update AIDO.ModelGenerator description, remove direct dependencies fo…

…r pypi release
genbio-ai · Dec 10, 2024 · 71a8272 · 71a8272
1 parent 2c51897
commit 71a8272
Show file tree

Hide file tree

Showing 4 changed files with 10 additions and 10 deletions.
diff --git a/README.md b/README.md
@@ -167,4 +167,4 @@ Make sure to turn off `strict_loading` to replace the adapter!
 ```
 mgen fit --model SequenceClassification --data GUEClassification \
   --model.use_legacy_adapter true
-```
+```
diff --git a/docs/docs/index.md b/docs/docs/index.md
@@ -1,8 +1,10 @@
 # Introduction
 
-AIDO.ModelGenerator is an opinionated plug-and-play research framework for cross-disciplinary teams in ML & Bio.
+AIDO.ModelGenerator is a software stack for adapting pretrained models and generating downstream task models in an AI-driven Digitial Organism (AIDO). 
+To read more about AIDO.ModelGenerator's integral role in building the world's first AI-driven Digital Organism, see [AIDO](https://github.com/genbio-ai/AIDO).
 
-AIDO.ModelGenerator is designed to enable rapid and reproducible prototyping with four kinds of experiments in mind:
+AIDO.ModelGenerator is open-sourced as an opinionated plug-and-play research framework for cross-disciplinary teams in ML & Bio. 
+It is designed to enable rapid and reproducible prototyping with four kinds of experiments in mind:
 
 1. Applying pre-trained foundation models to new data
 2. Developing new finetuning and inference tasks for foundation models
@@ -13,8 +15,6 @@ while also scaling with hardware and integrating with larger data pipelines or r
 
 AIDO.ModelGenerator is built on PyTorch, HuggingFace, and Lightning, and works seamlessly with these ecosystems.
 
-To read about how AIDO.ModelGenerator facilitates the development of an AI-driven Digital Organism, see [AIDO](https://github.com/genbio-ai/AIDO).
-
 ## Who uses AIDO.ModelGenerator?
 
 ### 🧬 Biologists 

diff --git a/docs/mkdocs.yml b/docs/mkdocs.yml
@@ -1,7 +1,7 @@
 site_name: AIDO.ModelGenerator
 site_url: https://genbio-ai.github.io/ModelGenerator/
 site_author: GenBio AI
-site_description: AIDO.ModelGenerator is an opinionated plug-and-play research framework for cross-disciplinary teams in ML & Bio.
+site_description: AIDO.ModelGenerator is a software stack for adapting pretrained models and generating downstream task models in an AI-driven Digitial Organism (AIDO).
 copyright: All rights reserved &copy; 2024-Present, GenBio AI
 
 repo_name: AIDO.ModelGenerator

diff --git a/pyproject.toml b/pyproject.toml
@@ -4,8 +4,8 @@ build-backend = "hatchling.build"
 
 [project]
 name = "modelgenerator"
-version = "0.1.1-1"
-description = "AIDO.ModelGenerator is an opinionated plug-and-play research framework for cross-disciplinary teams in ML & Bio"
+version = "0.1.0"
+description = "AIDO.ModelGenerator is a software stack for adapting pretrained models and generating downstream task models in an AI-driven Digitial Organism (AIDO)."
 readme = "README.md"
 authors = [
     { name = "GenBio AI" },
@@ -41,8 +41,8 @@ dependencies = [
     "black",
     "jsonargparse[signatures]>=4.26.1",
     "awscli",
-    "openfold @ git+https://github.com/genbio-ai/openfold.git@c4aa2fd0d920c06d3fd80b177284a22573528442",
-    "dllogger @ git+https://github.com/NVIDIA/dllogger.git@0540a43971f4a8a16693a9de9de73c1072020769",
+    # "openfold @ git+https://github.com/genbio-ai/openfold.git@c4aa2fd0d920c06d3fd80b177284a22573528442",
+    # "dllogger @ git+https://github.com/NVIDIA/dllogger.git@0540a43971f4a8a16693a9de9de73c1072020769",
     "biotite>=1.0.1",
     "einops>=0.8.0",
     "ml-collections>=1.0.0",
-Original file line number
+Diff line change
@@ Expand Up @@
     ```
     mgen fit --model SequenceClassification --data GUEClassification \
       --model.use_legacy_adapter true
-    ```
+    ```