rowan-mcp 0.1.0__tar.gz → 1.0.0__tar.gz

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  1. {rowan_mcp-0.1.0 → rowan_mcp-1.0.0}/PKG-INFO +74 -45
  2. {rowan_mcp-0.1.0 → rowan_mcp-1.0.0}/README.md +73 -44
  3. {rowan_mcp-0.1.0 → rowan_mcp-1.0.0}/pyproject.toml +1 -1
  4. {rowan_mcp-0.1.0 → rowan_mcp-1.0.0}/rowan_mcp/__init__.py +1 -1
  5. {rowan_mcp-0.1.0 → rowan_mcp-1.0.0}/.gitignore +0 -0
  6. {rowan_mcp-0.1.0 → rowan_mcp-1.0.0}/MANIFEST.in +0 -0
  7. {rowan_mcp-0.1.0 → rowan_mcp-1.0.0}/ROWAN_MCP_TEST_QUERIES.md +0 -0
  8. {rowan_mcp-0.1.0 → rowan_mcp-1.0.0}/ROWAN_MCP_TOOLS.md +0 -0
  9. {rowan_mcp-0.1.0 → rowan_mcp-1.0.0}/rowan-dxt.dxt +0 -0
  10. {rowan_mcp-0.1.0 → rowan_mcp-1.0.0}/rowan_mcp/__main__.py +0 -0
  11. {rowan_mcp-0.1.0 → rowan_mcp-1.0.0}/rowan_mcp/functions/admet.py +0 -0
  12. {rowan_mcp-0.1.0 → rowan_mcp-1.0.0}/rowan_mcp/functions/bde.py +0 -0
  13. {rowan_mcp-0.1.0 → rowan_mcp-1.0.0}/rowan_mcp/functions/calculation_retrieve.py +0 -0
  14. {rowan_mcp-0.1.0 → rowan_mcp-1.0.0}/rowan_mcp/functions/conformers.py +0 -0
  15. {rowan_mcp-0.1.0 → rowan_mcp-1.0.0}/rowan_mcp/functions/descriptors.py +0 -0
  16. {rowan_mcp-0.1.0 → rowan_mcp-1.0.0}/rowan_mcp/functions/docking.py +0 -0
  17. {rowan_mcp-0.1.0 → rowan_mcp-1.0.0}/rowan_mcp/functions/docking_enhanced.py +0 -0
  18. {rowan_mcp-0.1.0 → rowan_mcp-1.0.0}/rowan_mcp/functions/electronic_properties.py +0 -0
  19. {rowan_mcp-0.1.0 → rowan_mcp-1.0.0}/rowan_mcp/functions/folder_management.py +0 -0
  20. {rowan_mcp-0.1.0 → rowan_mcp-1.0.0}/rowan_mcp/functions/fukui.py +0 -0
  21. {rowan_mcp-0.1.0 → rowan_mcp-1.0.0}/rowan_mcp/functions/hydrogen_bond_basicity.py +0 -0
  22. {rowan_mcp-0.1.0 → rowan_mcp-1.0.0}/rowan_mcp/functions/irc.py +0 -0
  23. {rowan_mcp-0.1.0 → rowan_mcp-1.0.0}/rowan_mcp/functions/macropka.py +0 -0
  24. {rowan_mcp-0.1.0 → rowan_mcp-1.0.0}/rowan_mcp/functions/molecular_converter.py +0 -0
  25. {rowan_mcp-0.1.0 → rowan_mcp-1.0.0}/rowan_mcp/functions/molecular_dynamics.py +0 -0
  26. {rowan_mcp-0.1.0 → rowan_mcp-1.0.0}/rowan_mcp/functions/molecule_cache.db +0 -0
  27. {rowan_mcp-0.1.0 → rowan_mcp-1.0.0}/rowan_mcp/functions/molecule_lookup.py +0 -0
  28. {rowan_mcp-0.1.0 → rowan_mcp-1.0.0}/rowan_mcp/functions/multistage_opt.py +0 -0
  29. {rowan_mcp-0.1.0 → rowan_mcp-1.0.0}/rowan_mcp/functions/pdb_handler.py +0 -0
  30. {rowan_mcp-0.1.0 → rowan_mcp-1.0.0}/rowan_mcp/functions/pka.py +0 -0
  31. {rowan_mcp-0.1.0 → rowan_mcp-1.0.0}/rowan_mcp/functions/redox_potential.py +0 -0
  32. {rowan_mcp-0.1.0 → rowan_mcp-1.0.0}/rowan_mcp/functions/scan.py +0 -0
  33. {rowan_mcp-0.1.0 → rowan_mcp-1.0.0}/rowan_mcp/functions/scan_analyzer.py +0 -0
  34. {rowan_mcp-0.1.0 → rowan_mcp-1.0.0}/rowan_mcp/functions/solubility.py +0 -0
  35. {rowan_mcp-0.1.0 → rowan_mcp-1.0.0}/rowan_mcp/functions/spin_states.py +0 -0
  36. {rowan_mcp-0.1.0 → rowan_mcp-1.0.0}/rowan_mcp/functions/system_management.py +0 -0
  37. {rowan_mcp-0.1.0 → rowan_mcp-1.0.0}/rowan_mcp/functions/tautomers.py +0 -0
  38. {rowan_mcp-0.1.0 → rowan_mcp-1.0.0}/rowan_mcp/functions/workflow_management.py +0 -0
  39. {rowan_mcp-0.1.0 → rowan_mcp-1.0.0}/rowan_mcp/server.py +0 -0
  40. {rowan_mcp-0.1.0 → rowan_mcp-1.0.0}/uv.lock +0 -0
@@ -1,6 +1,6 @@
1
1
  Metadata-Version: 2.4
2
2
  Name: rowan-mcp
3
- Version: 0.1.0
3
+ Version: 1.0.0
4
4
  Summary: Model Context Protocol server for Rowan computational chemistry platform
5
5
  Project-URL: Homepage, https://github.com/k-yenko/rowan-mcp
6
6
  Author-email: Katherine Yenko <katherineyenko@example.com>
@@ -50,31 +50,38 @@ That's it - no command line setup needed!
50
50
 
51
51
  ---
52
52
 
53
- ## **Manual Installation**
53
+ ## **Package Installation**
54
54
 
55
- **For developers or users who prefer command-line setup:**
55
+ ### **Using uv (recommended):**
56
+ ```bash
57
+ # Install the package
58
+ uv add rowan-mcp
59
+ ```
56
60
 
57
- ### **1. Clone and Setup**
61
+ ### **Using pip:**
58
62
  ```bash
59
- git clone https://github.com/k-yenko/rowan-mcp.git
60
- cd rowan-mcp
61
- uv sync
63
+ # Install the package
64
+ pip install rowan-mcp
65
+
66
+ # Or in a virtual environment
67
+ python -m venv venv
68
+ source venv/bin/activate # On Windows: venv\Scripts\activate
69
+ pip install rowan-mcp
62
70
  ```
63
71
 
64
- ### **2. Get API Key**
65
- - Visit [labs.rowansci.com](https://labs.rowansci.com)
66
- - Create free account → Generate API key
72
+ ### **Get API Key & Configure**
67
73
 
68
- ### **3. Configure Your MCP Client**
74
+ 1. **Get your API key**: Visit [labs.rowansci.com](https://labs.rowansci.com) Create account → Generate API key
69
75
 
70
- **Claude Desktop Example:**
76
+ 2. **Configure your MCP client** (e.g., Claude Code, VSCode, Cursor, etc.):
77
+
78
+ **With uv:**
71
79
  ```json
72
80
  {
73
81
  "mcpServers": {
74
82
  "rowan": {
75
83
  "command": "uv",
76
- "args": ["run", "python", "-m", "rowan_mcp"],
77
- "cwd": "/path/to/rowan-mcp",
84
+ "args": ["run", "rowan-mcp"],
78
85
  "env": {
79
86
  "ROWAN_API_KEY": "your_api_key_here"
80
87
  }
@@ -83,72 +90,76 @@ uv sync
83
90
  }
84
91
  ```
85
92
 
86
- *Replace `/path/to/rowan-mcp` with the actual path where you cloned the repository*
87
-
88
- **To find your path:**
89
- ```bash
90
- # After cloning, run this in the rowan-mcp directory:
91
- pwd
92
- # Copy the output and use it as your "cwd" value
93
+ **With pip/system Python:**
94
+ ```json
95
+ {
96
+ "mcpServers": {
97
+ "rowan": {
98
+ "command": "rowan-mcp",
99
+ "env": {
100
+ "ROWAN_API_KEY": "your_api_key_here"
101
+ }
102
+ }
103
+ }
104
+ }
93
105
  ```
94
106
 
95
- ### **4. Start Using**
107
+ ### **Start Using**
96
108
  Ask your AI: *"Calculate the pKa of aspirin"* or *"Optimize the geometry of caffeine"*
97
109
 
98
- ### **Alternative: Use .env file**
99
- Instead of putting your API key in the MCP config, create a `.env` file:
110
+ ---
111
+
112
+ ## **Development Installation**
113
+
114
+ **For developers or contributors:**
115
+
116
+ ### **1. Clone and Setup**
100
117
  ```bash
101
- # In the rowan-mcp directory:
102
- echo "ROWAN_API_KEY=your_actual_api_key_here" > .env
118
+ git clone https://github.com/k-yenko/rowan-mcp.git
119
+ cd rowan-mcp
120
+ uv sync
103
121
  ```
104
122
 
105
- Then use this simpler config (no env section needed):
123
+ ### **2. Configure for Development**
106
124
  ```json
107
125
  {
108
126
  "mcpServers": {
109
127
  "rowan": {
110
128
  "command": "uv",
111
129
  "args": ["run", "python", "-m", "rowan_mcp"],
112
- "cwd": "/path/to/rowan-mcp"
130
+ "cwd": "/path/to/rowan-mcp",
131
+ "env": {
132
+ "ROWAN_API_KEY": "your_api_key_here"
133
+ }
113
134
  }
114
135
  }
115
136
  }
116
137
  ```
117
138
 
139
+ *Replace `/path/to/rowan-mcp` with your actual clone path. Find it with `pwd` in the project directory.*
140
+
118
141
  ---
119
142
 
120
143
  ## **What You Can Do**
121
144
 
122
145
  Ask the LLM to:
123
146
  - **Calculate drug properties**: *"Predict drug-likeness of aspirin"*
124
- - **Optimize molecular structures**: *"Optimize the geometry of aspirin"*
147
+ - **Optimize molecular structures**: *"Optimize the geometry of aspirin"*
125
148
  - **Predict chemical behavior**: *"What's the pKa of acetic acid?"*
126
149
  - **Run calculations**: *"Calculate the HOMO and LUMO of benzene"*
127
150
 
128
151
  ## **System Requirements**
129
152
 
130
153
  - **Python 3.10+** (Python 3.11+ recommended)
131
- - **[uv](https://docs.astral.sh/uv/) package manager**
154
+ - **Package manager**: [uv](https://docs.astral.sh/uv/) (recommended) or pip
132
155
  - **Rowan API key** (free at [labs.rowansci.com](https://labs.rowansci.com))
133
- - **MCP-compatible client** (Claude Desktop, Continue, etc.)
134
-
135
- ## **Testing Your Setup**
136
-
137
- You can test the server directly:
138
- ```bash
139
- # In the rowan-mcp directory:
140
- uv run python -m rowan_mcp --help
141
- ```
156
+ - **MCP-compatible client** (Claude Desktop, etc.)
142
157
 
143
- ## **Development**
144
158
 
145
- The installation above is the same for development! Additional commands:
159
+ **Development commands** (if you cloned the repo):
146
160
  ```bash
147
- # Run server in HTTP/SSE mode
161
+ # Run from source
148
162
  uv run python -m rowan_mcp --http
149
-
150
- # Run server in STDIO mode (default)
151
- uv run python -m rowan_mcp
152
163
  ```
153
164
 
154
165
  ---
@@ -214,3 +225,21 @@ If you use this MCP tool in your research, please cite the underlying Rowan plat
214
225
  Rowan Scientific. https://www.rowansci.com (accessed 2025-07-01).
215
226
 
216
227
  For complete citation information including specific computational engines, methods, and workflows used in your calculations, please refer to [Rowan's citation guidelines](https://docs.rowansci.com/citations).
228
+
229
+ ---
230
+
231
+ ## **Publishing (Maintainer Notes)**
232
+
233
+ To publish a new version to PyPI:
234
+
235
+ ```bash
236
+ # Update version in pyproject.toml and rowan_mcp/__init__.py
237
+ # Build the package
238
+ uv build
239
+
240
+ # Publish to PyPI (requires API token)
241
+ uv publish
242
+
243
+ # Or publish to TestPyPI first
244
+ uv publish --index-url https://test.pypi.org/simple/
245
+ ```
@@ -18,31 +18,38 @@ That's it - no command line setup needed!
18
18
 
19
19
  ---
20
20
 
21
- ## **Manual Installation**
21
+ ## **Package Installation**
22
22
 
23
- **For developers or users who prefer command-line setup:**
23
+ ### **Using uv (recommended):**
24
+ ```bash
25
+ # Install the package
26
+ uv add rowan-mcp
27
+ ```
24
28
 
25
- ### **1. Clone and Setup**
29
+ ### **Using pip:**
26
30
  ```bash
27
- git clone https://github.com/k-yenko/rowan-mcp.git
28
- cd rowan-mcp
29
- uv sync
31
+ # Install the package
32
+ pip install rowan-mcp
33
+
34
+ # Or in a virtual environment
35
+ python -m venv venv
36
+ source venv/bin/activate # On Windows: venv\Scripts\activate
37
+ pip install rowan-mcp
30
38
  ```
31
39
 
32
- ### **2. Get API Key**
33
- - Visit [labs.rowansci.com](https://labs.rowansci.com)
34
- - Create free account → Generate API key
40
+ ### **Get API Key & Configure**
35
41
 
36
- ### **3. Configure Your MCP Client**
42
+ 1. **Get your API key**: Visit [labs.rowansci.com](https://labs.rowansci.com) Create account → Generate API key
37
43
 
38
- **Claude Desktop Example:**
44
+ 2. **Configure your MCP client** (e.g., Claude Code, VSCode, Cursor, etc.):
45
+
46
+ **With uv:**
39
47
  ```json
40
48
  {
41
49
  "mcpServers": {
42
50
  "rowan": {
43
51
  "command": "uv",
44
- "args": ["run", "python", "-m", "rowan_mcp"],
45
- "cwd": "/path/to/rowan-mcp",
52
+ "args": ["run", "rowan-mcp"],
46
53
  "env": {
47
54
  "ROWAN_API_KEY": "your_api_key_here"
48
55
  }
@@ -51,72 +58,76 @@ uv sync
51
58
  }
52
59
  ```
53
60
 
54
- *Replace `/path/to/rowan-mcp` with the actual path where you cloned the repository*
55
-
56
- **To find your path:**
57
- ```bash
58
- # After cloning, run this in the rowan-mcp directory:
59
- pwd
60
- # Copy the output and use it as your "cwd" value
61
+ **With pip/system Python:**
62
+ ```json
63
+ {
64
+ "mcpServers": {
65
+ "rowan": {
66
+ "command": "rowan-mcp",
67
+ "env": {
68
+ "ROWAN_API_KEY": "your_api_key_here"
69
+ }
70
+ }
71
+ }
72
+ }
61
73
  ```
62
74
 
63
- ### **4. Start Using**
75
+ ### **Start Using**
64
76
  Ask your AI: *"Calculate the pKa of aspirin"* or *"Optimize the geometry of caffeine"*
65
77
 
66
- ### **Alternative: Use .env file**
67
- Instead of putting your API key in the MCP config, create a `.env` file:
78
+ ---
79
+
80
+ ## **Development Installation**
81
+
82
+ **For developers or contributors:**
83
+
84
+ ### **1. Clone and Setup**
68
85
  ```bash
69
- # In the rowan-mcp directory:
70
- echo "ROWAN_API_KEY=your_actual_api_key_here" > .env
86
+ git clone https://github.com/k-yenko/rowan-mcp.git
87
+ cd rowan-mcp
88
+ uv sync
71
89
  ```
72
90
 
73
- Then use this simpler config (no env section needed):
91
+ ### **2. Configure for Development**
74
92
  ```json
75
93
  {
76
94
  "mcpServers": {
77
95
  "rowan": {
78
96
  "command": "uv",
79
97
  "args": ["run", "python", "-m", "rowan_mcp"],
80
- "cwd": "/path/to/rowan-mcp"
98
+ "cwd": "/path/to/rowan-mcp",
99
+ "env": {
100
+ "ROWAN_API_KEY": "your_api_key_here"
101
+ }
81
102
  }
82
103
  }
83
104
  }
84
105
  ```
85
106
 
107
+ *Replace `/path/to/rowan-mcp` with your actual clone path. Find it with `pwd` in the project directory.*
108
+
86
109
  ---
87
110
 
88
111
  ## **What You Can Do**
89
112
 
90
113
  Ask the LLM to:
91
114
  - **Calculate drug properties**: *"Predict drug-likeness of aspirin"*
92
- - **Optimize molecular structures**: *"Optimize the geometry of aspirin"*
115
+ - **Optimize molecular structures**: *"Optimize the geometry of aspirin"*
93
116
  - **Predict chemical behavior**: *"What's the pKa of acetic acid?"*
94
117
  - **Run calculations**: *"Calculate the HOMO and LUMO of benzene"*
95
118
 
96
119
  ## **System Requirements**
97
120
 
98
121
  - **Python 3.10+** (Python 3.11+ recommended)
99
- - **[uv](https://docs.astral.sh/uv/) package manager**
122
+ - **Package manager**: [uv](https://docs.astral.sh/uv/) (recommended) or pip
100
123
  - **Rowan API key** (free at [labs.rowansci.com](https://labs.rowansci.com))
101
- - **MCP-compatible client** (Claude Desktop, Continue, etc.)
102
-
103
- ## **Testing Your Setup**
104
-
105
- You can test the server directly:
106
- ```bash
107
- # In the rowan-mcp directory:
108
- uv run python -m rowan_mcp --help
109
- ```
124
+ - **MCP-compatible client** (Claude Desktop, etc.)
110
125
 
111
- ## **Development**
112
126
 
113
- The installation above is the same for development! Additional commands:
127
+ **Development commands** (if you cloned the repo):
114
128
  ```bash
115
- # Run server in HTTP/SSE mode
129
+ # Run from source
116
130
  uv run python -m rowan_mcp --http
117
-
118
- # Run server in STDIO mode (default)
119
- uv run python -m rowan_mcp
120
131
  ```
121
132
 
122
133
  ---
@@ -182,3 +193,21 @@ If you use this MCP tool in your research, please cite the underlying Rowan plat
182
193
  Rowan Scientific. https://www.rowansci.com (accessed 2025-07-01).
183
194
 
184
195
  For complete citation information including specific computational engines, methods, and workflows used in your calculations, please refer to [Rowan's citation guidelines](https://docs.rowansci.com/citations).
196
+
197
+ ---
198
+
199
+ ## **Publishing (Maintainer Notes)**
200
+
201
+ To publish a new version to PyPI:
202
+
203
+ ```bash
204
+ # Update version in pyproject.toml and rowan_mcp/__init__.py
205
+ # Build the package
206
+ uv build
207
+
208
+ # Publish to PyPI (requires API token)
209
+ uv publish
210
+
211
+ # Or publish to TestPyPI first
212
+ uv publish --index-url https://test.pypi.org/simple/
213
+ ```
@@ -4,7 +4,7 @@ build-backend = "hatchling.build"
4
4
 
5
5
  [project]
6
6
  name = "rowan-mcp"
7
- version = "0.1.0"
7
+ version = "1.0.0"
8
8
  description = "Model Context Protocol server for Rowan computational chemistry platform"
9
9
  authors = [
10
10
  {name = "Katherine Yenko", email = "katherineyenko@example.com"}
@@ -5,7 +5,7 @@ This package provides MCP (Model Context Protocol) server functionality
5
5
  for integrating with Rowan's computational chemistry platform.
6
6
  """
7
7
 
8
- __version__ = "0.1.0"
8
+ __version__ = "1.0.0"
9
9
  __author__ = "Rowan MCP Team"
10
10
  __description__ = "MCP server for Rowan computational chemistry platform"
11
11
 
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