Text Generation
Transformers
TensorBoard
Safetensors
biology
genomics
rna
sequence-generation
regression
reinforcement-learning
git-lfs
Instructions to use JoyXiangLab/rnaseek-full with libraries, inference providers, notebooks, and local apps. Follow these links to get started.
- Libraries
- Transformers
How to use JoyXiangLab/rnaseek-full with Transformers:
# Use a pipeline as a high-level helper from transformers import pipeline pipe = pipeline("text-generation", model="JoyXiangLab/rnaseek-full")# Load model directly from transformers import AutoModel model = AutoModel.from_pretrained("JoyXiangLab/rnaseek-full", device_map="auto") - Notebooks
- Google Colab
- Kaggle
- Local Apps Settings
- vLLM
How to use JoyXiangLab/rnaseek-full with vLLM:
Install from pip and serve model
# Install vLLM from pip: pip install vllm # Start the vLLM server: vllm serve "JoyXiangLab/rnaseek-full" # Call the server using curl (OpenAI-compatible API): curl -X POST "http://localhost:8000/v1/completions" \ -H "Content-Type: application/json" \ --data '{ "model": "JoyXiangLab/rnaseek-full", "prompt": "Once upon a time,", "max_tokens": 512, "temperature": 0.5 }'Use Docker
docker model run hf.co/JoyXiangLab/rnaseek-full
- SGLang
How to use JoyXiangLab/rnaseek-full with SGLang:
Install from pip and serve model
# Install SGLang from pip: pip install sglang # Start the SGLang server: python3 -m sglang.launch_server \ --model-path "JoyXiangLab/rnaseek-full" \ --host 0.0.0.0 \ --port 30000 # Call the server using curl (OpenAI-compatible API): curl -X POST "http://localhost:30000/v1/completions" \ -H "Content-Type: application/json" \ --data '{ "model": "JoyXiangLab/rnaseek-full", "prompt": "Once upon a time,", "max_tokens": 512, "temperature": 0.5 }'Use Docker images
docker run --gpus all \ --shm-size 32g \ -p 30000:30000 \ -v ~/.cache/huggingface:/root/.cache/huggingface \ --env "HF_TOKEN=<secret>" \ --ipc=host \ lmsysorg/sglang:latest \ python3 -m sglang.launch_server \ --model-path "JoyXiangLab/rnaseek-full" \ --host 0.0.0.0 \ --port 30000 # Call the server using curl (OpenAI-compatible API): curl -X POST "http://localhost:30000/v1/completions" \ -H "Content-Type: application/json" \ --data '{ "model": "JoyXiangLab/rnaseek-full", "prompt": "Once upon a time,", "max_tokens": 512, "temperature": 0.5 }' - Docker Model Runner
How to use JoyXiangLab/rnaseek-full with Docker Model Runner:
docker model run hf.co/JoyXiangLab/rnaseek-full
| # Copyright 2025 the LlamaFactory team. | |
| # | |
| # Licensed under the Apache License, Version 2.0 (the "License"); | |
| # you may not use this file except in compliance with the License. | |
| # You may obtain a copy of the License at | |
| # | |
| # http://www.apache.org/licenses/LICENSE-2.0 | |
| # | |
| # Unless required by applicable law or agreed to in writing, software | |
| # distributed under the License is distributed on an "AS IS" BASIS, | |
| # WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. | |
| # See the License for the specific language governing permissions and | |
| # limitations under the License. | |
| import os | |
| from types import SimpleNamespace | |
| import pytest | |
| import torch | |
| from safetensors.torch import load_file | |
| from transformers import AutoConfig, AutoModelForImageTextToText | |
| from llamafactory.extras.packages import is_transformers_version_greater_than | |
| from llamafactory.hparams import FinetuningArguments, ModelArguments | |
| from llamafactory.model.adapter import _setup_freeze_tuning, _setup_full_tuning, init_adapter | |
| from llamafactory.model.model_utils.misc import find_all_linear_modules | |
| from llamafactory.model.model_utils.visual import COMPOSITE_MODELS, autocast_projector_dtype, patch_target_modules | |
| class _MossVLFixture(torch.nn.Module): | |
| def __init__(self) -> None: | |
| super().__init__() | |
| self.config = SimpleNamespace( | |
| model_type="moss_vl", | |
| text_config=SimpleNamespace(num_hidden_layers=2), | |
| ) | |
| self.model = torch.nn.Module() | |
| self.model.separator_token = torch.nn.Parameter(torch.empty(4)) | |
| self.model.visual = torch.nn.Module() | |
| self.model.visual.pos_embed = torch.nn.Embedding(4, 4) | |
| self.model.visual.patch_embed = torch.nn.Module() | |
| self.model.visual.patch_embed.proj = torch.nn.Linear(4, 4) | |
| self.model.visual.blocks = torch.nn.ModuleList([self._make_block(), self._make_block()]) | |
| self.model.visual.merger = torch.nn.Module() | |
| self.model.visual.merger.linear_fc1 = torch.nn.Linear(4, 4) | |
| self.model.language_model = torch.nn.Module() | |
| self.model.language_model.layers = torch.nn.ModuleList([self._make_layer(), self._make_layer()]) | |
| self.lm_head = torch.nn.Linear(4, 4) | |
| def _make_block() -> torch.nn.Module: | |
| block = torch.nn.Module() | |
| block.attn = torch.nn.Module() | |
| block.attn.qkv = torch.nn.Linear(4, 4) | |
| return block | |
| def _make_layer() -> torch.nn.Module: | |
| layer = torch.nn.Module() | |
| layer.self_attn = torch.nn.Module() | |
| layer.self_attn.q_proj = torch.nn.Linear(4, 4) | |
| return layer | |
| def test_moss_vl_full( | |
| freeze_vision_tower: bool, | |
| freeze_multi_modal_projector: bool, | |
| freeze_language_model: bool, | |
| ): | |
| model = _MossVLFixture() | |
| finetuning_args = FinetuningArguments( | |
| finetuning_type="full", | |
| freeze_vision_tower=freeze_vision_tower, | |
| freeze_multi_modal_projector=freeze_multi_modal_projector, | |
| freeze_language_model=freeze_language_model, | |
| ) | |
| _setup_full_tuning(model, finetuning_args, is_trainable=True, cast_trainable_params_to_fp32=False) | |
| for name, param in model.named_parameters(): | |
| if name.startswith("model.visual.merger") or name == "model.separator_token": | |
| assert param.requires_grad != freeze_multi_modal_projector | |
| elif name.startswith("model.visual"): | |
| assert param.requires_grad != freeze_vision_tower | |
| else: | |
| assert param.requires_grad != freeze_language_model | |
| def test_moss_vl_freeze(freeze_multi_modal_projector: bool): | |
| model = _MossVLFixture() | |
| finetuning_args = FinetuningArguments( | |
| finetuning_type="freeze", | |
| freeze_trainable_layers=1, | |
| freeze_vision_tower=True, | |
| freeze_multi_modal_projector=freeze_multi_modal_projector, | |
| freeze_language_model=False, | |
| ) | |
| _setup_freeze_tuning(model, finetuning_args, is_trainable=True, cast_trainable_params_to_fp32=False) | |
| assert model.model.separator_token.requires_grad != freeze_multi_modal_projector | |
| assert model.model.visual.merger.linear_fc1.weight.requires_grad != freeze_multi_modal_projector | |
| assert model.model.visual.patch_embed.proj.weight.requires_grad is False | |
| assert model.model.language_model.layers[0].self_attn.q_proj.weight.requires_grad is False | |
| assert model.model.language_model.layers[1].self_attn.q_proj.weight.requires_grad is True | |
| def test_moss_vl_lora_target_all(freeze_vision_tower: bool): | |
| model = _MossVLFixture() | |
| finetuning_args = FinetuningArguments( | |
| finetuning_type="lora", | |
| lora_target="all", | |
| freeze_vision_tower=freeze_vision_tower, | |
| freeze_multi_modal_projector=True, | |
| freeze_language_model=False, | |
| ) | |
| target_modules = find_all_linear_modules(model, freeze_vision_tower) | |
| target_modules = patch_target_modules(model, finetuning_args, target_modules) | |
| assert any(name.startswith("model.language_model") and name.endswith("q_proj") for name in target_modules) | |
| assert any(name.startswith("model.visual.blocks") and name.endswith("qkv") for name in target_modules) != ( | |
| freeze_vision_tower | |
| ) | |
| assert all("patch_embed" not in name for name in target_modules) | |
| assert all("merger" not in name for name in target_modules) | |
| assert all("lm_head" not in name for name in target_modules) | |
| def test_moss_vl_projector_modules(): | |
| model = _MossVLFixture() | |
| composite_model = COMPOSITE_MODELS["moss_vl"] | |
| assert composite_model.projector_keys == ["model.visual.merger", "model.separator_token"] | |
| assert composite_model.get_projectors(model) == [model.model.visual.merger] | |
| def test_moss_vl_quantized_projector_hook_skips_parameter(): | |
| model = _MossVLFixture() | |
| model.quantization_method = "bitsandbytes" | |
| autocast_projector_dtype(model, SimpleNamespace(compute_dtype=torch.float16)) | |
| assert len(model.model.visual.merger._forward_hooks) == 1 | |
| def test_visual_full(freeze_vision_tower: bool, freeze_multi_modal_projector: bool, freeze_language_model: bool): | |
| model_args = ModelArguments(model_name_or_path="Qwen/Qwen2-VL-2B-Instruct") | |
| finetuning_args = FinetuningArguments( | |
| finetuning_type="full", | |
| freeze_vision_tower=freeze_vision_tower, | |
| freeze_multi_modal_projector=freeze_multi_modal_projector, | |
| freeze_language_model=freeze_language_model, | |
| ) | |
| config = AutoConfig.from_pretrained(model_args.model_name_or_path) | |
| with torch.device("meta"): | |
| model = AutoModelForImageTextToText.from_config(config) | |
| model = init_adapter(config, model, model_args, finetuning_args, is_trainable=True) | |
| for name, param in model.named_parameters(): | |
| if any(key in name for key in ["visual.patch_embed", "visual.blocks"]): | |
| assert param.requires_grad != freeze_vision_tower | |
| elif "visual.merger" in name: | |
| assert param.requires_grad != freeze_multi_modal_projector | |
| else: | |
| assert param.requires_grad != freeze_language_model | |
| def test_visual_lora(freeze_vision_tower: bool, freeze_language_model: bool): | |
| model_args = ModelArguments(model_name_or_path="Qwen/Qwen2-VL-2B-Instruct") | |
| finetuning_args = FinetuningArguments( | |
| finetuning_type="lora", freeze_vision_tower=freeze_vision_tower, freeze_language_model=freeze_language_model | |
| ) | |
| config = AutoConfig.from_pretrained(model_args.model_name_or_path) | |
| with torch.device("meta"): | |
| model = AutoModelForImageTextToText.from_config(config) | |
| model = init_adapter(config, model, model_args, finetuning_args, is_trainable=True) | |
| trainable_params, frozen_params = set(), set() | |
| for name, param in model.named_parameters(): | |
| if param.requires_grad: | |
| trainable_params.add(name) | |
| else: | |
| frozen_params.add(name) | |
| if is_transformers_version_greater_than("4.52.0"): | |
| visual_param_name = "base_model.model.model.visual.blocks.0.attn.qkv.lora_A.default.weight" | |
| language_param_name = "base_model.model.model.language_model.layers.0.self_attn.q_proj.lora_A.default.weight" | |
| merger_param_name = "base_model.model.model.visual.merger.lora_A.default.weight" | |
| else: | |
| visual_param_name = "base_model.model.visual.blocks.0.attn.qkv.lora_A.default.weight" | |
| language_param_name = "base_model.model.model.layers.0.self_attn.q_proj.lora_A.default.weight" | |
| merger_param_name = "base_model.model.visual.merger.lora_A.default.weight" | |
| assert (visual_param_name in trainable_params) != freeze_vision_tower | |
| assert (language_param_name in trainable_params) != freeze_language_model | |
| assert (merger_param_name in trainable_params) is False | |
| def test_visual_model_save_load(): | |
| # check VLM's state dict: https://github.com/huggingface/transformers/pull/38385 | |
| model_args = ModelArguments(model_name_or_path="Qwen/Qwen2-VL-2B-Instruct") | |
| finetuning_args = FinetuningArguments(finetuning_type="full") | |
| config = AutoConfig.from_pretrained(model_args.model_name_or_path) | |
| with torch.device("meta"): | |
| model = AutoModelForImageTextToText.from_config(config) | |
| model = init_adapter(config, model, model_args, finetuning_args, is_trainable=False) | |
| model.to_empty(device="cpu") | |
| loaded_model_weight = dict(model.named_parameters()) | |
| model.save_pretrained(os.path.join("output", "qwen2_vl"), max_shard_size="10GB", safe_serialization=True) | |
| saved_model_weight = load_file(os.path.join("output", "qwen2_vl", "model.safetensors")) | |
| if is_transformers_version_greater_than("4.52.0"): | |
| assert "model.language_model.layers.0.self_attn.q_proj.weight" in loaded_model_weight | |
| else: | |
| assert "model.layers.0.self_attn.q_proj.weight" in loaded_model_weight | |
| assert "model.layers.0.self_attn.q_proj.weight" in saved_model_weight | |