import gradio as gr from mammal_demo.demo_framework import ( ModelRegistry, TaskRegistry, ) from mammal_demo.dti_task import DtiTask from mammal_demo.ppi_task import PpiTask from mammal_demo.ps_task import PsTask from mammal_demo.tcr_task import TcrTask MAIN_MARKDOWN_TEXT = """ The **[ibm/biomed.omics.bl.sm.ma-ted-458m](https://huggingface.co/models?sort=trending&search=ibm%2Fbiomed.omics.bl)** model family is a biomedical foundation model and its finetuned variants trained on over 2 billion biological samples across multiple modalities, including proteins, small molecules, and single-cell gene data. Designed for robust performance, it achieves state-of-the-art results over a variety of tasks across the entire drug discovery pipeline and the diverse biomedical domains. Based on the **M**olecular **A**ligned **M**ulti-**M**odal **A**rchitecture and **L**anguage (**MAMMAL**), a flexible, multi-domain architecture with an adaptable task prompt syntax. The syntax allows for dynamic combinations of tokens and scalars, enabling classification, regression, and generation tasks either within a single domain or with cross-domain entities. This page demonstraits a variety of drug discovery and biomedical tasks for the model family. Select the task to access the specific demos. """ all_tasks = TaskRegistry() all_models = ModelRegistry() # first create the required tasks # Note that the tasks need access to the models, as the model to use depends on the state of the widget # we pass the all_models dict and update it when we actualy have the models. ppi_task = all_tasks.register_task(PpiTask(model_dict=all_models)) tdi_task = all_tasks.register_task(DtiTask(model_dict=all_models)) ps_task = all_tasks.register_task(PsTask(model_dict=all_models)) tcr_task = all_tasks.register_task(TcrTask(model_dict=all_models)) # create the model holders. hold the model and the tokenizer, lazy download # note that the list of relevent tasks needs to be stated. all_models.register_model( model_path="ibm/biomed.omics.bl.sm.ma-ted-458m.dti_bindingdb_pkd", task_list=[tdi_task], ) all_models.register_model( model_path="ibm/biomed.omics.bl.sm.ma-ted-458m.tcr_epitope_bind", task_list=[tcr_task], ) all_models.register_model( model_path="ibm/biomed.omics.bl.sm.ma-ted-458m.protein_solubility", task_list=[ps_task], ) all_models.register_model( model_path="ibm/biomed.omics.bl.sm.ma-ted-458m", task_list=[ppi_task], ) all_models.register_model( "ibm/biomed.omics.bl.sm.ma-ted-458m.moleculenet_clintox_tox" ) all_models.register_model( "ibm/biomed.omics.bl.sm.ma-ted-458m.moleculenet_clintox_fda" ) all_models.register_model( "ibm/biomed.omics.bl.sm.ma-ted-458m.moleculenet_bbbp" ) def create_application(): def task_change(value): visibility = [gr.update(visible=(task == value)) for task in all_tasks.keys()] choices = [ model_name for model_name, model in all_models.items() if value in model.tasks ] if choices: return ( gr.update(choices=choices, value=choices[0], visible=True), *visibility, ) else: return (gr.update(visible=False, value=None), *visibility) def model_change(value): return gr.update( value=f'[🤗to model](https://huggingface.co/{value})', visible=value is not None, ) with gr.Blocks(theme="Zarkel/IBM_Carbon_Theme") as application: application_main_markdown=gr.Markdown(MAIN_MARKDOWN_TEXT, visible=True) task_dropdown = gr.Dropdown( choices=["Select task"] + list(all_tasks.keys()), label="Mammal Task", ) task_dropdown.interactive = True with gr.Row(): model_name_dropdown = gr.Dropdown( choices=[ model_name for model_name, model in all_models.items() if task_dropdown.value in model.tasks ], interactive=True, label="Matching Mammal models", visible=False, scale=10, ) goto_card_button = gr.Markdown( "Link to model card", visible=False, ) def echo(value): print(value) return value # goto_card_button.click( # fn=None, # inputs=model_name_dropdown, # js=f"(model_name_dropdown) => {{ window.open('https://huggingface.co/{model_name_dropdown}', '_blank') }}", # ) model_name_dropdown.change( model_change, inputs=[model_name_dropdown], outputs=[goto_card_button] ) task_dropdown.change( task_change, inputs=[task_dropdown], outputs=[model_name_dropdown] + [ all_tasks[task].demo(model_name_widgit=model_name_dropdown) for task in all_tasks ], ) return application full_demo = None def main(): global full_demo full_demo = create_application() full_demo.launch(show_error=True, share=False) # full_demo.launch(show_error=True, share=True) if __name__ == "__main__": main()