": [4, 10], "io": [4, 10], "parser": [4, 10], "sparql_util": [4, 10], "sssom_datamodel": 4, "sssom_docu": [4, 10], "writer": [4, 10], "content": [4, 6, 10], "exampl": 5, "command": 5, "map": 6, "format": 6, "indic": 6, "tabl": 6, "quick": 7, "instal": 7, "guid": 7, "py": 7, "user": 7, "develop": 7, "packag": 10, "constant": 10, "rdf_util": 10}, "envversion": {"sphinx.domains.c": 3, "sphinx.domains.changeset": 1, "sphinx.domains.citation": 1, "sphinx.domains.cpp": 9, "sphinx.domains.index": 1, "sphinx.domains.javascript": 3, "sphinx.domains.math": 2, "sphinx.domains.python": 4, "sphinx.domains.rst": 2, "sphinx.domains.std": 2, "sphinx.ext.viewcode": 1, "sphinx.ext.todo": 2, "sphinx": 58}, "alltitles": {"CLI": [[0, "cli"]], "sssom": [[0, "sssom"], [8, "sssom"]], "annotate": [[0, "sssom-annotate"]], "cliquesummary": [[0, "sssom-cliquesummary"]], "convert": [[0, "sssom-convert"]], "correlations": [[0, "sssom-correlations"]], "crosstab": [[0, "sssom-crosstab"]], "dedupe": [[0, "sssom-dedupe"]], "diff": [[0, "sssom-diff"]], "dosql": [[0, "sssom-dosql"]], "filter": [[0, "sssom-filter"]], "help": [[0, "sssom-help"]], "invert": [[0, "sssom-invert"]], "merge": [[0, "sssom-merge"]], "parse": [[0, "sssom-parse"]], "partition": [[0, "sssom-partition"]], "ptable": [[0, "sssom-ptable"]], "reconcile-prefixes": [[0, "sssom-reconcile-prefixes"]], "remove": [[0, "sssom-remove"]], "rewire": [[0, "sssom-rewire"]], "sort": [[0, "sssom-sort"]], "sparql": [[0, "sssom-sparql"]], "split": [[0, "sssom-split"]], "validate": [[0, "sssom-validate"]], "Python API": [[1, "python-api"]], "Datamodel": [[1, "datamodel"]], "I/O": [[1, "i-o"]], "Utils": [[1, "utils"]], "Technical Documentation": [[2, "technical-documentation"]], "Update Documentation": [[3, "update-documentation"], [9, "update-documentation"]], "New page": [[3, "new-page"], [9, "new-page"]], "Update and page deployment": [[3, "update-and-page-deployment"], [9, "update-and-page-deployment"]], "SSSOM Submodules": [[4, "sssom-submodules"]], "sssom.cli module": [[4, "module-sssom.cli"], [10, "module-sssom.cli"]], "sssom.cliques module": [[4, "module-sssom.cliques"], [10, "module-sssom.cliques"]], "sssom.context module": [[4, "module-sssom.context"], [10, "module-sssom.context"]], "sssom.io module": [[4, "sssom-io-module"], [10, "module-sssom.io"]], "sssom.parsers module": [[4, "module-sssom.parsers"], [10, "module-sssom.parsers"]], "sssom.sparql_util module": [[4, "sssom-sparql-util-module"], [10, "module-sssom.sparql_util"]], "sssom.sssom_datamodel module": [[4, "sssom-sssom-datamodel-module"]], "sssom.sssom_document module": [[4, "sssom-sssom-document-module"], [10, "module-sssom.sssom_document"]], "sssom.util module": [[4, "sssom-util-module"], [10, "module-sssom.util"]], "sssom.writers module": [[4, "module-sssom.writers"], [10, "module-sssom.writers"]], "Module contents": [[4, "module-sssom"], [10, "module-sssom"]], "Examples": [[5, "examples"]], "parse command": [[5, "parse-command"]], "convert command": [[5, "convert-command"]], "diff command": [[5, "diff-command"]], "SSSOM Mapping Format Python Utilities": [[6, "sssom-mapping-format-python-utilities"]], "Contents": [[6, "contents"]], "Contents:": [[6, null]], "Indices and tables": [[6, "indices-and-tables"]], "Quick Install Guide": [[7, "quick-install-guide"]], "Install Python": [[7, "install-python"]], "Install SSSOM-Py for users": [[7, "install-sssom-py-for-users"]], "Install SSSOM-Py for developers": [[7, "install-sssom-py-for-developers"]], "sssom package": [[10, "sssom-package"]], "Submodules": [[10, "submodules"]], "sssom.cliquesummary module": [[10, "sssom-cliquesummary-module"]], "sssom.constants module": [[10, "module-sssom.constants"]], "sssom.rdf_util module": [[10, "module-sssom.rdf_util"]], "sssom.validators module": [[10, "module-sssom.validators"]]}, "indexentries": {"--author_id": [[0, "cmdoption-sssom-filter-author_id"]], "--author_label": [[0, "cmdoption-sssom-filter-author_label"]], "--by-columns": [[0, "cmdoption-sssom-sort-k"]], "--by-rows": [[0, "cmdoption-sssom-sort-r"]], "--clean-prefixes": [[0, "cmdoption-sssom-parse-p"]], "--comment": [[0, "cmdoption-sssom-annotate-comment"], [0, "cmdoption-sssom-filter-comment"]], "--confidence": [[0, "cmdoption-sssom-filter-confidence"]], "--config": [[0, "cmdoption-sssom-sparql-c"]], "--creator_id": [[0, "cmdoption-sssom-annotate-creator_id"], [0, "cmdoption-sssom-filter-creator_id"]], "--creator_label": [[0, "cmdoption-sssom-annotate-creator_label"], [0, "cmdoption-sssom-filter-creator_label"]], "--curation_rule": [[0, "cmdoption-sssom-filter-curation_rule"]], "--curation_rule_text": [[0, "cmdoption-sssom-filter-curation_rule_text"]], "--default-confidence": [[0, "cmdoption-sssom-ptable-default-confidence"]], "--embedded-mode": [[0, "cmdoption-sssom-parse-E"]], "--fields": [[0, "cmdoption-sssom-correlations-f"], [0, "cmdoption-sssom-crosstab-f"]], "--graph": [[0, "cmdoption-sssom-sparql-g"]], "--input-format": [[0, "cmdoption-sssom-parse-I"], [0, "cmdoption-sssom-rewire-I"]], "--inverse-factor": [[0, "cmdoption-sssom-ptable-W"]], "--inverse-map": [[0, "cmdoption-sssom-invert-inverse-map"]], "--issue_tracker": [[0, "cmdoption-sssom-annotate-issue_tracker"]], "--issue_tracker_item": [[0, "cmdoption-sssom-filter-issue_tracker_item"]], "--license": [[0, "cmdoption-sssom-annotate-license"], [0, "cmdoption-sssom-filter-license"]], "--limit": [[0, "cmdoption-sssom-sparql-l"]], "--mapping-file": [[0, "cmdoption-sssom-rewire-m"]], "--mapping-predicate-filter": [[0, "cmdoption-sssom-parse-F"]], "--mapping_cardinality": [[0, "cmdoption-sssom-filter-mapping_cardinality"]], "--mapping_date": [[0, "cmdoption-sssom-annotate-mapping_date"], [0, "cmdoption-sssom-filter-mapping_date"]], "--mapping_justification": [[0, "cmdoption-sssom-filter-mapping_justification"]], "--mapping_provider": [[0, "cmdoption-sssom-annotate-mapping_provider"], [0, "cmdoption-sssom-filter-mapping_provider"]], "--mapping_set_description": [[0, "cmdoption-sssom-annotate-mapping_set_description"]], "--mapping_set_id": [[0, "cmdoption-sssom-annotate-mapping_set_id"]], "--mapping_set_source": [[0, "cmdoption-sssom-annotate-mapping_set_source"]], "--mapping_set_title": [[0, "cmdoption-sssom-annotate-mapping_set_title"]], "--mapping_set_version": [[0, "cmdoption-sssom-annotate-mapping_set_version"]], "--mapping_source": [[0, "cmdoption-sssom-filter-mapping_source"]], "--mapping_tool": [[0, "cmdoption-sssom-annotate-mapping_tool"], [0, "cmdoption-sssom-filter-mapping_tool"]], "--mapping_tool_version": [[0, "cmdoption-sssom-annotate-mapping_tool_version"], [0, "cmdoption-sssom-filter-mapping_tool_version"]], "--mappings": [[0, "cmdoption-sssom-annotate-mappings"]], "--match_string": [[0, "cmdoption-sssom-filter-match_string"]], "--merge-inverted": [[0, "cmdoption-sssom-invert-merge-inverted"]], "--metadata": [[0, "cmdoption-sssom-cliquesummary-m"], [0, "cmdoption-sssom-parse-m"]], "--no-clean-prefixes": [[0, "cmdoption-sssom-parse-p"]], "--no-merge-inverted": [[0, "cmdoption-sssom-invert-merge-inverted"]], "--no-object-labels": [[0, "cmdoption-sssom-sparql-object-labels"]], "--no-strict-clean-prefixes": [[0, "cmdoption-sssom-parse-strict-clean-prefixes"]], "--no-update-justification": [[0, "cmdoption-sssom-invert-update-justification"]], "--non-embedded-mode": [[0, "cmdoption-sssom-parse-E"]], "--object-labels": [[0, "cmdoption-sssom-sparql-object-labels"]], "--object_category": [[0, "cmdoption-sssom-filter-object_category"]], "--object_id": [[0, "cmdoption-sssom-filter-object_id"]], "--object_label": [[0, "cmdoption-sssom-filter-object_label"]], "--object_match_field": [[0, "cmdoption-sssom-annotate-object_match_field"], [0, "cmdoption-sssom-filter-object_match_field"]], "--object_preprocessing": [[0, "cmdoption-sssom-annotate-object_preprocessing"], [0, "cmdoption-sssom-filter-object_preprocessing"]], "--object_source": [[0, "cmdoption-sssom-annotate-object_source"], [0, "cmdoption-sssom-filter-object_source"]], "--object_source_version": [[0, "cmdoption-sssom-annotate-object_source_version"], [0, "cmdoption-sssom-filter-object_source_version"]], "--object_type": [[0, "cmdoption-sssom-annotate-object_type"], [0, "cmdoption-sssom-filter-object_type"]], "--other": [[0, "cmdoption-sssom-annotate-other"], [0, "cmdoption-sssom-filter-other"]], "--output": [[0, "cmdoption-sssom-annotate-o"], [0, "cmdoption-sssom-cliquesummary-o"], [0, "cmdoption-sssom-convert-o"], [0, "cmdoption-sssom-correlations-o"], [0, "cmdoption-sssom-crosstab-o"], [0, "cmdoption-sssom-dedupe-o"], [0, "cmdoption-sssom-diff-o"], [0, "cmdoption-sssom-dosql-o"], [0, "cmdoption-sssom-filter-o"], [0, "cmdoption-sssom-invert-o"], [0, "cmdoption-sssom-merge-o"], [0, "cmdoption-sssom-parse-o"], [0, "cmdoption-sssom-ptable-o"], [0, "cmdoption-sssom-reconcile-prefixes-o"], [0, "cmdoption-sssom-remove-o"], [0, "cmdoption-sssom-rewire-o"], [0, "cmdoption-sssom-sort-o"], [0, "cmdoption-sssom-sparql-o"]], "--output-directory": [[0, "cmdoption-sssom-partition-d"], [0, "cmdoption-sssom-split-d"]], "--output-format": [[0, "cmdoption-sssom-convert-O"], [0, "cmdoption-sssom-rewire-O"]], "--precedence": [[0, "cmdoption-sssom-rewire-precedence"]], "--predicate_id": [[0, "cmdoption-sssom-filter-predicate_id"]], "--predicate_label": [[0, "cmdoption-sssom-filter-predicate_label"]], "--predicate_modifier": [[0, "cmdoption-sssom-filter-predicate_modifier"]], "--prefix": [[0, "cmdoption-sssom-sparql-P"]], "--prefix-map-mode": [[0, "cmdoption-sssom-parse-C"]], "--publication_date": [[0, "cmdoption-sssom-annotate-publication_date"], [0, "cmdoption-sssom-filter-publication_date"]], "--query": [[0, "cmdoption-sssom-dosql-Q"]], "--quiet": [[0, "cmdoption-sssom-q"]], "--reconcile": [[0, "cmdoption-sssom-merge-R"]], "--reconcile-prefix-file": [[0, "cmdoption-sssom-reconcile-prefixes-p"]], "--remove-map": [[0, "cmdoption-sssom-remove-remove-map"]], "--replace-multivalued": [[0, "cmdoption-sssom-annotate-replace-multivalued"]], "--reviewer_id": [[0, "cmdoption-sssom-filter-reviewer_id"]], "--reviewer_label": [[0, "cmdoption-sssom-filter-reviewer_label"]], "--see_also": [[0, "cmdoption-sssom-annotate-see_also"], [0, "cmdoption-sssom-filter-see_also"]], "--semantic_similarity_measure": [[0, "cmdoption-sssom-filter-semantic_similarity_measure"]], "--semantic_similarity_score": [[0, "cmdoption-sssom-filter-semantic_similarity_score"]], "--statsfile": [[0, "cmdoption-sssom-cliquesummary-s"]], "--strict-clean-prefixes": [[0, "cmdoption-sssom-parse-strict-clean-prefixes"]], "--subject-prefix": [[0, "cmdoption-sssom-invert-P"]], "--subject_category": [[0, "cmdoption-sssom-filter-subject_category"]], "--subject_id": [[0, "cmdoption-sssom-filter-subject_id"]], "--subject_label": [[0, "cmdoption-sssom-filter-subject_label"]], "--subject_match_field": [[0, "cmdoption-sssom-annotate-subject_match_field"], [0, "cmdoption-sssom-filter-subject_match_field"]], "--subject_preprocessing": [[0, "cmdoption-sssom-annotate-subject_preprocessing"], [0, "cmdoption-sssom-filter-subject_preprocessing"]], "--subject_source": [[0, "cmdoption-sssom-annotate-subject_source"], [0, "cmdoption-sssom-filter-subject_source"]], "--subject_source_version": [[0, "cmdoption-sssom-annotate-subject_source_version"], [0, "cmdoption-sssom-filter-subject_source_version"]], "--subject_type": [[0, "cmdoption-sssom-annotate-subject_type"], [0, "cmdoption-sssom-filter-subject_type"]], "--transpose": [[0, "cmdoption-sssom-correlations-t"], [0, "cmdoption-sssom-crosstab-t"]], "--update-justification": [[0, "cmdoption-sssom-invert-update-justification"]], "--url": [[0, "cmdoption-sssom-sparql-e"]], "--validation-types": [[0, "cmdoption-sssom-validate-V"]], "--verbose": [[0, "cmdoption-sssom-v"]], "--version": [[0, "cmdoption-sssom-version"]], "-c": [[0, "cmdoption-sssom-parse-C"], [0, "cmdoption-sssom-sparql-c"]], "-e": [[0, "cmdoption-sssom-parse-E"], [0, "cmdoption-sssom-sparql-e"]], "-f": [[0, "cmdoption-sssom-parse-F"], [0, "cmdoption-sssom-correlations-f"], [0, "cmdoption-sssom-crosstab-f"]], "-i": [[0, "cmdoption-sssom-parse-I"], [0, "cmdoption-sssom-rewire-I"]], "-o": [[0, "cmdoption-sssom-convert-O"], [0, "cmdoption-sssom-rewire-O"], [0, "cmdoption-sssom-annotate-o"], [0, "cmdoption-sssom-cliquesummary-o"], [0, "cmdoption-sssom-convert-o"], [0, "cmdoption-sssom-correlations-o"], [0, "cmdoption-sssom-crosstab-o"], [0, "cmdoption-sssom-dedupe-o"], [0, "cmdoption-sssom-diff-o"], [0, "cmdoption-sssom-dosql-o"], [0, "cmdoption-sssom-filter-o"], [0, "cmdoption-sssom-invert-o"], [0, "cmdoption-sssom-merge-o"], [0, "cmdoption-sssom-parse-o"], [0, "cmdoption-sssom-ptable-o"], [0, "cmdoption-sssom-reconcile-prefixes-o"], [0, "cmdoption-sssom-remove-o"], [0, "cmdoption-sssom-rewire-o"], [0, "cmdoption-sssom-sort-o"], [0, "cmdoption-sssom-sparql-o"]], "-p": [[0, "cmdoption-sssom-invert-P"], [0, "cmdoption-sssom-sparql-P"], [0, "cmdoption-sssom-parse-p"], [0, "cmdoption-sssom-reconcile-prefixes-p"]], "-q": [[0, "cmdoption-sssom-dosql-Q"], [0, "cmdoption-sssom-q"]], "-r": [[0, "cmdoption-sssom-merge-R"], [0, "cmdoption-sssom-sort-r"]], "-v": [[0, "cmdoption-sssom-validate-V"], [0, "cmdoption-sssom-v"]], "-w": [[0, "cmdoption-sssom-ptable-W"]], "-d": [[0, "cmdoption-sssom-partition-d"], [0, "cmdoption-sssom-split-d"]], "-g": [[0, "cmdoption-sssom-sparql-g"]], "-k": [[0, "cmdoption-sssom-sort-k"]], "-l": [[0, "cmdoption-sssom-sparql-l"]], "-m": [[0, "cmdoption-sssom-cliquesummary-m"], [0, "cmdoption-sssom-parse-m"], [0, "cmdoption-sssom-rewire-m"]], "-s": [[0, "cmdoption-sssom-cliquesummary-s"]], "-t": [[0, "cmdoption-sssom-correlations-t"], [0, "cmdoption-sssom-crosstab-t"]], "input": [[0, "cmdoption-sssom-annotate-arg-INPUT"], [0, "cmdoption-sssom-cliquesummary-arg-INPUT"], [0, "cmdoption-sssom-convert-arg-INPUT"], [0, "cmdoption-sssom-correlations-arg-INPUT"], [0, "cmdoption-sssom-crosstab-arg-INPUT"], [0, "cmdoption-sssom-dedupe-arg-INPUT"], [0, "cmdoption-sssom-filter-arg-INPUT"], [0, "cmdoption-sssom-invert-arg-INPUT"], [0, "cmdoption-sssom-parse-arg-INPUT"], [0, "cmdoption-sssom-ptable-arg-INPUT"], [0, "cmdoption-sssom-reconcile-prefixes-arg-INPUT"], [0, "cmdoption-sssom-remove-arg-INPUT"], [0, "cmdoption-sssom-rewire-arg-INPUT"], [0, "cmdoption-sssom-sort-arg-INPUT"], [0, "cmdoption-sssom-split-arg-INPUT"], [0, "cmdoption-sssom-validate-arg-INPUT"]], "inputs": [[0, "cmdoption-sssom-diff-arg-INPUTS"], [0, "cmdoption-sssom-dosql-arg-INPUTS"], [0, "cmdoption-sssom-merge-arg-INPUTS"], [0, "cmdoption-sssom-partition-arg-INPUTS"]], "subcommand": [[0, "cmdoption-sssom-help-arg-SUBCOMMAND"]], "sssom command line option": [[0, "cmdoption-sssom-q"], [0, "cmdoption-sssom-v"], [0, "cmdoption-sssom-version"]], "sssom-annotate command line option": [[0, "cmdoption-sssom-annotate-arg-INPUT"], [0, "cmdoption-sssom-annotate-comment"], [0, "cmdoption-sssom-annotate-creator_id"], [0, "cmdoption-sssom-annotate-creator_label"], [0, "cmdoption-sssom-annotate-issue_tracker"], [0, "cmdoption-sssom-annotate-license"], [0, "cmdoption-sssom-annotate-mapping_date"], [0, "cmdoption-sssom-annotate-mapping_provider"], [0, "cmdoption-sssom-annotate-mapping_set_description"], [0, "cmdoption-sssom-annotate-mapping_set_id"], [0, "cmdoption-sssom-annotate-mapping_set_source"], [0, "cmdoption-sssom-annotate-mapping_set_title"], [0, "cmdoption-sssom-annotate-mapping_set_version"], [0, "cmdoption-sssom-annotate-mapping_tool"], [0, "cmdoption-sssom-annotate-mapping_tool_version"], [0, "cmdoption-sssom-annotate-mappings"], [0, "cmdoption-sssom-annotate-o"], [0, "cmdoption-sssom-annotate-object_match_field"], [0, "cmdoption-sssom-annotate-object_preprocessing"], [0, "cmdoption-sssom-annotate-object_source"], [0, "cmdoption-sssom-annotate-object_source_version"], [0, "cmdoption-sssom-annotate-object_type"], [0, "cmdoption-sssom-annotate-other"], [0, "cmdoption-sssom-annotate-publication_date"], [0, "cmdoption-sssom-annotate-replace-multivalued"], [0, "cmdoption-sssom-annotate-see_also"], [0, "cmdoption-sssom-annotate-subject_match_field"], [0, "cmdoption-sssom-annotate-subject_preprocessing"], [0, "cmdoption-sssom-annotate-subject_source"], [0, "cmdoption-sssom-annotate-subject_source_version"], [0, "cmdoption-sssom-annotate-subject_type"]], "sssom-cliquesummary command line option": [[0, "cmdoption-sssom-cliquesummary-arg-INPUT"], [0, "cmdoption-sssom-cliquesummary-m"], [0, "cmdoption-sssom-cliquesummary-o"], [0, "cmdoption-sssom-cliquesummary-s"]], "sssom-convert command line option": [[0, "cmdoption-sssom-convert-O"], [0, "cmdoption-sssom-convert-arg-INPUT"], [0, "cmdoption-sssom-convert-o"]], "sssom-correlations command line option": [[0, "cmdoption-sssom-correlations-arg-INPUT"], [0, "cmdoption-sssom-correlations-f"], [0, "cmdoption-sssom-correlations-o"], [0, "cmdoption-sssom-correlations-t"]], "sssom-crosstab command line option": [[0, "cmdoption-sssom-crosstab-arg-INPUT"], [0, "cmdoption-sssom-crosstab-f"], [0, "cmdoption-sssom-crosstab-o"], [0, "cmdoption-sssom-crosstab-t"]], "sssom-dedupe command line option": [[0, "cmdoption-sssom-dedupe-arg-INPUT"], [0, "cmdoption-sssom-dedupe-o"]], "sssom-diff command line option": [[0, "cmdoption-sssom-diff-arg-INPUTS"], [0, "cmdoption-sssom-diff-o"]], "sssom-dosql command line option": [[0, "cmdoption-sssom-dosql-Q"], [0, "cmdoption-sssom-dosql-arg-INPUTS"], [0, "cmdoption-sssom-dosql-o"]], "sssom-filter command line option": [[0, "cmdoption-sssom-filter-arg-INPUT"], [0, "cmdoption-sssom-filter-author_id"], [0, "cmdoption-sssom-filter-author_label"], [0, "cmdoption-sssom-filter-comment"], [0, "cmdoption-sssom-filter-confidence"], [0, "cmdoption-sssom-filter-creator_id"], [0, "cmdoption-sssom-filter-creator_label"], [0, "cmdoption-sssom-filter-curation_rule"], [0, "cmdoption-sssom-filter-curation_rule_text"], [0, "cmdoption-sssom-filter-issue_tracker_item"], [0, "cmdoption-sssom-filter-license"], [0, "cmdoption-sssom-filter-mapping_cardinality"], [0, "cmdoption-sssom-filter-mapping_date"], [0, "cmdoption-sssom-filter-mapping_justification"], [0, "cmdoption-sssom-filter-mapping_provider"], [0, "cmdoption-sssom-filter-mapping_source"], [0, "cmdoption-sssom-filter-mapping_tool"], [0, "cmdoption-sssom-filter-mapping_tool_version"], [0, "cmdoption-sssom-filter-match_string"], [0, "cmdoption-sssom-filter-o"], [0, "cmdoption-sssom-filter-object_category"], [0, "cmdoption-sssom-filter-object_id"], [0, "cmdoption-sssom-filter-object_label"], [0, "cmdoption-sssom-filter-object_match_field"], [0, "cmdoption-sssom-filter-object_preprocessing"], [0, "cmdoption-sssom-filter-object_source"], [0, "cmdoption-sssom-filter-object_source_version"], [0, "cmdoption-sssom-filter-object_type"], [0, "cmdoption-sssom-filter-other"], [0, "cmdoption-sssom-filter-predicate_id"], [0, "cmdoption-sssom-filter-predicate_label"], [0, "cmdoption-sssom-filter-predicate_modifier"], [0, "cmdoption-sssom-filter-publication_date"], [0, "cmdoption-sssom-filter-reviewer_id"], [0, "cmdoption-sssom-filter-reviewer_label"], [0, "cmdoption-sssom-filter-see_also"], [0, "cmdoption-sssom-filter-semantic_similarity_measure"], [0, "cmdoption-sssom-filter-semantic_similarity_score"], [0, "cmdoption-sssom-filter-subject_category"], [0, "cmdoption-sssom-filter-subject_id"], [0, "cmdoption-sssom-filter-subject_label"], [0, "cmdoption-sssom-filter-subject_match_field"], [0, "cmdoption-sssom-filter-subject_preprocessing"], [0, "cmdoption-sssom-filter-subject_source"], [0, "cmdoption-sssom-filter-subject_source_version"], [0, "cmdoption-sssom-filter-subject_type"]], "sssom-help command line option": [[0, "cmdoption-sssom-help-arg-SUBCOMMAND"]], "sssom-invert command line option": [[0, "cmdoption-sssom-invert-P"], [0, "cmdoption-sssom-invert-arg-INPUT"], [0, "cmdoption-sssom-invert-inverse-map"], [0, "cmdoption-sssom-invert-merge-inverted"], [0, "cmdoption-sssom-invert-o"], [0, "cmdoption-sssom-invert-update-justification"]], "sssom-merge command line option": [[0, "cmdoption-sssom-merge-R"], [0, "cmdoption-sssom-merge-arg-INPUTS"], [0, "cmdoption-sssom-merge-o"]], "sssom-parse command line option": [[0, "cmdoption-sssom-parse-C"], [0, "cmdoption-sssom-parse-E"], [0, "cmdoption-sssom-parse-F"], [0, "cmdoption-sssom-parse-I"], [0, "cmdoption-sssom-parse-arg-INPUT"], [0, "cmdoption-sssom-parse-m"], [0, "cmdoption-sssom-parse-o"], [0, "cmdoption-sssom-parse-p"], [0, "cmdoption-sssom-parse-strict-clean-prefixes"]], "sssom-partition command line option": [[0, "cmdoption-sssom-partition-arg-INPUTS"], [0, "cmdoption-sssom-partition-d"]], "sssom-ptable command line option": [[0, "cmdoption-sssom-ptable-W"], [0, "cmdoption-sssom-ptable-arg-INPUT"], [0, "cmdoption-sssom-ptable-default-confidence"], [0, "cmdoption-sssom-ptable-o"]], "sssom-reconcile-prefixes command line option": [[0, "cmdoption-sssom-reconcile-prefixes-arg-INPUT"], [0, "cmdoption-sssom-reconcile-prefixes-o"], [0, "cmdoption-sssom-reconcile-prefixes-p"]], "sssom-remove command line option": [[0, "cmdoption-sssom-remove-arg-INPUT"], [0, "cmdoption-sssom-remove-o"], [0, "cmdoption-sssom-remove-remove-map"]], "sssom-rewire command line option": [[0, "cmdoption-sssom-rewire-I"], [0, "cmdoption-sssom-rewire-O"], [0, "cmdoption-sssom-rewire-arg-INPUT"], [0, "cmdoption-sssom-rewire-m"], [0, "cmdoption-sssom-rewire-o"], [0, "cmdoption-sssom-rewire-precedence"]], "sssom-sort command line option": [[0, "cmdoption-sssom-sort-arg-INPUT"], [0, "cmdoption-sssom-sort-k"], [0, "cmdoption-sssom-sort-o"], [0, "cmdoption-sssom-sort-r"]], "sssom-sparql command line option": [[0, "cmdoption-sssom-sparql-P"], [0, "cmdoption-sssom-sparql-c"], [0, "cmdoption-sssom-sparql-e"], [0, "cmdoption-sssom-sparql-g"], [0, "cmdoption-sssom-sparql-l"], [0, "cmdoption-sssom-sparql-o"], [0, "cmdoption-sssom-sparql-object-labels"]], "sssom-split command line option": [[0, "cmdoption-sssom-split-arg-INPUT"], [0, "cmdoption-sssom-split-d"]], "sssom-validate command line option": [[0, "cmdoption-sssom-validate-V"], [0, "cmdoption-sssom-validate-arg-INPUT"]], "entitypair (class in sssom.util)": [[1, "sssom.util.EntityPair"], [10, "sssom.util.EntityPair"]], "key_features (in module sssom.util)": [[1, "sssom.util.KEY_FEATURES"], [10, "sssom.util.KEY_FEATURES"]], "mappingsetdataframe (class in sssom.util)": [[1, "sssom.util.MappingSetDataFrame"], [10, "sssom.util.MappingSetDataFrame"]], "mappingsetdiff (class in sssom.util)": [[1, "sssom.util.MappingSetDiff"], [10, "sssom.util.MappingSetDiff"]], "mappingsetdocument (class in sssom.sssom_document)": [[1, "sssom.sssom_document.MappingSetDocument"], [10, "sssom.sssom_document.MappingSetDocument"]], "add_default_confidence() (in module sssom.util)": [[1, "sssom.util.add_default_confidence"], [10, "sssom.util.add_default_confidence"]], "annotate_file() (in module sssom.io)": [[1, "sssom.io.annotate_file"], [10, "sssom.io.annotate_file"]], "are_params_slots() (in module sssom.util)": [[1, "sssom.util.are_params_slots"], [10, "sssom.util.are_params_slots"]], "assign_default_confidence() (in module sssom.util)": [[1, "sssom.util.assign_default_confidence"], [10, "sssom.util.assign_default_confidence"]], "augment_metadata() (in module sssom.util)": [[1, "sssom.util.augment_metadata"], [10, "sssom.util.augment_metadata"]], "clean_context() (sssom.util.mappingsetdataframe method)": [[1, "sssom.util.MappingSetDataFrame.clean_context"], [10, "sssom.util.MappingSetDataFrame.clean_context"]], "clean_prefix_map() (sssom.util.mappingsetdataframe method)": [[1, "sssom.util.MappingSetDataFrame.clean_prefix_map"], [10, "sssom.util.MappingSetDataFrame.clean_prefix_map"]], "collapse() (in module sssom.util)": [[1, "sssom.util.collapse"], [10, "sssom.util.collapse"]], "combined_dataframe (sssom.util.mappingsetdiff attribute)": [[1, "sssom.util.MappingSetDiff.combined_dataframe"], [10, "sssom.util.MappingSetDiff.combined_dataframe"]], "compare_dataframes() (in module sssom.util)": [[1, "sssom.util.compare_dataframes"], [10, "sssom.util.compare_dataframes"]], "convert_file() (in module sssom.io)": [[1, "sssom.io.convert_file"], [10, "sssom.io.convert_file"]], "create_entity() (in module sssom.util)": [[1, "sssom.util.create_entity"], [10, "sssom.util.create_entity"]], "dataframe_to_ptable() (in module sssom.util)": [[1, "sssom.util.dataframe_to_ptable"], [10, "sssom.util.dataframe_to_ptable"]], "deal_with_negation() (in module sssom.util)": [[1, "sssom.util.deal_with_negation"], [10, "sssom.util.deal_with_negation"]], "extract_iris() (in module sssom.io)": [[1, "sssom.io.extract_iris"], [10, "sssom.io.extract_iris"]], "filter_file() (in module sssom.io)": [[1, "sssom.io.filter_file"], [10, "sssom.io.filter_file"]], "filter_out_prefixes() (in module sssom.util)": [[1, "sssom.util.filter_out_prefixes"], [10, "sssom.util.filter_out_prefixes"]], "filter_prefixes() (in module sssom.util)": [[1, "sssom.util.filter_prefixes"], [10, "sssom.util.filter_prefixes"]], "filter_redundant_rows() (in module sssom.util)": [[1, "sssom.util.filter_redundant_rows"], [10, "sssom.util.filter_redundant_rows"]], "from_mapping_set() (sssom.util.mappingsetdataframe class method)": [[1, "sssom.util.MappingSetDataFrame.from_mapping_set"], [10, "sssom.util.MappingSetDataFrame.from_mapping_set"]], "from_mapping_set_document() (sssom.util.mappingsetdataframe class method)": [[1, "sssom.util.MappingSetDataFrame.from_mapping_set_document"], [10, "sssom.util.MappingSetDataFrame.from_mapping_set_document"]], "from_mappings() (sssom.util.mappingsetdataframe class method)": [[1, "sssom.util.MappingSetDataFrame.from_mappings"], [10, "sssom.util.MappingSetDataFrame.from_mappings"]], "get_all_prefixes() (in module sssom.util)": [[1, "sssom.util.get_all_prefixes"], [10, "sssom.util.get_all_prefixes"]], "get_dict_from_mapping() (in module sssom.util)": [[1, "sssom.util.get_dict_from_mapping"], [10, "sssom.util.get_dict_from_mapping"]], "get_file_extension() (in module sssom.util)": [[1, "sssom.util.get_file_extension"], [10, "sssom.util.get_file_extension"]], "get_metadata_and_prefix_map() (in module sssom.io)": [[1, "sssom.io.get_metadata_and_prefix_map"], [10, "sssom.io.get_metadata_and_prefix_map"]], "get_prefix_from_curie() (in module sssom.util)": [[1, "sssom.util.get_prefix_from_curie"], [10, "sssom.util.get_prefix_from_curie"]], "get_prefixes_used_in_metadata() (in module sssom.util)": [[1, "sssom.util.get_prefixes_used_in_metadata"], [10, "sssom.util.get_prefixes_used_in_metadata"]], "get_prefixes_used_in_table() (in module sssom.util)": [[1, "sssom.util.get_prefixes_used_in_table"], [10, "sssom.util.get_prefixes_used_in_table"]], "get_row_based_on_hierarchy() (in module sssom.util)": [[1, "sssom.util.get_row_based_on_hierarchy"], [10, "sssom.util.get_row_based_on_hierarchy"]], "group_mappings() (in module sssom.util)": [[1, "sssom.util.group_mappings"], [10, "sssom.util.group_mappings"]], "inject_metadata_into_df() (in module sssom.util)": [[1, "sssom.util.inject_metadata_into_df"], [10, "sssom.util.inject_metadata_into_df"]], "invert_mappings() (in module sssom.util)": [[1, "sssom.util.invert_mappings"], [10, "sssom.util.invert_mappings"]], "is_multivalued_slot() (in module sssom.util)": [[1, "sssom.util.is_multivalued_slot"], [10, "sssom.util.is_multivalued_slot"]], "mapping_set (sssom.sssom_document.mappingsetdocument attribute)": [[1, "sssom.sssom_document.MappingSetDocument.mapping_set"], [10, "sssom.sssom_document.MappingSetDocument.mapping_set"]], "merge() (sssom.util.mappingsetdataframe method)": [[1, "sssom.util.MappingSetDataFrame.merge"], [10, "sssom.util.MappingSetDataFrame.merge"]], "merge_msdf() (in module sssom.util)": [[1, "sssom.util.merge_msdf"], [10, "sssom.util.merge_msdf"]], "module": [[1, "module-sssom.io"], [1, "module-sssom.sssom_document"], [1, "module-sssom.util"], [4, "module-sssom"], [4, "module-sssom.cli"], [4, "module-sssom.cliques"], [4, "module-sssom.context"], [4, "module-sssom.parsers"], [4, "module-sssom.writers"], [10, "module-sssom"], [10, "module-sssom.cli"], [10, "module-sssom.cliques"], [10, "module-sssom.constants"], [10, "module-sssom.context"], [10, "module-sssom.io"], [10, "module-sssom.parsers"], [10, "module-sssom.rdf_util"], [10, "module-sssom.sparql_util"], [10, "module-sssom.sssom_document"], [10, "module-sssom.util"], [10, "module-sssom.validators"], [10, "module-sssom.writers"]], "parse() (in module sssom.util)": [[1, "sssom.util.parse"], [10, "sssom.util.parse"]], "parse_file() (in module sssom.io)": [[1, "sssom.io.parse_file"], [10, "sssom.io.parse_file"]], "prefix_map (sssom.sssom_document.mappingsetdocument property)": [[1, "sssom.sssom_document.MappingSetDocument.prefix_map"], [10, "sssom.sssom_document.MappingSetDocument.prefix_map"]], "prefix_map (sssom.util.mappingsetdataframe property)": [[1, "sssom.util.MappingSetDataFrame.prefix_map"], [10, "sssom.util.MappingSetDataFrame.prefix_map"]], "raise_for_bad_path() (in module sssom.util)": [[1, "sssom.util.raise_for_bad_path"], [10, "sssom.util.raise_for_bad_path"]], "reconcile_prefix_and_data() (in module sssom.util)": [[1, "sssom.util.reconcile_prefix_and_data"], [10, "sssom.util.reconcile_prefix_and_data"]], "remove_mappings() (sssom.util.mappingsetdataframe method)": [[1, "sssom.util.MappingSetDataFrame.remove_mappings"], [10, "sssom.util.MappingSetDataFrame.remove_mappings"]], "remove_unmatched() (in module sssom.util)": [[1, "sssom.util.remove_unmatched"], [10, "sssom.util.remove_unmatched"]], "run_sql_query() (in module sssom.io)": [[1, "sssom.io.run_sql_query"], [10, "sssom.io.run_sql_query"]], "safe_compress() (in module sssom.util)": [[1, "sssom.util.safe_compress"], [10, "sssom.util.safe_compress"]], "sort_df_rows_columns() (in module sssom.util)": [[1, "sssom.util.sort_df_rows_columns"], [10, "sssom.util.sort_df_rows_columns"]], "sort_sssom() (in module sssom.util)": [[1, "sssom.util.sort_sssom"], [10, "sssom.util.sort_sssom"]], "split_file() (in module sssom.io)": [[1, "sssom.io.split_file"], [10, "sssom.io.split_file"]], "sssom.io": [[1, "module-sssom.io"], [10, "module-sssom.io"]], "sssom.sssom_document": [[1, "module-sssom.sssom_document"], [10, "module-sssom.sssom_document"]], "sssom.util": [[1, "module-sssom.util"], [10, "module-sssom.util"]], "standardize_references() (sssom.util.mappingsetdataframe method)": [[1, "sssom.util.MappingSetDataFrame.standardize_references"], [10, "sssom.util.MappingSetDataFrame.standardize_references"]], "to_mapping_set() (sssom.util.mappingsetdataframe method)": [[1, "sssom.util.MappingSetDataFrame.to_mapping_set"], [10, "sssom.util.MappingSetDataFrame.to_mapping_set"]], "to_mapping_set_dataframe() (in module sssom.util)": [[1, "sssom.util.to_mapping_set_dataframe"], [10, "sssom.util.to_mapping_set_dataframe"]], "to_mapping_set_document() (sssom.util.mappingsetdataframe method)": [[1, "sssom.util.MappingSetDataFrame.to_mapping_set_document"], [10, "sssom.util.MappingSetDataFrame.to_mapping_set_document"]], "to_mappings() (sssom.util.mappingsetdataframe method)": [[1, "sssom.util.MappingSetDataFrame.to_mappings"], [10, "sssom.util.MappingSetDataFrame.to_mappings"]], "validate_file() (in module sssom.io)": [[1, "sssom.io.validate_file"], [10, "sssom.io.validate_file"]], "with_converter() (sssom.util.mappingsetdataframe class method)": [[1, "sssom.util.MappingSetDataFrame.with_converter"], [10, "sssom.util.MappingSetDataFrame.with_converter"]], "converterhint (in module sssom.context)": [[4, "sssom.context.ConverterHint"], [10, "sssom.context.ConverterHint"]], "dynamically_generate_sssom_options() (in module sssom.cli)": [[4, "sssom.cli.dynamically_generate_sssom_options"], [10, "sssom.cli.dynamically_generate_sssom_options"]], "ensure_converter() (in module sssom.context)": [[4, "sssom.context.ensure_converter"], [10, "sssom.context.ensure_converter"]], "from_alignment_minidom() (in module sssom.parsers)": [[4, "sssom.parsers.from_alignment_minidom"], [10, "sssom.parsers.from_alignment_minidom"]], "from_obographs() (in module sssom.parsers)": [[4, "sssom.parsers.from_obographs"], [10, "sssom.parsers.from_obographs"]], "from_sssom_dataframe() (in module sssom.parsers)": [[4, "sssom.parsers.from_sssom_dataframe"], [10, "sssom.parsers.from_sssom_dataframe"]], "from_sssom_json() (in module sssom.parsers)": [[4, "sssom.parsers.from_sssom_json"], [10, "sssom.parsers.from_sssom_json"]], "from_sssom_rdf() (in module sssom.parsers)": [[4, "sssom.parsers.from_sssom_rdf"], [10, "sssom.parsers.from_sssom_rdf"]], "get_converter() (in module sssom.context)": [[4, "sssom.context.get_converter"], [10, "sssom.context.get_converter"]], "get_parsing_function() (in module sssom.parsers)": [[4, "sssom.parsers.get_parsing_function"], [10, "sssom.parsers.get_parsing_function"]], "get_src() (in module sssom.cliques)": [[4, "sssom.cliques.get_src"], [10, "sssom.cliques.get_src"]], "get_writer_function() (in module sssom.writers)": [[4, "sssom.writers.get_writer_function"], [10, "sssom.writers.get_writer_function"]], "group_values() (in module sssom.cliques)": [[4, "sssom.cliques.group_values"], [10, "sssom.cliques.group_values"]], "parse_alignment_xml() (in module sssom.parsers)": [[4, "sssom.parsers.parse_alignment_xml"], [10, "sssom.parsers.parse_alignment_xml"]], "parse_obographs_json() (in module sssom.parsers)": [[4, "sssom.parsers.parse_obographs_json"], [10, "sssom.parsers.parse_obographs_json"]], "parse_sssom_json() (in module sssom.parsers)": [[4, "sssom.parsers.parse_sssom_json"], [10, "sssom.parsers.parse_sssom_json"]], "parse_sssom_rdf() (in module sssom.parsers)": [[4, "sssom.parsers.parse_sssom_rdf"], [10, "sssom.parsers.parse_sssom_rdf"]], "parse_sssom_table() (in module sssom.parsers)": [[4, "sssom.parsers.parse_sssom_table"], [10, "sssom.parsers.parse_sssom_table"]], "split_dataframe() (in module sssom.parsers)": [[4, "sssom.parsers.split_dataframe"], [10, "sssom.parsers.split_dataframe"]], "split_dataframe_by_prefix() (in module sssom.parsers)": [[4, "sssom.parsers.split_dataframe_by_prefix"], [10, "sssom.parsers.split_dataframe_by_prefix"]], "split_into_cliques() (in module sssom.cliques)": [[4, "sssom.cliques.split_into_cliques"], [10, "sssom.cliques.split_into_cliques"]], "sssom": [[4, "module-sssom"], [10, "module-sssom"]], "sssom.cli": [[4, "module-sssom.cli"], [10, "module-sssom.cli"]], "sssom.cliques": [[4, "module-sssom.cliques"], [10, "module-sssom.cliques"]], "sssom.context": [[4, "module-sssom.context"], [10, "module-sssom.context"]], "sssom.parsers": [[4, "module-sssom.parsers"], [10, "module-sssom.parsers"]], "sssom.writers": [[4, "module-sssom.writers"], [10, "module-sssom.writers"]], "summarize_cliques() (in module sssom.cliques)": [[4, "sssom.cliques.summarize_cliques"], [10, "sssom.cliques.summarize_cliques"]], "to_digraph() (in module sssom.cliques)": [[4, "sssom.cliques.to_digraph"], [10, "sssom.cliques.to_digraph"]], "to_fhir_json() (in module sssom.writers)": [[4, "sssom.writers.to_fhir_json"], [10, "sssom.writers.to_fhir_json"]], "to_json() (in module sssom.writers)": [[4, "sssom.writers.to_json"], [10, "sssom.writers.to_json"]], "to_mapping_set_document() (in module sssom.parsers)": [[4, "sssom.parsers.to_mapping_set_document"], [10, "sssom.parsers.to_mapping_set_document"]], "to_ontoportal_json() (in module sssom.writers)": [[4, "sssom.writers.to_ontoportal_json"], [10, "sssom.writers.to_ontoportal_json"]], "to_owl_graph() (in module sssom.writers)": [[4, "sssom.writers.to_owl_graph"], [10, "sssom.writers.to_owl_graph"]], "to_rdf_graph() (in module sssom.writers)": [[4, "sssom.writers.to_rdf_graph"], [10, "sssom.writers.to_rdf_graph"]], "write_fhir_json() (in module sssom.writers)": [[4, "sssom.writers.write_fhir_json"], [10, "sssom.writers.write_fhir_json"]], "write_json() (in module sssom.writers)": [[4, "sssom.writers.write_json"], [10, "sssom.writers.write_json"]], "write_ontoportal_json() (in module sssom.writers)": [[4, "sssom.writers.write_ontoportal_json"], [10, "sssom.writers.write_ontoportal_json"]], "write_owl() (in module sssom.writers)": [[4, "sssom.writers.write_owl"], [10, "sssom.writers.write_owl"]], "write_rdf() (in module sssom.writers)": [[4, "sssom.writers.write_rdf"], [10, "sssom.writers.write_rdf"]], "write_table() (in module sssom.writers)": [[4, "sssom.writers.write_table"], [10, "sssom.writers.write_table"]], "write_tables() (in module sssom.writers)": [[4, "sssom.writers.write_tables"], [10, "sssom.writers.write_tables"]], "compositematching (sssom.constants.semapv attribute)": [[10, "sssom.constants.SEMAPV.CompositeMatching"]], "crossspeciesbroadmatch (sssom.constants.semapv attribute)": [[10, "sssom.constants.SEMAPV.CrossSpeciesBroadMatch"]], "crossspeciesexactmatch (sssom.constants.semapv attribute)": [[10, "sssom.constants.SEMAPV.CrossSpeciesExactMatch"]], "crossspeciesnarrowmatch (sssom.constants.semapv attribute)": [[10, "sssom.constants.SEMAPV.CrossSpeciesNarrowMatch"]], "endpointconfig (class in sssom.sparql_util)": [[10, "sssom.sparql_util.EndpointConfig"]], "jsonschema (sssom.constants.schemavalidationtype attribute)": [[10, "sssom.constants.SchemaValidationType.JsonSchema"]], "lexicalmatching (sssom.constants.semapv attribute)": [[10, "sssom.constants.SEMAPV.LexicalMatching"]], "lexicalsimilaritythresholdmatching (sssom.constants.semapv attribute)": [[10, "sssom.constants.SEMAPV.LexicalSimilarityThresholdMatching"]], "logicalreasoning (sssom.constants.semapv attribute)": [[10, "sssom.constants.SEMAPV.LogicalReasoning"]], "manualmappingcuration (sssom.constants.semapv attribute)": [[10, "sssom.constants.SEMAPV.ManualMappingCuration"]], "mappingchaining (sssom.constants.semapv attribute)": [[10, "sssom.constants.SEMAPV.MappingChaining"]], "mappinginversion (sssom.constants.semapv attribute)": [[10, "sssom.constants.SEMAPV.MappingInversion"]], "mappingreview (sssom.constants.semapv attribute)": [[10, "sssom.constants.SEMAPV.MappingReview"]], "metadatatype (in module sssom.constants)": [[10, "sssom.constants.MetadataType"]], "prefixmapcompleteness (sssom.constants.schemavalidationtype attribute)": [[10, "sssom.constants.SchemaValidationType.PrefixMapCompleteness"]], "semapv (class in sssom.constants)": [[10, "sssom.constants.SEMAPV"]], "sssomschemaview (class in sssom.constants)": [[10, "sssom.constants.SSSOMSchemaView"]], "schemavalidationtype (class in sssom.constants)": [[10, "sssom.constants.SchemaValidationType"]], "semanticsimilaritythresholdmatching (sssom.constants.semapv attribute)": [[10, "sssom.constants.SEMAPV.SemanticSimilarityThresholdMatching"]], "shacl (sssom.constants.schemavalidationtype attribute)": [[10, "sssom.constants.SchemaValidationType.Shacl"]], "sparql (sssom.constants.schemavalidationtype attribute)": [[10, "sssom.constants.SchemaValidationType.Sparql"]], "strictcurieformat (sssom.constants.schemavalidationtype attribute)": [[10, "sssom.constants.SchemaValidationType.StrictCurieFormat"]], "unspecifiedmatching (sssom.constants.semapv attribute)": [[10, "sssom.constants.SEMAPV.UnspecifiedMatching"]], "__new__() (sssom.constants.sssomschemaview static method)": [[10, "sssom.constants.SSSOMSchemaView.__new__"]], "check_all_prefixes_in_curie_map() (in module sssom.validators)": [[10, "sssom.validators.check_all_prefixes_in_curie_map"]], "check_strict_curie_format() (in module sssom.validators)": [[10, "sssom.validators.check_strict_curie_format"]], "common_tuples (sssom.util.mappingsetdiff attribute)": [[10, "sssom.util.MappingSetDiff.common_tuples"]], "converter (sssom.sparql_util.endpointconfig attribute)": [[10, "sssom.sparql_util.EndpointConfig.converter"]], "converter (sssom.sssom_document.mappingsetdocument attribute)": [[10, "sssom.sssom_document.MappingSetDocument.converter"]], "converter (sssom.util.mappingsetdataframe attribute)": [[10, "sssom.util.MappingSetDataFrame.converter"]], "df (sssom.util.mappingsetdataframe attribute)": [[10, "sssom.util.MappingSetDataFrame.df"]], "dict (sssom.constants.sssomschemaview property)": [[10, "sssom.constants.SSSOMSchemaView.dict"]], "double_slots (sssom.constants.sssomschemaview property)": [[10, "sssom.constants.SSSOMSchemaView.double_slots"]], "entity_reference_slots (sssom.constants.sssomschemaview property)": [[10, "sssom.constants.SSSOMSchemaView.entity_reference_slots"]], "generate_mapping_set_id() (in module sssom.constants)": [[10, "sssom.constants.generate_mapping_set_id"]], "get_default_metadata() (in module sssom.constants)": [[10, "sssom.constants.get_default_metadata"]], "graph (sssom.sparql_util.endpointconfig attribute)": [[10, "sssom.sparql_util.EndpointConfig.graph"]], "include_object_labels (sssom.sparql_util.endpointconfig attribute)": [[10, "sssom.sparql_util.EndpointConfig.include_object_labels"]], "instance (sssom.constants.sssomschemaview attribute)": [[10, "sssom.constants.SSSOMSchemaView.instance"]], "limit (sssom.sparql_util.endpointconfig attribute)": [[10, "sssom.sparql_util.EndpointConfig.limit"]], "mapping_enum_keys (sssom.constants.sssomschemaview property)": [[10, "sssom.constants.SSSOMSchemaView.mapping_enum_keys"]], "mapping_set_slots (sssom.constants.sssomschemaview property)": [[10, "sssom.constants.SSSOMSchemaView.mapping_set_slots"]], "mapping_slots (sssom.constants.sssomschemaview property)": [[10, "sssom.constants.SSSOMSchemaView.mapping_slots"]], "metadata (sssom.util.mappingsetdataframe attribute)": [[10, "sssom.util.MappingSetDataFrame.metadata"]], "multivalued_slots (sssom.constants.sssomschemaview property)": [[10, "sssom.constants.SSSOMSchemaView.multivalued_slots"]], "object_entity (sssom.util.entitypair attribute)": [[10, "sssom.util.EntityPair.object_entity"]], "predicates (sssom.sparql_util.endpointconfig attribute)": [[10, "sssom.sparql_util.EndpointConfig.predicates"]], "predmap (sssom.sparql_util.endpointconfig attribute)": [[10, "sssom.sparql_util.EndpointConfig.predmap"]], "print_linkml_report() (in module sssom.validators)": [[10, "sssom.validators.print_linkml_report"]], "query_mappings() (in module sssom.sparql_util)": [[10, "sssom.sparql_util.query_mappings"]], "rewire_graph() (in module sssom.rdf_util)": [[10, "sssom.rdf_util.rewire_graph"]], "slots (sssom.constants.sssomschemaview property)": [[10, "sssom.constants.SSSOMSchemaView.slots"]], "sssom.constants": [[10, "module-sssom.constants"]], "sssom.rdf_util": [[10, "module-sssom.rdf_util"]], "sssom.sparql_util": [[10, "module-sssom.sparql_util"]], "sssom.validators": [[10, "module-sssom.validators"]], "subject_entity (sssom.util.entitypair attribute)": [[10, "sssom.util.EntityPair.subject_entity"]], "unique_tuples1 (sssom.util.mappingsetdiff attribute)": [[10, "sssom.util.MappingSetDiff.unique_tuples1"]], "unique_tuples2 (sssom.util.mappingsetdiff attribute)": [[10, "sssom.util.MappingSetDiff.unique_tuples2"]], "url (sssom.sparql_util.endpointconfig attribute)": [[10, "sssom.sparql_util.EndpointConfig.url"]], "validate() (in module sssom.validators)": [[10, "sssom.validators.validate"]], "validate_json_schema() (in module sssom.validators)": [[10, "sssom.validators.validate_json_schema"]], "validate_shacl() (in module sssom.validators)": [[10, "sssom.validators.validate_shacl"]], "validate_sparql() (in module sssom.validators)": [[10, "sssom.validators.validate_sparql"]], "view (sssom.constants.sssomschemaview property)": [[10, "sssom.constants.SSSOMSchemaView.view"]]}})
\ No newline at end of file