ursa-ai 0.2.7__py3-none-any.whl → 0.2.9__py3-none-any.whl

ursa/agents/__init__.py

@@ -1,9 +1,9 @@
-from .planning_agent import PlanningAgent, PlanningState
-from .websearch_agent import WebSearchAgent, WebSearchState
-from .execution_agent import ExecutionAgent, ExecutionState
+from .arxiv_agent import ArxivAgent, PaperMetadata, PaperState
+from .base import BaseAgent, BaseChatModel
 from .code_review_agent import CodeReviewAgent, CodeReviewState
+from .execution_agent import ExecutionAgent, ExecutionState
 from .hypothesizer_agent import HypothesizerAgent, HypothesizerState
-from .arxiv_agent import ArxivAgent, PaperState, PaperMetadata
-from .recall_agent import RecallAgent
-from .base import BaseAgent, BaseChatModel
 from .mp_agent import MaterialsProjectAgent
+from .planning_agent import PlanningAgent, PlanningState
+from .recall_agent import RecallAgent
+from .websearch_agent import WebSearchAgent, WebSearchState

ursa/agents/arxiv_agent.py

@@ -1,29 +1,29 @@
+import base64
 import os
-import pymupdf
-import requests
-import feedparser
-from PIL import Image
+import re
+import statistics
+from concurrent.futures import ThreadPoolExecutor, as_completed
 from io import BytesIO
-import base64
 from urllib.parse import quote
-from typing_extensions import TypedDict, List
-from concurrent.futures import ThreadPoolExecutor, as_completed
-from tqdm import tqdm
-import statistics
-import re
 
+import feedparser
+import pymupdf
+import requests
+from langchain.text_splitter import RecursiveCharacterTextSplitter
+from langchain_chroma import Chroma
 from langchain_community.document_loaders import PyPDFLoader
 from langchain_core.output_parsers import StrOutputParser
 from langchain_core.prompts import ChatPromptTemplate
-from langgraph.graph import StateGraph, END, START
-from langchain.text_splitter import RecursiveCharacterTextSplitter
-from langchain_chroma import Chroma
+from langgraph.graph import StateGraph
+from PIL import Image
+from tqdm import tqdm
+from typing_extensions import List, TypedDict
 
 from .base import BaseAgent
 
 try:
     from openai import OpenAI
-except:
+except Exception:
     pass
 
 # embeddings = GoogleGenerativeAIEmbeddings(model="models/embedding-001")
@@ -162,7 +162,7 @@ class ArxivAgent(BaseAgent):
                 full_id = entry.id.split("/abs/")[-1]
                 arxiv_id = full_id.split("/")[-1]
                 title = entry.title.strip()
-                authors = ", ".join(author.name for author in entry.authors)
+                # authors = ", ".join(author.name for author in entry.authors)
                 pdf_url = f"https://arxiv.org/pdf/{full_id}.pdf"
                 pdf_filename = os.path.join(
                     self.database_path, f"{arxiv_id}.pdf"
@@ -313,7 +313,7 @@ class ArxivAgent(BaseAgent):
 
         if "papers" not in state or len(state["papers"]) == 0:
             print(
-                f"No papers retrieved - bad query or network connection to ArXiv?"
+                "No papers retrieved - bad query or network connection to ArXiv?"
             )
             return {**state, "summaries": None}
 

ursa/agents/base.py

@@ -1,9 +1,7 @@
 from langchain_core.language_models.chat_models import BaseChatModel
+from langchain_core.load import dumps
 from langchain_litellm import ChatLiteLLM
 from langgraph.checkpoint.base import BaseCheckpointSaver
-from langchain_core.load import dumps
-
-import json
 
 
 class BaseAgent:

ursa/agents/code_review_agent.py

@@ -7,7 +7,7 @@ from langchain_core.messages import HumanMessage, SystemMessage
 from langchain_core.tools import tool
 from langgraph.graph import END, START, StateGraph
 from langgraph.graph.message import add_messages
-from langgraph.prebuilt import ToolNode, InjectedState
+from langgraph.prebuilt import InjectedState, ToolNode
 from typing_extensions import TypedDict
 
 from ..prompt_library.code_review_prompts import (
@@ -349,7 +349,7 @@ def main():
     }
     result = (
         code_review_agent.action.invoke(initial_state),
-        {"configurable": {"thread_id": self.thread_id}},
+        {"configurable": {"thread_id": 42}},
     )
     for x in result["messages"]:
         print(x.content)

ursa/agents/execution_agent.py

@@ -107,7 +107,7 @@ class ExecutionAgent(BaseAgent):
             # note that we've done the symlink now, so don't need to do it later
             new_state["symlinkdir"]["is_linked"] = True
 
-        if type(new_state["messages"][0]) == SystemMessage:
+        if isinstance(new_state["messages"][0], SystemMessage):
             new_state["messages"][0] = SystemMessage(
                 content=self.executor_prompt
             )
@@ -139,7 +139,7 @@ class ExecutionAgent(BaseAgent):
             memories = []
             # Handle looping through the messages
             for x in state["messages"]:
-                if not type(x) == AIMessage:
+                if not isinstance(x, AIMessage):
                     memories.append(x.content)
                 elif not x.tool_calls:
                     memories.append(x.content)
@@ -426,7 +426,7 @@ def edit_code(
 
     if old_code_clean not in content:
         console.print(
-            f"[yellow] ⚠️ 'old_code' not found in file'; no changes made.[/]"
+            "[yellow] ⚠️ 'old_code' not found in file'; no changes made.[/]"
         )
         return f"No changes made to {filename}: 'old_code' not found in file."
 
@@ -483,7 +483,7 @@ def command_safe(state: ExecutionState) -> Literal["safe", "unsafe"]:
     index = -1
     message = state["messages"][index]
     # Loop through all the consecutive tool messages in reverse order
-    while type(message) == ToolMessage:
+    while isinstance(message, ToolMessage):
         if "[UNSAFE]" in message.content:
             return "unsafe"
 

ursa/agents/hypothesizer_agent.py

@@ -96,7 +96,7 @@ class HypothesizerAgent(BaseAgent):
             new_state["visited_sites"] = []
 
         try:
-            if type(raw_search_results) == str:
+            if isinstance(raw_search_results, str):
                 results_list = ast.literal_eval(raw_search_results)
             else:
                 results_list = raw_search_results
@@ -154,7 +154,7 @@ class HypothesizerAgent(BaseAgent):
             new_state["visited_sites"] = []
 
         try:
-            if type(raw_search_results) == str:
+            if isinstance(raw_search_results, str):
                 results_list = ast.literal_eval(raw_search_results)
             else:
                 results_list = raw_search_results
@@ -217,7 +217,7 @@ class HypothesizerAgent(BaseAgent):
             new_state["visited_sites"] = []
 
         try:
-            if type(raw_search_results) == str:
+            if isinstance(raw_search_results, str):
                 results_list = ast.literal_eval(raw_search_results)
             else:
                 results_list = raw_search_results
@@ -589,7 +589,7 @@ if __name__ == "__main__":
         initial_state,
         {
             "recursion_limit": 999999,
-            "configurable": {"thread_id": self.thread_id},
+            "configurable": {"thread_id": 42},
         },
     )
     summary_text = result["summary_report"]

ursa/agents/mp_agent.py

@@ -1,43 +1,19 @@
-import os
 import json
-from typing import List, Dict
-from concurrent.futures import ThreadPoolExecutor
-from tqdm import tqdm
-
-from mp_api.client import MPRester
-from langchain.schema import Document
-
 import os
-import pymupdf
-import requests
-import feedparser
-from PIL import Image
-from io import BytesIO
-import base64
-from urllib.parse import quote
-from typing_extensions import TypedDict, List
-from concurrent.futures import ThreadPoolExecutor, as_completed
-from tqdm import tqdm
 import re
+from concurrent.futures import ThreadPoolExecutor
+from typing import Dict
 
-from langchain_community.document_loaders import PyPDFLoader
 from langchain_core.output_parsers import StrOutputParser
 from langchain_core.prompts import ChatPromptTemplate
-from langgraph.graph import StateGraph, END, START
-from langchain.text_splitter import RecursiveCharacterTextSplitter
-from langchain_chroma import Chroma
-from langchain_openai import OpenAIEmbeddings
-
-from openai import OpenAI
+from langgraph.graph import StateGraph
+from mp_api.client import MPRester
+from tqdm import tqdm
+from typing_extensions import List, TypedDict
 
 from .base import BaseAgent
 
 
-client = OpenAI()
-
-embeddings = OpenAIEmbeddings()
-
-
 class PaperMetadata(TypedDict):
     arxiv_id: str
     full_text: str
@@ -51,74 +27,6 @@ class PaperState(TypedDict, total=False):
     final_summary: str
 
 
-def describe_image(image: Image.Image) -> str:
-    buffered = BytesIO()
-    image.save(buffered, format="PNG")
-    img_base64 = base64.b64encode(buffered.getvalue()).decode()
-
-    response = client.chat.completions.create(
-        model="gpt-4-vision-preview",
-        messages=[
-            {
-                "role": "system",
-                "content": "You are a scientific assistant who explains plots and scientific diagrams.",
-            },
-            {
-                "role": "user",
-                "content": [
-                    {
-                        "type": "text",
-                        "text": "Describe this scientific image or plot in detail.",
-                    },
-                    {
-                        "type": "image_url",
-                        "image_url": {
-                            "url": f"data:image/png;base64,{img_base64}"
-                        },
-                    },
-                ],
-            },
-        ],
-        max_tokens=500,
-    )
-    return response.choices[0].message.content.strip()
-
-
-def extract_and_describe_images(
-    pdf_path: str, max_images: int = 5
-) -> List[str]:
-    doc = pymupdf.open(pdf_path)
-    descriptions = []
-    image_count = 0
-
-    for page_index in range(len(doc)):
-        if image_count >= max_images:
-            break
-        page = doc[page_index]
-        images = page.get_images(full=True)
-
-        for img_index, img in enumerate(images):
-            if image_count >= max_images:
-                break
-            xref = img[0]
-            base_image = doc.extract_image(xref)
-            image_bytes = base_image["image"]
-            image = Image.open(BytesIO(image_bytes))
-
-            try:
-                desc = describe_image(image)
-                descriptions.append(
-                    f"Page {page_index + 1}, Image {img_index + 1}: {desc}"
-                )
-            except Exception as e:
-                descriptions.append(
-                    f"Page {page_index + 1}, Image {img_index + 1}: [Error: {e}]"
-                )
-            image_count += 1
-
-    return descriptions
-
-
 def remove_surrogates(text: str) -> str:
     return re.sub(r"[\ud800-\udfff]", "", text)
 
@@ -131,7 +39,6 @@ class MaterialsProjectAgent(BaseAgent):
         max_results: int = 3,
         database_path: str = "mp_database",
         summaries_path: str = "mp_summaries",
-        vectorstore_path: str = "mp_vectorstores",
         **kwargs,
     ):
         super().__init__(llm, **kwargs)
@@ -139,13 +46,10 @@ class MaterialsProjectAgent(BaseAgent):
         self.max_results = max_results
         self.database_path = database_path
         self.summaries_path = summaries_path
-        self.vectorstore_path = vectorstore_path
 
         os.makedirs(self.database_path, exist_ok=True)
         os.makedirs(self.summaries_path, exist_ok=True)
-        os.makedirs(self.vectorstore_path, exist_ok=True)
 
-        self.embeddings = OpenAIEmbeddings()  # or your preferred embedding
         self.graph = self._build_graph()
 
     def _fetch_node(self, state: Dict) -> Dict:
@@ -175,24 +79,6 @@ class MaterialsProjectAgent(BaseAgent):
 
         return {**state, "materials": mats}
 
-    def _get_or_build_vectorstore(self, text: str, mid: str):
-        """Build or load a Chroma vectorstore for a single material's description."""
-        persist_dir = os.path.join(self.vectorstore_path, mid)
-        if os.path.exists(persist_dir):
-            store = Chroma(
-                persist_directory=persist_dir,
-                embedding_function=self.embeddings,
-            )
-        else:
-            splitter = RecursiveCharacterTextSplitter(
-                chunk_size=500, chunk_overlap=100
-            )
-            docs = splitter.create_documents([text])
-            store = Chroma.from_documents(
-                docs, self.embeddings, persist_directory=persist_dir
-            )
-        return store.as_retriever(search_kwargs={"k": 5})
-
     def _summarize_node(self, state: Dict) -> Dict:
         """Summarize each material via LLM over its metadata."""
         # prompt template
@@ -204,7 +90,6 @@ You are a materials-science assistant. Given the following metadata about a mate
         chain = prompt | self.llm | StrOutputParser()
 
         summaries = [None] * len(state["materials"])
-        relevancy = [0.0] * len(state["materials"])
 
         def process(i, mat):
             mid = mat["material_id"]

ursa/agents/planning_agent.py

@@ -40,7 +40,7 @@ class PlanningAgent(BaseAgent):
 
     def generation_node(self, state: PlanningState) -> PlanningState:
         messages = state["messages"]
-        if type(messages[0]) == SystemMessage:
+        if isinstance(messages[0], SystemMessage):
             messages[0] = SystemMessage(content=self.planner_prompt)
         else:
             messages = [SystemMessage(content=self.planner_prompt)] + messages

ursa/agents/recall_agent.py

@@ -1,4 +1,3 @@
-import os
 from .base import BaseAgent
 
 

ursa/agents/websearch_agent.py

@@ -1,5 +1,3 @@
-import inspect
-
 # from langchain_community.tools    import TavilySearchResults
 # from langchain_core.runnables.graph import MermaidDrawMethod
 from typing import Annotated, Any, List, Optional
@@ -9,7 +7,6 @@ from bs4 import BeautifulSoup
 from langchain_community.tools import DuckDuckGoSearchResults
 from langchain_core.language_models import BaseChatModel
 from langchain_core.messages import HumanMessage, SystemMessage, ToolMessage
-from langchain_core.tools import tool
 from langchain_openai import ChatOpenAI
 from langgraph.graph import END, START, StateGraph
 from langgraph.graph.message import add_messages
@@ -19,8 +16,8 @@ from typing_extensions import TypedDict
 
 from ..prompt_library.websearch_prompts import (
     reflection_prompt,
-    websearch_prompt,
     summarize_prompt,
+    websearch_prompt,
 )
 from .base import BaseAgent
 
@@ -41,6 +38,7 @@ class WebSearchState(TypedDict):
     remaining_steps: int
     is_last_step: bool
     model: Any
+    thread_id: Any
 
 
 # Adding the model to the state clumsily so that all "read" sources arent in the
@@ -113,8 +111,14 @@ class WebSearchAgent(BaseAgent):
         except (requests.ConnectionError, requests.Timeout):
             return False
 
+    def state_store_node(self, state: WebSearchState) -> WebSearchState:
+        state["thread_id"] = self.thread_id
+        return state
+        # return dict(**state, thread_id=self.thread_id)
+
     def _initialize_agent(self):
         self.graph = StateGraph(WebSearchState)
+        self.graph.add_node("state_store", self.state_store_node)
         self.graph.add_node(
             "websearch",
             create_react_agent(
@@ -128,7 +132,8 @@ class WebSearchAgent(BaseAgent):
         self.graph.add_node("review", self.review_node)
         self.graph.add_node("response", self.response_node)
 
-        self.graph.add_edge(START, "websearch")
+        self.graph.add_edge(START, "state_store")
+        self.graph.add_edge("state_store", "websearch")
         self.graph.add_edge("websearch", "review")
         self.graph.add_edge("response", END)
 
@@ -185,7 +190,9 @@ def process_content(
     """
     summarized_information = (
         state["model"]
-        .invoke(content_prompt, {"configurable": {"thread_id": self.thread_id}})
+        .invoke(
+            content_prompt, {"configurable": {"thread_id": state["thread_id"]}}
+        )
         .content
     )
     return summarized_information
@@ -217,7 +224,7 @@ def main():
         inputs,
         {
             "recursion_limit": 10000,
-            "configurable": {"thread_id": self.thread_id},
+            "configurable": {"thread_id": 42},
         },
     )
 

ursa/prompt_library/hypothesizer_prompts.py

@@ -10,7 +10,7 @@ critic_prompt = dedent("""\
     You are Agent 2, a rigorous Critic who identifies flaws and areas for improvement.
 """)
 
-competitor_prompt = dedent(f"""\
+competitor_prompt = dedent("""\
     You are Agent 3, taking on the role of a direct competitor to Agent 1 in this hypothetical situation.
     Acting as that competitor, and taking into account potential critiques from the critic, provide an honest
     assessment how you might *REALLY* counter the approach of Agent 1.

ursa/util/diff_renderer.py

@@ -1,5 +1,5 @@
-import re
 import difflib
+import re
 from dataclasses import dataclass
 
 from rich.console import Console, ConsoleOptions, RenderResult

ursa/util/memory_logger.py

@@ -1,7 +1,7 @@
 import os
 import shutil
 from pathlib import Path
-from typing import Any, Dict, List, Optional, Sequence
+from typing import Any, Dict, Optional, Sequence
 
 from langchain_chroma import Chroma
 from langchain_core.documents import Document

{ursa_ai-0.2.7.dist-info → ursa_ai-0.2.9.dist-info}/METADATA

@@ -1,6 +1,6 @@
 Metadata-Version: 2.4
 Name: ursa-ai
-Version: 0.2.7
+Version: 0.2.9
 Summary: Agents for science at LANL
 Author-email: Mike Grosskopf <mikegros@lanl.gov>, Nathan Debardeleben <ndebard@lanl.gov>, Rahul Somasundaram <rsomasundaram@lanl.gov>, Isaac Michaud <imichaud@lanl.gov>, Avanish Mishra <avanish@lanl.gov>, Arthur Lui <alui@lanl.gov>, Russell Bent <rbent@lanl.gov>, Earl Lawrence <earl@lanl.gov>
 License-Expression: BSD-3-Clause

ursa_ai-0.2.9.dist-info/RECORD

@@ -0,0 +1,26 @@
+ursa/agents/__init__.py,sha256=PAPw6gjnmdA74HpiiYwtO5c6hYLgG_Yu22eu_nuGYKw,498
+ursa/agents/arxiv_agent.py,sha256=A_HVbmYOtQfalntOKSsUIkFu10oN9T6kBAvCuAz2evg,14273
+ursa/agents/base.py,sha256=uFhRLVzqhFbTZVA7IePKbUi03ATCXuvga7rzwaHy1B0,1321
+ursa/agents/code_review_agent.py,sha256=aUDq5gT-jdl9Qs-Wewj2oz1d60xov9sN-DOYRfGNTU0,11550
+ursa/agents/execution_agent.py,sha256=-At1EcKRHP9lYQ80jpqTPtQyPuQV-sIpf9J8LlEfWdA,16618
+ursa/agents/hypothesizer_agent.py,sha256=rSLohNQz3xvEcL_DGTFivf9q5BlX1cqlLUcts4GJIjM,23309
+ursa/agents/mp_agent.py,sha256=HTMAnv1yGs8vgRLGFFYHSbwOz24qdnB-if_JQSH3urQ,6002
+ursa/agents/planning_agent.py,sha256=AKWQJ848RLPiwQGrvDNdN9lBlf3YI5qWmt2hqXnRGj8,5426
+ursa/agents/recall_agent.py,sha256=bQk7ZJtiO5pj89A50OBDzAJ4G2F7ZdsMwmKnp1WWR7g,813
+ursa/agents/websearch_agent.py,sha256=rCv4AWbqe5Us4FmuypM6jptri21nKoNg044ncsu9u3E,8014
+ursa/prompt_library/code_review_prompts.py,sha256=-HuhwW9W_p2LDn44bXLntxLADHCOyl-2KIXxRHto66w,2444
+ursa/prompt_library/execution_prompts.py,sha256=JBBmzVV0605uwFXNv0pxH0fXHqtmOgcDzabjpq3wt2A,2153
+ursa/prompt_library/hypothesizer_prompts.py,sha256=ieupOF5tUy_u8actOjPbK-y5Qkrgw6EYxAfw6RXBebs,762
+ursa/prompt_library/literature_prompts.py,sha256=zhBiN3Q-1Z2hp-hkXXp0T8Ipc-6YUM9gw85DjNu1F6I,421
+ursa/prompt_library/planning_prompts.py,sha256=C8IfVc3ny_5-03bJZop2Yax7wfqS_UIdUGsTZSNQRC0,3534
+ursa/prompt_library/websearch_prompts.py,sha256=n4DJaYn_lIYAVtdy00CCJjT-dLWhn2JNipYqMJAotdY,8846
+ursa/tools/run_command.py,sha256=sQRuHtRyJYWEyL9dpW_Ukc-xQ5vmKKJK1i_6z3uKEfA,690
+ursa/tools/write_code.py,sha256=DtCsUMZegYm0mk-HMPG5Zo3Ba1gbGfnXHsv1NZTdDs8,1220
+ursa/util/diff_renderer.py,sha256=1L1q2qWWb8gLhR532-LgJn2TrqXDx0gUpPVOWD_sqeU,4086
+ursa/util/memory_logger.py,sha256=-4jZkMFXLnABj9x_DMGEUySVPLZaI47HrLgK69Naxw0,5731
+ursa/util/parse.py,sha256=M0cjyQWmjatxX4WbVmDRUiirTLyW-t_Aemlrlrsc5nA,2811
+ursa_ai-0.2.9.dist-info/licenses/LICENSE,sha256=4Vr6_u2zTHIUvYjoOBg9ztDbfpV3hyCFv3mTCS87gYU,1482
+ursa_ai-0.2.9.dist-info/METADATA,sha256=tPMX8nDJxo5ZbaOnpScf9wQrkTsUD73XrStyHxs81Eg,6848
+ursa_ai-0.2.9.dist-info/WHEEL,sha256=_zCd3N1l69ArxyTb8rzEoP9TpbYXkqRFSNOD5OuxnTs,91
+ursa_ai-0.2.9.dist-info/top_level.txt,sha256=OjA1gRYSUAeiXGnpqPC8iOOGfcjFO1IlP848qMnYSdY,5
+ursa_ai-0.2.9.dist-info/RECORD,,

ursa_ai-0.2.7.dist-info/RECORD

@@ -1,26 +0,0 @@
-ursa/agents/__init__.py,sha256=fhuGhYRfOSJ5o2yxjOvdEqJFy2j-VWLDkhiNi3wYNRw,498
-ursa/agents/arxiv_agent.py,sha256=nLZ1huMREr-INSDv1RMmOM8a-DcLBjNBWLSi3oFI5hw,14274
-ursa/agents/base.py,sha256=kGbiGn8qu1eKQSv2Y9YZWEv8ngYsyUMTBkAxk8iD9R0,1334
-ursa/agents/code_review_agent.py,sha256=yVO7nzYI3o0k2HguFw3OSY1IrCy5W8V0YiriYAeviY4,11562
-ursa/agents/execution_agent.py,sha256=Hw7EZem8qYedXjeLi5RDPrPIhqlW1G-vE66MlZ7g1BY,16607
-ursa/agents/hypothesizer_agent.py,sha256=p3bLHyqsiGRwYS4nycYcwnpye2j1umWdaOYspGAFRU0,23309
-ursa/agents/mp_agent.py,sha256=Kv793S2x6gavdgBD68wxvTPNFKLDLyI0FSs8iXCkcVQ,9732
-ursa/agents/planning_agent.py,sha256=5KSRk_gDsUrv_6zSxd7CqXhhMCYtnlfNlxSI9tSbqzc,5422
-ursa/agents/recall_agent.py,sha256=UcNRZLbx3j3cHaLEZul4__KzWV4SnUhLTjX9GeoYbHM,823
-ursa/agents/websearch_agent.py,sha256=zDS4IF-WJgsvSmV42HEO582rt3zCh_fJjteh7VpSNe4,7715
-ursa/prompt_library/code_review_prompts.py,sha256=-HuhwW9W_p2LDn44bXLntxLADHCOyl-2KIXxRHto66w,2444
-ursa/prompt_library/execution_prompts.py,sha256=JBBmzVV0605uwFXNv0pxH0fXHqtmOgcDzabjpq3wt2A,2153
-ursa/prompt_library/hypothesizer_prompts.py,sha256=is1SpCbsUtsYsyWOFz3H6M4nCnfyOMPj2p0mOcaEucc,763
-ursa/prompt_library/literature_prompts.py,sha256=zhBiN3Q-1Z2hp-hkXXp0T8Ipc-6YUM9gw85DjNu1F6I,421
-ursa/prompt_library/planning_prompts.py,sha256=C8IfVc3ny_5-03bJZop2Yax7wfqS_UIdUGsTZSNQRC0,3534
-ursa/prompt_library/websearch_prompts.py,sha256=n4DJaYn_lIYAVtdy00CCJjT-dLWhn2JNipYqMJAotdY,8846
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