aiagents4pharma 1.46.4__tar.gz → 1.46.5__tar.gz

{aiagents4pharma-1.46.4 → aiagents4pharma-1.46.5}/PKG-INFO

@@ -1,6 +1,6 @@
 Metadata-Version: 2.4
 Name: aiagents4pharma
-Version: 1.46.4
+Version: 1.46.5
 Summary: AI Agents for drug discovery, drug development, and other pharmaceutical R&D.
 License-File: LICENSE
 Classifier: License :: OSI Approved :: MIT License

{aiagents4pharma-1.46.4 → aiagents4pharma-1.46.5}/aiagents4pharma/talk2aiagents4pharma/install.md

@@ -11,10 +11,6 @@ If your machine has NVIDIA GPU(s), please install the following this:
 
 _This agent is available on Docker Hub._
 
-**Prerequisites**
-
-- [Milvus](https://milvus.io) (for a vector database)
-
 ---
 
 #### 1. Download files
@@ -61,7 +57,7 @@ MILVUS_HOST=localhost
 MILVUS_PORT=19530
 MILVUS_USER=root
 MILVUS_PASSWORD=Milvus
-MILVUS_DATABASE=your_database_name_here
+MILVUS_DATABASE=t2kg_primekg
 
 # Specify the data directory for multimodal data to your own data directory
 # DATA_DIR=/your_absolute_path_to_your_data_dir/

{aiagents4pharma-1.46.4 → aiagents4pharma-1.46.5}/aiagents4pharma/talk2knowledgegraphs/install.md

@@ -22,12 +22,6 @@ If your machine has NVIDIA GPU(s), please install the following this:
 
 _This agent is available on Docker Hub._
 
-**Prerequisites**
-
-- If your machine has NVIDIA GPU(s), please install [nvidia-container-toolkit](https://docs.nvidia.com/datacenter/cloud-native/container-toolkit/1.17.8/install-guide.html) (required for GPU support with Docker; enables containers to access NVIDIA GPUs for accelerated computing). After installing `nvidia-container-toolkit`, please restart Docker to ensure GPU support is enabled.
-
-- [Milvus](https://milvus.io) (for a vector database)
-
 ---
 
 #### 1. Download files
@@ -74,7 +68,7 @@ MILVUS_HOST=localhost
 MILVUS_PORT=19530
 MILVUS_USER=root
 MILVUS_PASSWORD=Milvus
-MILVUS_DATABASE=your_database_name_here
+MILVUS_DATABASE=t2kg_primekg
 
 # Specify the data directory for multimodal data to your own data directory
 # DATA_DIR=/your_absolute_path_to_your_data_dir/

{aiagents4pharma-1.46.4 → aiagents4pharma-1.46.5}/app/frontend/streamlit_app_talk2aiagents4pharma.py

@@ -213,7 +213,7 @@ with main_col1:
 
         # Help text
         st.button(
-            "Know more ↗",
+            "How to use this application ↗",
             #   icon="ℹ️",
             on_click=streamlit_utils.help_button,
             use_container_width=False,

{aiagents4pharma-1.46.4 → aiagents4pharma-1.46.5}/app/frontend/utils/streamlit_utils.py

@@ -1513,78 +1513,20 @@ def update_t2kg_embedding_model():
     )
 
 
-@st.dialog("Get started with Talk2Biomodels 🚀")
+@st.dialog("How to use this application 🚀")
 def help_button():
     """
     Function to display the help dialog.
     """
     st.markdown(
-        """I am an AI agent designed to assist you with biological
-modeling and simulations. I can assist with tasks such as:
-1. Search specific models in the BioModels database.
+        """**FAQs**
+- Talk2KnowledgeGraphs: [click here](https://virtualpatientengine.github.io/AIAgents4Pharma/talk2knowledgegraphs/faq/)
+- Talk2Biomodels: [click here](https://virtualpatientengine.github.io/AIAgents4Pharma/talk2biomodels/faq/)
 
-```
-Search models on Crohns disease
-```
-
-2. Extract information about models, including species, parameters, units,
-name and descriptions.
-
-```
-Briefly describe model 537 and
-its parameters related to drug dosage
-```
-
-3. Simulate models:
-    - Run simulations of models to see how they behave over time.
-    - Set the duration and the interval.
-    - Specify which species/parameters you want to include and their starting concentrations/values.
-    - Include recurring events.
-
-```
-Simulate the model 537 for 2016 hours and
-intervals 300 with an initial value
-of `DoseQ2W` set to 300 and `Dose` set to 0.
-```
-
-4. Answer questions about simulation results.
-
-```
-What is the concentration of species IL6 in serum
-at the end of simulation?
-```
-
-5. Create custom plots to visualize the simulation results.
-
-```
-Plot the concentration of all
-the interleukins over time.
-```
-
-6. Bring a model to a steady state and determine the concentration of a species at the steady state.
-
-```
-Bring BioModel 27 to a steady state,
-and then determine the Mpp concentration
-at the steady state.
-```
-
-7. Perform parameter scans to determine the effect of changing parameters on the model behavior.
-
-```
-How does the value of Pyruvate change in
-model 64 if the concentration of Extracellular Glucose
-is changed from 10 to 100 with a step size of 10?
-The simulation should run for 5 time units with an
-interval of 10.
-```
-
-8. Check out the [Use Cases](https://virtualpatientengine.github.io/AIAgents4Pharma/talk2biomodels/cases/Case_1/)
-for more examples, and the [FAQs](https://virtualpatientengine.github.io/AIAgents4Pharma/talk2biomodels/faq/)
-for common questions.
-
-9. Provide feedback to the developers by clicking on the feedback button.
+**Video**
+- [Watch the app overview](https://www.youtube.com/watch?v=3cU_OxY4HiE)
 
+[![Watch the app overview](https://img.youtube.com/vi/3cU_OxY4HiE/0.jpg)](https://www.youtube.com/watch?v=3cU_OxY4HiE)
 """
     )
 

{aiagents4pharma-1.46.4 → aiagents4pharma-1.46.5}/package-lock.json

@@ -10,7 +10,7 @@
 				"@semantic-release/github": "^11.0.1",
 				"semantic-release": "^24.0.0"
 			},
-			"version": "1.46.4"
+			"version": "1.46.5"
 		},
 		"node_modules/@babel/code-frame": {
 			"version": "7.26.2",
@@ -10955,5 +10955,5 @@
 			"dev": true
 		}
 	},
-	"version": "1.46.4"
+	"version": "1.46.5"
 }

{aiagents4pharma-1.46.4 → aiagents4pharma-1.46.5}/package.json

@@ -26,5 +26,5 @@
 			]
 		]
 	},
-	"version": "1.46.4"
+	"version": "1.46.5"
 }

{aiagents4pharma-1.46.4 → aiagents4pharma-1.46.5}/pyproject.toml

@@ -85,7 +85,7 @@ dependencies = [
   "cloudscraper==1.2.71",
   "azure-identity==1.24.0",
 ]
-version = "1.46.4"
+version = "1.46.5"
 
 [project.optional-dependencies]
 dev = [
@@ -133,7 +133,7 @@ extension-pkg-allow-list = ["pcst_fast"]
 disable = ["R0801", "R0902", "W0221", "W0122"]
 
 [tool.ruff]
-target-version = "1.46.4"
+target-version = "1.46.5"
 line-length = 100
 
 [tool.ruff.lint]
@@ -155,7 +155,7 @@ ignore = [
 "__init__.py" = ["F401"]
 
 [tool.mypy]
-python_version = "1.46.4"
+python_version = "1.46.5"
 warn_return_any = true
 warn_unused_configs = true
 disallow_untyped_defs = true