tooluniverse 1.0.7__py3-none-any.whl → 1.0.8__py3-none-any.whl
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
Potentially problematic release.
This version of tooluniverse might be problematic. Click here for more details.
- tooluniverse/__init__.py +29 -14
- tooluniverse/admetai_tool.py +8 -4
- tooluniverse/base_tool.py +36 -0
- tooluniverse/biogrid_tool.py +118 -0
- tooluniverse/build_optimizer.py +87 -0
- tooluniverse/cache/__init__.py +3 -0
- tooluniverse/cache/memory_cache.py +99 -0
- tooluniverse/cache/result_cache_manager.py +235 -0
- tooluniverse/cache/sqlite_backend.py +257 -0
- tooluniverse/clinvar_tool.py +90 -0
- tooluniverse/custom_tool.py +28 -0
- tooluniverse/data/arxiv_tools.json +1 -4
- tooluniverse/data/core_tools.json +1 -4
- tooluniverse/data/dataset_tools.json +7 -7
- tooluniverse/data/doaj_tools.json +1 -3
- tooluniverse/data/drug_discovery_agents.json +292 -0
- tooluniverse/data/europe_pmc_tools.json +1 -2
- tooluniverse/data/genomics_tools.json +174 -0
- tooluniverse/data/geo_tools.json +86 -0
- tooluniverse/data/markitdown_tools.json +51 -0
- tooluniverse/data/openalex_tools.json +1 -5
- tooluniverse/data/pmc_tools.json +1 -4
- tooluniverse/data/ppi_tools.json +139 -0
- tooluniverse/data/pubmed_tools.json +1 -3
- tooluniverse/data/semantic_scholar_tools.json +1 -2
- tooluniverse/data/unified_guideline_tools.json +206 -4
- tooluniverse/data/xml_tools.json +15 -15
- tooluniverse/data/zenodo_tools.json +1 -2
- tooluniverse/dbsnp_tool.py +71 -0
- tooluniverse/default_config.py +6 -0
- tooluniverse/ensembl_tool.py +61 -0
- tooluniverse/execute_function.py +196 -75
- tooluniverse/generate_tools.py +303 -20
- tooluniverse/genomics_gene_search_tool.py +56 -0
- tooluniverse/geo_tool.py +116 -0
- tooluniverse/gnomad_tool.py +63 -0
- tooluniverse/markitdown_tool.py +159 -0
- tooluniverse/mcp_client_tool.py +10 -5
- tooluniverse/smcp.py +10 -9
- tooluniverse/string_tool.py +112 -0
- tooluniverse/tools/ADMETAnalyzerAgent.py +59 -0
- tooluniverse/tools/ArXiv_search_papers.py +3 -3
- tooluniverse/tools/CMA_Guidelines_Search.py +52 -0
- tooluniverse/tools/CORE_search_papers.py +3 -3
- tooluniverse/tools/ClinVar_search_variants.py +52 -0
- tooluniverse/tools/ClinicalTrialDesignAgent.py +63 -0
- tooluniverse/tools/CompoundDiscoveryAgent.py +59 -0
- tooluniverse/tools/DOAJ_search_articles.py +2 -2
- tooluniverse/tools/DiseaseAnalyzerAgent.py +52 -0
- tooluniverse/tools/DrugInteractionAnalyzerAgent.py +52 -0
- tooluniverse/tools/DrugOptimizationAgent.py +63 -0
- tooluniverse/tools/Ensembl_lookup_gene_by_symbol.py +52 -0
- tooluniverse/tools/EuropePMC_search_articles.py +1 -1
- tooluniverse/tools/GIN_Guidelines_Search.py +52 -0
- tooluniverse/tools/GWAS_search_associations_by_gene.py +52 -0
- tooluniverse/tools/LiteratureSynthesisAgent.py +59 -0
- tooluniverse/tools/PMC_search_papers.py +3 -3
- tooluniverse/tools/PubMed_search_articles.py +2 -2
- tooluniverse/tools/SemanticScholar_search_papers.py +1 -1
- tooluniverse/tools/UCSC_get_genes_by_region.py +67 -0
- tooluniverse/tools/Zenodo_search_records.py +1 -1
- tooluniverse/tools/__init__.py +33 -1
- tooluniverse/tools/convert_to_markdown.py +59 -0
- tooluniverse/tools/dbSNP_get_variant_by_rsid.py +46 -0
- tooluniverse/tools/gnomAD_query_variant.py +52 -0
- tooluniverse/tools/openalex_literature_search.py +4 -4
- tooluniverse/ucsc_tool.py +60 -0
- tooluniverse/unified_guideline_tools.py +1175 -57
- tooluniverse/utils.py +51 -4
- tooluniverse/zenodo_tool.py +2 -1
- {tooluniverse-1.0.7.dist-info → tooluniverse-1.0.8.dist-info}/METADATA +9 -3
- {tooluniverse-1.0.7.dist-info → tooluniverse-1.0.8.dist-info}/RECORD +76 -40
- {tooluniverse-1.0.7.dist-info → tooluniverse-1.0.8.dist-info}/WHEEL +0 -0
- {tooluniverse-1.0.7.dist-info → tooluniverse-1.0.8.dist-info}/entry_points.txt +0 -0
- {tooluniverse-1.0.7.dist-info → tooluniverse-1.0.8.dist-info}/licenses/LICENSE +0 -0
- {tooluniverse-1.0.7.dist-info → tooluniverse-1.0.8.dist-info}/top_level.txt +0 -0
|
@@ -0,0 +1,51 @@
|
|
|
1
|
+
[
|
|
2
|
+
{
|
|
3
|
+
"type": "MarkItDownTool",
|
|
4
|
+
"name": "convert_to_markdown",
|
|
5
|
+
"description": "Convert a resource described by an http:, https:, file: or data: URI to markdown.",
|
|
6
|
+
"parameter": {
|
|
7
|
+
"type": "object",
|
|
8
|
+
"properties": {
|
|
9
|
+
"uri": {
|
|
10
|
+
"type": "string",
|
|
11
|
+
"description": "URI of the resource to convert (supports http:, https:, file:, data: URIs)"
|
|
12
|
+
},
|
|
13
|
+
"output_path": {
|
|
14
|
+
"type": "string",
|
|
15
|
+
"description": "Optional output file path"
|
|
16
|
+
},
|
|
17
|
+
"enable_plugins": {
|
|
18
|
+
"type": "boolean",
|
|
19
|
+
"description": "Enable 3rd-party plugins",
|
|
20
|
+
"default": false
|
|
21
|
+
}
|
|
22
|
+
},
|
|
23
|
+
"required": ["uri"]
|
|
24
|
+
},
|
|
25
|
+
"return_schema": {
|
|
26
|
+
"type": "object",
|
|
27
|
+
"properties": {
|
|
28
|
+
"markdown_content": {
|
|
29
|
+
"type": "string",
|
|
30
|
+
"description": "The converted Markdown content"
|
|
31
|
+
},
|
|
32
|
+
"content": {
|
|
33
|
+
"type": "string",
|
|
34
|
+
"description": "The converted Markdown content (same as markdown_content, provided for convenience when no output_path is specified)"
|
|
35
|
+
},
|
|
36
|
+
"file_info": {
|
|
37
|
+
"type": "object",
|
|
38
|
+
"properties": {
|
|
39
|
+
"original_file": {"type": "string"},
|
|
40
|
+
"file_type": {"type": "string"},
|
|
41
|
+
"output_file": {"type": "string"}
|
|
42
|
+
}
|
|
43
|
+
},
|
|
44
|
+
"error": {
|
|
45
|
+
"type": "string",
|
|
46
|
+
"description": "Error message if conversion failed"
|
|
47
|
+
}
|
|
48
|
+
}
|
|
49
|
+
}
|
|
50
|
+
}
|
|
51
|
+
]
|
tooluniverse/data/pmc_tools.json
CHANGED
|
@@ -0,0 +1,139 @@
|
|
|
1
|
+
[
|
|
2
|
+
{
|
|
3
|
+
"type": "STRINGRESTTool",
|
|
4
|
+
"name": "STRING_get_protein_interactions",
|
|
5
|
+
"description": "Query protein-protein interactions from the STRING database. STRING is a comprehensive database of known and predicted protein-protein interactions with confidence scores and functional annotations.",
|
|
6
|
+
"parameter": {
|
|
7
|
+
"type": "object",
|
|
8
|
+
"properties": {
|
|
9
|
+
"protein_ids": {
|
|
10
|
+
"type": "array",
|
|
11
|
+
"items": {"type": "string"},
|
|
12
|
+
"description": "List of protein identifiers (UniProt IDs, gene names, etc.)",
|
|
13
|
+
"minItems": 1
|
|
14
|
+
},
|
|
15
|
+
"species": {
|
|
16
|
+
"type": "integer",
|
|
17
|
+
"description": "NCBI taxonomy ID (default: 9606 for human)",
|
|
18
|
+
"default": 9606
|
|
19
|
+
},
|
|
20
|
+
"confidence_score": {
|
|
21
|
+
"type": "number",
|
|
22
|
+
"description": "Minimum confidence score (0-1, default: 0.4)",
|
|
23
|
+
"minimum": 0,
|
|
24
|
+
"maximum": 1,
|
|
25
|
+
"default": 0.4
|
|
26
|
+
},
|
|
27
|
+
"limit": {
|
|
28
|
+
"type": "integer",
|
|
29
|
+
"description": "Maximum number of interactions to return (default: 50)",
|
|
30
|
+
"minimum": 1,
|
|
31
|
+
"maximum": 1000,
|
|
32
|
+
"default": 50
|
|
33
|
+
},
|
|
34
|
+
"network_type": {
|
|
35
|
+
"type": "string",
|
|
36
|
+
"description": "Type of network ('full', 'physical', 'functional')",
|
|
37
|
+
"enum": ["full", "physical", "functional"],
|
|
38
|
+
"default": "full"
|
|
39
|
+
}
|
|
40
|
+
},
|
|
41
|
+
"required": ["protein_ids"]
|
|
42
|
+
},
|
|
43
|
+
"fields": {
|
|
44
|
+
"endpoint": "/tsv/network",
|
|
45
|
+
"return_format": "TSV"
|
|
46
|
+
},
|
|
47
|
+
"return_schema": {
|
|
48
|
+
"type": "object",
|
|
49
|
+
"properties": {
|
|
50
|
+
"success": {"type": "boolean"},
|
|
51
|
+
"interactions": {
|
|
52
|
+
"type": "array",
|
|
53
|
+
"items": {
|
|
54
|
+
"type": "object",
|
|
55
|
+
"properties": {
|
|
56
|
+
"protein1": {"type": "string"},
|
|
57
|
+
"protein2": {"type": "string"},
|
|
58
|
+
"protein1_name": {"type": "string"},
|
|
59
|
+
"protein2_name": {"type": "string"},
|
|
60
|
+
"combined_score": {"type": "number"},
|
|
61
|
+
"confidence_score": {"type": "number"},
|
|
62
|
+
"interaction_sources": {"type": "array", "items": {"type": "string"}},
|
|
63
|
+
"interaction_type": {"type": "string"}
|
|
64
|
+
}
|
|
65
|
+
}
|
|
66
|
+
},
|
|
67
|
+
"mapping_data": {"type": "array"},
|
|
68
|
+
"functional_enrichment": {"type": "array"},
|
|
69
|
+
"summary": {"type": "object"},
|
|
70
|
+
"error": {"type": "string"}
|
|
71
|
+
}
|
|
72
|
+
},
|
|
73
|
+
"implementation": {
|
|
74
|
+
"language": "python",
|
|
75
|
+
"dependencies": ["requests"],
|
|
76
|
+
"source_file": "STRING_get_protein_interactions.py"
|
|
77
|
+
}
|
|
78
|
+
},
|
|
79
|
+
{
|
|
80
|
+
"type": "BioGRIDRESTTool",
|
|
81
|
+
"name": "BioGRID_get_interactions",
|
|
82
|
+
"description": "Query protein and genetic interactions from the BioGRID database. BioGRID is a comprehensive database of physical and genetic interactions with detailed experimental evidence.",
|
|
83
|
+
"parameter": {
|
|
84
|
+
"type": "object",
|
|
85
|
+
"properties": {
|
|
86
|
+
"gene_names": {
|
|
87
|
+
"type": "array",
|
|
88
|
+
"items": {"type": "string"},
|
|
89
|
+
"description": "List of gene names or protein identifiers",
|
|
90
|
+
"minItems": 1
|
|
91
|
+
},
|
|
92
|
+
"organism": {
|
|
93
|
+
"type": "string",
|
|
94
|
+
"description": "Organism name (e.g., 'Homo sapiens', 'Mus musculus')",
|
|
95
|
+
"default": "Homo sapiens"
|
|
96
|
+
},
|
|
97
|
+
"interaction_type": {
|
|
98
|
+
"type": "string",
|
|
99
|
+
"description": "Type of interaction ('physical', 'genetic', 'both')",
|
|
100
|
+
"enum": ["physical", "genetic", "both"],
|
|
101
|
+
"default": "both"
|
|
102
|
+
},
|
|
103
|
+
"evidence_types": {
|
|
104
|
+
"type": "array",
|
|
105
|
+
"items": {"type": "string"},
|
|
106
|
+
"description": "List of evidence types to include"
|
|
107
|
+
},
|
|
108
|
+
"limit": {
|
|
109
|
+
"type": "integer",
|
|
110
|
+
"description": "Maximum number of interactions to return (default: 100)",
|
|
111
|
+
"minimum": 1,
|
|
112
|
+
"maximum": 1000,
|
|
113
|
+
"default": 100
|
|
114
|
+
},
|
|
115
|
+
"format": {
|
|
116
|
+
"type": "string",
|
|
117
|
+
"description": "Output format ('json' or 'tab', default: 'json')",
|
|
118
|
+
"enum": ["json", "tab"],
|
|
119
|
+
"default": "json"
|
|
120
|
+
}
|
|
121
|
+
},
|
|
122
|
+
"required": ["gene_names"]
|
|
123
|
+
},
|
|
124
|
+
"return_schema": {
|
|
125
|
+
"type": "object",
|
|
126
|
+
"properties": {
|
|
127
|
+
"success": {"type": "boolean"},
|
|
128
|
+
"interactions": {"type": "array"},
|
|
129
|
+
"summary": {"type": "object"},
|
|
130
|
+
"statistics": {"type": "object"},
|
|
131
|
+
"error": {"type": "string"}
|
|
132
|
+
}
|
|
133
|
+
},
|
|
134
|
+
"fields": {
|
|
135
|
+
"endpoint": "/interactions/",
|
|
136
|
+
"return_format": "JSON"
|
|
137
|
+
}
|
|
138
|
+
}
|
|
139
|
+
]
|
|
@@ -39,6 +39,10 @@
|
|
|
39
39
|
"type": "string",
|
|
40
40
|
"description": "Clinical summary and scope of the guideline"
|
|
41
41
|
},
|
|
42
|
+
"content": {
|
|
43
|
+
"type": "string",
|
|
44
|
+
"description": "Cleaned clinical content extracted from the guideline page"
|
|
45
|
+
},
|
|
42
46
|
"date": {
|
|
43
47
|
"type": "string",
|
|
44
48
|
"description": "Publication or last updated date"
|
|
@@ -126,6 +130,14 @@
|
|
|
126
130
|
"type": "string"
|
|
127
131
|
}
|
|
128
132
|
},
|
|
133
|
+
"abstract": {
|
|
134
|
+
"type": "string",
|
|
135
|
+
"description": "Abstract text returned from PubMed"
|
|
136
|
+
},
|
|
137
|
+
"content": {
|
|
138
|
+
"type": "string",
|
|
139
|
+
"description": "Cleaned clinical content (mirrors abstract)"
|
|
140
|
+
},
|
|
129
141
|
"is_guideline": {
|
|
130
142
|
"type": "boolean",
|
|
131
143
|
"description": "Confirms this is a clinical guideline"
|
|
@@ -223,10 +235,14 @@
|
|
|
223
235
|
"type": "string",
|
|
224
236
|
"description": "Type of publication"
|
|
225
237
|
},
|
|
226
|
-
|
|
227
|
-
|
|
228
|
-
|
|
229
|
-
|
|
238
|
+
"abstract": {
|
|
239
|
+
"type": "string",
|
|
240
|
+
"description": "Abstract or summary of the guideline"
|
|
241
|
+
},
|
|
242
|
+
"content": {
|
|
243
|
+
"type": "string",
|
|
244
|
+
"description": "Extended clinical content extracted from Europe PMC when available"
|
|
245
|
+
},
|
|
230
246
|
"is_guideline": {
|
|
231
247
|
"type": "boolean",
|
|
232
248
|
"description": "Indicates if this is a clinical guideline"
|
|
@@ -310,6 +326,48 @@
|
|
|
310
326
|
"type": "string",
|
|
311
327
|
"description": "Category or type of guideline"
|
|
312
328
|
},
|
|
329
|
+
"description": {
|
|
330
|
+
"type": "string",
|
|
331
|
+
"description": "Short description provided by TRIP"
|
|
332
|
+
},
|
|
333
|
+
"content": {
|
|
334
|
+
"type": "string",
|
|
335
|
+
"description": "Detailed clinical content extracted from the guideline page when available"
|
|
336
|
+
},
|
|
337
|
+
"key_recommendations": {
|
|
338
|
+
"type": "array",
|
|
339
|
+
"description": "Extracted key recommendations (title and summary) when available",
|
|
340
|
+
"items": {
|
|
341
|
+
"type": "object",
|
|
342
|
+
"properties": {
|
|
343
|
+
"title": {
|
|
344
|
+
"type": "string",
|
|
345
|
+
"description": "Heading for the recommendation"
|
|
346
|
+
},
|
|
347
|
+
"summary": {
|
|
348
|
+
"type": "string",
|
|
349
|
+
"description": "Summary text of the recommendation"
|
|
350
|
+
}
|
|
351
|
+
}
|
|
352
|
+
}
|
|
353
|
+
},
|
|
354
|
+
"evidence_strength": {
|
|
355
|
+
"type": "array",
|
|
356
|
+
"description": "Strength-of-evidence or grading statements extracted from the guideline",
|
|
357
|
+
"items": {
|
|
358
|
+
"type": "object",
|
|
359
|
+
"properties": {
|
|
360
|
+
"section": {
|
|
361
|
+
"type": "string",
|
|
362
|
+
"description": "Reference section for the strength statement"
|
|
363
|
+
},
|
|
364
|
+
"strength": {
|
|
365
|
+
"type": "string",
|
|
366
|
+
"description": "Narrative grading (e.g., 'Strong recommendation')"
|
|
367
|
+
}
|
|
368
|
+
}
|
|
369
|
+
}
|
|
370
|
+
},
|
|
313
371
|
"is_guideline": {
|
|
314
372
|
"type": "boolean",
|
|
315
373
|
"description": "Confirms this is a clinical guideline"
|
|
@@ -703,5 +761,149 @@
|
|
|
703
761
|
}
|
|
704
762
|
}
|
|
705
763
|
}
|
|
764
|
+
},
|
|
765
|
+
{
|
|
766
|
+
"type": "GINGuidelinesTool",
|
|
767
|
+
"name": "GIN_Guidelines_Search",
|
|
768
|
+
"description": "Search Guidelines International Network (GIN) guidelines database. GIN maintains the world's largest database of clinical guidelines with over 6400 guidelines from various organizations worldwide.",
|
|
769
|
+
"parameter": {
|
|
770
|
+
"type": "object",
|
|
771
|
+
"properties": {
|
|
772
|
+
"query": {
|
|
773
|
+
"type": "string",
|
|
774
|
+
"description": "Medical condition, treatment, or clinical topic to search for in GIN guidelines (e.g., 'diabetes management', 'hypertension treatment', 'cancer screening')"
|
|
775
|
+
},
|
|
776
|
+
"limit": {
|
|
777
|
+
"type": "integer",
|
|
778
|
+
"description": "Maximum number of guidelines to return (default: 10)",
|
|
779
|
+
"default": 10
|
|
780
|
+
}
|
|
781
|
+
},
|
|
782
|
+
"required": [
|
|
783
|
+
"query",
|
|
784
|
+
"limit"
|
|
785
|
+
]
|
|
786
|
+
},
|
|
787
|
+
"return_schema": {
|
|
788
|
+
"type": "array",
|
|
789
|
+
"description": "List of GIN clinical guidelines from various international organizations",
|
|
790
|
+
"items": {
|
|
791
|
+
"type": "object",
|
|
792
|
+
"properties": {
|
|
793
|
+
"title": {
|
|
794
|
+
"type": "string",
|
|
795
|
+
"description": "Title of the guideline"
|
|
796
|
+
},
|
|
797
|
+
"url": {
|
|
798
|
+
"type": "string",
|
|
799
|
+
"description": "URL to access the guideline"
|
|
800
|
+
},
|
|
801
|
+
"description": {
|
|
802
|
+
"type": "string",
|
|
803
|
+
"description": "Description or summary of the guideline"
|
|
804
|
+
},
|
|
805
|
+
"date": {
|
|
806
|
+
"type": "string",
|
|
807
|
+
"description": "Publication or update date"
|
|
808
|
+
},
|
|
809
|
+
"source": {
|
|
810
|
+
"type": "string",
|
|
811
|
+
"description": "Source organization (GIN)"
|
|
812
|
+
},
|
|
813
|
+
"organization": {
|
|
814
|
+
"type": "string",
|
|
815
|
+
"description": "Organization that developed the guideline"
|
|
816
|
+
},
|
|
817
|
+
"is_guideline": {
|
|
818
|
+
"type": "boolean",
|
|
819
|
+
"description": "Indicates this is a clinical guideline"
|
|
820
|
+
},
|
|
821
|
+
"official": {
|
|
822
|
+
"type": "boolean",
|
|
823
|
+
"description": "Indicates this is an official publication"
|
|
824
|
+
},
|
|
825
|
+
"content": {
|
|
826
|
+
"type": "string",
|
|
827
|
+
"description": "Full content of the guideline"
|
|
828
|
+
},
|
|
829
|
+
"note": {
|
|
830
|
+
"type": "string",
|
|
831
|
+
"description": "Additional notes about content availability"
|
|
832
|
+
}
|
|
833
|
+
}
|
|
834
|
+
}
|
|
835
|
+
}
|
|
836
|
+
},
|
|
837
|
+
{
|
|
838
|
+
"type": "CMAGuidelinesTool",
|
|
839
|
+
"name": "CMA_Guidelines_Search",
|
|
840
|
+
"description": "Search Canadian Medical Association (CMA) Infobase guidelines. Contains over 1200 evidence-based clinical practice guidelines developed or endorsed by Canadian healthcare organizations.",
|
|
841
|
+
"parameter": {
|
|
842
|
+
"type": "object",
|
|
843
|
+
"properties": {
|
|
844
|
+
"query": {
|
|
845
|
+
"type": "string",
|
|
846
|
+
"description": "Medical condition, treatment, or clinical topic to search for in CMA guidelines (e.g., 'diabetes management', 'hypertension treatment', 'cancer screening')"
|
|
847
|
+
},
|
|
848
|
+
"limit": {
|
|
849
|
+
"type": "integer",
|
|
850
|
+
"description": "Maximum number of guidelines to return (default: 10)",
|
|
851
|
+
"default": 10
|
|
852
|
+
}
|
|
853
|
+
},
|
|
854
|
+
"required": [
|
|
855
|
+
"query",
|
|
856
|
+
"limit"
|
|
857
|
+
]
|
|
858
|
+
},
|
|
859
|
+
"return_schema": {
|
|
860
|
+
"type": "array",
|
|
861
|
+
"description": "List of CMA Infobase clinical practice guidelines",
|
|
862
|
+
"items": {
|
|
863
|
+
"type": "object",
|
|
864
|
+
"properties": {
|
|
865
|
+
"title": {
|
|
866
|
+
"type": "string",
|
|
867
|
+
"description": "Title of the guideline"
|
|
868
|
+
},
|
|
869
|
+
"url": {
|
|
870
|
+
"type": "string",
|
|
871
|
+
"description": "URL to access the guideline"
|
|
872
|
+
},
|
|
873
|
+
"description": {
|
|
874
|
+
"type": "string",
|
|
875
|
+
"description": "Description or summary of the guideline"
|
|
876
|
+
},
|
|
877
|
+
"date": {
|
|
878
|
+
"type": "string",
|
|
879
|
+
"description": "Publication or update date"
|
|
880
|
+
},
|
|
881
|
+
"source": {
|
|
882
|
+
"type": "string",
|
|
883
|
+
"description": "Source organization (CMA)"
|
|
884
|
+
},
|
|
885
|
+
"organization": {
|
|
886
|
+
"type": "string",
|
|
887
|
+
"description": "Canadian healthcare organization that developed the guideline"
|
|
888
|
+
},
|
|
889
|
+
"is_guideline": {
|
|
890
|
+
"type": "boolean",
|
|
891
|
+
"description": "Indicates this is a clinical guideline"
|
|
892
|
+
},
|
|
893
|
+
"official": {
|
|
894
|
+
"type": "boolean",
|
|
895
|
+
"description": "Indicates this is an official publication"
|
|
896
|
+
},
|
|
897
|
+
"content": {
|
|
898
|
+
"type": "string",
|
|
899
|
+
"description": "Full content of the guideline"
|
|
900
|
+
},
|
|
901
|
+
"note": {
|
|
902
|
+
"type": "string",
|
|
903
|
+
"description": "Additional notes about content availability"
|
|
904
|
+
}
|
|
905
|
+
}
|
|
906
|
+
}
|
|
907
|
+
}
|
|
706
908
|
}
|
|
707
909
|
]
|
tooluniverse/data/xml_tools.json
CHANGED
|
@@ -8,7 +8,7 @@
|
|
|
8
8
|
"repo_id": "agenticx/MeSH2025",
|
|
9
9
|
"path_in_repo": "MeSH_desc2025.xml",
|
|
10
10
|
"token": null,
|
|
11
|
-
"save_to_local_dir":
|
|
11
|
+
"save_to_local_dir": null
|
|
12
12
|
},
|
|
13
13
|
"record_xpath": "DescriptorRecord",
|
|
14
14
|
"search_fields": [
|
|
@@ -175,7 +175,7 @@
|
|
|
175
175
|
"repo_id": "agenticx/MeSH2025",
|
|
176
176
|
"path_in_repo": "MeSH_desc2025.xml",
|
|
177
177
|
"token": null,
|
|
178
|
-
"save_to_local_dir":
|
|
178
|
+
"save_to_local_dir": null
|
|
179
179
|
},
|
|
180
180
|
"record_xpath": "DescriptorRecord",
|
|
181
181
|
"search_fields": [
|
|
@@ -342,7 +342,7 @@
|
|
|
342
342
|
"repo_id": "agenticx/MeSH2025",
|
|
343
343
|
"path_in_repo": "MeSH_desc2025.xml",
|
|
344
344
|
"token": null,
|
|
345
|
-
"save_to_local_dir":
|
|
345
|
+
"save_to_local_dir": null
|
|
346
346
|
},
|
|
347
347
|
"record_xpath": "DescriptorRecord",
|
|
348
348
|
"search_fields": [
|
|
@@ -511,7 +511,7 @@
|
|
|
511
511
|
"repo_id": "agenticx/MeSH2025",
|
|
512
512
|
"path_in_repo": "MeSH_desc2025.xml",
|
|
513
513
|
"token": null,
|
|
514
|
-
"save_to_local_dir":
|
|
514
|
+
"save_to_local_dir": null
|
|
515
515
|
},
|
|
516
516
|
"record_xpath": "DescriptorRecord",
|
|
517
517
|
"search_fields": [
|
|
@@ -678,7 +678,7 @@
|
|
|
678
678
|
"repo_id": "agenticx/DrugBank",
|
|
679
679
|
"path_in_repo": "drugbank_full_database.xml",
|
|
680
680
|
"token": null,
|
|
681
|
-
"save_to_local_dir":
|
|
681
|
+
"save_to_local_dir": null
|
|
682
682
|
},
|
|
683
683
|
"namespaces": {
|
|
684
684
|
"db": "http://www.drugbank.ca"
|
|
@@ -860,7 +860,7 @@
|
|
|
860
860
|
"repo_id": "agenticx/DrugBank",
|
|
861
861
|
"path_in_repo": "drugbank_full_database.xml",
|
|
862
862
|
"token": null,
|
|
863
|
-
"save_to_local_dir":
|
|
863
|
+
"save_to_local_dir": null
|
|
864
864
|
},
|
|
865
865
|
"namespaces": {
|
|
866
866
|
"db": "http://www.drugbank.ca"
|
|
@@ -1036,7 +1036,7 @@
|
|
|
1036
1036
|
"repo_id": "agenticx/DrugBank",
|
|
1037
1037
|
"path_in_repo": "drugbank_full_database.xml",
|
|
1038
1038
|
"token": null,
|
|
1039
|
-
"save_to_local_dir":
|
|
1039
|
+
"save_to_local_dir": null
|
|
1040
1040
|
},
|
|
1041
1041
|
"namespaces": {
|
|
1042
1042
|
"db": "http://www.drugbank.ca"
|
|
@@ -1176,7 +1176,7 @@
|
|
|
1176
1176
|
"repo_id": "agenticx/DrugBank",
|
|
1177
1177
|
"path_in_repo": "drugbank_full_database.xml",
|
|
1178
1178
|
"token": null,
|
|
1179
|
-
"save_to_local_dir":
|
|
1179
|
+
"save_to_local_dir": null
|
|
1180
1180
|
},
|
|
1181
1181
|
"namespaces": {
|
|
1182
1182
|
"db": "http://www.drugbank.ca"
|
|
@@ -1358,7 +1358,7 @@
|
|
|
1358
1358
|
"repo_id": "agenticx/DrugBank",
|
|
1359
1359
|
"path_in_repo": "drugbank_full_database.xml",
|
|
1360
1360
|
"token": null,
|
|
1361
|
-
"save_to_local_dir":
|
|
1361
|
+
"save_to_local_dir": null
|
|
1362
1362
|
},
|
|
1363
1363
|
"namespaces": {
|
|
1364
1364
|
"db": "http://www.drugbank.ca"
|
|
@@ -1538,7 +1538,7 @@
|
|
|
1538
1538
|
"repo_id": "agenticx/DrugBank",
|
|
1539
1539
|
"path_in_repo": "drugbank_full_database.xml",
|
|
1540
1540
|
"token": null,
|
|
1541
|
-
"save_to_local_dir":
|
|
1541
|
+
"save_to_local_dir": null
|
|
1542
1542
|
},
|
|
1543
1543
|
"namespaces": {
|
|
1544
1544
|
"db": "http://www.drugbank.ca"
|
|
@@ -1703,7 +1703,7 @@
|
|
|
1703
1703
|
"repo_id": "agenticx/DrugBank",
|
|
1704
1704
|
"path_in_repo": "drugbank_full_database.xml",
|
|
1705
1705
|
"token": null,
|
|
1706
|
-
"save_to_local_dir":
|
|
1706
|
+
"save_to_local_dir": null
|
|
1707
1707
|
},
|
|
1708
1708
|
"namespaces": {
|
|
1709
1709
|
"db": "http://www.drugbank.ca"
|
|
@@ -1976,7 +1976,7 @@
|
|
|
1976
1976
|
"repo_id": "agenticx/DrugBank",
|
|
1977
1977
|
"path_in_repo": "drugbank_full_database.xml",
|
|
1978
1978
|
"token": null,
|
|
1979
|
-
"save_to_local_dir":
|
|
1979
|
+
"save_to_local_dir": null
|
|
1980
1980
|
},
|
|
1981
1981
|
"namespaces": {
|
|
1982
1982
|
"db": "http://www.drugbank.ca"
|
|
@@ -2134,7 +2134,7 @@
|
|
|
2134
2134
|
"repo_id": "agenticx/DrugBank",
|
|
2135
2135
|
"path_in_repo": "drugbank_full_database.xml",
|
|
2136
2136
|
"token": null,
|
|
2137
|
-
"save_to_local_dir":
|
|
2137
|
+
"save_to_local_dir": null
|
|
2138
2138
|
},
|
|
2139
2139
|
"namespaces": {
|
|
2140
2140
|
"db": "http://www.drugbank.ca"
|
|
@@ -2369,7 +2369,7 @@
|
|
|
2369
2369
|
"repo_id": "agenticx/DrugBank",
|
|
2370
2370
|
"path_in_repo": "drugbank_full_database.xml",
|
|
2371
2371
|
"token": null,
|
|
2372
|
-
"save_to_local_dir":
|
|
2372
|
+
"save_to_local_dir": null
|
|
2373
2373
|
},
|
|
2374
2374
|
"namespaces": {
|
|
2375
2375
|
"db": "http://www.drugbank.ca"
|
|
@@ -2521,7 +2521,7 @@
|
|
|
2521
2521
|
"repo_id": "agenticx/DrugBank",
|
|
2522
2522
|
"path_in_repo": "drugbank_full_database.xml",
|
|
2523
2523
|
"token": null,
|
|
2524
|
-
"save_to_local_dir":
|
|
2524
|
+
"save_to_local_dir": null
|
|
2525
2525
|
},
|
|
2526
2526
|
"namespaces": {
|
|
2527
2527
|
"db": "http://www.drugbank.ca"
|