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RestartTest

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+ {
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+ "cells": [
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+ {
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+ "cell_type": "markdown",
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+ "id": "aacb45c2-eecc-4ab0-983f-0f459d3eb59f",
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+ "metadata": {},
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+ "source": [
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+ "# IDEFICS_ROCOv2 (checkpoint test)\n",
9
+ "\n",
10
+ "This notebook fine-tunes [Idefics3-8B-Llama3](https://huggingface.co/HuggingFaceM4/Idefics3-8B-Llama3) model. The source model is fine-tuned on the [Radiology Objects in Context (ROCO)](https://huggingface.co/datasets/eltorio/ROCOv2-radiology) dataset, a large-scale medical and multimodal imaging collection. \n",
11
+ "\n",
12
+ "The fine-tuning process stores the model checkpoints on a regular basis. Re run the notebook from the last checkpoint to continue the fine-tuning process."
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+ ]
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+ },
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+ {
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+ "cell_type": "code",
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+ "execution_count": 1,
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+ "id": "d0e6780c-00e5-4617-a4e8-b76e08233dac",
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+ "metadata": {
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+ "executionInfo": {
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+ "elapsed": 1459,
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+ "status": "ok",
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+ "timestamp": 1730997027344,
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+ "user": {
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+ "displayName": "Ronan Le Meillat",
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+ "userId": "09161391957806824350"
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+ },
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+ "user_tz": -60
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+ },
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+ "id": "8F3w0kcbAMtC"
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+ },
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+ "outputs": [],
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+ "source": [
34
+ "dataset_id = \"eltorio/ROCOv2-radiology\"\n",
35
+ "prompt= \"You are an expert radiologist certified with over 15 years of experience in diagnostic imaging, describe this image\"\n",
36
+ "source_model_id = \"HuggingFaceM4/Idefics3-8B-Llama3\"\n",
37
+ "destination_model_id = \"eltorio/IDEFICS3_ROCOv2\"\n",
38
+ "output_dir = \"IDEFICS3_ROCOv2\""
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+ ]
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+ },
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+ {
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+ "cell_type": "markdown",
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+ "id": "020afb19-c0ee-406b-a0ee-ba0e64aeaddd",
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+ "metadata": {},
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+ "source": [
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+ "### Log into Hugging Face"
47
+ ]
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+ },
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+ {
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+ "cell_type": "code",
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+ "execution_count": 2,
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+ "id": "cfe7c2dc-fb94-43f1-a6c8-486282886727",
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+ "metadata": {},
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+ "outputs": [
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+ {
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+ "name": "stdout",
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+ "output_type": "stream",
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+ "text": [
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+ "Hugging Face token found in environment variable\n"
60
+ ]
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+ },
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+ {
63
+ "name": "stderr",
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+ "output_type": "stream",
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+ "text": [
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+ "Note: Environment variable`HF_TOKEN` is set and is the current active token independently from the token you've just configured.\n"
67
+ ]
68
+ }
69
+ ],
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+ "source": [
71
+ "from huggingface_hub import login\n",
72
+ "import os\n",
73
+ "\n",
74
+ "if os.environ.get('HF_TOKEN') is not None:\n",
75
+ " HF_TOKEN = os.environ.get('HF_TOKEN')\n",
76
+ " print(f\"Hugging Face token found in environment variable\")\n",
77
+ "try:\n",
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+ " import google.colab\n",
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+ " from google.colab import userdata\n",
80
+ " if (userdata.get('HF_TOKEN') is not None) and (HF_TOKEN == \"\"):\n",
81
+ " HF_TOKEN = userdata.get('HF_TOKEN')\n",
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+ " else:\n",
83
+ " raise ValueError(\"Please set your Hugging Face token in the user data panel, or pass it as an environment variable\")\n",
84
+ "except ModuleNotFoundError:\n",
85
+ " if HF_TOKEN is None:\n",
86
+ " raise ValueError(\"Please set your Hugging Face token in the user data panel, or pass it as an environment variable\")\n",
87
+ "\n",
88
+ "login(\n",
89
+ " token=HF_TOKEN,\n",
90
+ " add_to_git_credential=True\n",
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+ ")"
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+ ]
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+ },
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+ {
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+ "cell_type": "markdown",
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+ "id": "5826da8d-e57c-434a-b856-3d22d10dd2fb",
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+ "metadata": {},
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+ "source": [
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+ "### Load the dataset"
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+ ]
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+ },
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+ {
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+ "cell_type": "code",
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+ "execution_count": 3,
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+ "id": "a74d47eb-f798-47cc-8d98-9fd589ee60b0",
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+ "metadata": {
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+ "colab": {
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+ "base_uri": "https://localhost:8080/",
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+ "height": 1000,
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+ "referenced_widgets": [
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+ ]
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+ },
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+ ]
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+ },
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+ "metadata": {},
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+ ]
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+ },
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+ ]
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+ },
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+ "metadata": {},
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+ "output_type": "display_data"
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+ },
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+ {
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+ "data": {
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+ "version_minor": 0
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+ },
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+ ]
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+ },
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+ "metadata": {},
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+ "output_type": "display_data"
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+ },
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+ {
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+ "data": {
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+ "model_id": "58c6b85b3d8a49a389124e46fd23a928",
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+ "version_major": 2,
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+ "version_minor": 0
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+ },
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+ "text/plain": [
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+ "test-00004-of-00006.parquet: 0%| | 0.00/425M [00:00<?, ?B/s]"
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+ ]
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+ },
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+ "metadata": {},
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+ "output_type": "display_data"
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+ },
1111
+ {
1112
+ "data": {
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+ "application/vnd.jupyter.widget-view+json": {
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+ "model_id": "a5c2d23979ca44efa9ebd6a87f996eb8",
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+ "version_major": 2,
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+ "version_minor": 0
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+ },
1118
+ "text/plain": [
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+ "test-00005-of-00006.parquet: 0%| | 0.00/423M [00:00<?, ?B/s]"
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+ ]
1121
+ },
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+ "metadata": {},
1123
+ "output_type": "display_data"
1124
+ },
1125
+ {
1126
+ "data": {
1127
+ "application/vnd.jupyter.widget-view+json": {
1128
+ "model_id": "0ca73023dc3443cfa33d9f03a62c21d1",
1129
+ "version_major": 2,
1130
+ "version_minor": 0
1131
+ },
1132
+ "text/plain": [
1133
+ "Generating train split: 0%| | 0/59962 [00:00<?, ? examples/s]"
1134
+ ]
1135
+ },
1136
+ "metadata": {},
1137
+ "output_type": "display_data"
1138
+ },
1139
+ {
1140
+ "data": {
1141
+ "application/vnd.jupyter.widget-view+json": {
1142
+ "model_id": "21fb216da0d0411a8ff026839d63686b",
1143
+ "version_major": 2,
1144
+ "version_minor": 0
1145
+ },
1146
+ "text/plain": [
1147
+ "Generating validation split: 0%| | 0/9904 [00:00<?, ? examples/s]"
1148
+ ]
1149
+ },
1150
+ "metadata": {},
1151
+ "output_type": "display_data"
1152
+ },
1153
+ {
1154
+ "data": {
1155
+ "application/vnd.jupyter.widget-view+json": {
1156
+ "model_id": "76e876cdd17449af908c53a8f9dd2080",
1157
+ "version_major": 2,
1158
+ "version_minor": 0
1159
+ },
1160
+ "text/plain": [
1161
+ "Generating test split: 0%| | 0/9927 [00:00<?, ? examples/s]"
1162
+ ]
1163
+ },
1164
+ "metadata": {},
1165
+ "output_type": "display_data"
1166
+ },
1167
+ {
1168
+ "data": {
1169
+ "application/vnd.jupyter.widget-view+json": {
1170
+ "model_id": "ad808a6a8a1545da9fd43f40422fe79d",
1171
+ "version_major": 2,
1172
+ "version_minor": 0
1173
+ },
1174
+ "text/plain": [
1175
+ "Loading dataset shards: 0%| | 0/27 [00:00<?, ?it/s]"
1176
+ ]
1177
+ },
1178
+ "metadata": {},
1179
+ "output_type": "display_data"
1180
+ }
1181
+ ],
1182
+ "source": [
1183
+ "from datasets import load_dataset\n",
1184
+ "\n",
1185
+ "full_dataset = load_dataset(dataset_id,keep_in_memory=False)\n",
1186
+ "train_dataset = full_dataset[\"train\"]\n",
1187
+ "eval_dataset = full_dataset[\"validation\"]"
1188
+ ]
1189
+ },
1190
+ {
1191
+ "cell_type": "markdown",
1192
+ "id": "657e22f9-799c-4745-b12e-b5ff7d16a139",
1193
+ "metadata": {},
1194
+ "source": [
1195
+ "### Model reloading"
1196
+ ]
1197
+ },
1198
+ {
1199
+ "cell_type": "code",
1200
+ "execution_count": 8,
1201
+ "id": "b17fdc73-6827-4b8d-8fdd-7fe47ab664ca",
1202
+ "metadata": {},
1203
+ "outputs": [
1204
+ {
1205
+ "name": "stderr",
1206
+ "output_type": "stream",
1207
+ "text": [
1208
+ "`low_cpu_mem_usage` was None, now default to True since model is quantized.\n"
1209
+ ]
1210
+ },
1211
+ {
1212
+ "data": {
1213
+ "application/vnd.jupyter.widget-view+json": {
1214
+ "model_id": "8bde30fde856460db776483a6ab871fd",
1215
+ "version_major": 2,
1216
+ "version_minor": 0
1217
+ },
1218
+ "text/plain": [
1219
+ "Loading checkpoint shards: 0%| | 0/4 [00:00<?, ?it/s]"
1220
+ ]
1221
+ },
1222
+ "metadata": {},
1223
+ "output_type": "display_data"
1224
+ }
1225
+ ],
1226
+ "source": [
1227
+ "import torch\n",
1228
+ "from peft import LoraConfig\n",
1229
+ "from transformers import AutoProcessor, BitsAndBytesConfig, Idefics3ForConditionalGeneration\n",
1230
+ "\n",
1231
+ "DEVICE = \"cuda:0\"\n",
1232
+ "\n",
1233
+ "processor = AutoProcessor.from_pretrained(\n",
1234
+ " source_model_id,\n",
1235
+ " do_image_splitting=False\n",
1236
+ ")\n",
1237
+ "\n",
1238
+ "model = Idefics3ForConditionalGeneration.from_pretrained(\n",
1239
+ " source_model_id,\n",
1240
+ " torch_dtype=torch.float16,\n",
1241
+ " quantization_config=bnb_config if USE_QLORA else None,\n",
1242
+ ")\n",
1243
+ "model.load_adapter(destination_model_id)\n"
1244
+ ]
1245
+ },
1246
+ {
1247
+ "cell_type": "markdown",
1248
+ "id": "2c9d71e4-ab26-436b-a644-4d2c58aa46db",
1249
+ "metadata": {
1250
+ "id": "0JeaGZxHAMtG"
1251
+ },
1252
+ "source": [
1253
+ "### Step 5: Create Data Collator for IDEFICS3 format."
1254
+ ]
1255
+ },
1256
+ {
1257
+ "cell_type": "code",
1258
+ "execution_count": 9,
1259
+ "id": "d8499a9d-a6da-4108-8325-71b0660bf422",
1260
+ "metadata": {
1261
+ "executionInfo": {
1262
+ "elapsed": 426,
1263
+ "status": "ok",
1264
+ "timestamp": 1730998596513,
1265
+ "user": {
1266
+ "displayName": "Ronan Le Meillat",
1267
+ "userId": "09161391957806824350"
1268
+ },
1269
+ "user_tz": -60
1270
+ },
1271
+ "id": "X6TWyPHaAMtH"
1272
+ },
1273
+ "outputs": [],
1274
+ "source": [
1275
+ "class MyDataCollator:\n",
1276
+ " def __init__(self, processor):\n",
1277
+ " self.processor = processor\n",
1278
+ " self.image_token_id = processor.tokenizer.additional_special_tokens_ids[\n",
1279
+ " processor.tokenizer.additional_special_tokens.index(\"<image>\")\n",
1280
+ " ]\n",
1281
+ "\n",
1282
+ " def __call__(self, samples):\n",
1283
+ " texts = []\n",
1284
+ " images = []\n",
1285
+ " for sample in samples:\n",
1286
+ " image = sample[\"image\"]\n",
1287
+ " answer = sample[\"caption\"]\n",
1288
+ " messages = [\n",
1289
+ " {\n",
1290
+ " \"role\": \"system\",\n",
1291
+ " \"content\": [\n",
1292
+ " {\"type\": \"text\", \"text\": prompt}\n",
1293
+ " ]\n",
1294
+ "\n",
1295
+ " },\n",
1296
+ " {\n",
1297
+ " \"role\": \"user\",\n",
1298
+ " \"content\": [\n",
1299
+ " {\"type\": \"image\"},\n",
1300
+ " ]\n",
1301
+ " },\n",
1302
+ " {\n",
1303
+ " \"role\": \"assistant\",\n",
1304
+ " \"content\": [\n",
1305
+ " {\"type\": \"text\", \"text\": answer}\n",
1306
+ " ]\n",
1307
+ " }\n",
1308
+ " ]\n",
1309
+ " text = processor.apply_chat_template(messages, add_generation_prompt=False)\n",
1310
+ " texts.append(text.strip())\n",
1311
+ " images.append([image.convert('RGB')])\n",
1312
+ "\n",
1313
+ " batch = processor(text=texts, images=images, return_tensors=\"pt\", padding=True)\n",
1314
+ "\n",
1315
+ " labels = batch[\"input_ids\"].clone()\n",
1316
+ " labels[labels == processor.tokenizer.pad_token_id] = self.image_token_id\n",
1317
+ " batch[\"labels\"] = labels\n",
1318
+ "\n",
1319
+ " return batch\n",
1320
+ "\n",
1321
+ "data_collator = MyDataCollator(processor)"
1322
+ ]
1323
+ },
1324
+ {
1325
+ "cell_type": "markdown",
1326
+ "id": "e6467b63-06c1-4227-ab02-2aa5074c8231",
1327
+ "metadata": {
1328
+ "id": "vsq4TtIJAMtH"
1329
+ },
1330
+ "source": [
1331
+ "### Step 6: Setup training parameters"
1332
+ ]
1333
+ },
1334
+ {
1335
+ "cell_type": "code",
1336
+ "execution_count": 12,
1337
+ "id": "1f06690e-4b81-4db7-882e-3f24a33350c6",
1338
+ "metadata": {
1339
+ "executionInfo": {
1340
+ "elapsed": 1008,
1341
+ "status": "ok",
1342
+ "timestamp": 1730998601172,
1343
+ "user": {
1344
+ "displayName": "Ronan Le Meillat",
1345
+ "userId": "09161391957806824350"
1346
+ },
1347
+ "user_tz": -60
1348
+ },
1349
+ "id": "Q_WKQFfoAMtH"
1350
+ },
1351
+ "outputs": [],
1352
+ "source": [
1353
+ "from transformers import TrainingArguments, Trainer\n",
1354
+ "\n",
1355
+ "training_args = TrainingArguments(\n",
1356
+ " output_dir = output_dir,\n",
1357
+ " overwrite_output_dir = False,\n",
1358
+ " auto_find_batch_size = True,\n",
1359
+ " learning_rate = 2e-4,\n",
1360
+ " fp16 = True,\n",
1361
+ " per_device_train_batch_size = 2,\n",
1362
+ " per_device_eval_batch_size = 2,\n",
1363
+ " gradient_accumulation_steps = 8,\n",
1364
+ " dataloader_pin_memory = False,\n",
1365
+ " save_total_limit = 3,\n",
1366
+ " eval_strategy = \"steps\",\n",
1367
+ " save_strategy = \"steps\",\n",
1368
+ " eval_steps = 100,\n",
1369
+ " save_steps = 10, # checkpoint each 10 steps\n",
1370
+ " resume_from_checkpoint = True,\n",
1371
+ " logging_steps = 5,\n",
1372
+ " remove_unused_columns = False,\n",
1373
+ " push_to_hub = False,\n",
1374
+ " label_names = [\"labels\"],\n",
1375
+ " load_best_model_at_end = False,\n",
1376
+ " report_to = \"none\",\n",
1377
+ " optim = \"paged_adamw_8bit\",\n",
1378
+ ")"
1379
+ ]
1380
+ },
1381
+ {
1382
+ "cell_type": "code",
1383
+ "execution_count": 11,
1384
+ "id": "3dcca8d8-4d4e-49a4-9af5-4958edb9e0fc",
1385
+ "metadata": {
1386
+ "colab": {
1387
+ "base_uri": "https://localhost:8080/"
1388
+ },
1389
+ "executionInfo": {
1390
+ "elapsed": 426,
1391
+ "status": "ok",
1392
+ "timestamp": 1730998605441,
1393
+ "user": {
1394
+ "displayName": "Ronan Le Meillat",
1395
+ "userId": "09161391957806824350"
1396
+ },
1397
+ "user_tz": -60
1398
+ },
1399
+ "id": "vSIo17mgAMtH",
1400
+ "outputId": "3bebd35a-ed7f-49ee-e1bc-91594e8dcd24"
1401
+ },
1402
+ "outputs": [],
1403
+ "source": [
1404
+ "trainer = Trainer(\n",
1405
+ " model = model,\n",
1406
+ " args = training_args,\n",
1407
+ " data_collator = data_collator,\n",
1408
+ " train_dataset = train_dataset,\n",
1409
+ " eval_dataset = eval_dataset,\n",
1410
+ ")"
1411
+ ]
1412
+ },
1413
+ {
1414
+ "cell_type": "code",
1415
+ "execution_count": 14,
1416
+ "id": "ff256dc8-6f5a-423a-9607-81cd9ef7735f",
1417
+ "metadata": {},
1418
+ "outputs": [
1419
+ {
1420
+ "ename": "ValueError",
1421
+ "evalue": "No valid checkpoint found in output directory (IDEFICS3_ROCOv2)",
1422
+ "output_type": "error",
1423
+ "traceback": [
1424
+ "\u001b[0;31m---------------------------------------------------------------------------\u001b[0m",
1425
+ "\u001b[0;31mValueError\u001b[0m Traceback (most recent call last)",
1426
+ "Cell \u001b[0;32mIn[14], line 1\u001b[0m\n\u001b[0;32m----> 1\u001b[0m trainer\u001b[38;5;241m.\u001b[39mtrain(resume_from_checkpoint\u001b[38;5;241m=\u001b[39m\u001b[38;5;28;01mTrue\u001b[39;00m)\n",
1427
+ "File \u001b[0;32m~/.miniconda3/lib/python3.12/site-packages/transformers/trainer.py:2109\u001b[0m, in \u001b[0;36mTrainer.train\u001b[0;34m(self, resume_from_checkpoint, trial, ignore_keys_for_eval, **kwargs)\u001b[0m\n\u001b[1;32m 2107\u001b[0m resume_from_checkpoint \u001b[38;5;241m=\u001b[39m get_last_checkpoint(args\u001b[38;5;241m.\u001b[39moutput_dir)\n\u001b[1;32m 2108\u001b[0m \u001b[38;5;28;01mif\u001b[39;00m resume_from_checkpoint \u001b[38;5;129;01mis\u001b[39;00m \u001b[38;5;28;01mNone\u001b[39;00m:\n\u001b[0;32m-> 2109\u001b[0m \u001b[38;5;28;01mraise\u001b[39;00m \u001b[38;5;167;01mValueError\u001b[39;00m(\u001b[38;5;124mf\u001b[39m\u001b[38;5;124m\"\u001b[39m\u001b[38;5;124mNo valid checkpoint found in output directory (\u001b[39m\u001b[38;5;132;01m{\u001b[39;00margs\u001b[38;5;241m.\u001b[39moutput_dir\u001b[38;5;132;01m}\u001b[39;00m\u001b[38;5;124m)\u001b[39m\u001b[38;5;124m\"\u001b[39m)\n\u001b[1;32m 2111\u001b[0m \u001b[38;5;28;01mif\u001b[39;00m resume_from_checkpoint \u001b[38;5;129;01mis\u001b[39;00m \u001b[38;5;129;01mnot\u001b[39;00m \u001b[38;5;28;01mNone\u001b[39;00m:\n\u001b[1;32m 2112\u001b[0m \u001b[38;5;28;01mif\u001b[39;00m \u001b[38;5;129;01mnot\u001b[39;00m is_sagemaker_mp_enabled() \u001b[38;5;129;01mand\u001b[39;00m \u001b[38;5;129;01mnot\u001b[39;00m \u001b[38;5;28mself\u001b[39m\u001b[38;5;241m.\u001b[39mis_deepspeed_enabled \u001b[38;5;129;01mand\u001b[39;00m \u001b[38;5;129;01mnot\u001b[39;00m \u001b[38;5;28mself\u001b[39m\u001b[38;5;241m.\u001b[39mis_fsdp_enabled:\n",
1428
+ "\u001b[0;31mValueError\u001b[0m: No valid checkpoint found in output directory (IDEFICS3_ROCOv2)"
1429
+ ]
1430
+ }
1431
+ ],
1432
+ "source": [
1433
+ "trainer.train(resume_from_checkpoint=True)"
1434
+ ]
1435
+ },
1436
+ {
1437
+ "cell_type": "code",
1438
+ "execution_count": 15,
1439
+ "id": "bd15f877-ed10-4a6d-8b36-ebaaab875526",
1440
+ "metadata": {},
1441
+ "outputs": [
1442
+ {
1443
+ "name": "stdout",
1444
+ "output_type": "stream",
1445
+ "text": [
1446
+ "\n",
1447
+ "Copy-and-paste the text below in your GitHub issue and FILL OUT the two last points.\n",
1448
+ "\n",
1449
+ "- `transformers` version: 4.47.0.dev0\n",
1450
+ "- Platform: Linux-5.15.167.4-microsoft-standard-WSL2-x86_64-with-glibc2.31\n",
1451
+ "- Python version: 3.12.7\n",
1452
+ "- Huggingface_hub version: 0.26.2\n",
1453
+ "- Safetensors version: 0.4.5\n",
1454
+ "- Accelerate version: 1.1.1\n",
1455
+ "- Accelerate config: \tnot found\n",
1456
+ "- PyTorch version (GPU?): 2.5.1+cu124 (True)\n",
1457
+ "- Tensorflow version (GPU?): not installed (NA)\n",
1458
+ "- Flax version (CPU?/GPU?/TPU?): not installed (NA)\n",
1459
+ "- Jax version: not installed\n",
1460
+ "- JaxLib version: not installed\n",
1461
+ "- Using distributed or parallel set-up in script?: <fill in>\n",
1462
+ "- Using GPU in script?: <fill in>\n",
1463
+ "- GPU type: NVIDIA GeForce RTX 2060\n",
1464
+ "\n"
1465
+ ]
1466
+ }
1467
+ ],
1468
+ "source": [
1469
+ "!transformers-cli env"
1470
+ ]
1471
+ },
1472
+ {
1473
+ "cell_type": "code",
1474
+ "execution_count": null,
1475
+ "id": "f82b7c75-c859-451f-9c40-fe9a039bf769",
1476
+ "metadata": {},
1477
+ "outputs": [],
1478
+ "source": []
1479
+ }
1480
+ ],
1481
+ "metadata": {
1482
+ "kernelspec": {
1483
+ "display_name": "Python 3 (ipykernel)",
1484
+ "language": "python",
1485
+ "name": "python3"
1486
+ },
1487
+ "language_info": {
1488
+ "codemirror_mode": {
1489
+ "name": "ipython",
1490
+ "version": 3
1491
+ },
1492
+ "file_extension": ".py",
1493
+ "mimetype": "text/x-python",
1494
+ "name": "python",
1495
+ "nbconvert_exporter": "python",
1496
+ "pygments_lexer": "ipython3",
1497
+ "version": "3.12.7"
1498
+ }
1499
+ },
1500
+ "nbformat": 4,
1501
+ "nbformat_minor": 5
1502
+ }