tasks and metrics for Biomedicine from lmj

.github/CODEOWNERS

@@ -0,0 +1 @@
+* @andrew-openai @rlbayes @jwang47 @logankilpatrick @etr2460 @katyhshi

.github/PULL_REQUEST_TEMPLATE.md

@@ -1,9 +1,19 @@
 # Thank you for contributing an eval! ♥️
 
-🚨 Please make sure your PR follows these guidelines, __failure to follow the guidelines below will result in the PR being closed automatically__. Note that even if the criteria are met, that does not guarantee the PR will be merged nor GPT-4 access granted. 🚨
+🚨 Please make sure your PR follows these guidelines, **failure to follow the guidelines below will result in the PR being closed automatically**. Note that even if the criteria are met, that does not guarantee the PR will be merged nor GPT-4 access be granted. 🚨
+
+**PLEASE READ THIS**:
+
+In order for a PR to be merged, it must fail on GPT-4. We are aware that right now, users do not have access, so you will not be able to tell if the eval fails or not. Please run your eval with GPT-3.5-Turbo, but keep in mind as we run the eval, if GPT-4 gets higher than 90% on the eval, we will likely reject it since GPT-4 is already capable of completing the task.
+
+We plan to roll out a way for users submitting evals to see the eval performance on GPT-4 soon. Stay tuned! Until then, you will not be able to see the eval performance on GPT-4. **Starting April 10, the minimum eval count is 15 samples, we hope this makes it easier to create and contribute evals.**
+
+Also, please note that we're using **Git LFS** for storing the JSON files, so please make sure that you move the JSON file to Git LFS before submitting a PR. Details on how to use Git LFS are available [here](https://git-lfs.com).
 
 ## Eval details 📑
+
 ### Eval name
+
 [Insert Eval name here]
 
 ### Eval description
@@ -20,10 +30,10 @@ Below are some of the criteria we look for in a good eval. In general, we are se
 
 Your eval should be:
 
-- [ ] Thematically consistent: The eval should be thematically consistent. We'd like to see a number of prompts all demonstrating some particular failure mode. For example, we can  create an eval on cases where the model fails to reason about the physical world.
+- [ ] Thematically consistent: The eval should be thematically consistent. We'd like to see a number of prompts all demonstrating some particular failure mode. For example, we can create an eval on cases where the model fails to reason about the physical world.
 - [ ] Contains failures where a human can do the task, but either GPT-4 or GPT-3.5-Turbo could not.
 - [ ] Includes good signal around what is the right behavior. This means either a correct answer for `Basic` evals or the `Fact` Model-graded eval, or an exhaustive rubric for evaluating answers for the `Criteria` Model-graded eval.
-- [ ] Include at least 100 high quality examples
+- [ ] **Include at least 15 high-quality examples.**
 
 If there is anything else that makes your eval worth including, please document it below.
 
@@ -34,8 +44,9 @@ If there is anything else that makes your eval worth including, please document
 ## Eval structure 🏗️
 
 Your eval should
+
 - [ ] Check that your data is in `evals/registry/data/{name}`
-- [ ] Check that your yaml is registered at `evals/registry/evals/{name}.jsonl`
+- [ ] Check that your YAML is registered at `evals/registry/evals/{name}.yaml`
 - [ ] Ensure you have the right to use the data you submit via this eval
 
 (For now, we will only be approving evals that use one of the existing eval classes. You may still write custom eval classes for your own cases, and we may consider merging them in the future.)
@@ -44,25 +55,39 @@ Your eval should
 
 ### Submission agreement
 
-By contributing to Evals, you are agreeing to make your evaluation logic and data under the same MIT license as this repository. You must have adequate rights to upload any data used in an Eval. OpenAI reserves the right to use this data in future service improvements to our product. Contributions to OpenAI Evals will be subject to our usual Usage Policies (https://platform.openai.com/docs/usage-policies).
+By contributing to Evals, you are agreeing to make your evaluation logic and data under the same MIT license as this repository. You must have adequate rights to upload any data used in an Eval. OpenAI reserves the right to use this data in future service improvements to our product. Contributions to OpenAI Evals will be subject to our usual Usage Policies (<https://platform.openai.com/docs/usage-policies>).
 
 - [ ] I agree that my submission will be made available under an MIT license and complies with OpenAI's usage policies.
 
 ### Email address validation
 
-If your submission is accepted, we will be granting GPT-4 access to a limited number of contributors. Access will be given to the email address associated with the merged pull request.
+If your submission is accepted, we will be granting GPT-4 access to a limited number of contributors. Access will be given to the email address associated with the commits on the merged pull request.
 
 - [ ] I acknowledge that GPT-4 access will only be granted, if applicable, to the email address used for my merged pull request.
 
-### Limited availability acknowledgement
+### Limited availability acknowledgment
 
-We know that you might be excited to contribute to OpenAI's mission, help improve our models, and gain access to GPT-4. However, due to the requirements mentioned above and high volume of submissions, we will not be able to accept all submissions and thus not grant everyone who opens a PR GPT-4 access. We know this is disappointing, but we hope to set the right expectation before you open this PR.
+We know that you might be excited to contribute to OpenAI's mission, help improve our models, and gain access to GPT-4. However, due to the requirements mentioned above and the high volume of submissions, we will not be able to accept all submissions and thus not grant everyone who opens a PR GPT-4 access. We know this is disappointing, but we hope to set the right expectation before you open this PR.
 
-- [ ] I understand that opening a PR, even if it meets the requirements above, does not guarantee the PR will be merged nor GPT-4 access granted.
+- [ ] I understand that opening a PR, even if it meets the requirements above, does not guarantee the PR will be merged nor GPT-4 access be granted.
 
 ### Submit eval
 
-- [ ] I have filled out all required fields in the evals PR form
-- [ ] (Ignore if not submitting code) I have run `pip install pre-commit; pre-commit install` and have verified that `black`, `isort`, and `autoflake` are running when I commit and push
+- [ ] I have filled out all required fields of this form
+- [ ] I have used **Git LFS** for the Eval JSON data
+- [ ] (Ignore if not submitting code) I have run `pip install pre-commit; pre-commit install` and have verified that `mypy`, `black`, `isort`, `autoflake` and `ruff` are running when I commit and push
 
 Failure to fill out all required fields will result in the PR being closed.
+
+### Eval JSON data
+
+Since we are using Git LFS, we are asking eval submitters to add in as many Eval Samples (at least 5) from their contribution here:
+
+<details>
+  <summary>View evals in JSON</summary>
+
+  ### Eval
+  ```jsonl
+  INSERT_EVAL_HERE
+  ```
+</details>

.github/workflows/parse_yaml.py

@@ -0,0 +1,15 @@
+import sys
+
+import yaml
+
+
+def get_first_key(file_path):
+    with open(file_path, "r") as yaml_file:
+        content = yaml.safe_load(yaml_file)
+        first_key = next(iter(content))
+        return first_key
+
+
+if __name__ == "__main__":
+    yaml_file_path = sys.argv[1]
+    print(get_first_key(yaml_file_path))

.github/workflows/run_tests.yaml

@@ -0,0 +1,38 @@
+name: Run unit tests
+
+on:
+  pull_request:
+    branches:
+      - main
+  push:
+    branches:
+      - main
+
+jobs:
+  check_files:
+    runs-on: ubuntu-latest
+
+    steps:
+    - name: Checkout repository
+      uses: actions/checkout@v2
+      with:
+        fetch-depth: 0
+        lfs: true
+
+    - name: Set up Python
+      uses: actions/setup-python@v2
+      with:
+        python-version: 3.9
+
+    - name: Install dependencies
+      run: |
+        python -m pip install --upgrade pip
+        pip install pyyaml
+        pip install pytest
+        pip install -e .
+
+    - name: Run unit tests
+      env:
+        OPENAI_API_KEY: ${{ secrets.OPENAI_API_KEY }}
+      run: |
+        pytest

.github/workflows/test_eval.yaml

@@ -0,0 +1,59 @@
+name: Run new evals
+
+on:
+  workflow_dispatch:
+  pull_request:
+    branches:
+      - main
+    paths:
+      - 'evals/registry/**'
+
+jobs:
+  check_files:
+    runs-on: ubuntu-latest
+
+    steps:
+    - name: Checkout repository
+      uses: actions/checkout@v2
+      with:
+        fetch-depth: 0
+        lfs: true
+
+    - name: Install Git LFS
+      run: |
+        sudo apt-get install git-lfs
+        git lfs install
+
+    - name: Set up Python
+      uses: actions/setup-python@v2
+      with:
+        python-version: 3.9
+
+    - name: Install dependencies
+      run: |
+        python -m pip install --upgrade pip
+        pip install pyyaml
+        pip install -e .
+
+    - name: Get list of new YAML files in evals/registry/evals
+      id: get_files
+      run: |
+        # Use environment files to store the output
+        git diff --name-only --diff-filter=A ${{ github.event.pull_request.base.sha }} ${{ github.sha }} | grep '^evals/registry/evals/.*\.yaml$' | xargs > new_files
+        echo "new_files=$(cat new_files)" >> $GITHUB_ENV
+
+    - name: Run oaieval command for each new YAML file
+      env:
+        OPENAI_API_KEY: ${{ secrets.OPENAI_API_KEY }}
+      run: |
+        files="${{ env.new_files }}"
+        if [ -n "$files" ]; then
+          for file in $files; do
+            echo "Processing $file"
+            first_key=$(python .github/workflows/parse_yaml.py $file)
+            echo "Eval Name: $first_key"
+            oaieval dummy $first_key --max_samples 10
+          done
+        else
+          echo "No new YAML files found in evals/registry/evals"
+        fi

.gitignore

@@ -1,2 +1,30 @@
 __pycache__/
 evals.egg-info/
+
+.venv/
+venv/
+
+# MacOS folder metadata
+.DS_Store
+.vscode/
+
+# PyCharm folder metadata
+.idea/
+
+build
+
+openai-key.txt
+*.code-workspace
+
+# Ignore run_experiments.sh results
+evals/elsuite/**/logs/
+evals/elsuite/**/outputs/
+
+#Ignore the large model
+scripts/model/GoogleNews_vectors_negative300.bin
+scripts/model/GoogleNews-vectors-negative300.bin.gz
+scripts/metrics/GoogleNews-vectors-negative300.bin.gz
+
+raw_data
+
+wandb/**/*

.pre-commit-config.yaml

@@ -1,4 +1,10 @@
 repos:
+  - repo: https://github.com/pre-commit/mirrors-mypy
+    rev: 'v1.3.0'
+    hooks:
+      - id: mypy
+        args: ["--config-file=mypy.ini", "--no-site-packages"]
+
   - repo: https://github.com/psf/black
     rev: 22.8.0
     hooks:
@@ -27,3 +33,12 @@ repos:
           - "--remove-unused-variables"
           - "--remove-all-unused-imports"
         exclude: "evals/__init__.py"
+
+  # This allows ruff to run and autofix the code
+  # The line length is so high because some of the evals are very long
+  # TODO: fix the evals and then reduce the line length here
+  - repo: https://github.com/astral-sh/ruff-pre-commit
+    rev: v0.0.277
+    hooks:
+      - id: ruff
+        args: [--fix, --exit-non-zero-on-fix, --line-length=767]

LICENSE.md

@@ -0,0 +1,95 @@
+MIT License
+
+Copyright (c) 2023 OpenAI
+
+Permission is hereby granted, free of charge, to any person obtaining a copy
+of this software and associated documentation files (the "Software"), to deal
+in the Software without restriction, including without limitation the rights
+to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
+copies of the Software, and to permit persons to whom the Software is
+furnished to do so, subject to the following conditions:
+
+The above copyright notice and this permission notice shall be included in all
+copies or substantial portions of the Software.
+
+THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
+IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
+FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
+AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
+LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
+OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
+SOFTWARE.
+
+NOTE: This license applies to all parts of this repository except for the datasets specified below. See the respective datasets for their individual licenses.
+
+### Dataset Licenses
+
+#### Text Compression
+- **Location**: evals/registry/data/text_compression
+- **Components**:
+    - **c4**:
+        - **License**: Open Data Commons Attribution License: http://opendatacommons.org/licenses/by/1.0/
+        - **Source**: https://huggingface.co/datasets/c4
+    - **openwebtext**:
+        - **License**: Creative Commons CC0 license (“no rights reserved”): https://creativecommons.org/share-your-work/public-domain/cc0/
+        - **Source**: https://huggingface.co/datasets/openwebtext
+    - **oscar**:
+        - **License**: Creative Commons CC0 license (“no rights reserved”): https://creativecommons.org/share-your-work/public-domain/cc0/
+        - **Source**: https://huggingface.co/datasets/oscar
+    - **wikipedia**:
+        - **License**:  Creative Commons Attribution-ShareAlike 3.0 Unported License (CC BY-SA): https://en.wikipedia.org/wiki/Wikipedia:Text_of_the_Creative_Commons_Attribution-ShareAlike_3.0_Unported_License  and the GNU Free Documentation License (GFDL): https://en.wikipedia.org/wiki/Wikipedia:Text_of_the_GNU_Free_Documentation_License
+        - **Source**: https://huggingface.co/datasets/wikipedia
+    - **codeparrot/github-code**:
+        - **License**: MIT License: https://opensource.org/license/mit/
+        - **Source**: https://huggingface.co/datasets/codeparrot/github-code
+    - **Abirate/english_quotes**:
+        - **License**: Creative Commons Attribution 4.0 International License: https://creativecommons.org/licenses/by/4.0/legalcode.txt
+        - **Source**: https://huggingface.co/datasets/Abirate/english_quotes
+
+#### Steganography
+- **Location**: evals/registry/data/steganography
+- **Components**:
+    - **Abirate/english_quotes**:
+        - **License**: Creative Commons Attribution 4.0 International License https://creativecommons.org/licenses/by/4.0/legalcode.txt
+        - **Source**: https://huggingface.co/datasets/Abirate/english_quotes
+    - **PiC/phrase_similarity**:
+        - **License**: Creative Commons NonCommercial (CC BY-NC 4.0) https://creativecommons.org/licenses/by-nc/4.0/legalcode
+        - **Source**: https://huggingface.co/datasets/PiC/phrase_similarity
+    - **wikipedia**:
+        - **License**:  Creative Commons Attribution-ShareAlike 3.0 Unported License (CC BY-SA): https://en.wikipedia.org/wiki/Wikipedia:Text_of_the_Creative_Commons_Attribution-ShareAlike_3.0_Unported_License  and the GNU Free Documentation License (GFDL): https://en.wikipedia.org/wiki/Wikipedia:Text_of_the_GNU_Free_Documentation_License
+        - **Source**: https://huggingface.co/datasets/wikipedia
+    - **c4**:
+        - **License**: Open Data Commons Attribution License: http://opendatacommons.org/licenses/by/1.0/
+        - **Source**: https://huggingface.co/datasets/c4
+    - **akoksal/LongForm**:
+        - **License**: MIT License https://opensource.org/license/mit/
+        - **Source**: https://huggingface.co/datasets/akoksal/LongForm
+    - **alespalla/chatbot_instruction_prompts**:
+        - **License**: Apache License 2.0 https://www.apache.org/licenses/LICENSE-2.0.txt
+        - **Source**: https://huggingface.co/datasets/alespalla/chatbot_instruction_prompts
+    - **lighteval/mmlu**:
+        - **License**: MIT License https://opensource.org/license/mit/
+        - **Source**: https://huggingface.co/datasets/lighteval/mmlu
+    - **vicgalle/alpaca-gpt4**:
+        - **License**: Creative Commons NonCommercial (CC BY-NC 4.0) https://creativecommons.org/licenses/by-nc/4.0/legalcode
+        - **Source**: https://huggingface.co/datasets/vicgalle/alpaca-gpt4
+
+#### Schelling Point
+- **Location**: evals/registry/data/schelling_point
+- **Components**:
+    - **openwebtext**:
+        - **License**: Creative Commons CC0 license (“no rights reserved”): https://creativecommons.org/share-your-work/public-domain/cc0/
+        - **Source**: https://huggingface.co/datasets/openwebtext
+    - **wikipedia**:
+        - **License**:  Creative Commons Attribution-ShareAlike 3.0 Unported License (CC BY-SA): https://en.wikipedia.org/wiki/Wikipedia:Text_of_the_Creative_Commons_Attribution-ShareAlike_3.0_Unported_License  and the GNU Free Documentation License (GFDL): https://en.wikipedia.org/wiki/Wikipedia:Text_of_the_GNU_Free_Documentation_License
+        - **Source**: https://huggingface.co/datasets/wikipedia
+
+#### Ballot Proposals
+- **Location**: evals/registry/data/ballots
+- **Components**:
+    - **California ballot proposals**:
+        - **License**: Public Domain
+        - **Source**: https://repository.uclawsf.edu/ca_ballot_props/
+
+
+Please note: While efforts have been made to accurately represent the licenses associated with each dataset, users should consult the original source of the dataset to ensure compliance with any licensing terms and conditions.

MANIFEST.in

@@ -1,3 +1,4 @@
 recursive-include evals *.py
 recursive-include evals *.yaml
 recursive-include evals *.sql
+recursive-include evals/registry/data *.jsonl

Makefile

@@ -1,2 +1,3 @@
+.PHONY: mypy
 mypy:
 	mypy --config-file=mypy.ini --no-site-packages .