transformers safetensors llama text-generation medical text2text-generation en dataset:starmpcc/Asclepius-Synthetic-Clinical-Notes base_model:starmpcc/Asclepius-13B base_model:quantized:starmpcc/Asclepius-13B license:other autotrain_compatible text-generation-inference 4-bit gptq region:us
---
base_model: starmpcc/Asclepius-13B
datasets:
- starmpcc/Asclepius-Synthetic-Clinical-Notes
language:
- en
license: other
model_name: Asclepius 13B
pipeline_tag: text2text-generation
tags:
- medical
inference: false
model_creator: Junu Kim
model_link: https://huggingface.co/starmpcc/Asclepius-13B
model_type: llama
quantized_by: TheBloke
---

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# Asclepius 13B - GPTQ
- Model creator: [Junu Kim](https://huggingface.co/starmpcc)
- Original model: [Asclepius 13B](https://huggingface.co/starmpcc/Asclepius-13B)

<!-- description start -->
## Description

This repo contains GPTQ model files for [Junu Kim's Asclepius 13B](https://huggingface.co/starmpcc/Asclepius-13B).

Multiple GPTQ parameter permutations are provided; see Provided Files below for details of the options provided, their parameters, and the software used to create them.

<!-- description end -->
<!-- repositories-available start -->
## Repositories available

* [GPTQ models for GPU inference, with multiple quantisation parameter options.](https://huggingface.co/TheBloke/Asclepius-13B-GPTQ)
* [2, 3, 4, 5, 6 and 8-bit GGUF models for CPU+GPU inference](https://huggingface.co/TheBloke/Asclepius-13B-GGUF)
* [2, 3, 4, 5, 6 and 8-bit GGML models for CPU+GPU inference (deprecated)](https://huggingface.co/TheBloke/Asclepius-13B-GGML)
* [Junu Kim's original unquantised fp16 model in pytorch format, for GPU inference and for further conversions](https://huggingface.co/starmpcc/Asclepius-13B)
<!-- repositories-available end -->

<!-- prompt-template start -->
## Prompt template: Asclepius

```
You are an intelligent clinical languge model.
Below is a snippet of patient's discharge summary and a following instruction from healthcare professional.
Write a response that appropriately completes the instruction.
The response should provide the accurate answer to the instruction, while being concise.

[Discharge Summary Begin]
Notes go here
[Discharge Summary End]

[Instruction Begin]
{prompt}
[Instruction End] 

```

<!-- prompt-template end -->

<!-- README_GPTQ.md-provided-files start -->
## Provided files and GPTQ parameters

Multiple quantisation parameters are provided, to allow you to choose the best one for your hardware and requirements.

Each separate quant is in a different branch.  See below for instructions on fetching from different branches.

All GPTQ files are made with AutoGPTQ.

<details>
  <summary>Explanation of GPTQ parameters</summary>

- Bits: The bit size of the quantised model.
- GS: GPTQ group size. Higher numbers use less VRAM, but have lower quantisation accuracy. "None" is the lowest possible value.
- Act Order: True or False. Also known as `desc_act`. True results in better quantisation accuracy. Some GPTQ clients have had issues with models that use Act Order plus Group Size, but this is generally resolved now.
- Damp %: A GPTQ parameter that affects how samples are processed for quantisation. 0.01 is default, but 0.1 results in slightly better accuracy.
- GPTQ dataset: The dataset used for quantisation. Using a dataset more appropriate to the model's training can improve quantisation accuracy. Note that the GPTQ dataset is not the same as the dataset used to train the model - please refer to the original model repo for details of the training dataset(s).
- Sequence Length: The length of the dataset sequences used for quantisation. Ideally this is the same as the model sequence length. For some very long sequence models (16+K), a lower sequence length may have to be used.  Note that a lower sequence length does not limit the sequence length of the quantised model. It only impacts the quantisation accuracy on longer inference sequences.
- ExLlama Compatibility: Whether this file can be loaded with ExLlama, which currently only supports Llama models in 4-bit.

</details>

| Branch | Bits | GS | Act Order | Damp % | GPTQ Dataset | Seq Len | Size | ExLlama | Desc |
| ------ | ---- | -- | --------- | ------ | ------------ | ------- | ---- | ------- | ---- |
| [main](https://huggingface.co/TheBloke/Asclepius-13B-GPTQ/tree/main) | 4 | 128 | Yes | 0.1 | [Medical Meadow WikiDoc](https://huggingface.co/datasets/medalpaca/medical_meadow_wikidoc) | 2048 | 7.26 GB | Yes | Most compatible option. Good inference speed in AutoGPTQ and GPTQ-for-LLaMa. Lower inference quality than other options. | 
| [gptq-4bit-32g-actorder_True](https://huggingface.co/TheBloke/Asclepius-13B-GPTQ/tree/gptq-4bit-32g-actorder_True) | 4 | 32 | Yes | 0.1 | [Medical Meadow WikiDoc](https://huggingface.co/datasets/medalpaca/medical_meadow_wikidoc) | 2048 | 8.00 GB | Yes | 4-bit, with Act Order and group size 32g. Gives highest possible inference quality, with maximum VRAM usage. Poor AutoGPTQ CUDA speed. | 
| [gptq-8bit--1g-actorder_True](https://huggingface.co/TheBloke/Asclepius-13B-GPTQ/tree/gptq-8bit--1g-actorder_True) | 8 | None | Yes | 0.1 | [Medical Meadow WikiDoc](https://huggingface.co/datasets/medalpaca/medical_meadow_wikidoc) | 2048 | 13.36 GB | No | 8-bit, with Act Order. No group size, to lower VRAM requirements and to improve AutoGPTQ speed. | 
| [gptq-8bit-128g-actorder_True](https://huggingface.co/TheBloke/Asclepius-13B-GPTQ/tree/gptq-8bit-128g-actorder_True) | 8 | 128 | Yes | 0.1 | [Medical Meadow WikiDoc](https://huggingface.co/datasets/medalpaca/medical_meadow_wikidoc) | 2048 | 13.65 GB | No | 8-bit, with group size 128g for higher inference quality and with Act Order for even higher accuracy. Poor AutoGPTQ CUDA speed. |

<!-- README_GPTQ.md-provided-files end -->

<!-- README_GPTQ.md-download-from-branches start -->
## How to download from branches

- In text-generation-webui, you can add `:branch` to the end of the download name, eg `TheBloke/Asclepius-13B-GPTQ:gptq-4bit-32g-actorder_True`
- With Git, you can clone a branch with:
```
git clone --single-branch --branch gptq-4bit-32g-actorder_True https://huggingface.co/TheBloke/Asclepius-13B-GPTQ
```
- In Python Transformers code, the branch is the `revision` parameter; see below.
<!-- README_GPTQ.md-download-from-branches end -->
<!-- README_GPTQ.md-text-generation-webui start -->
## How to easily download and use this model in [text-generation-webui](https://github.com/oobabooga/text-generation-webui).

Please make sure you're using the latest version of [text-generation-webui](https://github.com/oobabooga/text-generation-webui).

It is strongly recommended to use the text-generation-webui one-click-installers unless you're sure you know how to make a manual install.

1. Click the **Model tab**.
2. Under **Download custom model or LoRA**, enter `TheBloke/Asclepius-13B-GPTQ`.
  - To download from a specific branch, enter for example `TheBloke/Asclepius-13B-GPTQ:gptq-4bit-32g-actorder_True`
  - see Provided Files above for the list of branches for each option.
3. Click **Download**.
4. The model will start downloading. Once it's finished it will say "Done".
5. In the top left, click the refresh icon next to **Model**.
6. In the **Model** dropdown, choose the model you just downloaded: `Asclepius-13B-GPTQ`
7. The model will automatically load, and is now ready for use!
8. If you want any custom settings, set them and then click **Save settings for this model** followed by **Reload the Model** in the top right.
  * Note that you do not need to set GPTQ parameters any more. These are set automatically from the file `quantize_config.json`.
9. Once you're ready, click the **Text Generation tab** and enter a prompt to get started!
<!-- README_GPTQ.md-text-generation-webui end -->

<!-- README_GPTQ.md-use-from-python start -->
## How to use this GPTQ model from Python code

### Install the necessary packages

Requires: Transformers 4.32.0 or later, Optimum 1.12.0 or later, and AutoGPTQ 0.4.2 or later.

```shell
pip3 install transformers>=4.32.0 optimum>=1.12.0
pip3 install auto-gptq --extra-index-url https://huggingface.github.io/autogptq-index/whl/cu118/  # Use cu117 if on CUDA 11.7
```

If you have problems installing AutoGPTQ using the pre-built wheels, install it from source instead:

```shell
pip3 uninstall -y auto-gptq
git clone https://github.com/PanQiWei/AutoGPTQ
cd AutoGPTQ
pip3 install .
```

### For CodeLlama models only: you must use Transformers 4.33.0 or later.

If 4.33.0 is not yet released when you read this, you will need to install Transformers from source:
```shell
pip3 uninstall -y transformers
pip3 install git+https://github.com/huggingface/transformers.git
```

### You can then use the following code

```python
from transformers import AutoModelForCausalLM, AutoTokenizer, pipeline
import torch

model_name_or_path = "TheBloke/Asclepius-13B-GPTQ"
# To use a different branch, change revision
# For example: revision="gptq-4bit-32g-actorder_True"
model = AutoModelForCausalLM.from_pretrained(model_name_or_path,
                                             torch_dtype=torch.float16,
                                             device_map="auto",
                                             revision="main")

tokenizer = AutoTokenizer.from_pretrained(model_name_or_path, use_fast=True)

prompt = "Tell me about AI"
prompt_template=f'''You are an intelligent clinical languge model.
Below is a snippet of patient's discharge summary and a following instruction from healthcare professional.
Write a response that appropriately completes the instruction.
The response should provide the accurate answer to the instruction, while being concise.

[Discharge Summary Begin]
Notes go here
[Discharge Summary End]

[Instruction Begin]
{prompt}
[Instruction End] 

'''

print("\n\n*** Generate:")

input_ids = tokenizer(prompt_template, return_tensors='pt').input_ids.cuda()
output = model.generate(inputs=input_ids, temperature=0.7, max_new_tokens=512)
print(tokenizer.decode(output[0]))

# Inference can also be done using transformers' pipeline

print("*** Pipeline:")
pipe = pipeline(
    "text-generation",
    model=model,
    tokenizer=tokenizer,
    max_new_tokens=512,
    temperature=0.7,
    top_p=0.95,
    repetition_penalty=1.15
)

print(pipe(prompt_template)[0]['generated_text'])
```
<!-- README_GPTQ.md-use-from-python end -->

<!-- README_GPTQ.md-compatibility start -->
## Compatibility

The files provided are tested to work with AutoGPTQ, both via Transformers and using AutoGPTQ directly. They should also work with [Occ4m's GPTQ-for-LLaMa fork](https://github.com/0cc4m/KoboldAI).

[ExLlama](https://github.com/turboderp/exllama) is compatible with Llama models in 4-bit. Please see the Provided Files table above for per-file compatibility.

[Huggingface Text Generation Inference (TGI)](https://github.com/huggingface/text-generation-inference) is compatible with all GPTQ models.
<!-- README_GPTQ.md-compatibility end -->

<!-- footer start -->
<!-- 200823 -->
## Discord

For further support, and discussions on these models and AI in general, join us at:

[TheBloke AI's Discord server](https://discord.gg/theblokeai)

## Thanks, and how to contribute.

Thanks to the [chirper.ai](https://chirper.ai) team!

I've had a lot of people ask if they can contribute. I enjoy providing models and helping people, and would love to be able to spend even more time doing it, as well as expanding into new projects like fine tuning/training.

If you're able and willing to contribute it will be most gratefully received and will help me to keep providing more models, and to start work on new AI projects.

Donaters will get priority support on any and all AI/LLM/model questions and requests, access to a private Discord room, plus other benefits.

* Patreon: https://patreon.com/TheBlokeAI
* Ko-Fi: https://ko-fi.com/TheBlokeAI

**Special thanks to**: Aemon Algiz.

**Patreon special mentions**: Russ Johnson, J, alfie_i, Alex, NimbleBox.ai, Chadd, Mandus, Nikolai Manek, Ken Nordquist, ya boyyy, Illia Dulskyi, Viktor Bowallius, vamX, Iucharbius, zynix, Magnesian, Clay Pascal, Pierre Kircher, Enrico Ros, Tony Hughes, Elle, Andrey, knownsqashed, Deep Realms, Jerry Meng, Lone Striker, Derek Yates, Pyrater, Mesiah Bishop, James Bentley, Femi Adebogun, Brandon Frisco, SuperWojo, Alps Aficionado, Michael Dempsey, Vitor Caleffi, Will Dee, Edmond Seymore, usrbinkat, LangChain4j, Kacper Wikieł, Luke Pendergrass, John Detwiler, theTransient, Nathan LeClaire, Tiffany J. Kim, biorpg, Eugene Pentland, Stanislav Ovsiannikov, Fred von Graf, terasurfer, Kalila, Dan Guido, Nitin Borwankar, 阿明, Ai Maven, John Villwock, Gabriel Puliatti, Stephen Murray, Asp the Wyvern, danny, Chris Smitley, ReadyPlayerEmma, S_X, Daniel P. Andersen, Olakabola, Jeffrey Morgan, Imad Khwaja, Caitlyn Gatomon, webtim, Alicia Loh, Trenton Dambrowitz, Swaroop Kallakuri, Erik Bjäreholt, Leonard Tan, Spiking Neurons AB, Luke @flexchar, Ajan Kanaga, Thomas Belote, Deo Leter, RoA, Willem Michiel, transmissions 11, subjectnull, Matthew Berman, Joseph William Delisle, David Ziegler, Michael Davis, Johann-Peter Hartmann, Talal Aujan, senxiiz, Artur Olbinski, Rainer Wilmers, Spencer Kim, Fen Risland, Cap'n Zoog, Rishabh Srivastava, Michael Levine, Geoffrey Montalvo, Sean Connelly, Alexandros Triantafyllidis, Pieter, Gabriel Tamborski, Sam, Subspace Studios, Junyu Yang, Pedro Madruga, Vadim, Cory Kujawski, K, Raven Klaugh, Randy H, Mano Prime, Sebastain Graf, Space Cruiser


Thank you to all my generous patrons and donaters!

And thank you again to a16z for their generous grant.

<!-- footer end -->

# Original model card: Junu Kim's Asclepius 13B

# Model Card for Model ID

<!-- Provide a quick summary of what the model is/does. -->

This is official model checkpoint for Asclepius-13B [arxiv](todo)
This model is the first publicly shareable clinical LLM, trained with synthetic data.

## Model Details

### Model Description

<!-- Provide a longer summary of what this model is. -->



- **Model type:** Clinical LLM (Large Language Model)
- **Language(s) (NLP):** English
- **License:** CC-BY-NC-SA 4.0
- **Finetuned from model [optional]:** LLaMA-13B

### Model Sources [optional]

<!-- Provide the basic links for the model. -->

- **Repository:** https://github.com/starmpcc/Asclepius
- **Paper [optional]:** TODO Arxiv
- **Data:** https://huggingface.co/datasets/starmpcc/Asclepius-Synthetic-Clinical-Notes

## Uses

<!-- Address questions around how the model is intended to be used, including the foreseeable users of the model and those affected by the model. -->
This model can perform below 8 clinical NLP tasks, with clincal notes.
- Named Entity Recognition
- Abbreviation Expansion
- Relation Extraction
- Temporal Information Extraction
- Coreference Resolution
- Paraphrasing
- Summarization
- Question Answering

### Direct Use

<!-- This section is for the model use without fine-tuning or plugging into a larger ecosystem/app. -->

[More Information Needed]

### Downstream Use [optional]

<!-- This section is for the model use when fine-tuned for a task, or when plugged into a larger ecosystem/app -->

[More Information Needed]

### Out-of-Scope Use

<!-- This section addresses misuse, malicious use, and uses that the model will not work well for. -->

ONLY USE THIS MODEL FOR RESEARCH PURPOSE!!

## How to Get Started with the Model

```python
prompt = """You are an intelligent clinical languge model.
Below is a snippet of patient's discharge summary and a following instruction from healthcare professional.
Write a response that appropriately completes the instruction.
The response should provide the accurate answer to the instruction, while being concise.

[Discharge Summary Begin]
{note}
[Discharge Summary End]

[Instruction Begin]
{question}
[Instruction End] 
"""

from transformers import AutoTokenizer, AutoModel
tokenizer = AutoTokenizer.from_pretrained("starmpcc/Asclepius-13B")
model = AutoModel.from_pretrained("starmpcc/Asclepius-13B")

note = "This is a sample note"
question = "What is the diagnosis?"

model_input = prompt.format(note=note, question=question)
input_ids = tokenizer(model_input, return_tensors="pt").input_ids
output = model.generate(input_ids)
print(tokenizer.decode(output[0]))
```

## Training Details

### Training Data

<!-- This should link to a Data Card, perhaps with a short stub of information on what the training data is all about as well as documentation related to data pre-processing or additional filtering. -->

https://huggingface.co/datasets/starmpcc/Asclepius-Synthetic-Clinical-Notes

### Training Procedure 

<!-- This relates heavily to the Technical Specifications. Content here should link to that section when it is relevant to the training procedure. -->
- Initial training was conducted using causal language modeling on synthetic clinical notes.
- It was then fine-tuned with clinical instruction-response pairs.
- For a comprehensive overview of our methods, our upcoming paper will serve as a resource.

#### Training Hyperparameters

- We followed config used in [Stanford Alpaca](https://github.com/tatsu-lab/stanford_alpaca)
- 
#### Speeds, Sizes, Times [optional]

<!-- This section provides information about throughput, start/end time, checkpoint size if relevant, etc. -->
- Pre-Training (1 epoch): 1h 52m with 8x A100 80G
- Instruction Fine-Tuning (3 epoch): 12h 16m with 8x A100 80G



## Citation [optional]

<!-- If there is a paper or blog post introducing the model, the APA and Bibtex information for that should go in this section. -->

**BibTeX:**

[More Information Needed]

**APA:**

[More Information Needed]



