tooluniverse 1.0.11.1__py3-none-any.whl → 1.0.12__py3-none-any.whl

tooluniverse/tools/open_deep_research_agent.py

@@ -0,0 +1,46 @@
+"""
+open_deep_research_agent
+
+Research manager agent that decomposes the user task, delegates focused subtasks to domain sub‑ag...
+"""
+
+from typing import Any, Optional, Callable
+from ._shared_client import get_shared_client
+
+
+def open_deep_research_agent(
+    task: str,
+    *,
+    stream_callback: Optional[Callable[[str], None]] = None,
+    use_cache: bool = False,
+    validate: bool = True,
+) -> Any:
+    """
+    Research manager agent that decomposes the user task, delegates focused subtasks to domain sub‑ag...
+
+    Parameters
+    ----------
+    task : str
+        Research query/task to execute
+    stream_callback : Callable, optional
+        Callback for streaming output
+    use_cache : bool, default False
+        Enable caching
+    validate : bool, default True
+        Validate parameters
+
+    Returns
+    -------
+    Any
+    """
+    # Handle mutable defaults to avoid B006 linting error
+
+    return get_shared_client().run_one_function(
+        {"name": "open_deep_research_agent", "arguments": {"task": task}},
+        stream_callback=stream_callback,
+        use_cache=use_cache,
+        validate=validate,
+    )
+
+
+__all__ = ["open_deep_research_agent"]

tooluniverse/uniprot_tool.py

@@ -1,7 +1,7 @@
 import time
 import requests
-from typing import Any, Dict
-from .base_tool import BaseTool
+from typing import Any, Dict, Optional
+from .base_tool import BaseTool, ToolError
 from .tool_registry import register_tool
 
 
@@ -13,6 +13,21 @@ class UniProtRESTTool(BaseTool):
         self.extract_path = tool_config["fields"].get("extract_path")
         self.timeout = 15  # Increase timeout for large entries
 
+    def validate_parameters(self, arguments: Dict[str, Any]) -> Optional[ToolError]:
+        """
+        Validate parameters with automatic type coercion for limit.
+        """
+        # Coerce limit to integer if passed as string
+        if "limit" in arguments and isinstance(arguments["limit"], str):
+            try:
+                arguments["limit"] = int(arguments["limit"])
+            except (ValueError, TypeError):
+                # Let schema validation handle the error
+                pass
+
+        # Call parent validation
+        return super().validate_parameters(arguments)
+
     def _build_url(self, args: Dict[str, Any]) -> str:
         url = self.endpoint
         for k, v in args.items():
@@ -107,8 +122,19 @@ class UniProtRESTTool(BaseTool):
         """Handle search queries with flexible parameters"""
         query = arguments.get("query", "")
         organism = arguments.get("organism", "")
-        limit = min(arguments.get("limit", 25), 500)
         fields = arguments.get("fields")
+        min_length = arguments.get("min_length")
+        max_length = arguments.get("max_length")
+
+        # Coerce limit to integer if passed as string
+        limit_value = arguments.get("limit", 25)
+        if isinstance(limit_value, str):
+            limit_value = int(limit_value)
+        limit = min(limit_value, 500)
+
+        # Normalize query: replace 'organism:' with 'organism_id:'
+        # for UniProt API compatibility
+        query = query.replace("organism:", "organism_id:")
 
         # Build query string
         query_parts = [query]
@@ -121,7 +147,18 @@ class UniProtRESTTool(BaseTool):
                 "yeast": "559292",
             }
             taxon_id = organism_map.get(organism.lower(), organism)
-            query_parts.append(f"organism_id:{taxon_id}")
+
+            # Check if query already includes organism_id filter
+            # to avoid duplication
+            if "organism_id:" not in query.lower():
+                query_parts.append(f"organism_id:{taxon_id}")
+            # If it does, skip adding the organism filter
+
+        # Auto-convert length parameters to range syntax
+        if min_length or max_length:
+            min_val = min_length if min_length else "*"
+            max_val = max_length if max_length else "*"
+            query_parts.append(f"length:[{min_val} TO {max_val}]")
 
         full_query = " AND ".join(query_parts)
 
@@ -141,6 +178,16 @@ class UniProtRESTTool(BaseTool):
 
             # Extract results
             results = data.get("results", [])
+
+            # If custom fields requested, return raw API response for flexibility
+            if fields and isinstance(fields, list):
+                return {
+                    "total_results": data.get("resultsFound", 0),
+                    "returned": len(results),
+                    "results": results,  # Return raw results when custom fields used
+                }
+
+            # Otherwise, use formatted extraction logic
             formatted_results = []
 
             for entry in results:

tooluniverse/wikipathways_tool.py

@@ -0,0 +1,122 @@
+import json
+from typing import Any, Dict
+from urllib.parse import urlencode
+from urllib.request import Request, urlopen
+
+from tooluniverse.tool_registry import register_tool
+
+
+def _http_get(
+    url: str, headers: Dict[str, str] | None = None, timeout: int = 30
+) -> Dict[str, Any]:
+    req = Request(url, headers=headers or {})
+    with urlopen(req, timeout=timeout) as resp:
+        data = resp.read()
+        try:
+            return json.loads(data.decode("utf-8", errors="ignore"))
+        except Exception:
+            return {"raw": data.decode("utf-8", errors="ignore")}
+
+
+@register_tool(
+    "WikiPathwaysSearchTool",
+    config={
+        "name": "WikiPathways_search",
+        "type": "WikiPathwaysSearchTool",
+        "description": "Search pathways by text via WikiPathways",
+        "parameter": {
+            "type": "object",
+            "properties": {
+                "query": {"type": "string", "description": "Text to search, e.g., p53"},
+                "organism": {"type": "string", "description": "Optional organism"},
+            },
+            "required": ["query"],
+        },
+        "settings": {"base_url": "https://webservice.wikipathways.org", "timeout": 30},
+    },
+)
+class WikiPathwaysSearchTool:
+    def __init__(self, tool_config=None):
+        self.tool_config = tool_config or {}
+
+    def run(self, arguments: Dict[str, Any]):
+        base = self.tool_config.get("settings", {}).get(
+            "base_url", "https://webservice.wikipathways.org"
+        )
+        timeout = int(self.tool_config.get("settings", {}).get("timeout", 30))
+
+        query = {"query": arguments.get("query", ""), "format": "json"}
+        if arguments.get("organism"):
+            query["organism"] = arguments.get("organism")
+        url = f"{base}/findPathwaysByText?{urlencode(query)}"
+        try:
+            data = _http_get(
+                url, headers={"Accept": "application/json"}, timeout=timeout
+            )
+            return {
+                "source": "WikiPathways",
+                "endpoint": "findPathwaysByText",
+                "query": query,
+                "data": data,
+                "success": True,
+            }
+        except Exception as e:
+            return {
+                "error": str(e),
+                "source": "WikiPathways",
+                "endpoint": "findPathwaysByText",
+                "success": False,
+            }
+
+
+@register_tool(
+    "WikiPathwaysGetTool",
+    config={
+        "name": "WikiPathways_get_pathway",
+        "type": "WikiPathwaysGetTool",
+        "description": "Get pathway by WPID",
+        "parameter": {
+            "type": "object",
+            "properties": {
+                "wpid": {"type": "string", "description": "Pathway ID, e.g., WP254"},
+                "format": {
+                    "type": "string",
+                    "enum": ["json", "gpml"],
+                    "default": "json",
+                },
+            },
+            "required": ["wpid"],
+        },
+        "settings": {"base_url": "https://webservice.wikipathways.org", "timeout": 30},
+    },
+)
+class WikiPathwaysGetTool:
+    def __init__(self, tool_config=None):
+        self.tool_config = tool_config or {}
+
+    def run(self, arguments: Dict[str, Any]):
+        base = self.tool_config.get("settings", {}).get(
+            "base_url", "https://webservice.wikipathways.org"
+        )
+        timeout = int(self.tool_config.get("settings", {}).get("timeout", 30))
+
+        fmt = arguments.get("format", "json")
+        query = {"pwId": arguments.get("wpid"), "format": fmt}
+        url = f"{base}/getPathway?{urlencode(query)}"
+        try:
+            headers = {"Accept": "application/json"} if fmt == "json" else {}
+            data = _http_get(url, headers=headers, timeout=timeout)
+            return {
+                "source": "WikiPathways",
+                "endpoint": "getPathway",
+                "query": query,
+                "data": data,
+                "success": True,
+            }
+        except Exception as e:
+            return {
+                "error": str(e),
+                "source": "WikiPathways",
+                "endpoint": "getPathway",
+                "success": False,
+            }

{tooluniverse-1.0.11.1.dist-info → tooluniverse-1.0.12.dist-info}/METADATA

@@ -1,6 +1,6 @@
 Metadata-Version: 2.4
 Name: tooluniverse
-Version: 1.0.11.1
+Version: 1.0.12
 Summary: A comprehensive collection of scientific tools for Agentic AI, offering integration with the ToolUniverse SDK and MCP Server to support advanced scientific workflows.
 Author-email: Shanghua Gao <shanghuagao@gmail.com>
 Project-URL: Homepage, https://github.com/mims-harvard/ToolUniverse
@@ -40,6 +40,8 @@ Requires-Dist: beautifulsoup4>=4.12.0
 Requires-Dist: markitdown[all]>=0.1.0
 Requires-Dist: psutil>=5.9.0
 Requires-Dist: ddgs>=9.0.0
+Provides-Extra: smolagents
+Requires-Dist: smolagents>=1.22.0; extra == "smolagents"
 Provides-Extra: dev
 Requires-Dist: pytest>=7.0; extra == "dev"
 Requires-Dist: pytest-cov>=4.0; extra == "dev"

{tooluniverse-1.0.11.1.dist-info → tooluniverse-1.0.12.dist-info}/RECORD

@@ -1,14 +1,14 @@
 tooluniverse/__init__.py,sha256=RcmpZgvV5Olhnu24jhZ6KFmLMN6oHby-vS52yt4HIhc,19251
 tooluniverse/admetai_tool.py,sha256=k83iqy8_BeE2R_xPJlZ-xaEwaTwNvGc0u4ZUMV7ocwk,3469
 tooluniverse/agentic_tool.py,sha256=jN7UC6uQp7fxpDYqJf_2BWOb3b9z1oZufFQCRXBVeDM,27723
-tooluniverse/alphafold_tool.py,sha256=NkKQttC0MfuetCTTcWTFEG2MdhyKwy3jb5TR4odiqAw,4658
+tooluniverse/alphafold_tool.py,sha256=c1XyFornqv1QYJkPcZd2Tmlevnm1PuwnNvB6sxjerMg,6350
 tooluniverse/arxiv_tool.py,sha256=60e5moGt3XnwZeKx_nrvRZrwAavE11ok0j78AI5F6Xs,3610
-tooluniverse/base_tool.py,sha256=B268ek7tmA3jH56tPhQEMmG2J_Q5xqhH_6GGES56lbk,12861
+tooluniverse/base_tool.py,sha256=QsoCPiEND2zWzVa-zDc7MmtrF3grmdKkb1X4OjDvc-4,13293
 tooluniverse/biogrid_tool.py,sha256=tszza6Kf1-PKsoVw5GIqLak20FvhFY_PFSVY9XxDuIQ,4274
 tooluniverse/biorxiv_tool.py,sha256=uffhxXMOWR6b2jzxka-Qss1LjliQTuX-skIIc7RAaPs,4133
 tooluniverse/blast_tool.py,sha256=BPvkxeMWboLpwLJmO3yi4u0Dx1vvKOqKVO5tLa4xvGM,4960
 tooluniverse/boltz_tool.py,sha256=X0-DP0VqN-SqNRBcksqNJ-Pnhoj9qwS-wf6iQu__nRE,7965
-tooluniverse/build_optimizer.py,sha256=UReMfhTGhGJqcEWdH6d5xfI-y3zJlaNfsei7qXxeCN0,2832
+tooluniverse/build_optimizer.py,sha256=Fb3e7yhXzwdGgKEbe0iljzb1DdVuYLbz6HYoGVDcfZc,6476
 tooluniverse/cbioportal_tool.py,sha256=L1eYEgPqMIJM2LkyVcnafUva6oJs_nn40bBQUB9s8tM,1389
 tooluniverse/cellosaurus_tool.py,sha256=W_npl3ga45-Hpsdq7YyGsD5_DnR2AmyaQVYNjiZoNOs,47902
 tooluniverse/chem_tool.py,sha256=tJusjamWNp0x8Ke-cvVgKB7-clvD6LXTaXA0Q0fqQv4,8336
@@ -22,27 +22,31 @@ tooluniverse/dailymed_tool.py,sha256=sxIs0xYwX0CVlkhHaPwvGV-Oo1OW2tvsWZypAWujt9k
 tooluniverse/dataset_tool.py,sha256=6D5Vnqp_XzwnoFPm6sFWwyw5ZBhE36cgwGS9oN6d3iU,11369
 tooluniverse/dblp_tool.py,sha256=aPyEivx5TYUxws7zOsHswQtkVphblMsVPw0lSpyoIQA,4488
 tooluniverse/dbsnp_tool.py,sha256=oMlje0LhsQVjU7PVnA_lPo_hT4TE-K_syBqZns8PnbU,8133
-tooluniverse/default_config.py,sha256=2JbBRqjb9SUbw0BhnuB4xX82XXDZ8hik4VUnCyIH5Xo,11353
+tooluniverse/default_config.py,sha256=qDJreVQo-5o7OUr9DuzeHHpeC1mSNGNeyhxgZXxm01o,12139
 tooluniverse/doaj_tool.py,sha256=mzpnUwYfXdqvyn-txbV1cdWNS7Ty8g6fbvWgF2JN30I,7032
 tooluniverse/doctor.py,sha256=QQ6LiV3HPkWljVKh52QptQmV3xFj53_2yo-A_n8NQ5Y,1326
 tooluniverse/efo_tool.py,sha256=J4tjPFlNa9KhmQTEToBZN-m8jMuF1IKf2yQb1dyTeXI,1394
 tooluniverse/embedding_database.py,sha256=ua-yIyv3dPq2GHdyZmiwZyaUlkKYyV3nslB4H9asvDo,24682
 tooluniverse/embedding_sync.py,sha256=Cq3g64MjNXXpiImrzPMNsCTvGZeEI9009OlHOD3EloI,14669
 tooluniverse/emdb_tool.py,sha256=HKwuiJwt3gUymvhlqWrxiMm9x_jHB4-uhT6k1sPd8xc,1107
+tooluniverse/encode_tool.py,sha256=rYNgKKjcqs-maysa_ZkNR6zKGSYIdkmwsJb1lZ7KViM,8746
 tooluniverse/enrichr_tool.py,sha256=beM7xZiZ6FdHgYQUSNb_jfkcbrNC8CumXNJgPE9e1PI,9458
 tooluniverse/ensembl_tool.py,sha256=Fjn7dABWpZ55DOQi0sBH2j84nPwSmU4yog3D2pBHAT4,4970
 tooluniverse/europe_pmc_tool.py,sha256=-3CAq5tDhS5NoeHifevadBgP_MHDZJdwNmM5SvjbAa8,6080
 tooluniverse/exceptions.py,sha256=3svVCG7H_G_8E1mco74KWi44u1M7V1JojVycSEWdi_o,5386
-tooluniverse/execute_function.py,sha256=GatQ21Lqf5BXGwngF7YBD5s-wSsh9TaAvuSAvka6OVs,128407
+tooluniverse/execute_function.py,sha256=8zNNhthQmadRUBMTdMTWUaOvf8rx0omDAzcsuVnJNHg,134983
 tooluniverse/extended_hooks.py,sha256=bBI9SZM6IFiHblsZscBotOFNwlkUNi1hrp3cS7JVuZk,15372
 tooluniverse/fatcat_tool.py,sha256=-QEOYbv6KEcrOiOa27Ms1xm0sySB-vW4rWEinsS6EDw,2051
 tooluniverse/file_download_tool.py,sha256=jFH8cFNvcd6snO2lMw1NCdZAPoQ5zoEHi7MGIeTTut4,9354
+tooluniverse/gbif_tool.py,sha256=3FMu63YBhBywPxHmsN-dXwYltxYwlvz-ni0TNznRt-s,5158
+tooluniverse/gdc_tool.py,sha256=PGfQPdFaNWKKv9Tko7386cQweyCP8gOVQ6UuyjbyZ6w,5684
 tooluniverse/gene_ontology_tool.py,sha256=IeyRVTQXGaMzdDyPoI5I3IsYBfCTQlyvmUFGyygb_Ks,7179
-tooluniverse/generate_tools.py,sha256=7SShSVYViyPmXBzREwH5b9AluWoWWP1Ac1iGuNKhuZg,15223
+tooluniverse/generate_tools.py,sha256=zG4H5K4WpbBIzIpPnFsRF67DKkiTphQ_s8_uAPENphU,19496
 tooluniverse/genomics_gene_search_tool.py,sha256=beK6mJTBBvXb9TKF8piYoq-plpm36DETl05SRMFjDNg,1953
 tooluniverse/geo_tool.py,sha256=swkyG3WYSc_OadX1vvAnnUqRBjnQiuifuOlKf_1BcDo,5930
 tooluniverse/gnomad_tool.py,sha256=bkQSw4FxOmegP_9Nomn8JVGmZ6zXcQX5XioMf8ZtjGI,3120
 tooluniverse/graphql_tool.py,sha256=y7ztNyb9hn4OdSGKhLsHev_snkNgbAwJZL8ZGHm0LEk,8980
+tooluniverse/gtex_tool.py,sha256=-HE-KBa5lNVBXnDyDLmNSdRGYaKIrJGl8OWooyatI4E,6000
 tooluniverse/gtopdb_tool.py,sha256=oK-bRgATtaJH4fElRTNItwusBIM1bFs6h8D8qlnYPDA,1444
 tooluniverse/gwas_tool.py,sha256=hq4VhB93DhczZo0xRGjGS9AtdKWL0O_XQy3eoV_fi8E,12351
 tooluniverse/hal_tool.py,sha256=HrU27B6TK_gMtk8tjafpVkpD1ABDlCOo1bsLmBNhaQU,2485
@@ -60,10 +64,12 @@ tooluniverse/mcp_tool_registry.py,sha256=92f-9OudJR2WA-l1hVMPj2tH6oR421Y3o1-FpI7
 tooluniverse/medlineplus_tool.py,sha256=__D7W2Khl05WllMnoV4Owv3pyl5EXS1lzEJmAE7PbD0,13214
 tooluniverse/medrxiv_tool.py,sha256=QCJ0BdgI47IfSwvKw90LdZLRq_4sbV4ok5HdGzv5w5c,4140
 tooluniverse/memory_manager.py,sha256=hAUvWen6xG5DMO28GokSfGPCTz0zrzMK-QO8EzRFnPM,6130
+tooluniverse/mgnify_tool.py,sha256=qtqbr5oQLZpL60Xx3PCOI8LJnPT_Ffsu8eKSoGFNd2A,6183
 tooluniverse/molecule_2d_tool.py,sha256=SPXqi_KTN76ksG1DO0QP9ZKzcRbdQpXjfOau11hgC0w,10568
 tooluniverse/molecule_3d_tool.py,sha256=uq3Q58q0LlB4y7xRaOUzoyQQp8GLjbWSSFdHin4tOsg,18727
 tooluniverse/mpd_tool.py,sha256=DWfbPt8v9ST33dDlheJELEVVgHvQTL9W2C5zDHVdKAI,1472
 tooluniverse/ncbi_eutils_tool.py,sha256=cEoZBF2Dc2YdFqh4XWBEwH7WKSKmxUbiMr9H8Cug7dE,3584
+tooluniverse/obis_tool.py,sha256=tAiA94ZXcDZSyHSy7FJDb0nBNguBQ-0txz3uFEn6_5M,6469
 tooluniverse/odphp_tool.py,sha256=5MUPcXBSi6wGGTN56vhNOyAZvIRLiTraxKpxKiQy1pU,9627
 tooluniverse/ols_tool.py,sha256=en1uJyJC-7b30kzdu9t5dIAtD3KJeu0mBb1uYXUif_c,15625
 tooluniverse/openaire_tool.py,sha256=LPic0ErGhHV6ceGsUPlS2zTzQdwWvNPZDrnDAtou3I4,4578
@@ -81,18 +87,20 @@ tooluniverse/protein_structure_3d_tool.py,sha256=byvtvW-B6aPUmW_OpcYKHFdbL-g3IWZ
 tooluniverse/pubchem_tool.py,sha256=14C_5uz0RNzv5HaSAXHlq13TZLtlkhmJhr7RrjI91Yk,6415
 tooluniverse/pubmed_tool.py,sha256=EYPL_fsUdHuL-yFFULavWZu8lPp23wVKIJ-avDLlFeQ,6146
 tooluniverse/pubtator_tool.py,sha256=WdFufeT3hY2lCq6vb9SLF44UYJ48PiZ1mf4bSfpI7mg,7151
-tooluniverse/pypi_package_inspector_tool.py,sha256=EvBA9TY3s-FHKy6QNpl8b5Q_7dlFCO85AQ8BcKi5Xpw,21653
-tooluniverse/python_executor_tool.py,sha256=8h3sE7nu3WsTNswYZ1h56--fTi7ey1WeQxbHG7dcIA4,26661
+tooluniverse/pypi_package_inspector_tool.py,sha256=0IXdRALMupqshn0GgLLodwYbLGH3VeC--_vZ0okXnAU,21701
+tooluniverse/python_executor_tool.py,sha256=vBTvJagjUf4xPyppG90XRr8peCDGt-eZZfyFOVUNtiI,27773
 tooluniverse/rcsb_pdb_tool.py,sha256=8N6bvlD2KIHfNum_FvbXwIa96mKvHorno5ZdjAHgmrc,1550
 tooluniverse/reactome_tool.py,sha256=ngmJXCcQfsu5d8XcX258ZHW4DIBi45sSjYNwUBk8nxo,4481
 tooluniverse/regulomedb_tool.py,sha256=jPKd1rce0Yfn3Gns8MmcV0vgxmUTyjCH5sjfeQNyx0I,1117
 tooluniverse/remap_tool.py,sha256=-p1LmrLmHWGcBKFNtVUuZG4Pyu3AeICp9EUJ3gG-plA,1569
 tooluniverse/remote_tool.py,sha256=Sa7YNeitFaHyUS6P5gY79kqJdp4i6zHSr5VbM1SdQpI,3364
 tooluniverse/restful_tool.py,sha256=H7alq_vO3G4iVgZIZrrWh9vq2ForJN52Fl7_QOq7yaM,4409
+tooluniverse/rnacentral_tool.py,sha256=XjvV_Ga2l9cJE4ZhyuDbF6Nsf93gnVPRrpR4YjkwvvY,3952
 tooluniverse/screen_tool.py,sha256=JuSj-qhFUSuYsHlyQzdXdOhVhEzVoJjSql1dWpLOp4A,1580
 tooluniverse/semantic_scholar_tool.py,sha256=gaDDL5Xy4Ij3qNqipZvwRfOBSyzGyIN8AANT-pYKHvI,3227
-tooluniverse/smcp.py,sha256=t7cGLI1rRPoPXv42NI-KLjbQjraVkGipH5k64S13Svg,107782
-tooluniverse/smcp_server.py,sha256=kLJesbeWOSL1eBhVlv5k1WCTG4BRLTpDEkfySyaFG-8,35214
+tooluniverse/smcp.py,sha256=USjjf86NPBmR7xSQ0mGhekcEmADPZcS2rlL73sB9Dkw,107771
+tooluniverse/smcp_server.py,sha256=ICQBSwOGMZjrgJ1nGXHQLeej04y4ARbOtyGewtVQkfY,35193
+tooluniverse/smolagent_tool.py,sha256=fbyZalzIChgiKpEzZztrHH-VoXRZ9dyCwKe4IGuqXQQ,22384
 tooluniverse/string_tool.py,sha256=3rio0Lt97FuU6fbpykq3ETqD9pA4h_gPR0uXKRb7Zu4,3936
 tooluniverse/tool_finder_embedding.py,sha256=JDSPlI51grK51aX3072qc4mhbYVrhKaOLnY3hA7hDjM,11274
 tooluniverse/tool_finder_keyword.py,sha256=0ukV_1q4JM-3DsQFk88-0LrcknkRP3GMNGsTUOMTNGE,23508
@@ -100,7 +108,7 @@ tooluniverse/tool_finder_llm.py,sha256=Pg2IFG8icLMxDUlFdx-L6Fw5ntAbCYo4cbPi5f54a
 tooluniverse/tool_graph_web_ui.py,sha256=68s1MPXTcT6bzdFfuat9gvSNjSgwHxNC-TztfH3raeQ,27987
 tooluniverse/tool_registry.py,sha256=DYA97MzFgIZ_8oAy0CTqg99pfz_bIS-0A-gbyLkiQuw,15616
 tooluniverse/unified_guideline_tools.py,sha256=Vhnqis4je3JZDJb7KfynAMX2D2yvW9I71_9mIsG1COU,88376
-tooluniverse/uniprot_tool.py,sha256=SXhvFyO5HR0xb3LIBpUKWbrjQ-sk5vQKjptXHkR8-Zk,14362
+tooluniverse/uniprot_tool.py,sha256=3aZSxKC75hz90UEjiEKxOAEekIIA3O3MsIj09xd7VEE,16336
 tooluniverse/unpaywall_tool.py,sha256=eqdsZZMRCOsMQjMzJRzkNk9xSwIWlsRrrPiTrIBDsFg,2070
 tooluniverse/url_tool.py,sha256=ofaAXpt5i6cUnAssM-jtJp73_cH1XaiByS9ZcGM9GI0,10023
 tooluniverse/uspto_tool.py,sha256=jvpCIQkNOI7v5F2CVttoHm8EKYnFgGUQzs9xXxZWEUE,8991
@@ -108,6 +116,7 @@ tooluniverse/utils.py,sha256=CHHqe0jxbU_RtuURhMFSQ1DG6ADFhczzut3qlnAjbEc,20723
 tooluniverse/visualization_tool.py,sha256=A0sIf3n4_SUbhc-NwNdVtC0rNRwNxbeHonPHUCZYM-w,32653
 tooluniverse/web_search_tool.py,sha256=B5ZdBem8s407iVkoJ3YLyM-1CaBE9OMYdc8IM7LuF0c,8018
 tooluniverse/wikidata_sparql_tool.py,sha256=CjOuMKsGOFJB2b5qJDimhgYqI_-Yl-RWud-maN0GMNI,1987
+tooluniverse/wikipathways_tool.py,sha256=oViagjX9TTp49OeraDAX5m4j9vVLmYrWLIxBVKOUvLo,4187
 tooluniverse/worms_tool.py,sha256=odDijc320gWrGfkzXgtnnG4CrkvpXcjxvU0_JmaSH3I,2313
 tooluniverse/xml_tool.py,sha256=ynv6NEU-QTSliB9P02qnHxoxIGeRu7Bb-KHOmR0pN24,14671
 tooluniverse/zenodo_tool.py,sha256=Ea5Za8A9uELJ7sL4pk0CerIke2ulvM590b7XjudwYbo,2435
@@ -132,7 +141,7 @@ tooluniverse/data/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU
 tooluniverse/data/admetai_tools.json,sha256=08LCNSCZJxL6ZuPF1mVfbdlh9f2X5tnEwIYU7RcLLSM,6497
 tooluniverse/data/adverse_event_tools.json,sha256=gmO2euqIvLqc9lfmf9h9W0_TR33AYpMg_M1tzBNKm7w,12084
 tooluniverse/data/agentic_tools.json,sha256=vRoYpQZKdzaE7QvumwM47T18plgaiiNgrymwYIQS6wU,58360
-tooluniverse/data/alphafold_tools.json,sha256=fXyHxv_FuCfEkaP9IAJx_bU8a5BzDD73djD5ZO-F0r8,14856
+tooluniverse/data/alphafold_tools.json,sha256=G5C6GhU4rIesRaZbkuJAH3w__UtosvWedJ9XiJ0J54w,14177
 tooluniverse/data/arxiv_tools.json,sha256=v4FNgFMhNX2WBNajje1xpa5250kvifm_RXY1WzPGgFw,2591
 tooluniverse/data/biorxiv_tools.json,sha256=i7iNyLJDRCPlNd6QjQ9Ml0rUwkcBPjXLG3QOa6cT2sI,2007
 tooluniverse/data/blast_tools.json,sha256=8tMAZrXUpRGY_UxWAu3lGBdzZRSwy_D_huFMux747qk,3898
@@ -155,6 +164,7 @@ tooluniverse/data/drug_discovery_agents.json,sha256=MXtIzEGAtx7LXmSXE55nwtF8uyjM
 tooluniverse/data/efo_tools.json,sha256=qsEElKp1Z4EX09OD4r1ETcw6jT2t_w32SlDz-v8RyDc,564
 tooluniverse/data/embedding_tools.json,sha256=PKIinGNbM7O2sH_7qFoT1TWkksDtQlk-8sNZL3-_ajM,11393
 tooluniverse/data/emdb_tools.json,sha256=xSK_X0ofsvigAXLPi7SYI9_kZAGb9Kv2M19gHxZcOT4,1785
+tooluniverse/data/encode_tools.json,sha256=c8IedLk_6BRFdGMs5NLkUjnjqJsjFxprk9AgdJ8uTWM,4202
 tooluniverse/data/enrichr_tools.json,sha256=zUUMFMphgyzX_0xJYK8KDjnFTp4_eoaUN5ZCSyh_7as,1162
 tooluniverse/data/ensembl_tools.json,sha256=tSTC3Q4Mv_E2DyL32dO9h962-dplFYzQFIoojtyAoUw,7303
 tooluniverse/data/europe_pmc_tools.json,sha256=ihqstPZ1FXDya8IHwBm6jSWm6o0pm15zkj0-fzT1nuI,3341
@@ -165,14 +175,18 @@ tooluniverse/data/fda_drug_labeling_tools.json,sha256=qLoAWPTDEfXjBWikNKsGlIwu_f
 tooluniverse/data/fda_drugs_with_brand_generic_names_for_tool.py,sha256=TlXXiMI1FUwXxX2pZW0G4vrZ5_10Jg03qDnL8BzUZXY,6009537
 tooluniverse/data/file_download_tools.json,sha256=mXlCw4-_cRy4EVleyI36_FkJlJBo-xphBsWdPhCwE9k,8036
 tooluniverse/data/finder_tools.json,sha256=PnSZk3zvxwNfBwKyb7DeWiNX6CO_DKmmf2fWsFM-hnY,5693
+tooluniverse/data/gbif_tools.json,sha256=Iv1Z_KBT7FTveC4O5RBu2zbkKw0_8HU3O5jQlkH6vUg,4917
+tooluniverse/data/gdc_tools.json,sha256=Zm8Rz8-HiPmNGMmNQ5r3rD_aTCo5i1xRSxTqVAMKZg4,3249
 tooluniverse/data/gene_ontology_tools.json,sha256=tUujN9UBOZM9vFdnR0Yno7cUtqfBYFri5cvErOg6QF8,4361
 tooluniverse/data/geo_tools.json,sha256=s32JVNnY6lzzId2L8vxi4XshE16MAm57fLCLBZ8ZJXo,6342
 tooluniverse/data/gnomad_tools.json,sha256=Ty8DjsyKmBgJfVSR9mKGzMC8-bdcOfEt_vDyaVNYX08,3857
+tooluniverse/data/gtex_tools.json,sha256=cSfJWb9Pbbteiuszqvr6Pfx4DYXjLFwRgyT5sWrARi0,3427
 tooluniverse/data/gtopdb_tools.json,sha256=3pb3Y7xUNfUbQKqlu77oEp_vNG-1Mnr1TJTWtX_XBnw,2124
 tooluniverse/data/gwas_tools.json,sha256=aY4aj6P7UTOfIFwhA_aBlKy4u3RSRYuX6IM_NhciQYU,52888
 tooluniverse/data/hal_tools.json,sha256=6-Zk7KKZQDY6w08ixZmNKba6U3Ky1aE1rfsEwuBmf1E,2005
 tooluniverse/data/hpa_tools.json,sha256=q96siPOkcEgKjO3VUvdJ3FF5wRr9WR_6rlZeIpHCwVk,17997
 tooluniverse/data/humanbase_tools.json,sha256=bhe5qVwkbFgq5aGlAGgYc4FiLX46YIAjJcqLXQZvhC4,2239
+tooluniverse/data/icgc_tools.json,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
 tooluniverse/data/idmap_tools.json,sha256=ApTXD6RaR7ljIBtHYwHxnvvjuDL8Gz3E1vj6TxNV74s,2830
 tooluniverse/data/interpro_tools.json,sha256=V2v4IJ48gYlwxrvB3q483ZvgWX6jM1bHRrw4YT03H0c,5912
 tooluniverse/data/jaspar_tools.json,sha256=jA7nz9TRojSihg72PcG0UX3dct5Akc6AIo6Lz57Oo-I,2278
@@ -183,15 +197,18 @@ tooluniverse/data/mcp_client_tools_example.json,sha256=5Ug57s25IjvMg29_vOpe4TsVs
 tooluniverse/data/mcpautoloadertool_defaults.json,sha256=I1Z6Xnno6BRX7u9Ec4LlXlz-384GWpaBafPVHsqTr_c,998
 tooluniverse/data/medlineplus_tools.json,sha256=J1pE-5nH6LGuZP4lRmiOiec_pgr8Vtg1C9jYfY-gt6c,7711
 tooluniverse/data/medrxiv_tools.json,sha256=Ku4hts720cx9zR7E3oWzlP6nICOocERW174KfV4W5fM,2005
+tooluniverse/data/mgnify_tools.json,sha256=WNd6xUPu3EHKJUS7N9Icj5W1MVihWjgAddqOyKXlT1U,3542
 tooluniverse/data/molecule_2d_tools.json,sha256=EvU07cSVLjl9pEareMvPyeuI9RtFn0dDxsnh8EbsFNI,3919
 tooluniverse/data/molecule_3d_tools.json,sha256=IVmxcynWJdMNDcRIWpS1YrlOQ3iHDSn1_dGZn3OAg-w,4614
 tooluniverse/data/monarch_tools.json,sha256=t-dfYKPmsbJr9_hUPlBYdmCtrI34fmxeYFMn6zQEwZ0,2720
 tooluniverse/data/mpd_tools.json,sha256=N8aJQUNb9fmRSiUFDsGsW7k_07GRHCMeZxmMGdy4bd0,2210
+tooluniverse/data/obis_tools.json,sha256=LRcjv4TteS-hqdYTAsnGTWgkuEic-C8_T37Fw9PanMs,3524
 tooluniverse/data/odphp_tools.json,sha256=9EeqOA2eu54BoDMVqGZkBNcRiTSCFYrNNfW3BhopCsI,19570
 tooluniverse/data/ols_tools.json,sha256=ILvX9_ULL3blo4D3fOOaBbSBroIzzGgZ52ACrXEKrI4,8722
 tooluniverse/data/openaire_tools.json,sha256=-epEkMGactUo3BNYQg7ZA4P4mrCQYyOjszkOsxeYPTA,2771
 tooluniverse/data/openalex_tools.json,sha256=v6vMCsg8QOIkssS0dHmiQQhyKf1PFUY-oC60Ss36dEo,3287
 tooluniverse/data/opentarget_tools.json,sha256=VNegtPOncIRM-bEeKr6T7nSqXKMSY3d8hI3L_n6cw-E,58807
+tooluniverse/data/optimizer_tools.json,sha256=SRKVvVv6a4apDSLdUPOYoLJUn8CSYqZVNsgtakkg0a4,14549
 tooluniverse/data/osf_preprints_tools.json,sha256=KO03NqtCSF3e5ttk0ioTzdSSltTwb6lFVHmWwqY0ewg,2341
 tooluniverse/data/output_summarization_tools.json,sha256=_224cQuxV_PFAO8Jp1nBPAGc2G_2bO7_02iXQ2Kyi-U,3731
 tooluniverse/data/package_discovery_tools.json,sha256=l70mkfM9jdM1pGZKuwxQvEPD3g5YXecSjfMLwWPvRvw,1914
@@ -209,8 +226,10 @@ tooluniverse/data/rcsb_pdb_tools.json,sha256=rhMg9GztmbBfJUYcvs4_9-BZIMsNZYljSYf
 tooluniverse/data/reactome_tools.json,sha256=h8Ubkllr4LMFc8UPUFQ8SZf_-wdWdh_NaHAKhx31Db0,557
 tooluniverse/data/regulomedb_tools.json,sha256=yl5V8xZ_yjmM4ImaIkhYrKI0rIEkzZFI9-Ez7Tyeqpw,1506
 tooluniverse/data/remap_tools.json,sha256=JBJ0LvjMNdyWaaKdi0OULX-Ap8rYJoWhR_QVN6sH1VI,2196
+tooluniverse/data/rnacentral_tools.json,sha256=sMJA2c7TOTIe7hSX42CRjU1DBcvskrc8Oiioy2i8RcY,3051
 tooluniverse/data/screen_tools.json,sha256=IuSXswYuhcKOwLhMiHmsY1sUXc9JQhVrKbl7VvmJrWs,2282
 tooluniverse/data/semantic_scholar_tools.json,sha256=1X6zFX38Io7y2bCGUJiveN18Xi328exRCy6qdS2rpO8,1792
+tooluniverse/data/smolagent_tools.json,sha256=XCYIXdfN9mCv3wZLpe_S-B3OVDMhprjxFQLuPMMI3kM,10610
 tooluniverse/data/special_tools.json,sha256=nlhyXeqAnzH90GaWxnTptktAcPkZDj5wczzlsgy5bUo,1025
 tooluniverse/data/tool_composition_tools.json,sha256=8zFAgAN_vUQ1H-7m0_1RaN_hrPI8Eh0OYptEOduYYco,6062
 tooluniverse/data/tool_discovery_agents.json,sha256=64iKxj-k8KtbxgFzyOtUzzgg13nkq7yml0_g0r-a6xY,29713
@@ -218,13 +237,14 @@ tooluniverse/data/tool_discovery_agents.json.backup,sha256=LXKpggu1F32PcyUHQQOTf
 tooluniverse/data/toolfinderkeyword_defaults.json,sha256=bydTVd0IUSDiilNQ6kZU-cn4lPqOfInfUAxhh8yMXqY,1050
 tooluniverse/data/txagent_client_tools.json,sha256=GdQk5H6uP_Uj9Ejz3nMdzNhZJV42t75aiRW8oWtkzRw,409
 tooluniverse/data/unified_guideline_tools.json,sha256=SzBhv6MCojmdtV6tGyZ5sUqskrr5zS_SQC5TXowVUAo,30688
-tooluniverse/data/uniprot_tools.json,sha256=nhJQ9E_kVKB16ehQNwRos8-QRbZJSXYODwgCr120xas,11101
+tooluniverse/data/uniprot_tools.json,sha256=8Hx39uBXsXXKeBlcljDZw9wLTklcx32kh8QIuIFjaWY,12361
 tooluniverse/data/unpaywall_tools.json,sha256=7ciTSVOeaCwmIA88Lrm_t17mNDqCxPZMtI1pHYsaRco,3123
 tooluniverse/data/url_fetch_tools.json,sha256=Z_wFzpj9XLUnrELk5KLFpj5pvxifOy2JepPhvmhVTJs,2719
 tooluniverse/data/uspto_downloader_tools.json,sha256=hMHwvP_hvuFg-upZAAXufywYKx031iQ0xuMyHfzu0uA,349
 tooluniverse/data/uspto_tools.json,sha256=yPIMBbwGNaAj0XbHBEGmcRDC8yeE-1OtyNceilkiFyY,32182
 tooluniverse/data/web_search_tools.json,sha256=W2Xqxiw5y9DWIFJb3Fb_tIwTN-KPD3pH6hI1wJN_VdI,7851
 tooluniverse/data/wikidata_sparql_tools.json,sha256=HPHrVszbqZdSGxxdq249N6gFSFe8XW-_pXIXdapfqAE,1830
+tooluniverse/data/wikipathways_tools.json,sha256=OVOWS9rJ2xXXK-HCu7RLXD8HMtg-rCyIpmMIkIFF5Kc,3235
 tooluniverse/data/worms_tools.json,sha256=h8zGN6T24vf0y06I4ETjDzUEBTb6gDT_8F3_oGMd40k,1884
 tooluniverse/data/xml_tools.json,sha256=C950u2om1lIOeUu2c5MnVWJccVGzjwDdjmelXqfcmz8,111763
 tooluniverse/data/zenodo_tools.json,sha256=iVjjuSHDlbDUCxROPqzbNASkvSGCVj1hXhq56Qd1aC0,2563
@@ -274,6 +294,7 @@ tooluniverse/tools/AdverseEventICDMapper.py,sha256=luvwV-jU6hlJ-CZ-ICKYIcv0iRADj
 tooluniverse/tools/AdverseEventPredictionQuestionGenerator.py,sha256=byf23PcHTwqn5nwycNkbsaZ6vX8rp8pflioYVnMv9-8,1402
 tooluniverse/tools/AdverseEventPredictionQuestionGeneratorWithContext.py,sha256=bOs5PwUEQVjn8lASU5FQ6bgX0RXwDRQnV9BciVwT9tU,1702
 tooluniverse/tools/ArXiv_search_papers.py,sha256=ccmlX1IUWgK5g4q7KvgXwdS8oZllYNuAhzaVga_2kGc,1805
+tooluniverse/tools/ArgumentDescriptionOptimizer.py,sha256=i-UkFbw__Z3qssG7610AZp0H_qT7bX0vFZI4bS4ZtDo,1551
 tooluniverse/tools/BLAST_nucleotide_search.py,sha256=sve_4f9RnbfA5LJF2EJ1gr0FkaSvprc8llTXoufByOg,1599
 tooluniverse/tools/BLAST_protein_search.py,sha256=uScC3L0qZN-hG-21H2Y2zdTELPlkZYhBGaflztYIUtw,1534
 tooluniverse/tools/BioRxiv_search_preprints.py,sha256=Vwiu0DIr9GtTU3g0reO18u2qnPNLOHAxgJbiDoUZ8hw,1423
@@ -301,6 +322,8 @@ tooluniverse/tools/DrugInteractionAnalyzerAgent.py,sha256=91Ob6GcGPdo9iPwU5iIjDM
 tooluniverse/tools/DrugOptimizationAgent.py,sha256=v56p5rq5GFGW17PE8X4_IVmLgWkomj2tdeElzfwenco,1666
 tooluniverse/tools/DrugSafetyAnalyzer.py,sha256=IFJX7y3tns5z92Idcc1bwpZtsR-sPR7HM8Vk3AnAi3U,1527
 tooluniverse/tools/EMDB_get_structure.py,sha256=Yd8DIms4rhqUwSFTqkaA76veuG7tLn9YpPRorZ2tfR0,1082
+tooluniverse/tools/ENCODE_list_files.py,sha256=Ac5R-0Apa51mca-jGMcZOdCeM636A7a1NiJR1DxF1cc,1555
+tooluniverse/tools/ENCODE_search_experiments.py,sha256=hVsW1KLangOwOKu98AWJAr1f198-JDwkhgqDy3Y4RPQ,1870
 tooluniverse/tools/EthicalComplianceReviewer.py,sha256=EVXz9HnWfvrQbupbfiJrCmme7ARbHmEelRQhzFrmgg4,1139
 tooluniverse/tools/EuropePMC_Guidelines_Search.py,sha256=I98jWX649a3TH2fvN9JLMfqlGpjXM-NX1qGcKdJZGDM,1404
 tooluniverse/tools/EuropePMC_search_articles.py,sha256=ZUkvztEcwCYGxYMvu161sgOAmtnXrfioJhpr6-LcFKc,1428
@@ -478,12 +501,18 @@ tooluniverse/tools/FDA_retrieve_drug_names_by_patient_medication_info.py,sha256=
 tooluniverse/tools/FDA_retrieve_patient_medication_info_by_drug_name.py,sha256=K2Fj1oGA4LQPclEh1tqvDTffr_SjwX-n-N2kOSlr7ZA,1520
 tooluniverse/tools/Fatcat_search_scholar.py,sha256=vTACYib6eoOBnwjVg-m1Mb8WBWuqg5ilrvfZvKWIbrM,1409
 tooluniverse/tools/Finish.py,sha256=Z_8Ze13kZ_E5xtNpUHGXNOGzDRuMQGB6FXDbj188v14,919
+tooluniverse/tools/GBIF_search_occurrences.py,sha256=gRRr0GZRJo4tdlRdXmgOYc9LRHPaOobva4iWjODFfx8,1954
+tooluniverse/tools/GBIF_search_species.py,sha256=k8fMNhszW50OuTxR8quCnHR0AJzRbQxZ8wVG_rWFKKc,1495
+tooluniverse/tools/GDC_list_files.py,sha256=dp0EsmGrln60BAJADGxsn_ApLkh_ysZcdyR0xto9zQ0,1457
+tooluniverse/tools/GDC_search_cases.py,sha256=tdPZ3aOaKtBJ7gMmdoe7jPd5dj_fZfg2-SOf7U2Ofho,1454
 tooluniverse/tools/GIN_Guidelines_Search.py,sha256=2GAwy7eF-Dg_0-NeAJ5IpeoA7iTdDHJBbBNkPcM5gCc,1370
 tooluniverse/tools/GO_get_annotations_for_gene.py,sha256=-uq1qdFj6FPxK2pN6iSH62zljM15sdFpmJSIuoLb5Es,1176
 tooluniverse/tools/GO_get_genes_for_term.py,sha256=l-O3Np78CG919B9wO51WYQQlPhMmin0bKLPAVB00lYA,1423
 tooluniverse/tools/GO_get_term_by_id.py,sha256=eEsSX9ktoIImwXxg6Mo4l7Jp3s8J2pm8F0O6kcVXvEA,1092
 tooluniverse/tools/GO_get_term_details.py,sha256=TiLY5-nwj_PpFJWwz_KyhAvKvsBu2dfbEdROHrk8ttg,1180
 tooluniverse/tools/GO_search_terms.py,sha256=X9PmMw_n7BhvxdxHTZR9vbKvxtFJhkxuEF1TCw5NOk4,1176
+tooluniverse/tools/GTEx_get_expression_summary.py,sha256=m-EQk3BP7SKkZLC89KsqMxiQ_4Cj6vpwmGK6UiZn9mc,1314
+tooluniverse/tools/GTEx_query_eqtl.py,sha256=P-z8lT5g7jKiT7Wj2sk4e2fn5fTEe8FvPQe4vwbwKus,1514
 tooluniverse/tools/GWAS_search_associations_by_gene.py,sha256=DSxm7VWGr8yxvF-4738dYVmluYvsnHzKTwnQnr_K_rs,1365
 tooluniverse/tools/GtoPdb_get_targets.py,sha256=zpJ1z31q-246Z86sU20baOdKbyjYcPReAF2QNaTQeF4,1241
 tooluniverse/tools/HAL_search_archive.py,sha256=HyebPBvavXKm8V23tbDIx4-54wxr5XwZaVkgxIiN3gQ,1393
@@ -509,6 +538,8 @@ tooluniverse/tools/LabelGenerator.py,sha256=UZv9OePJIeSBAzVJFAJgSG_SsKxW5zW1n2_M
 tooluniverse/tools/LiteratureContextReviewer.py,sha256=Be7cXlsDblIfrMaP0IxL_0OxS8RyLa_e4QvOtUlPsMs,1326
 tooluniverse/tools/LiteratureSearchTool.py,sha256=KAFmS_RcG7zxLV5M1VL2aYmJoEju_EishTmoTpuHfRo,1260
 tooluniverse/tools/LiteratureSynthesisAgent.py,sha256=HHes1D2VkKqlXVE5r_oopyz1B6tify2CDiOpnH0QOYM,1509
+tooluniverse/tools/MGnify_list_analyses.py,sha256=pmSJJCXzeujxMJDVFb8l9cVz8wLUXjRBvaqfRU7yKFE,1378
+tooluniverse/tools/MGnify_search_studies.py,sha256=HzXsDgvBhmS71KMu7u0K4dQ0cEhS0ikcjMo74eee2r8,1486
 tooluniverse/tools/MPD_get_phenotype_data.py,sha256=D-r1CXktaoDR5tfyToNDGyOQSIoM70WFWYZolyrgZDI,1567
 tooluniverse/tools/MedRxiv_search_preprints.py,sha256=hWg-DXj-B5n1z7PgVg68H9dyOqZ2MAhTqJ9smF_jThU,1423
 tooluniverse/tools/MedicalLiteratureReviewer.py,sha256=zy9WEPalcmA_0eVUQLhHLBNcbO_xXdtgkJm3r76tWuQ,2253
@@ -522,6 +553,8 @@ tooluniverse/tools/MethodologyRigorReviewer.py,sha256=VxW-uelP96-z-j_qFD6G7So1U0
 tooluniverse/tools/NICE_Clinical_Guidelines_Search.py,sha256=k7x-aYOJsSI3SUekSXs-Zg7IUQpvqceziN4dtSI2GPk,1419
 tooluniverse/tools/NICE_Guideline_Full_Text.py,sha256=C6OyHfJEurqSgvSAG4ReBSVMq76xzDwHmnPC_XHgap8,1240
 tooluniverse/tools/NoveltySignificanceReviewer.py,sha256=zN7RMKXRM2cnfOwMyo3BbeHKV-PScSOVPJufmqaOK9o,1463
+tooluniverse/tools/OBIS_search_occurrences.py,sha256=vI88qr5UV4JJleNw9y3IgfAQEiULaDsfONHZXw27HL8,1584
+tooluniverse/tools/OBIS_search_taxa.py,sha256=9Ho1GXEeg8F6DC_9H-P0Ecyud7CF08hTq65mCPe_9jU,1351
 tooluniverse/tools/OSF_search_preprints.py,sha256=6NY32Gwzi6QHOlAGed1DjI_snrRXKa1UpmfCCixztuk,1617
 tooluniverse/tools/OSL_get_efo_id_by_disease_name.py,sha256=FqUPfKwaOI-S3ZyjJ-AHiNIBruqvSDcgPmteMniGQpA,1242
 tooluniverse/tools/OpenAIRE_search_publications.py,sha256=uj_k4F8ZeOUpOzTwlQMvbUUN1O_b9TzSd6aL_sIh3Zs,1570
@@ -603,6 +636,8 @@ tooluniverse/tools/PubTator3_EntityAutocomplete.py,sha256=NN4snaloj6uLUuwlEG48bX
 tooluniverse/tools/PubTator3_LiteratureSearch.py,sha256=He9IQXl3etz0bVbmN7WCYFtZtGBy_BT5VSzkbnkHDKM,1525
 tooluniverse/tools/PyPIPackageInspector.py,sha256=Kd47cuwVTnpfeNIGNFfjX55sJnqtTEw1rkgAWZfgFq8,1754
 tooluniverse/tools/QuestionRephraser.py,sha256=BMGWA5qwTwg_rFk3MS5dd0x49n_I4y5EBArWunQJIRQ,1369
+tooluniverse/tools/RNAcentral_get_by_accession.py,sha256=CHf7VwRvPeVjfCr7m85Z7CQIMfBpbysU1DYFOaeYxtc,1241
+tooluniverse/tools/RNAcentral_search.py,sha256=PhDWKoeSuMFbQ3Nc_FaYjedbiWrR2VAd1tA_Ig6WgOw,1365
 tooluniverse/tools/ReMap_get_transcription_factor_binding.py,sha256=JE9ZXBCRTzpudve48GN9O_eXUVMPri-S3OqlEVAUbuQ,1586
 tooluniverse/tools/Reactome_get_pathway_reactions.py,sha256=Qj0_sDHfAr9QRzojIw7-KZopnBL-04_ReMvwMIRSRdc,1222
 tooluniverse/tools/ReferenceInfoAnalyzer.py,sha256=cVAMlJFoeusKVwECSX3bw-hD2RaCHMfCkwzm410zg9g,1498
@@ -613,9 +648,11 @@ tooluniverse/tools/SCREEN_get_regulatory_elements.py,sha256=EIeWtX9ZwLn5DPx1WFD5
 tooluniverse/tools/ScientificTextSummarizer.py,sha256=ufld67qjywZs7ZP48l78mLNnKPbDRHdqVa0tZH_2exI,1614
 tooluniverse/tools/SemanticScholar_search_papers.py,sha256=MN7Rk7I2-AOOVmPB2xC2tCeLL2clwaYxSvkPQzFTV2c,1552
 tooluniverse/tools/TRIP_Database_Guidelines_Search.py,sha256=hMPZbDkIRvjTk1b34EwSEdH6nnqSuXt-nRP1KlyxazU,1581
+tooluniverse/tools/TestCaseGenerator.py,sha256=EqsOYC5-Cvi1LthWQLbF06LT6Ui16aOuwwK0vJmZwm8,1266
 tooluniverse/tools/TestResultsAnalyzer.py,sha256=WS-cinKcKPirMp4kb1PKMUyfZAnPd8UAv7xujdeTK4w,1457
 tooluniverse/tools/ToolCompatibilityAnalyzer.py,sha256=eZ1NirvA1aIoU7KdzeZbMqBBaMHINonQLGwXM9g0NTc,1686
-tooluniverse/tools/ToolDiscover.py,sha256=jwFu3j3wDYDoJODdSjktNqqnpBpvJNQ0nvJ5VSzYWKU,1764
+tooluniverse/tools/ToolDescriptionOptimizer.py,sha256=vw1PBHatQR7u14X_BQjGh088siKiTqM4ehVMWz-Pa3U,2059
+tooluniverse/tools/ToolDiscover.py,sha256=oI1fZLom9mjQfg9sf0lCihE8Wi9UQng4l1Ri3Te0XNo,1946
 tooluniverse/tools/ToolGraphComposer.py,sha256=zlnQginQ2y0vLrk2oXA1aGlTpEMOcbj_EUCiFit9nEg,2208
 tooluniverse/tools/ToolGraphGenerationPipeline.py,sha256=_72_D12JCQN6IUwaZzEeQ7uIdMy5KVug_AV_-9b-INQ,1736
 tooluniverse/tools/ToolMetadataGenerationPipeline.py,sha256=Khbyz59s_7xgemt0dwSGVqPNfu28iv3JY-E2RaweT7o,2087
@@ -639,19 +676,22 @@ tooluniverse/tools/UniProt_get_recommended_name_by_accession.py,sha256=IxvU5rSqA
 tooluniverse/tools/UniProt_get_sequence_by_accession.py,sha256=NTqhL5XoApu6BFNaPPXjlaDk33Vu6rDkVsdXLOByU38,1171
 tooluniverse/tools/UniProt_get_subcellular_location_by_accession.py,sha256=oxANci3oT5W7_EB6nCtIPA75QADMFMOihs8ihziO9dI,1315
 tooluniverse/tools/UniProt_id_mapping.py,sha256=_dnr9B3YZg3Uw2u4N95z2l5cBzMb8sVt5K0pXkqkzSA,1742
-tooluniverse/tools/UniProt_search.py,sha256=XFrxQnYTZLjUygEBpszaCtJTcPCqgQOuige0N8SfpIQ,1769
+tooluniverse/tools/UniProt_search.py,sha256=zc2Ivh2JDvuaoGukviW7efwBSKPHRh9izZQIvWA1kTo,2158
 tooluniverse/tools/UnifiedToolGenerator.py,sha256=acNEyvmkFUxfrSLVC2hg6TOsa51gCdzmJGRCeNMYBPQ,1646
 tooluniverse/tools/Unpaywall_check_oa_status.py,sha256=ZQKQQ0f9dSQcEcI26-QCmSh3yCRmsGlQIGGHOMZuXz0,1409
 tooluniverse/tools/WHO_Guideline_Full_Text.py,sha256=GkM3_FjGc4t-VWYIdhW1t6zd_dRCyGv4ZQBKi78A5ZE,1236
 tooluniverse/tools/WHO_Guidelines_Search.py,sha256=skaP8MvndBmB8bg9HM3mQjWpFTJFLIO_cfRI4WVcSL0,1380
+tooluniverse/tools/WikiPathways_get_pathway.py,sha256=x2LQ-eMiqaznwaEGJlUdpTzWT0yQiowbSn5xUuXYumw,1379
+tooluniverse/tools/WikiPathways_search.py,sha256=MP3hSp6ZedmQFi80bv0PsTfaR9cnajJPhziisXn_ydk,1404
 tooluniverse/tools/Wikidata_SPARQL_query.py,sha256=7KoUwdza5R9uVOT6TzyU3oshRzUYDO91qqpwJA8PB_8,1426
 tooluniverse/tools/WoRMS_search_species.py,sha256=HwdHobOObkxCHumMz0QhNXxnWY79TnZ6QJABffugCR0,1182
 tooluniverse/tools/WritingPresentationReviewer.py,sha256=7OiJnRcSWjZSp1lJsM9wxBupdMAeHXNymYev-AWU-iI,1171
 tooluniverse/tools/XMLToolOptimizer.py,sha256=Th8HsbJ1umYcxgr4e98fxLFDNlYrZSx1aVKVSo9lN4I,1425
 tooluniverse/tools/Zenodo_search_records.py,sha256=PfoUaXvGUCifJqFvlkFei6t8CeiT5BHuiEO7d5WApUE,1638
-tooluniverse/tools/__init__.py,sha256=aoSOjRgi7N-MsGi74FJU5nrAcE9I-fCIO3OIuRL1Ct8,82405
+tooluniverse/tools/__init__.py,sha256=4fq46Mue9uHNP1aGAXMl6psLHPAz9J7u81-V4jCEizQ,84232
 tooluniverse/tools/_shared_client.py,sha256=jdph8DNsFM_e-CmSl68QFlqRxof6q_zeYBV1fGuJV_8,4836
-tooluniverse/tools/alphafold_get_annotations.py,sha256=qKEtb4gU3VKtvGv8Xfj-YqySKzcj8eOMi9XUfIbF6mQ,1412
+tooluniverse/tools/advanced_literature_search_agent.py,sha256=BGWXvaADyDVQiegTHRGgQ7CObS7vcqKUOQdsyB9uu8o,1258
+tooluniverse/tools/alphafold_get_annotations.py,sha256=yRsNLxogUah8UhoOO2sffP6yq-L3SZcmLd_EYF_op1c,1268
 tooluniverse/tools/alphafold_get_prediction.py,sha256=lZ4evDXJ8vwjubI9sD_tVrHoImc52pztcm8M6VsYrqE,1489
 tooluniverse/tools/alphafold_get_summary.py,sha256=S0wG5YZK_6HKW55_piQLUo74aPtch-Mhl__drT4lSmU,1252
 tooluniverse/tools/cBioPortal_get_cancer_studies.py,sha256=yYuiX4zV_Y21Y-HVO6NXtlPuLQ1PI3eekzX052YCeC8,1104
@@ -673,7 +713,7 @@ tooluniverse/tools/dict_search.py,sha256=Ux7FL7yON8OkS9QHfpwV63NXMOea5gpjpioQ8vU
 tooluniverse/tools/dili_search.py,sha256=s9EsrUB8JV6oj9z82FA6TX0GL5D8CYrmj4PoL4VPxRw,1809
 tooluniverse/tools/diqt_search.py,sha256=T-vZPnXdF6VnzGEnYu9bSBkhOKXlB_POnO_cMkoC3YQ,1841
 tooluniverse/tools/disease_target_score.py,sha256=uFzPikb6ZVPWS-6vqz4TbT0OT9QCGOrRsD2o_lLfebo,1615
-tooluniverse/tools/download_binary_file.py,sha256=7azsskuDQDkMya9JUJdcKKZVGhWZWDVn1zjODLVEjBg,1727
+tooluniverse/tools/download_binary_file.py,sha256=_B-pqoytvYqXVAIU3MVp21nP6Vr0HYJvnN_kKX_LD9U,1694
 tooluniverse/tools/download_file.py,sha256=GxOE41j9dpzUQm_kALML2QHZzlhzNtKR6NqzdgD7KCQ,2082
 tooluniverse/tools/download_text_content.py,sha256=16tGZ-jgnZwxiGmbeXLP_KV9ekRZ36fYR0m1CtiOmVI,1460
 tooluniverse/tools/drugbank_filter_drugs_by_name.py,sha256=o3LPRLXm1aoTYhvs8GmIDxjKsJuD1EUrthEiOpuQgOA,1506
@@ -964,6 +1004,7 @@ tooluniverse/tools/ols_get_term_children.py,sha256=HIaM3jq6hg7K3HryFP4unThQiJwjM
 tooluniverse/tools/ols_get_term_info.py,sha256=IP569THfkZyQ7FLLmHjEL8JKKao13jotA8LcytT8h9w,1162
 tooluniverse/tools/ols_search_ontologies.py,sha256=qa5MMX0v5sEjIPMRC5c95nahIlav0zfULjEbV6Fu92c,1479
 tooluniverse/tools/ols_search_terms.py,sha256=PVuxTc5Uv1tksaQcqueaKcSmGqWH9d5vVnZUWNSM0HM,1836
+tooluniverse/tools/open_deep_research_agent.py,sha256=OKBaIv-1D6rlNV_q_k_J0g3o8rNyY3eS9Oiheb0LuMQ,1176
 tooluniverse/tools/openalex_literature_search.py,sha256=U2vc_hfb21FdZnJPkVoaykbH2zLIyQVXA86ApX_vWLg,2089
 tooluniverse/tools/python_code_executor.py,sha256=3yZWV37o6ycR8rEUwhhszQjIHvVQ5vVC7jR0Wk0n0ZE,2716
 tooluniverse/tools/python_script_runner.py,sha256=4NM85kgRTBTgEMVMiMmfP9Z2DFoqBYQOFEFNB_uyXS8,2636
@@ -974,9 +1015,9 @@ tooluniverse/tools/visualize_molecule_3d.py,sha256=0fFkjGz0hrNyRBiXRV_FY8yWXR47j
 tooluniverse/tools/visualize_protein_structure_3d.py,sha256=ifTkgPvtNtvJ9q8d7zmSqSnd32oFmRcKkoO8p1SdVUU,2358
 tooluniverse/tools/web_api_documentation_search.py,sha256=AVw0w3LylreiKB6pCGooVUvZ1jydsuJnAzxD8HVf6vg,1707
 tooluniverse/tools/web_search.py,sha256=IjpR7Z6glY4DYX39YhSk6UP4bj5_f1LYAdr8WU9uaFk,1866
-tooluniverse-1.0.11.1.dist-info/licenses/LICENSE,sha256=0P0qDClpVzrnQUe3QAu7V-alszSBa-6hVHXyn9Xe60k,11351
-tooluniverse-1.0.11.1.dist-info/METADATA,sha256=UjiTcWroccK8NnbdwNdscNxRCuZ8yoP0Pdk8-SH4sFI,21364
-tooluniverse-1.0.11.1.dist-info/WHEEL,sha256=_zCd3N1l69ArxyTb8rzEoP9TpbYXkqRFSNOD5OuxnTs,91
-tooluniverse-1.0.11.1.dist-info/entry_points.txt,sha256=SAdqP4tU4mMOtp1YWaOHTwnIHhnoiD1wmfKGlSfNSy0,647
-tooluniverse-1.0.11.1.dist-info/top_level.txt,sha256=zZ8YeCJ5FAkEwdd_mxsFtSCQMBDgBdxrrmHo3RNBiWs,13
-tooluniverse-1.0.11.1.dist-info/RECORD,,
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