tooluniverse 1.0.0__tar.gz → 1.0.1__tar.gz

{tooluniverse-1.0.0/src/tooluniverse.egg-info → tooluniverse-1.0.1}/PKG-INFO

@@ -1,6 +1,6 @@
 Metadata-Version: 2.4
 Name: tooluniverse
-Version: 1.0.0
+Version: 1.0.1
 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/TxAgent
@@ -145,8 +145,18 @@ pip install tooluniverse
 git clone https://github.com/mims-harvard/ToolUniverse.git
 cd ToolUniverse
 uv sync  # or pip install -e .[dev]
+
+# Auto-setup pre-commit hooks
+./setup_precommit.sh
 ```
 
+**Pre-commit Hooks:**
+Pre-commit hooks ensure code quality on every commit:
+- **Code formatting** with Black
+- **Linting** with flake8 and ruff
+- **Import cleanup** with autoflake
+- **File validation** (YAML, TOML, AST checks)
+
 → **Complete Installation Tutorial**: [Installation Tutorial](https://zitniklab.hms.harvard.edu/bioagent/installation.html)
 
 ## 🔧 Usage & Integration

{tooluniverse-1.0.0 → tooluniverse-1.0.1}/README.md

@@ -80,8 +80,18 @@ pip install tooluniverse
 git clone https://github.com/mims-harvard/ToolUniverse.git
 cd ToolUniverse
 uv sync  # or pip install -e .[dev]
+
+# Auto-setup pre-commit hooks
+./setup_precommit.sh
 ```
 
+**Pre-commit Hooks:**
+Pre-commit hooks ensure code quality on every commit:
+- **Code formatting** with Black
+- **Linting** with flake8 and ruff
+- **Import cleanup** with autoflake
+- **File validation** (YAML, TOML, AST checks)
+
 → **Complete Installation Tutorial**: [Installation Tutorial](https://zitniklab.hms.harvard.edu/bioagent/installation.html)
 
 ## 🔧 Usage & Integration

{tooluniverse-1.0.0 → tooluniverse-1.0.1}/pyproject.toml

@@ -4,7 +4,7 @@ build-backend = "setuptools.build_meta"
 
 [project]
 name = "tooluniverse"
-version = "1.0.0"
+version = "1.0.1"
 description = "A comprehensive collection of scientific tools for Agentic AI, offering integration with the ToolUniverse SDK and MCP Server to support advanced scientific workflows."
 authors = [
     { name = "Shanghua Gao", email = "shanghuagao@gmail.com" }

{tooluniverse-1.0.0 → tooluniverse-1.0.1/src/tooluniverse.egg-info}/PKG-INFO

@@ -1,6 +1,6 @@
 Metadata-Version: 2.4
 Name: tooluniverse
-Version: 1.0.0
+Version: 1.0.1
 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/TxAgent
@@ -145,8 +145,18 @@ pip install tooluniverse
 git clone https://github.com/mims-harvard/ToolUniverse.git
 cd ToolUniverse
 uv sync  # or pip install -e .[dev]
+
+# Auto-setup pre-commit hooks
+./setup_precommit.sh
 ```
 
+**Pre-commit Hooks:**
+Pre-commit hooks ensure code quality on every commit:
+- **Code formatting** with Black
+- **Linting** with flake8 and ruff
+- **Import cleanup** with autoflake
+- **File validation** (YAML, TOML, AST checks)
+
 → **Complete Installation Tutorial**: [Installation Tutorial](https://zitniklab.hms.harvard.edu/bioagent/installation.html)
 
 ## 🔧 Usage & Integration

{tooluniverse-1.0.0 → tooluniverse-1.0.1}/src/tooluniverse.egg-info/SOURCES.txt

@@ -72,11 +72,11 @@ src/tooluniverse/compose_scripts/tool_discover.py
 src/tooluniverse/compose_scripts/tool_graph_composer.py
 src/tooluniverse/data/__init__.py
 src/tooluniverse/data/admetai_tools.json
+src/tooluniverse/data/adverse_event_tools.json
 src/tooluniverse/data/agentic_tools.json
 src/tooluniverse/data/alphafold_tools.json
 src/tooluniverse/data/boltz_tools.json
 src/tooluniverse/data/chembl_tools.json
-src/tooluniverse/data/clait_tools.json
 src/tooluniverse/data/clinicaltrials_gov_tools.json
 src/tooluniverse/data/compose_tools.json
 src/tooluniverse/data/dailymed_tools.json
@@ -129,7 +129,6 @@ src/tooluniverse/data/packages/original_tools.txt
 src/tooluniverse/data/packages/physics_astronomy_tools.json
 src/tooluniverse/data/packages/scientific_computing_tools.json
 src/tooluniverse/data/packages/single_cell_tools.json
-src/tooluniverse/data/packages/software_tools.json
 src/tooluniverse/data/packages/structural_biology_tools.json
 src/tooluniverse/data/packages/visualization_tools.json
 src/tooluniverse/remote/boltz/boltz_mcp_server.py
@@ -138,9 +137,6 @@ src/tooluniverse/remote/expert_feedback/human_expert_mcp_tools.py
 src/tooluniverse/remote/expert_feedback/simple_test.py
 src/tooluniverse/remote/expert_feedback/start_web_interface.py
 src/tooluniverse/remote/expert_feedback/web_only_interface.py
-src/tooluniverse/remote/expert_feedback_mcp/human_expert_mcp_server.py
-src/tooluniverse/remote/expert_feedback_mcp/simple_test.py
-src/tooluniverse/remote/expert_feedback_mcp/start_web_interface.py
 src/tooluniverse/remote/immune_compass/compass_tool.py
 src/tooluniverse/remote/pinnacle/pinnacle_tool.py
 src/tooluniverse/remote/transcriptformer/transcriptformer_tool.py