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 json | |
| from datetime import datetime | |
| import pytest | |
| from llamafactory.data.formatter import EmptyFormatter, FunctionFormatter, StringFormatter, ToolFormatter | |
| FUNCTION = {"name": "tool_name", "arguments": {"foo": "bar", "size": 10}} | |
| TOOLS = [ | |
| { | |
| "name": "test_tool", | |
| "description": "tool_desc", | |
| "parameters": { | |
| "type": "object", | |
| "properties": { | |
| "foo": {"type": "string", "description": "foo_desc"}, | |
| "bar": {"type": "number", "description": "bar_desc"}, | |
| }, | |
| "required": ["foo"], | |
| }, | |
| } | |
| ] | |
| def test_empty_formatter(): | |
| formatter = EmptyFormatter(slots=["\n"]) | |
| assert formatter.apply() == ["\n"] | |
| def test_string_formatter(): | |
| formatter = StringFormatter(slots=["<s>", "Human: {{content}}\nAssistant:"]) | |
| assert formatter.apply(content="Hi") == ["<s>", "Human: Hi\nAssistant:"] | |
| def test_function_formatter(): | |
| formatter = FunctionFormatter(slots=["{{content}}", "</s>"], tool_format="default") | |
| tool_calls = json.dumps(FUNCTION) | |
| assert formatter.apply(content=tool_calls) == [ | |
| """Action: tool_name\nAction Input: {"foo": "bar", "size": 10}""", | |
| "</s>", | |
| ] | |
| def test_multi_function_formatter(): | |
| formatter = FunctionFormatter(slots=["{{content}}", "</s>"], tool_format="default") | |
| tool_calls = json.dumps([FUNCTION] * 2) | |
| assert formatter.apply(content=tool_calls) == [ | |
| """Action: tool_name\nAction Input: {"foo": "bar", "size": 10}\n""" | |
| """Action: tool_name\nAction Input: {"foo": "bar", "size": 10}""", | |
| "</s>", | |
| ] | |
| def test_default_tool_formatter(): | |
| formatter = ToolFormatter(tool_format="default") | |
| assert formatter.apply(content=json.dumps(TOOLS)) == [ | |
| "You have access to the following tools:\n" | |
| "> Tool Name: test_tool\n" | |
| "Tool Description: tool_desc\n" | |
| "Tool Args:\n" | |
| " - foo (string, required): foo_desc\n" | |
| " - bar (number): bar_desc\n\n" | |
| "Use the following format if using a tool:\n" | |
| "```\n" | |
| "Action: tool name (one of [test_tool])\n" | |
| "Action Input: the input to the tool, in a JSON format representing the kwargs " | |
| """(e.g. ```{"input": "hello world", "num_beams": 5}```)\n""" | |
| "```\n" | |
| ] | |
| def test_default_tool_extractor(): | |
| formatter = ToolFormatter(tool_format="default") | |
| result = """Action: test_tool\nAction Input: {"foo": "bar", "size": 10}""" | |
| assert formatter.extract(result) == [("test_tool", """{"foo": "bar", "size": 10}""")] | |
| def test_default_multi_tool_extractor(): | |
| formatter = ToolFormatter(tool_format="default") | |
| result = ( | |
| """Action: test_tool\nAction Input: {"foo": "bar", "size": 10}\n""" | |
| """Action: another_tool\nAction Input: {"foo": "job", "size": 2}""" | |
| ) | |
| assert formatter.extract(result) == [ | |
| ("test_tool", """{"foo": "bar", "size": 10}"""), | |
| ("another_tool", """{"foo": "job", "size": 2}"""), | |
| ] | |
| def test_glm4_function_formatter(): | |
| formatter = FunctionFormatter(slots=["{{content}}"], tool_format="glm4") | |
| tool_calls = json.dumps(FUNCTION) | |
| assert formatter.apply(content=tool_calls) == ["""tool_name\n{"foo": "bar", "size": 10}"""] | |
| def test_glm4_tool_formatter(): | |
| formatter = ToolFormatter(tool_format="glm4") | |
| assert formatter.apply(content=json.dumps(TOOLS)) == [ | |
| "你是一个名为 ChatGLM 的人工智能助手。你是基于智谱 AI 公司训练的语言模型 GLM-4 模型开发的," | |
| "你的任务是针对用户的问题和要求提供适当的答复和支持。\n\n# 可用工具\n\n" | |
| f"## test_tool\n\n{json.dumps(TOOLS[0], indent=4, ensure_ascii=False)}\n" | |
| "在调用上述函数时,请使用 Json 格式表示调用的参数。" | |
| ] | |
| def test_glm4_tool_extractor(): | |
| formatter = ToolFormatter(tool_format="glm4") | |
| result = """test_tool\n{"foo": "bar", "size": 10}\n""" | |
| assert formatter.extract(result) == [("test_tool", """{"foo": "bar", "size": 10}""")] | |
| def test_llama3_function_formatter(): | |
| formatter = FunctionFormatter(slots=["{{content}}<|eot_id|>"], tool_format="llama3") | |
| tool_calls = json.dumps(FUNCTION) | |
| assert formatter.apply(content=tool_calls) == [ | |
| """{"name": "tool_name", "parameters": {"foo": "bar", "size": 10}}<|eot_id|>""" | |
| ] | |
| def test_llama3_multi_function_formatter(): | |
| formatter = FunctionFormatter(slots=["{{content}}<|eot_id|>"], tool_format="llama3") | |
| tool_calls = json.dumps([FUNCTION] * 2) | |
| assert formatter.apply(content=tool_calls) == [ | |
| """[{"name": "tool_name", "parameters": {"foo": "bar", "size": 10}}, """ | |
| """{"name": "tool_name", "parameters": {"foo": "bar", "size": 10}}]""" | |
| """<|eot_id|>""" | |
| ] | |
| def test_llama3_tool_formatter(): | |
| formatter = ToolFormatter(tool_format="llama3") | |
| date = datetime.now().strftime("%d %b %Y") | |
| wrapped_tool = {"type": "function", "function": TOOLS[0]} | |
| assert formatter.apply(content=json.dumps(TOOLS)) == [ | |
| f"Cutting Knowledge Date: December 2023\nToday Date: {date}\n\n" | |
| "You have access to the following functions. " | |
| "To call a function, please respond with JSON for a function call. " | |
| """Respond in the format {"name": function name, "parameters": dictionary of argument name and its value}. """ | |
| f"Do not use variables.\n\n{json.dumps(wrapped_tool, indent=4, ensure_ascii=False)}\n\n" | |
| ] | |
| def test_llama3_tool_extractor(): | |
| formatter = ToolFormatter(tool_format="llama3") | |
| result = """{"name": "test_tool", "parameters": {"foo": "bar", "size": 10}}\n""" | |
| assert formatter.extract(result) == [("test_tool", """{"foo": "bar", "size": 10}""")] | |
| def test_llama3_multi_tool_extractor(): | |
| formatter = ToolFormatter(tool_format="llama3") | |
| result = ( | |
| """[{"name": "test_tool", "parameters": {"foo": "bar", "size": 10}}, """ | |
| """{"name": "another_tool", "parameters": {"foo": "job", "size": 2}}]""" | |
| ) | |
| assert formatter.extract(result) == [ | |
| ("test_tool", """{"foo": "bar", "size": 10}"""), | |
| ("another_tool", """{"foo": "job", "size": 2}"""), | |
| ] | |
| def test_mistral_function_formatter(): | |
| formatter = FunctionFormatter(slots=["[TOOL_CALLS] {{content}}", "</s>"], tool_format="mistral") | |
| tool_calls = json.dumps(FUNCTION) | |
| assert formatter.apply(content=tool_calls) == [ | |
| "[TOOL_CALLS] " """[{"name": "tool_name", "arguments": {"foo": "bar", "size": 10}}]""", | |
| "</s>", | |
| ] | |
| def test_mistral_multi_function_formatter(): | |
| formatter = FunctionFormatter(slots=["[TOOL_CALLS] {{content}}", "</s>"], tool_format="mistral") | |
| tool_calls = json.dumps([FUNCTION] * 2) | |
| assert formatter.apply(content=tool_calls) == [ | |
| "[TOOL_CALLS] " | |
| """[{"name": "tool_name", "arguments": {"foo": "bar", "size": 10}}, """ | |
| """{"name": "tool_name", "arguments": {"foo": "bar", "size": 10}}]""", | |
| "</s>", | |
| ] | |
| def test_mistral_tool_formatter(): | |
| formatter = ToolFormatter(tool_format="mistral") | |
| wrapped_tool = {"type": "function", "function": TOOLS[0]} | |
| assert formatter.apply(content=json.dumps(TOOLS)) == [ | |
| "[AVAILABLE_TOOLS] " + json.dumps([wrapped_tool], ensure_ascii=False) + "[/AVAILABLE_TOOLS]" | |
| ] | |
| def test_mistral_tool_extractor(): | |
| formatter = ToolFormatter(tool_format="mistral") | |
| result = """{"name": "test_tool", "arguments": {"foo": "bar", "size": 10}}""" | |
| assert formatter.extract(result) == [("test_tool", """{"foo": "bar", "size": 10}""")] | |
| def test_mistral_multi_tool_extractor(): | |
| formatter = ToolFormatter(tool_format="mistral") | |
| result = ( | |
| """[{"name": "test_tool", "arguments": {"foo": "bar", "size": 10}}, """ | |
| """{"name": "another_tool", "arguments": {"foo": "job", "size": 2}}]""" | |
| ) | |
| assert formatter.extract(result) == [ | |
| ("test_tool", """{"foo": "bar", "size": 10}"""), | |
| ("another_tool", """{"foo": "job", "size": 2}"""), | |
| ] | |
| def test_qwen_function_formatter(): | |
| formatter = FunctionFormatter(slots=["{{content}}<|im_end|>\n"], tool_format="qwen") | |
| tool_calls = json.dumps(FUNCTION) | |
| assert formatter.apply(content=tool_calls) == [ | |
| """<tool_call>\n{"name": "tool_name", "arguments": {"foo": "bar", "size": 10}}\n</tool_call><|im_end|>\n""" | |
| ] | |
| def test_qwen_multi_function_formatter(): | |
| formatter = FunctionFormatter(slots=["{{content}}<|im_end|>\n"], tool_format="qwen") | |
| tool_calls = json.dumps([FUNCTION] * 2) | |
| assert formatter.apply(content=tool_calls) == [ | |
| """<tool_call>\n{"name": "tool_name", "arguments": {"foo": "bar", "size": 10}}\n</tool_call>\n""" | |
| """<tool_call>\n{"name": "tool_name", "arguments": {"foo": "bar", "size": 10}}\n</tool_call>""" | |
| "<|im_end|>\n" | |
| ] | |
| def test_qwen_tool_formatter(): | |
| formatter = ToolFormatter(tool_format="qwen") | |
| wrapped_tool = {"type": "function", "function": TOOLS[0]} | |
| assert formatter.apply(content=json.dumps(TOOLS)) == [ | |
| "\n\n# Tools\n\nYou may call one or more functions to assist with the user query.\n\n" | |
| "You are provided with function signatures within <tools></tools> XML tags:\n<tools>" | |
| f"\n{json.dumps(wrapped_tool, ensure_ascii=False)}" | |
| "\n</tools>\n\nFor each function call, return a json object with function name and arguments within " | |
| """<tool_call></tool_call> XML tags:\n<tool_call>\n{"name": <function-name>, """ | |
| """"arguments": <args-json-object>}\n</tool_call>""" | |
| ] | |
| def test_qwen_tool_extractor(): | |
| formatter = ToolFormatter(tool_format="qwen") | |
| result = """<tool_call>\n{"name": "test_tool", "arguments": {"foo": "bar", "size": 10}}\n</tool_call>""" | |
| assert formatter.extract(result) == [("test_tool", """{"foo": "bar", "size": 10}""")] | |
| def test_qwen_multi_tool_extractor(): | |
| formatter = ToolFormatter(tool_format="qwen") | |
| result = ( | |
| """<tool_call>\n{"name": "test_tool", "arguments": {"foo": "bar", "size": 10}}\n</tool_call>\n""" | |
| """<tool_call>\n{"name": "another_tool", "arguments": {"foo": "job", "size": 2}}\n</tool_call>""" | |
| ) | |
| assert formatter.extract(result) == [ | |
| ("test_tool", """{"foo": "bar", "size": 10}"""), | |
| ("another_tool", """{"foo": "job", "size": 2}"""), | |
| ] | |
| def test_lfm2_function_formatter(): | |
| formatter = FunctionFormatter(slots=["{{content}}<|im_end|>\n"], tool_format="lfm2") | |
| tool_calls = json.dumps(FUNCTION) | |
| assert formatter.apply(content=tool_calls) == [ | |
| """<|tool_call_start|>[tool_name(foo="bar", size=10)]<|tool_call_end|><|im_end|>\n""" | |
| ] | |
| def test_lfm2_multi_function_formatter(): | |
| formatter = FunctionFormatter(slots=["{{content}}<|im_end|>\n"], tool_format="lfm2") | |
| tool_calls = json.dumps([FUNCTION] * 2) | |
| assert formatter.apply(content=tool_calls) == [ | |
| """<|tool_call_start|>[tool_name(foo="bar", size=10), tool_name(foo="bar", size=10)]<|tool_call_end|>""" | |
| "<|im_end|>\n" | |
| ] | |
| def test_lfm2_tool_formatter(): | |
| formatter = ToolFormatter(tool_format="lfm2") | |
| assert formatter.apply(content=json.dumps(TOOLS)) == [ | |
| "List of tools: <|tool_list_start|>" + json.dumps(TOOLS, ensure_ascii=False) + "<|tool_list_end|>" | |
| ] | |
| def test_lfm2_tool_extractor(): | |
| formatter = ToolFormatter(tool_format="lfm2") | |
| result = """<|tool_call_start|>[test_tool(foo="bar", size=10)]<|tool_call_end|>""" | |
| assert formatter.extract(result) == [("test_tool", """{"foo": "bar", "size": 10}""")] | |
| def test_lfm2_multi_tool_extractor(): | |
| formatter = ToolFormatter(tool_format="lfm2") | |
| result = """<|tool_call_start|>[test_tool(foo="bar", size=10), another_tool(foo="job", size=2)]<|tool_call_end|>""" | |
| assert formatter.extract(result) == [ | |
| ("test_tool", """{"foo": "bar", "size": 10}"""), | |
| ("another_tool", """{"foo": "job", "size": 2}"""), | |
| ] | |
| def test_lfm2_tool_extractor_with_nested_dict(): | |
| formatter = ToolFormatter(tool_format="lfm2") | |
| result = """<|tool_call_start|>[search(query="test", options={"limit": 10, "offset": 0})]<|tool_call_end|>""" | |
| extracted = formatter.extract(result) | |
| assert len(extracted) == 1 | |
| assert extracted[0][0] == "search" | |
| args = json.loads(extracted[0][1]) | |
| assert args["query"] == "test" | |
| assert args["options"] == {"limit": 10, "offset": 0} | |
| def test_lfm2_tool_extractor_with_list_arg(): | |
| formatter = ToolFormatter(tool_format="lfm2") | |
| result = """<|tool_call_start|>[batch_process(items=[1, 2, 3], enabled=True)]<|tool_call_end|>""" | |
| extracted = formatter.extract(result) | |
| assert len(extracted) == 1 | |
| assert extracted[0][0] == "batch_process" | |
| args = json.loads(extracted[0][1]) | |
| assert args["items"] == [1, 2, 3] | |
| assert args["enabled"] is True | |
| def test_lfm2_tool_extractor_no_match(): | |
| formatter = ToolFormatter(tool_format="lfm2") | |
| result = "This is a regular response without tool calls." | |
| extracted = formatter.extract(result) | |
| assert extracted == result | |
| def test_lfm2_tool_round_trip(): | |
| formatter = FunctionFormatter(slots=["{{content}}"], tool_format="lfm2") | |
| tool_formatter = ToolFormatter(tool_format="lfm2") | |
| original = {"name": "my_func", "arguments": {"arg1": "hello", "arg2": 42, "arg3": True}} | |
| formatted = formatter.apply(content=json.dumps(original)) | |
| extracted = tool_formatter.extract(formatted[0]) | |
| assert len(extracted) == 1 | |
| assert extracted[0][0] == original["name"] | |
| assert json.loads(extracted[0][1]) == original["arguments"] | |