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
File size: 5,782 Bytes
83ddd7e | 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159 160 161 162 | # 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 json
import os
import fire
import torch
import torch.distributed as dist
from transformers import AutoConfig
from llamafactory.train.tuner import run_exp
BASE = 2 # gemm (add + mul)
def compute_model_flops(
model_name_or_path: str,
total_batch_size: int,
seq_length: int,
include_backward: bool = True,
include_recompute: bool = False,
include_flashattn: bool = False,
) -> int:
r"""Calculate the FLOPs of model per forward/backward pass."""
config = AutoConfig.from_pretrained(model_name_or_path)
hidden_size = getattr(config, "hidden_size", None)
vocab_size = getattr(config, "vocab_size", None)
intermediate_size = getattr(config, "intermediate_size", None)
num_attention_heads = getattr(config, "num_attention_heads", None)
num_key_value_heads = getattr(config, "num_key_value_heads", None)
num_hidden_layers = getattr(config, "num_hidden_layers", None)
tie_word_embeddings = getattr(config, "tie_word_embeddings", False)
# mlp module
mlp_flops_per_token = 3 * BASE * hidden_size * intermediate_size # up, gate, down
mlp_flops = total_batch_size * seq_length * num_hidden_layers * mlp_flops_per_token
# attn projector module
q_flops_per_token = BASE * hidden_size * hidden_size
o_flops_per_token = BASE * hidden_size * hidden_size
k_flops_per_token = BASE * hidden_size * hidden_size * num_key_value_heads // num_attention_heads
v_flops_per_token = BASE * hidden_size * hidden_size * num_key_value_heads // num_attention_heads
attn_proj_flops_per_token = q_flops_per_token + o_flops_per_token + k_flops_per_token + v_flops_per_token
attn_proj_flops = total_batch_size * seq_length * num_hidden_layers * attn_proj_flops_per_token
# attn sdpa module
sdpa_flops_per_layer = 2 * BASE * hidden_size * seq_length * seq_length # (q * k^T) * v
sdpa_flops = total_batch_size * num_hidden_layers * sdpa_flops_per_layer
# embedding module
embedding_flops_per_token = hidden_size * vocab_size
embedding_flops = total_batch_size * seq_length * embedding_flops_per_token
if tie_word_embeddings is False:
embedding_flops *= 2
non_embedding_flops = mlp_flops + attn_proj_flops + sdpa_flops
non_embedding_coeff, embedding_coeff = 1, 1
if include_backward:
non_embedding_coeff += 2
embedding_coeff += 2
if include_recompute:
non_embedding_coeff += 1
total_flops = non_embedding_coeff * non_embedding_flops + embedding_coeff * embedding_flops
if include_flashattn:
total_flops += sdpa_flops
return total_flops
def compute_device_flops(world_size: int) -> float:
r"""Calculate the FLOPs of the device capability per second."""
device_name = torch.cuda.get_device_name()
if "H100" in device_name or "H800" in device_name:
return 989 * 1e12 * world_size
elif "A100" in device_name or "A800" in device_name:
return 312 * 1e12 * world_size
elif "V100" in device_name:
return 125 * 1e12 * world_size
elif "4090" in device_name:
return 98 * 1e12 * world_size
else:
raise NotImplementedError(f"Device not supported: {device_name}.")
def calculate_mfu(
model_name_or_path: str,
batch_size: int = 1,
seq_length: int = 1024,
num_steps: int = 100,
finetuning_type: str = "lora",
flash_attn: str = "auto",
deepspeed_stage: int = 0,
disable_gc: bool = False,
liger_kernel: bool = False,
unsloth_gc: bool = False,
) -> float:
r"""Calculate MFU for given model and hyper-params.
Usage: python cal_mfu.py --model_name_or_path path_to_model --batch_size 1 --seq_length 1024
"""
args = {
"model_name_or_path": model_name_or_path,
"flash_attn": flash_attn,
"disable_gradient_checkpointing": disable_gc,
"enable_liger_kernel": liger_kernel,
"use_unsloth_gc": unsloth_gc,
"stage": "pt",
"do_train": True,
"finetuning_type": finetuning_type,
"dataset": "c4_demo",
"cutoff_len": seq_length,
"output_dir": os.path.join("saves", "test_mfu"),
"logging_strategy": "no",
"save_strategy": "no",
"save_only_model": True,
"overwrite_output_dir": True,
"per_device_train_batch_size": batch_size,
"max_steps": num_steps,
"bf16": True,
}
if deepspeed_stage in [2, 3]:
args["deepspeed"] = f"examples/deepspeed/ds_z{deepspeed_stage}_config.json"
run_exp(args)
if dist.is_initialized():
dist.barrier()
world_size = dist.get_world_size()
else:
world_size = 1
if int(os.getenv("LOCAL_RANK", "0")) == 0:
with open(os.path.join("saves", "test_mfu", "all_results.json"), encoding="utf-8") as f:
result = json.load(f)
total_batch_size = batch_size * world_size
mfu_value = (
result["train_steps_per_second"]
* compute_model_flops(model_name_or_path, total_batch_size, seq_length)
/ compute_device_flops(world_size)
)
print(f"MFU: {mfu_value * 100:.2f}%")
if __name__ == "__main__":
fire.Fire(calculate_mfu)
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