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io.github.mims-harvard/tooluniverse

2,700+ scientific tools for AI scientists: life science, research, literature, and more.

io.github.mims-harvard/tooluniverse · Repository · Website · version 1.5.9 · 1.8k stars · listed from registry

Install

The sweep installs into a clean prefix, but this is the command a user would run:

uvx tooluniverse

Results by platform

Linux

needs configuration2026-11-09 · probed over pypi

5 recorded runs, oldest first.

handshake failed: MCP error -32000: Connection closed
--- stderr (tail) ---
Downloading pip (1.9MiB)
Downloading pdfminer-six (6.3MiB)
Downloading rustworkx (2.3MiB)
Downloading pypdfium2 (3.8MiB)
Downloading tooluniverse (10.2MiB)
Downloading lxml (5.0MiB)
Downloading faiss-cpu (30.0MiB)
 Downloaded pip
 Downloaded rustworkx
 Downloaded pypdfium2
 Downloaded pdfminer-six
 Downloaded lxml
 Downloaded tooluniverse
 Downloaded faiss-cpu
Installed 108 packages in 689ms
usage: tooluniverse [-h] [--load CONFIG] [--workspace DIR] [--global]
                    [--categories [CATEGORY ...] | --list-categories]
                    [--exclude-tools [TOOL_NAME ...]]
                    [--exclude-categories [CATEGORY ...]]
                    [--include-tools [TOOL_NAME ...]] [--tools-file FILE_PATH]
                    [--tool-config-files [CATEGORY:PATH ...]]
                    [--include-tool-types [TOOL_TYPE ...]]
                    [--exclude-tool-types [TOOL_TYPE ...]] [--list-tools]
                    [--name NAME] [--no-search] [--max-workers MAX_WORKERS]
                    [--verbose] [--compact-mode] [--expose-agentic-prompts]
                    [--hooks] [--hook-type {SummarizationHook,FileSaveHook}]
                    [--hook-config-file HOOK_CONFIG_FILE]
tooluniverse: error: unrecognized arguments: tooluniverse-smcp-stdio

macOS

needs configuration2026-11-09 · probed over pypi

5 recorded runs, oldest first.

handshake failed: MCP error -32000: Connection closed
--- stderr (tail) ---
Downloading pdfminer-six (6.3MiB)
Downloading pip (1.9MiB)
Downloading tooluniverse (10.2MiB)
Downloading rustworkx (2.0MiB)
Downloading pypdfium2 (3.5MiB)
Downloading lxml (8.2MiB)
   Building faiss-cpu==1.12.0
 Downloaded pip
 Downloaded rustworkx
 Downloaded pypdfium2
 Downloaded pdfminer-six
 Downloaded lxml
 Downloaded tooluniverse
error: Failed to build `faiss-cpu==1.12.0`
  cause: The build backend returned an error
  cause: Call to `setuptools.build_meta.build_wheel` failed (exit status: 1)

         [stdout]
         running bdist_wheel
         running build
         running build_py
         running build_ext
         building 'faiss._swigfaiss' extension
         swigging third-party/faiss/faiss/python/swigfaiss.i to third-party/faiss/faiss/python/swigfaiss_wrap.cpp
         swig -python -c++ -Doverride= -doxygen -Ithird-party/faiss -I/Users/runner/.cache/uv/builds-v0/.tmpXfubap/lib/python3.15/site-packages/numpy/_core/include -Ithird-party/faiss -I/usr/local/include -o third-party/faiss/faiss/python/swigfaiss_wrap.cpp third-party/faiss/faiss/python/swigfaiss.i

         [stderr]
         error: command 'swig' failed: No such file or directory

hint: `faiss-cpu` (v1.12.0) was included because `tooluniverse` (v1.5.9) depends on `faiss-cpu`

hint: Build failures usually indicate a problem with the package or the build environment

Windows

needs configuration2026-11-09 · probed over pypi

5 recorded runs, oldest first.

handshake failed: MCP error -32000: Connection closed
--- stderr (tail) ---
Downloading pip (1.9MiB)
Downloading pypdfium2 (4.0MiB)
Downloading pdfminer-six (6.3MiB)
Downloading rustworkx (2.2MiB)
Downloading faiss-cpu (17.3MiB)
Downloading lxml (3.8MiB)
Downloading tooluniverse (10.2MiB)
 Downloaded rustworkx
 Downloaded pypdfium2
 Downloaded pdfminer-six
 Downloaded lxml
 Downloaded faiss-cpu
 Downloaded pip
 Downloaded tooluniverse
Installed 109 packages in 31.12s
usage: tooluniverse [-h] [--load CONFIG] [--workspace DIR] [--global]
                    [--categories [CATEGORY ...] | --list-categories]
                    [--exclude-tools [TOOL_NAME ...]]
                    [--exclude-categories [CATEGORY ...]]
                    [--include-tools [TOOL_NAME ...]] [--tools-file FILE_PATH]
                    [--tool-config-files [CATEGORY:PATH ...]]
                    [--include-tool-types [TOOL_TYPE ...]]
                    [--exclude-tool-types [TOOL_TYPE ...]] [--list-tools]
                    [--name NAME] [--no-search] [--max-workers MAX_WORKERS]
                    [--verbose] [--compact-mode] [--expose-agentic-prompts]
                    [--hooks] [--hook-type {SummarizationHook,FileSaveHook}]
                    [--hook-config-file HOOK_CONFIG_FILE]
tooluniverse: error: unrecognized arguments: tooluniverse-smcp-stdio

Badge

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