Add fully merged standalone MedGemma-RoCoV2 model

.gitattributes

@@ -33,3 +33,4 @@ saved_model/**/* filter=lfs diff=lfs merge=lfs -text
 *.zip filter=lfs diff=lfs merge=lfs -text
 *.zst filter=lfs diff=lfs merge=lfs -text
 *tfevents* filter=lfs diff=lfs merge=lfs -text
+tokenizer.json filter=lfs diff=lfs merge=lfs -text

README.md

@@ -0,0 +1,54 @@
+---
+language: en
+license: gemma
+tags:
+  - medgemma
+  - radiology
+  - rocov2
+  - medical
+  - merged
+base_model: google/medgemma-4b-it
+datasets:
+  - StanfordAIMI/rocov2
+---
+
+# MedGemma RoCoV2 — Standalone Merged Model
+
+This is a fully merged (adapter-free) version of MedGemma fine-tuned on
+[RoCoV2](https://huggingface.co/datasets/StanfordAIMI/rocov2).
+
+The LoRA adapters from [LewinRobin/Medgemma_Rocov2](https://huggingface.co/LewinRobin/Medgemma_Rocov2)
+have been merged directly into the base weights of
+[google/medgemma-4b-it](https://huggingface.co/google/medgemma-4b-it).
+
+**No PEFT dependency required** — load with plain `AutoModelForCausalLM`.
+
+## Usage
+
+```python
+from transformers import AutoTokenizer, AutoModelForCausalLM
+import torch
+
+model     = AutoModelForCausalLM.from_pretrained(
+    "LewinRobin/Medgemma_ROCOv2_Standalone", torch_dtype=torch.bfloat16, device_map="auto"
+)
+tokenizer = AutoTokenizer.from_pretrained("LewinRobin/Medgemma_ROCOv2_Standalone")
+
+messages = [
+    {"role": "system", "content": "You are a highly experienced radiologist. Given a radiology image identifier and its associated UMLS medical concepts, write an accurate and concise radiology report caption."},
+    {"role": "user",   "content": "Image ID: ROCOv2_2023_train_000001
+Medical Concepts (UMLS CUIs): C0040405
+Write the radiology report caption for this image."}
+]
+text   = tokenizer.apply_chat_template(messages, tokenize=False, add_generation_prompt=True)
+inputs = tokenizer(text, return_tensors="pt", return_token_type_ids=True).to(model.device)
+out    = model.generate(**inputs, max_new_tokens=128)
+print(tokenizer.decode(out[0][inputs["input_ids"].shape[1]:], skip_special_tokens=True))
+```
+
+## Training Details
+- Base model : google/medgemma-4b-it
+- Dataset    : StanfordAIMI/rocov2 (~60 k samples)
+- Method     : QLoRA (merged) — 4-bit NF4, r=64, alpha=128
+- Hardware   : NVIDIA H100 80 GB
+- Adapter source : [LewinRobin/Medgemma_Rocov2](https://huggingface.co/LewinRobin/Medgemma_Rocov2)

chat_template.jinja

@@ -0,0 +1,47 @@
+{{ bos_token }}
+{%- if messages[0]['role'] == 'system' -%}
+    {%- if messages[0]['content'] is string -%}
+        {%- set first_user_prefix = messages[0]['content'] + '
+
+' -%}
+    {%- else -%}
+        {%- set first_user_prefix = messages[0]['content'][0]['text'] + '
+
+' -%}
+    {%- endif -%}
+    {%- set loop_messages = messages[1:] -%}
+{%- else -%}
+    {%- set first_user_prefix = "" -%}
+    {%- set loop_messages = messages -%}
+{%- endif -%}
+{%- for message in loop_messages -%}
+    {%- if (message['role'] == 'user') != (loop.index0 % 2 == 0) -%}
+        {{ raise_exception("Conversation roles must alternate user/assistant/user/assistant/...") }}
+    {%- endif -%}
+    {%- if (message['role'] == 'assistant') -%}
+        {%- set role = "model" -%}
+    {%- else -%}
+        {%- set role = message['role'] -%}
+    {%- endif -%}
+    {{ '<start_of_turn>' + role + '
+' + (first_user_prefix if loop.first else "") }}
+    {%- if message['content'] is string -%}
+        {{ message['content'] | trim }}
+    {%- elif message['content'] is iterable -%}
+        {%- for item in message['content'] -%}
+            {%- if item['type'] == 'image' -%}
+                {{ '<start_of_image>' }}
+            {%- elif item['type'] == 'text' -%}
+                {{ item['text'] | trim }}
+            {%- endif -%}
+        {%- endfor -%}
+    {%- else -%}
+        {{ raise_exception("Invalid content type") }}
+    {%- endif -%}
+    {{ '<end_of_turn>
+' }}
+{%- endfor -%}
+{%- if add_generation_prompt -%}
+    {{'<start_of_turn>model
+'}}
+{%- endif -%}

config.json

@@ -0,0 +1,108 @@
+{
+  "architectures": [
+    "Gemma3ForConditionalGeneration"
+  ],
+  "boi_token_index": 255999,
+  "dtype": "bfloat16",
+  "eoi_token_index": 256000,
+  "eos_token_id": [
+    1,
+    106
+  ],
+  "image_token_index": 262144,
+  "initializer_range": 0.02,
+  "mm_tokens_per_image": 256,
+  "model_type": "gemma3",
+  "text_config": {
+    "_sliding_window_pattern": 6,
+    "attention_bias": false,
+    "attention_dropout": 0.0,
+    "attn_logit_softcapping": null,
+    "bos_token_id": 2,
+    "dtype": "bfloat16",
+    "eos_token_id": 1,
+    "final_logit_softcapping": null,
+    "head_dim": 256,
+    "hidden_activation": "gelu_pytorch_tanh",
+    "hidden_size": 2560,
+    "initializer_range": 0.02,
+    "intermediate_size": 10240,
+    "layer_types": [
+      "sliding_attention",
+      "sliding_attention",
+      "sliding_attention",
+      "sliding_attention",
+      "sliding_attention",
+      "full_attention",
+      "sliding_attention",
+      "sliding_attention",
+      "sliding_attention",
+      "sliding_attention",
+      "sliding_attention",
+      "full_attention",
+      "sliding_attention",
+      "sliding_attention",
+      "sliding_attention",
+      "sliding_attention",
+      "sliding_attention",
+      "full_attention",
+      "sliding_attention",
+      "sliding_attention",
+      "sliding_attention",
+      "sliding_attention",
+      "sliding_attention",
+      "full_attention",
+      "sliding_attention",
+      "sliding_attention",
+      "sliding_attention",
+      "sliding_attention",
+      "sliding_attention",
+      "full_attention",
+      "sliding_attention",
+      "sliding_attention",
+      "sliding_attention",
+      "sliding_attention"
+    ],
+    "max_position_embeddings": 131072,
+    "model_type": "gemma3_text",
+    "num_attention_heads": 8,
+    "num_hidden_layers": 34,
+    "num_key_value_heads": 4,
+    "pad_token_id": 0,
+    "query_pre_attn_scalar": 256,
+    "rms_norm_eps": 1e-06,
+    "rope_parameters": {
+      "full_attention": {
+        "factor": 8.0,
+        "rope_theta": 1000000,
+        "rope_type": "linear"
+      },
+      "sliding_attention": {
+        "rope_theta": 10000,
+        "rope_type": "default"
+      }
+    },
+    "sliding_window": 1024,
+    "tie_word_embeddings": true,
+    "use_bidirectional_attention": false,
+    "use_cache": true,
+    "vocab_size": 262208
+  },
+  "tie_word_embeddings": true,
+  "transformers_version": "5.3.0",
+  "vision_config": {
+    "attention_dropout": 0.0,
+    "dtype": "bfloat16",
+    "hidden_act": "gelu_pytorch_tanh",
+    "hidden_size": 1152,
+    "image_size": 896,
+    "intermediate_size": 4304,
+    "layer_norm_eps": 1e-06,
+    "model_type": "siglip_vision_model",
+    "num_attention_heads": 16,
+    "num_channels": 3,
+    "num_hidden_layers": 27,
+    "patch_size": 14,
+    "vision_use_head": false
+  }
+}

generation_config.json

@@ -0,0 +1,10 @@
+{
+  "_from_model_config": true,
+  "bos_token_id": 2,
+  "eos_token_id": [
+    1,
+    106
+  ],
+  "pad_token_id": 0,
+  "transformers_version": "5.3.0"
+}

model.safetensors

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+version https://git-lfs.github.com/spec/v1
+oid sha256:5d2a218934a56b405957524618cd687f5cf2d99e629433dc06346c7fa885e044
+size 8600278008

tokenizer.json

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+version https://git-lfs.github.com/spec/v1
+oid sha256:daab2354f8a74e70d70b4d1f804939b68a8c9624dd06cb7858e52dd8970e9726
+size 33384567

tokenizer_config.json

@@ -0,0 +1,24 @@
+{
+  "backend": "tokenizers",
+  "boi_token": "<start_of_image>",
+  "bos_token": "<bos>",
+  "clean_up_tokenization_spaces": false,
+  "eoi_token": "<end_of_image>",
+  "eos_token": "<eos>",
+  "image_token": "<image_soft_token>",
+  "is_local": false,
+  "mask_token": "<mask>",
+  "model_max_length": 1000000000000000019884624838656,
+  "model_specific_special_tokens": {
+    "boi_token": "<start_of_image>",
+    "eoi_token": "<end_of_image>",
+    "image_token": "<image_soft_token>"
+  },
+  "pad_token": "<pad>",
+  "processor_class": "Gemma3Processor",
+  "sp_model_kwargs": null,
+  "spaces_between_special_tokens": false,
+  "tokenizer_class": "GemmaTokenizer",
+  "unk_token": "<unk>",
+  "use_default_system_prompt": false
+}