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rabbits-leaderboard-v0.1

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Files changed (26) hide show
  1. app.py +163 -0
  2. custom.css +62 -0
  3. data/csv/models_data.csv +20 -0
  4. data/raw-eval-outputs/01-ai-Yi-1.5-34B_results.json +252 -0
  5. data/raw-eval-outputs/CohereForAI-aya-23-35B_results.json +250 -0
  6. data/raw-eval-outputs/CohereForAI-c4ai-command-r-plus_results.json +250 -0
  7. data/raw-eval-outputs/ProbeMedicalYonseiMAILab-medllama3-v20_results.json +252 -0
  8. data/raw-eval-outputs/Qwen-Qwen2-72B_results.json +250 -0
  9. data/raw-eval-outputs/Qwen-Qwen2-7B_results.json +316 -0
  10. data/raw-eval-outputs/aaditya-Llama3-OpenBioLLM-70B_results.json +252 -0
  11. data/raw-eval-outputs/johnsnowlabs-JSL-MedLlama-3-8B-v9_results.json +252 -0
  12. data/raw-eval-outputs/meta-llama-Llama-2-70B-hf_results.json +250 -0
  13. data/raw-eval-outputs/meta-llama-Llama-2-7b-hf_results.json +250 -0
  14. data/raw-eval-outputs/meta-llama-Meta-Llama-3-70B_results.json +250 -0
  15. data/raw-eval-outputs/meta-llama-Meta-Llama-3-8B_results.json +250 -0
  16. data/raw-eval-outputs/microsoft-Phi-3-medium-4k-instruct_results.json +316 -0
  17. data/raw-eval-outputs/microsoft-phi-1_5_results.json +316 -0
  18. data/raw-eval-outputs/microsoft-phi-1_results.json +316 -0
  19. data/raw-eval-outputs/microsoft-phi-2_results.json +316 -0
  20. data/raw-eval-outputs/mistralai-Mistral-7B-v0.3_results.json +316 -0
  21. data/raw-eval-outputs/mistralai-Mixtral-8x22B-v0.1_results.json +252 -0
  22. data/raw-eval-outputs/mistralai-Mixtral-8x7B-v0.1_results.json +250 -0
  23. src/__pycache__/model_links.cpython-311.pyc +0 -0
  24. src/__pycache__/models_info.cpython-311.pyc +0 -0
  25. src/json2df.py +67 -0
  26. src/models_info.py +79 -0
app.py ADDED
@@ -0,0 +1,163 @@
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
1
+ import pandas as pd
2
+ import gradio as gr
3
+ import plotly.express as px
4
+ import plotly.graph_objects as go
5
+
6
+ df = pd.read_csv("data/csv/models_data.csv")
7
+
8
+
9
+ filter_mapping = {
10
+ "all": "all",
11
+ "🟢 Pre-trained": "🟢",
12
+ "🟩 Continuously pre-trained": "🟩",
13
+ "🔶 Fine-tuned on domain-specific data": "🔶",
14
+ "💬 Chat-models (RLHF, DPO, IFT, ...)": "💬"
15
+ }
16
+
17
+
18
+ def filter_items(df, query):
19
+ if query == "all":
20
+ return df
21
+ filter_value = filter_mapping[query]
22
+ return df[df["T"].str.contains(filter_value, na=False)]
23
+
24
+
25
+ def create_scatter_plot(df, x_col, y_col, title, x_title, y_title):
26
+ fig = px.scatter(df, x=x_col, y=y_col, color='Model', title=title)
27
+ fig.add_trace(
28
+ go.Scatter(
29
+ x=[0, 100],
30
+ y=[0, 100],
31
+ mode="lines",
32
+ name="y=x line",
33
+ line=dict(color='black', dash='dash')
34
+ )
35
+ )
36
+
37
+ fig.update_layout(
38
+ xaxis_title=x_title,
39
+ yaxis_title=y_title,
40
+ xaxis=dict(range=[0, 100]),
41
+ yaxis=dict(range=[0, 100]),
42
+ legend_title_text='Model'
43
+ )
44
+ fig.update_traces(marker=dict(size=10), selector=dict(mode='markers'))
45
+ return fig
46
+
47
+
48
+ with gr.Blocks(css="custom.css") as demo:
49
+ with gr.Row():
50
+ gr.Markdown(
51
+ """<div style="text-align: center;"><h1> <span style='color: #6aa84f;'>🐰 RABBITS:</span> <span style='color: #6aa84f;'>R</span>obust <span style='color: #6aa84f;'>A</span>ssessment of <span style='color: #6aa84f;'>B</span>iomedical <span style='color: #6aa84f;'>B</span>enchmarks <span style='color: #6aa84f;'>I</span>nvolving drug
52
+ <span style='color: #6aa84f;'>T</span>erm <span style='color: #6aa84f;'>S</span>ubstitutions for Language Models <span style='color: #6aa84f;'></span></h1></div>\
53
+ <br>\
54
+ <p class='markdown-text'>Robust language models are crucial in the medical domain and the RABBITS project tests the robustness of LLMs by evaluating their handling of synonyms, specifically brand and generic drug names. We assessed 16 open-source language models from Hugging Face using systematic synonym substitution on MedQA and MedMCQA tasks. Our results show a consistent decline in performance across all model sizes, highlighting challenges in synonym comprehension. Additionally, we discovered significant dataset contamination by identifying overlaps between MedQA, MedMCQA test sets, and the Dolma 1.6 dataset using an 8-gram analysis. This highlights the need to improve model robustness and address contamination in open-source datasets</p>"""
55
+ )
56
+
57
+ with gr.Tabs(elem_classes="tab-buttons"):
58
+ with gr.TabItem("🔍 Evaluation table"):
59
+ with gr.Column():
60
+ with gr.Accordion("➡️ Filter by Column", open=False):
61
+ shown_columns = gr.CheckboxGroup(
62
+ choices=df.columns.tolist(),
63
+ value=df.columns.tolist(),
64
+ label="Select Columns",
65
+ interactive=True,
66
+ )
67
+ with gr.Row():
68
+ search_bar = gr.Textbox(
69
+ placeholder="🔍 Search for your model and press ENTER...",
70
+ show_label=False,
71
+ elem_id="search-bar"
72
+ )
73
+ filter_columns = gr.Radio(
74
+ label="⏚ Filter model types",
75
+ choices=[
76
+ "all",
77
+ "🟢 Pre-trained",
78
+ "🟩 Continuously pre-trained",
79
+ "🔶 Fine-tuned on domain-specific data",
80
+ "💬 Chat-models (RLHF, DPO, IFT, ...)"
81
+ ],
82
+ value="all",
83
+ elem_id="filter-columns",
84
+ )
85
+ leaderboard_df = gr.Dataframe(
86
+ value=df,
87
+ headers="keys",
88
+ datatype=["html" if col == "Model" else "str" for col in df.columns],
89
+ interactive=False,
90
+ elem_id="leaderboard-table"
91
+ )
92
+
93
+ def update_leaderboard(search_query):
94
+ filtered_df = df[df["Model"].str.contains(search_query, case=False)]
95
+ return filtered_df
96
+
97
+ search_bar.submit(
98
+ update_leaderboard,
99
+ inputs=search_bar,
100
+ outputs=leaderboard_df
101
+ )
102
+
103
+ def filter_update(query):
104
+ filtered_df = filter_items(df, query)
105
+ return filtered_df
106
+
107
+ filter_columns.change(
108
+ filter_update,
109
+ inputs=filter_columns,
110
+ outputs=leaderboard_df
111
+ )
112
+
113
+ shown_columns.change(
114
+ lambda cols: df[cols],
115
+ inputs=shown_columns,
116
+ outputs=leaderboard_df
117
+ )
118
+
119
+ with gr.TabItem("📊 Evaluation Plots"):
120
+ with gr.Column():
121
+ with gr.Row():
122
+ scatter1 = gr.Plot(
123
+ value=create_scatter_plot(df, "medmcqa_orig_filtered", "medmcqa_g2b",
124
+ "MedMCQA: Orig vs G2B", "medmcqa_orig_filtered", "medmcqa_g2b"),
125
+ elem_id="scatter1"
126
+ )
127
+ scatter2 = gr.Plot(
128
+ value=create_scatter_plot(df, "medqa_4options_orig_filtered", "medqa_4options_g2b",
129
+ "MedQA: Orig vs G2B", "medqa_4options_orig_filtered", "medqa_4options_g2b"),
130
+ elem_id="scatter2"
131
+ )
132
+ with gr.Row():
133
+ scatter3 = gr.Plot(
134
+ value=create_scatter_plot(df, "b4bqa", "b4b",
135
+ "b4bqa vs b4b", "b4bqa", "b4b"),
136
+ elem_id="scatter3"
137
+ )
138
+
139
+ with gr.TabItem("📝 About"):
140
+ gr.Markdown(
141
+ """<div style="text-align: center;">
142
+ <h2>About RABBITS LLM Leaderboard</h2>
143
+ <p>This leaderboard ...</p>
144
+ <p>It is designed to ...</p>
145
+ </div>""",
146
+ elem_classes="markdown-text"
147
+ )
148
+
149
+ with gr.TabItem("🚀 Submit Here!"):
150
+ gr.Markdown(
151
+ """<div style="text-align: center;">
152
+ <h2>Submit Your Model Results</h2>
153
+ <p>If you have new model results that you would like to add to the leaderboard, please follow the submission guidelines below:</p>
154
+ <ul>
155
+ <li>COMING SOON</li>
156
+ </ul>
157
+ <p>COMING SOON</p>
158
+ </div>""",
159
+ elem_classes="markdown-text"
160
+ )
161
+
162
+ if __name__ == "__main__":
163
+ demo.launch()
custom.css ADDED
@@ -0,0 +1,62 @@
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
1
+ #changelog-text {
2
+ font-size: 16px !important;
3
+ }
4
+ #changelog-text h2 {
5
+ font-size: 18px !important;
6
+ }
7
+ .markdown-text {
8
+ font-size: 16px !important;
9
+ }
10
+ #models-to-add-text {
11
+ font-size: 18px !important;
12
+ }
13
+ #citation-button span {
14
+ font-size: 16px !important;
15
+ }
16
+ #citation-button textarea {
17
+ font-size: 16px !important;
18
+ }
19
+ #citation-button > label > button {
20
+ margin: 6px;
21
+ transform: scale(1.3);
22
+ }
23
+ #leaderboard-table {
24
+ margin-top: 15px
25
+ }
26
+ #leaderboard-table-lite {
27
+ margin-top: 15px
28
+ }
29
+ #search-bar-table-box > div:first-child {
30
+ background: none;
31
+ border: none;
32
+ }
33
+
34
+ #search-bar {
35
+ padding: 0px;
36
+ }
37
+ /* Hides the final AutoEvalColumn */
38
+ #llm-benchmark-tab-table table td:last-child,
39
+ #llm-benchmark-tab-table table th:last-child {
40
+ display: none;
41
+ }
42
+ /* Limit the width of the first AutoEvalColumn so that names don't expand too much */
43
+ table td:first-child,
44
+ table th:first-child {
45
+ max-width: 400px;
46
+ overflow: auto;
47
+ white-space: nowrap;
48
+ }
49
+ .tab-buttons button {
50
+ font-size: 20px;
51
+ }
52
+ #scale-logo {
53
+ border-style: none !important;
54
+ box-shadow: none;
55
+ display: block;
56
+ margin-left: auto;
57
+ margin-right: auto;
58
+ max-width: 600px;
59
+ }
60
+ #scale-logo .download {
61
+ display: none;
62
+ }
data/csv/models_data.csv ADDED
@@ -0,0 +1,20 @@
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
1
+ T,Model,b4bqa,b4b,medmcqa_g2b,medmcqa_orig_filtered,medmcqa_diff,medqa_4options_g2b,medqa_4options_orig_filtered,medqa_diff
2
+ 🔶,"<a target=""_blank"" href=""https://huggingface.co/01-ai/Yi-1.5-34B"" style=""color: var(--link-text-color); text-decoration: underline;text-decoration-style: dotted;"">01-ai-Yi-1.5-34B</a>",85.16,75.37,59.77,69.25,-9.48,59.79,64.55,-4.76
3
+ 🔶,"<a target=""_blank"" href=""https://huggingface.co/aaditya/Llama3-OpenBioLLM-70B"" style=""color: var(--link-text-color); text-decoration: underline;text-decoration-style: dotted;"">aaditya-Llama3-OpenBioLLM-70B</a>",85.1,78.76,63.22,73.85,-10.63,70.9,75.4,-4.5
4
+ 🔶,"<a target=""_blank"" href=""https://huggingface.co/CohereForAI/aya-23-35B"" style=""color: var(--link-text-color); text-decoration: underline;text-decoration-style: dotted;"">CohereForAI-aya-23-35B</a>",78.4,65.72,48.56,52.87,-4.31,47.88,51.06,-3.18
5
+ 💬,"<a target=""_blank"" href=""https://huggingface.co/CohereForAI/c4ai-command-r-plus"" style=""color: var(--link-text-color); text-decoration: underline;text-decoration-style: dotted;"">CohereForAI-c4ai-command-r-plus</a>",84.93,72.41,49.14,61.49,-12.35,56.61,60.32,-3.71
6
+ 🔶,"<a target=""_blank"" href=""https://huggingface.co/johnsnowlabs/JSL-MedLlama-3-8B-v9"" style=""color: var(--link-text-color); text-decoration: underline;text-decoration-style: dotted;"">johnsnowlabs-JSL-MedLlama-3-8B-v9</a>",75.17,74.45,64.08,77.01,-12.93,70.63,82.01,-11.38
7
+ 🟢,"<a target=""_blank"" href=""https://huggingface.co/meta-llama/Llama-2-70B-hf"" style=""color: var(--link-text-color); text-decoration: underline;text-decoration-style: dotted;"">meta-llama-Llama-2-70B-hf</a>",77.01,65.63,45.98,52.3,-6.32,52.65,55.03,-2.38
8
+ 🟢,"<a target=""_blank"" href=""https://huggingface.co/meta-llama/Llama-2-7b-hf"" style=""color: var(--link-text-color); text-decoration: underline;text-decoration-style: dotted;"">meta-llama-Llama-2-7b-hf</a>",36.83,36.0,33.91,34.2,-0.29,34.39,37.3,-2.91
9
+ 🟢,"<a target=""_blank"" href=""https://huggingface.co/meta-llama/Meta-Llama-3-70B"" style=""color: var(--link-text-color); text-decoration: underline;text-decoration-style: dotted;"">meta-llama-Meta-Llama-3-70B</a>",90.12,82.55,66.67,78.16,-11.49,72.75,75.13,-2.38
10
+ 🟢,"<a target=""_blank"" href=""https://huggingface.co/meta-llama/Meta-Llama-3-8B"" style=""color: var(--link-text-color); text-decoration: underline;text-decoration-style: dotted;"">meta-llama-Meta-Llama-3-8B</a>",82.7,71.21,52.87,59.2,-6.33,55.03,60.85,-5.82
11
+ 🟢,"<a target=""_blank"" href=""https://huggingface.co/microsoft/phi-1_5"" style=""color: var(--link-text-color); text-decoration: underline;text-decoration-style: dotted;"">microsoft-phi-1_5</a>",28.01,30.24,31.61,30.46,1.15,34.92,34.66,0.26
12
+ 🟢,"<a target=""_blank"" href=""https://huggingface.co/microsoft/phi-1"" style=""color: var(--link-text-color); text-decoration: underline;text-decoration-style: dotted;"">microsoft-phi-1</a>",19.64,21.18,24.14,25.86,-1.72,21.69,20.9,0.79
13
+ 🟢,"<a target=""_blank"" href=""https://huggingface.co/microsoft/phi-2"" style=""color: var(--link-text-color); text-decoration: underline;text-decoration-style: dotted;"">microsoft-phi-2</a>",47.49,44.79,37.64,42.24,-4.6,41.8,43.92,-2.12
14
+ 💬,"<a target=""_blank"" href=""https://huggingface.co/microsoft/Phi-3-medium-4k-instruct"" style=""color: var(--link-text-color); text-decoration: underline;text-decoration-style: dotted;"">microsoft-Phi-3-medium-4k-instruct</a>",69.98,65.94,60.34,72.41,-12.07,53.44,58.47,-5.03
15
+ 🟩,"<a target=""_blank"" href=""https://huggingface.co/mistralai/Mistral-7B-v0.3"" style=""color: var(--link-text-color); text-decoration: underline;text-decoration-style: dotted;"">mistralai-Mistral-7B-v0.3</a>",70.31,61.99,48.28,56.9,-8.62,48.68,53.17,-4.49
16
+ 🟩,"<a target=""_blank"" href=""https://huggingface.co/mistralai/Mixtral-8x22B-v0.1"" style=""color: var(--link-text-color); text-decoration: underline;text-decoration-style: dotted;"">mistralai-Mixtral-8x22B-v0.1</a>",87.72,78.82,61.78,70.4,-8.62,67.46,71.43,-3.97
17
+ 🟩,"<a target=""_blank"" href=""https://huggingface.co/mistralai/Mixtral-8x7B-v0.1"" style=""color: var(--link-text-color); text-decoration: underline;text-decoration-style: dotted;"">mistralai-Mixtral-8x7B-v0.1</a>",86.1,74.75,55.46,64.94,-9.48,60.05,62.43,-2.38
18
+ 🔶,"<a target=""_blank"" href=""https://huggingface.co/ProbeMedicalYonseiMAILab/medllama3-v20"" style=""color: var(--link-text-color); text-decoration: underline;text-decoration-style: dotted;"">ProbeMedicalYonseiMAILab-medllama3-v20</a>",71.93,74.75,65.23,80.17,-14.94,76.46,90.21,-13.75
19
+ 🟢,"<a target=""_blank"" href=""https://huggingface.co/Qwen/Qwen2-72B"" style=""color: var(--link-text-color); text-decoration: underline;text-decoration-style: dotted;"">Qwen-Qwen2-72B</a>",91.02,83.72,71.55,77.87,-6.32,74.07,75.4,-1.33
20
+ 🟢,"<a target=""_blank"" href=""https://huggingface.co/Qwen/Qwen2-7B"" style=""color: var(--link-text-color); text-decoration: underline;text-decoration-style: dotted;"">Qwen-Qwen2-7B</a>",80.41,70.28,55.17,63.51,-8.34,53.7,58.99,-5.29
data/raw-eval-outputs/01-ai-Yi-1.5-34B_results.json ADDED
@@ -0,0 +1,252 @@
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
1
+ {
2
+ "results": {
3
+ "b4b": {
4
+ "acc,none": 0.7536991368680641,
5
+ "acc_stderr,none": 0.09728135187806679,
6
+ "acc_norm,none": 0.7536991368680641,
7
+ "acc_norm_stderr,none": 0.09728135187806679,
8
+ "alias": "b4b"
9
+ },
10
+ "b4bqa": {
11
+ "acc,none": 0.8515625,
12
+ "acc_stderr,none": 0.008401025189152976,
13
+ "acc_norm,none": 0.8515625,
14
+ "acc_norm_stderr,none": 0.008401025189152976,
15
+ "alias": " - b4bqa"
16
+ },
17
+ "medmcqa_g2b": {
18
+ "acc,none": 0.5977011494252874,
19
+ "acc_stderr,none": 0.026323989201783506,
20
+ "acc_norm,none": 0.5977011494252874,
21
+ "acc_norm_stderr,none": 0.026323989201783506,
22
+ "alias": " - medmcqa_g2b"
23
+ },
24
+ "medmcqa_orig_filtered": {
25
+ "acc,none": 0.6925287356321839,
26
+ "acc_stderr,none": 0.024771735192072118,
27
+ "acc_norm,none": 0.6925287356321839,
28
+ "acc_norm_stderr,none": 0.024771735192072118,
29
+ "alias": " - medmcqa_orig_filtered"
30
+ },
31
+ "medqa_4options_g2b": {
32
+ "acc,none": 0.5978835978835979,
33
+ "acc_stderr,none": 0.025253032554997695,
34
+ "acc_norm,none": 0.5978835978835979,
35
+ "acc_norm_stderr,none": 0.025253032554997695,
36
+ "alias": " - medqa_4options_g2b"
37
+ },
38
+ "medqa_4options_orig_filtered": {
39
+ "acc,none": 0.6455026455026455,
40
+ "acc_stderr,none": 0.024636830602842,
41
+ "acc_norm,none": 0.6455026455026455,
42
+ "acc_norm_stderr,none": 0.024636830602842,
43
+ "alias": " - medqa_4options_orig_filtered"
44
+ }
45
+ },
46
+ "groups": {
47
+ "b4b": {
48
+ "acc,none": 0.7536991368680641,
49
+ "acc_stderr,none": 0.09728135187806679,
50
+ "acc_norm,none": 0.7536991368680641,
51
+ "acc_norm_stderr,none": 0.09728135187806679,
52
+ "alias": "b4b"
53
+ }
54
+ },
55
+ "configs": {
56
+ "b4bqa": {
57
+ "task": "b4bqa",
58
+ "dataset_path": "AIM-Harvard/b4b_drug_qa",
59
+ "test_split": "test",
60
+ "doc_to_text": "<function process_cd at 0x7f7ab0e88700>",
61
+ "doc_to_target": "correct_choice",
62
+ "doc_to_choice": [
63
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+ "acc_norm_stderr,none": 0.025614751890362768,
29
+ "alias": " - medmcqa_orig_filtered"
30
+ },
31
+ "medqa_4options_g2b": {
32
+ "acc,none": 0.6005291005291006,
33
+ "acc_stderr,none": 0.025225450284067932,
34
+ "acc_norm,none": 0.6005291005291006,
35
+ "acc_norm_stderr,none": 0.025225450284067932,
36
+ "alias": " - medqa_4options_g2b"
37
+ },
38
+ "medqa_4options_orig_filtered": {
39
+ "acc,none": 0.6243386243386243,
40
+ "acc_stderr,none": 0.02494236893115979,
41
+ "acc_norm,none": 0.6243386243386243,
42
+ "acc_norm_stderr,none": 0.02494236893115979,
43
+ "alias": " - medqa_4options_orig_filtered"
44
+ }
45
+ },
46
+ "groups": {
47
+ "b4b": {
48
+ "acc,none": 0.7475339087546239,
49
+ "acc_stderr,none": 0.11087824048509952,
50
+ "acc_norm,none": 0.7475339087546239,
51
+ "acc_norm_stderr,none": 0.11087824048509952,
52
+ "alias": "b4b"
53
+ }
54
+ },
55
+ "configs": {
56
+ "b4bqa": {
57
+ "task": "b4bqa",
58
+ "dataset_path": "AIM-Harvard/b4b_drug_qa",
59
+ "test_split": "test",
60
+ "doc_to_text": "<function process_cd at 0x7fb0afadd090>",
61
+ "doc_to_target": "correct_choice",
62
+ "doc_to_choice": [
63
+ "A",
64
+ "B",
65
+ "C",
66
+ "D"
67
+ ],
68
+ "description": "",
69
+ "target_delimiter": " ",
70
+ "fewshot_delimiter": "\n\n",
71
+ "metric_list": [
72
+ {
73
+ "metric": "acc",
74
+ "aggregation": "mean",
75
+ "higher_is_better": true
76
+ },
77
+ {
78
+ "metric": "acc_norm",
79
+ "aggregation": "mean",
80
+ "higher_is_better": true
81
+ }
82
+ ],
83
+ "output_type": "multiple_choice",
84
+ "repeats": 1,
85
+ "should_decontaminate": false
86
+ },
87
+ "medmcqa_g2b": {
88
+ "task": "medmcqa_g2b",
89
+ "dataset_path": "AIM-Harvard/medmcqa_generic_to_brand",
90
+ "training_split": "train",
91
+ "validation_split": "validation",
92
+ "test_split": "validation",
93
+ "doc_to_text": "<function doc_to_text at 0x7fb0adf3c550>",
94
+ "doc_to_target": "cop",
95
+ "doc_to_choice": [
96
+ "A",
97
+ "B",
98
+ "C",
99
+ "D"
100
+ ],
101
+ "description": "",
102
+ "target_delimiter": " ",
103
+ "fewshot_delimiter": "\n\n",
104
+ "metric_list": [
105
+ {
106
+ "metric": "acc",
107
+ "aggregation": "mean",
108
+ "higher_is_better": true
109
+ },
110
+ {
111
+ "metric": "acc_norm",
112
+ "aggregation": "mean",
113
+ "higher_is_better": true
114
+ }
115
+ ],
116
+ "output_type": "multiple_choice",
117
+ "repeats": 1,
118
+ "should_decontaminate": true,
119
+ "doc_to_decontamination_query": "{{question}}"
120
+ },
121
+ "medmcqa_orig_filtered": {
122
+ "task": "medmcqa_orig_filtered",
123
+ "dataset_path": "AIM-Harvard/medmcqa_original",
124
+ "training_split": "train",
125
+ "validation_split": "validation",
126
+ "test_split": "validation",
127
+ "doc_to_text": "<function doc_to_text at 0x7fb0adf3c700>",
128
+ "doc_to_target": "cop",
129
+ "doc_to_choice": [
130
+ "A",
131
+ "B",
132
+ "C",
133
+ "D"
134
+ ],
135
+ "description": "",
136
+ "target_delimiter": " ",
137
+ "fewshot_delimiter": "\n\n",
138
+ "metric_list": [
139
+ {
140
+ "metric": "acc",
141
+ "aggregation": "mean",
142
+ "higher_is_better": true
143
+ },
144
+ {
145
+ "metric": "acc_norm",
146
+ "aggregation": "mean",
147
+ "higher_is_better": true
148
+ }
149
+ ],
150
+ "output_type": "multiple_choice",
151
+ "repeats": 1,
152
+ "should_decontaminate": true,
153
+ "doc_to_decontamination_query": "{{question}}"
154
+ },
155
+ "medqa_4options_g2b": {
156
+ "task": "medqa_4options_g2b",
157
+ "dataset_path": "AIM-Harvard/gbaker_medqa_usmle_4_options_hf_generic_to_brand",
158
+ "training_split": "train",
159
+ "validation_split": "validation",
160
+ "test_split": "test",
161
+ "doc_to_text": "<function doc_to_text at 0x7fb0adf3f6d0>",
162
+ "doc_to_target": "<function doc_to_target at 0x7fb0adf3fa30>",
163
+ "doc_to_choice": [
164
+ "A",
165
+ "B",
166
+ "C",
167
+ "D"
168
+ ],
169
+ "description": "",
170
+ "target_delimiter": " ",
171
+ "fewshot_delimiter": "\n\n",
172
+ "metric_list": [
173
+ {
174
+ "metric": "acc",
175
+ "aggregation": "mean",
176
+ "higher_is_better": true
177
+ },
178
+ {
179
+ "metric": "acc_norm",
180
+ "aggregation": "mean",
181
+ "higher_is_better": true
182
+ }
183
+ ],
184
+ "output_type": "multiple_choice",
185
+ "repeats": 1,
186
+ "should_decontaminate": false
187
+ },
188
+ "medqa_4options_orig_filtered": {
189
+ "task": "medqa_4options_orig_filtered",
190
+ "dataset_path": "AIM-Harvard/gbaker_medqa_usmle_4_options_hf_original",
191
+ "training_split": "train",
192
+ "validation_split": "validation",
193
+ "test_split": "test",
194
+ "doc_to_text": "<function doc_to_text at 0x7fb0adf3fc70>",
195
+ "doc_to_target": "<function doc_to_target at 0x7fb0adf3feb0>",
196
+ "doc_to_choice": [
197
+ "A",
198
+ "B",
199
+ "C",
200
+ "D"
201
+ ],
202
+ "description": "",
203
+ "target_delimiter": " ",
204
+ "fewshot_delimiter": "\n\n",
205
+ "metric_list": [
206
+ {
207
+ "metric": "acc",
208
+ "aggregation": "mean",
209
+ "higher_is_better": true
210
+ },
211
+ {
212
+ "metric": "acc_norm",
213
+ "aggregation": "mean",
214
+ "higher_is_better": true
215
+ }
216
+ ],
217
+ "output_type": "multiple_choice",
218
+ "repeats": 1,
219
+ "should_decontaminate": false
220
+ }
221
+ },
222
+ "versions": {
223
+ "b4b": "N/A",
224
+ "b4bqa": "Yaml",
225
+ "medmcqa_g2b": "Yaml",
226
+ "medmcqa_orig_filtered": "Yaml",
227
+ "medqa_4options_g2b": "Yaml",
228
+ "medqa_4options_orig_filtered": "Yaml"
229
+ },
230
+ "n-shot": {
231
+ "b4b": 0,
232
+ "b4bqa": 0,
233
+ "medmcqa_g2b": 0,
234
+ "medmcqa_orig_filtered": 0,
235
+ "medqa_4options_g2b": 0,
236
+ "medqa_4options_orig_filtered": 0
237
+ },
238
+ "config": {
239
+ "model": "hf",
240
+ "model_args": "pretrained=mistralai/Mixtral-8x7B-v0.1,load_in_4bit=True",
241
+ "batch_size": "4",
242
+ "batch_sizes": [],
243
+ "device": "cuda:0",
244
+ "use_cache": null,
245
+ "limit": null,
246
+ "bootstrap_iters": 100000,
247
+ "gen_kwargs": null
248
+ },
249
+ "git_hash": "928c7657"
250
+ }
src/__pycache__/model_links.cpython-311.pyc ADDED
Binary file (1.97 kB). View file
 
src/__pycache__/models_info.cpython-311.pyc ADDED
Binary file (2.43 kB). View file
 
src/json2df.py ADDED
@@ -0,0 +1,67 @@
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
1
+ import os
2
+ import json
3
+ import pandas as pd
4
+ from models_info import model_info
5
+
6
+ directory = 'data/raw-eval-outputs'
7
+ data = []
8
+
9
+ def model_hyperlink(link, model_name):
10
+ return f'<a target="_blank" href="{link}" style="color: var(--link-text-color); text-decoration: underline;text-decoration-style: dotted;">{model_name}</a>'
11
+
12
+ def make_clickable_names(df):
13
+ df["Model"] = df.apply(
14
+ lambda row: model_hyperlink(row["Link"], row["Model"]), axis=1
15
+ )
16
+ return df
17
+
18
+ # Iterate over all the files in the directory
19
+ for filename in os.listdir(directory):
20
+ if filename.endswith(".json"):
21
+ filepath = os.path.join(directory, filename)
22
+ with open(filepath, 'r') as f:
23
+ json_data = json.load(f)
24
+ model_name = filename.replace("_results.json", "")
25
+
26
+ # Extract the accuracy values
27
+ results = json_data['results']
28
+ row = {'Model': model_name}
29
+ for key, value in results.items():
30
+ row[key] = round(value['acc,none'] * 100, 2)
31
+
32
+ # Add the tuning type and link to the row
33
+ row['T'] = model_info[model_name]['tuning']
34
+ row['Link'] = model_info[model_name]['link']
35
+
36
+ data.append(row)
37
+
38
+
39
+ df = pd.DataFrame(data)
40
+ df = make_clickable_names(df)
41
+ df.drop(columns=["Link"], inplace=True)
42
+
43
+ df['medmcqa_diff'] = (df['medmcqa_g2b'] - df['medmcqa_orig_filtered']).round(2)
44
+ df['medqa_diff'] = (df['medqa_4options_g2b'] - df['medqa_4options_orig_filtered']).round(2)
45
+
46
+ # Reorder columns
47
+ cols = [
48
+ "T",
49
+ "Model",
50
+ "b4bqa",
51
+ "b4b",
52
+ "medmcqa_g2b",
53
+ "medmcqa_orig_filtered",
54
+ "medmcqa_diff",
55
+ "medqa_4options_g2b",
56
+ "medqa_4options_orig_filtered",
57
+ "medqa_diff"
58
+ ] + [col for col in df.columns if col not in [
59
+ "T", "Model", "b4bqa", "b4b", "medmcqa_g2b", "medmcqa_orig_filtered", "medmcqa_diff", "medqa_4options_g2b", "medqa_4options_orig_filtered", "medqa_diff"
60
+ ]]
61
+ df = df[cols]
62
+
63
+
64
+ output_csv = 'data/csv/models_data.csv'
65
+ df.to_csv(output_csv, index=False)
66
+
67
+ print(f"DataFrame saved to {output_csv}")
src/models_info.py ADDED
@@ -0,0 +1,79 @@
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
1
+ #feel free to correct these categories, I think size should also be added
2
+ model_info = {
3
+ "meta-llama-Meta-Llama-3-70B": {
4
+ "link": "https://huggingface.co/meta-llama/Meta-Llama-3-70B",
5
+ "tuning": "🟢" # Pre-trained
6
+ },
7
+ "meta-llama-Meta-Llama-3-8B": {
8
+ "link": "https://huggingface.co/meta-llama/Meta-Llama-3-8B",
9
+ "tuning": "🟢" # Pre-trained
10
+ },
11
+ "01-ai-Yi-1.5-34B": {
12
+ "link": "https://huggingface.co/01-ai/Yi-1.5-34B",
13
+ "tuning": "🔶" # Fine-tuned on task specific dataset
14
+ },
15
+ "aaditya-Llama3-OpenBioLLM-70B": {
16
+ "link": "https://huggingface.co/aaditya/Llama3-OpenBioLLM-70B",
17
+ "tuning": "🔶" # Fine-tuned on task specific dataset
18
+ },
19
+ "CohereForAI-aya-23-35B": {
20
+ "link": "https://huggingface.co/CohereForAI/aya-23-35B",
21
+ "tuning": "🔶" # Fine-tuned on task specific dataset
22
+ },
23
+ "CohereForAI-c4ai-command-r-plus": {
24
+ "link": "https://huggingface.co/CohereForAI/c4ai-command-r-plus",
25
+ "tuning": "💬" # Chat-model (RLHF, DPO, IFT, etc.)
26
+ },
27
+ "johnsnowlabs-JSL-MedLlama-3-8B-v9": {
28
+ "link": "https://huggingface.co/johnsnowlabs/JSL-MedLlama-3-8B-v9",
29
+ "tuning": "🔶" # Fine-tuned on task specific dataset
30
+ },
31
+ "meta-llama-Llama-2-70B-hf": {
32
+ "link": "https://huggingface.co/meta-llama/Llama-2-70B-hf",
33
+ "tuning": "🟢" # Pre-trained
34
+ },
35
+ "meta-llama-Llama-2-7b-hf": {
36
+ "link": "https://huggingface.co/meta-llama/Llama-2-7b-hf",
37
+ "tuning": "🟢" # Pre-trained
38
+ },
39
+ "microsoft-phi-1_5": {
40
+ "link": "https://huggingface.co/microsoft/phi-1_5",
41
+ "tuning": "🟢" # Pre-trained
42
+ },
43
+ "microsoft-phi-1": {
44
+ "link": "https://huggingface.co/microsoft/phi-1",
45
+ "tuning": "🟢" # Pre-trained
46
+ },
47
+ "microsoft-phi-2": {
48
+ "link": "https://huggingface.co/microsoft/phi-2",
49
+ "tuning": "🟢" # Pre-trained
50
+ },
51
+ "microsoft-Phi-3-medium-4k-instruct": {
52
+ "link": "https://huggingface.co/microsoft/Phi-3-medium-4k-instruct",
53
+ "tuning": "💬" # Chat-model (RLHF, DPO, IFT, etc.)
54
+ },
55
+ "mistralai-Mistral-7B-v0.3": {
56
+ "link": "https://huggingface.co/mistralai/Mistral-7B-v0.3",
57
+ "tuning": "🟢" # Continuously pre-trained
58
+ },
59
+ "mistralai-Mixtral-8x22B-v0.1": {
60
+ "link": "https://huggingface.co/mistralai/Mixtral-8x22B-v0.1",
61
+ "tuning": "🟢" # Continuously pre-trained
62
+ },
63
+ "mistralai-Mixtral-8x7B-v0.1": {
64
+ "link": "https://huggingface.co/mistralai/Mixtral-8x7B-v0.1",
65
+ "tuning": "🟢" # Continuously pre-trained
66
+ },
67
+ "ProbeMedicalYonseiMAILab-medllama3-v20": {
68
+ "link": "https://huggingface.co/ProbeMedicalYonseiMAILab/medllama3-v20",
69
+ "tuning": "🔶" # Fine-tuned on task specific dataset
70
+ },
71
+ "Qwen-Qwen2-72B": {
72
+ "link": "https://huggingface.co/Qwen/Qwen2-72B",
73
+ "tuning": "🟢" # Pre-trained
74
+ },
75
+ "Qwen-Qwen2-7B": {
76
+ "link": "https://huggingface.co/Qwen/Qwen2-7B",
77
+ "tuning": "🟢" # Pre-trained
78
+ },
79
+ }