workflow upload & set liquid fix & add set liquid with plate

fix upload workflow json

save class name when deserialize & protocol execute test

Support root node change pos

add unilabos_class

gather query

scripts/workflow.py

@@ -2,6 +2,7 @@ import json
 import logging
 import traceback
 import uuid
+import xml.etree.ElementTree as ET
 from typing import Any, Dict, List
 
 import networkx as nx
@@ -24,15 +25,7 @@ class SimpleGraph:
 
     def add_edge(self, source, target, **attrs):
         """添加边"""
-        # edge = {"source": source, "target": target, **attrs}
+        edge = {"source": source, "target": target, **attrs}
-        edge = {
-            "source": source, "target": target,
-            "source_node_uuid": source,
-            "target_node_uuid": target,
-            "source_handle_io": "source",
-            "target_handle_io": "target",
-            **attrs
-        }
         self.edges.append(edge)
 
     def to_dict(self):
@@ -49,7 +42,6 @@ class SimpleGraph:
             "multigraph": False,
             "graph": {},
             "nodes": nodes_list,
-            "edges": self.edges,
             "links": self.edges,
         }
 
@@ -66,8 +58,495 @@ def extract_json_from_markdown(text: str) -> str:
     return text
 
 
+def convert_to_type(val: str) -> Any:
+    """将字符串值转换为适当的数据类型"""
+    if val == "True":
+        return True
+    if val == "False":
+        return False
+    if val == "?":
+        return None
+    if val.endswith(" g"):
+        return float(val.split(" ")[0])
+    if val.endswith("mg"):
+        return float(val.split("mg")[0])
+    elif val.endswith("mmol"):
+        return float(val.split("mmol")[0]) / 1000
+    elif val.endswith("mol"):
+        return float(val.split("mol")[0])
+    elif val.endswith("ml"):
+        return float(val.split("ml")[0])
+    elif val.endswith("RPM"):
+        return float(val.split("RPM")[0])
+    elif val.endswith(" °C"):
+        return float(val.split(" ")[0])
+    elif val.endswith(" %"):
+        return float(val.split(" ")[0])
+    return val
 
 
+def refactor_data(data: List[Dict[str, Any]]) -> List[Dict[str, Any]]:
+    """统一的数据重构函数，根据操作类型自动选择模板"""
+    refactored_data = []
+
+    # 定义操作映射，包含生物实验和有机化学的所有操作
+    OPERATION_MAPPING = {
+        # 生物实验操作
+        "transfer_liquid": "SynBioFactory-liquid_handler.prcxi-transfer_liquid",
+        "transfer": "SynBioFactory-liquid_handler.biomek-transfer",
+        "incubation": "SynBioFactory-liquid_handler.biomek-incubation",
+        "move_labware": "SynBioFactory-liquid_handler.biomek-move_labware",
+        "oscillation": "SynBioFactory-liquid_handler.biomek-oscillation",
+        # 有机化学操作
+        "HeatChillToTemp": "SynBioFactory-workstation-HeatChillProtocol",
+        "StopHeatChill": "SynBioFactory-workstation-HeatChillStopProtocol",
+        "StartHeatChill": "SynBioFactory-workstation-HeatChillStartProtocol",
+        "HeatChill": "SynBioFactory-workstation-HeatChillProtocol",
+        "Dissolve": "SynBioFactory-workstation-DissolveProtocol",
+        "Transfer": "SynBioFactory-workstation-TransferProtocol",
+        "Evaporate": "SynBioFactory-workstation-EvaporateProtocol",
+        "Recrystallize": "SynBioFactory-workstation-RecrystallizeProtocol",
+        "Filter": "SynBioFactory-workstation-FilterProtocol",
+        "Dry": "SynBioFactory-workstation-DryProtocol",
+        "Add": "SynBioFactory-workstation-AddProtocol",
+    }
+
+    UNSUPPORTED_OPERATIONS = ["Purge", "Wait", "Stir", "ResetHandling"]
+
+    for step in data:
+        operation = step.get("action")
+        if not operation or operation in UNSUPPORTED_OPERATIONS:
+            continue
+
+        # 处理重复操作
+        if operation == "Repeat":
+            times = step.get("times", step.get("parameters", {}).get("times", 1))
+            sub_steps = step.get("steps", step.get("parameters", {}).get("steps", []))
+            for i in range(int(times)):
+                sub_data = refactor_data(sub_steps)
+                refactored_data.extend(sub_data)
+            continue
+
+        # 获取模板名称
+        template = OPERATION_MAPPING.get(operation)
+        if not template:
+            # 自动推断模板类型
+            if operation.lower() in ["transfer", "incubation", "move_labware", "oscillation"]:
+                template = f"SynBioFactory-liquid_handler.biomek-{operation}"
+            else:
+                template = f"SynBioFactory-workstation-{operation}Protocol"
+
+        # 创建步骤数据
+        step_data = {
+            "template": template,
+            "description": step.get("description", step.get("purpose", f"{operation} operation")),
+            "lab_node_type": "Device",
+            "parameters": step.get("parameters", step.get("action_args", {})),
+        }
+        refactored_data.append(step_data)
+
+    return refactored_data
+
+
+def build_protocol_graph(
+    labware_info: List[Dict[str, Any]], protocol_steps: List[Dict[str, Any]], workstation_name: str
+) -> SimpleGraph:
+    """统一的协议图构建函数，根据设备类型自动选择构建逻辑"""
+    G = SimpleGraph()
+    resource_last_writer = {}
+    LAB_NAME = "SynBioFactory"
+
+    protocol_steps = refactor_data(protocol_steps)
+
+    # 检查协议步骤中的模板来判断协议类型
+    has_biomek_template = any(
+        ("biomek" in step.get("template", "")) or ("prcxi" in step.get("template", ""))
+        for step in protocol_steps
+    )
+
+    if has_biomek_template:
+        # 生物实验协议图构建
+        for labware_id, labware in labware_info.items():
+            node_id = str(uuid.uuid4())
+
+            labware_attrs = labware.copy()
+            labware_id = labware_attrs.pop("id", labware_attrs.get("name", f"labware_{uuid.uuid4()}"))
+            labware_attrs["description"] = labware_id
+            labware_attrs["lab_node_type"] = (
+                "Reagent" if "Plate" in str(labware_id) else "Labware" if "Rack" in str(labware_id) else "Sample"
+            )
+            labware_attrs["device_id"] = workstation_name
+
+            G.add_node(node_id, template=f"{LAB_NAME}-host_node-create_resource", **labware_attrs)
+            resource_last_writer[labware_id] = f"{node_id}:labware"
+
+        # 处理协议步骤
+        prev_node = None
+        for i, step in enumerate(protocol_steps):
+            node_id = str(uuid.uuid4())
+            G.add_node(node_id, **step)
+
+            # 添加控制流边
+            if prev_node is not None:
+                G.add_edge(prev_node, node_id, source_port="ready", target_port="ready")
+            prev_node = node_id
+
+            # 处理物料流
+            params = step.get("parameters", {})
+            if "sources" in params and params["sources"] in resource_last_writer:
+                source_node, source_port = resource_last_writer[params["sources"]].split(":")
+                G.add_edge(source_node, node_id, source_port=source_port, target_port="labware")
+
+            if "targets" in params:
+                resource_last_writer[params["targets"]] = f"{node_id}:labware"
+
+        # 添加协议结束节点
+        end_id = str(uuid.uuid4())
+        G.add_node(end_id, template=f"{LAB_NAME}-liquid_handler.biomek-run_protocol")
+        if prev_node is not None:
+            G.add_edge(prev_node, end_id, source_port="ready", target_port="ready")
+
+    else:
+        # 有机化学协议图构建
+        WORKSTATION_ID = workstation_name
+
+        # 为所有labware创建资源节点
+        for item_id, item in labware_info.items():
+            # item_id = item.get("id") or item.get("name", f"item_{uuid.uuid4()}")
+            node_id = str(uuid.uuid4())
+
+            # 判断节点类型
+            if item.get("type") == "hardware" or "reactor" in str(item_id).lower():
+                if "reactor" not in str(item_id).lower():
+                    continue
+                lab_node_type = "Sample"
+                description = f"Prepare Reactor: {item_id}"
+                liquid_type = []
+                liquid_volume = []
+            else:
+                lab_node_type = "Reagent"
+                description = f"Add Reagent to Flask: {item_id}"
+                liquid_type = [item_id]
+                liquid_volume = [1e5]
+
+            G.add_node(
+                node_id,
+                template=f"{LAB_NAME}-host_node-create_resource",
+                description=description,
+                lab_node_type=lab_node_type,
+                res_id=item_id,
+                device_id=WORKSTATION_ID,
+                class_name="container",
+                parent=WORKSTATION_ID,
+                bind_locations={"x": 0.0, "y": 0.0, "z": 0.0},
+                liquid_input_slot=[-1],
+                liquid_type=liquid_type,
+                liquid_volume=liquid_volume,
+                slot_on_deck="",
+                role=item.get("role", ""),
+            )
+            resource_last_writer[item_id] = f"{node_id}:labware"
+
+        last_control_node_id = None
+
+        # 处理协议步骤
+        for step in protocol_steps:
+            node_id = str(uuid.uuid4())
+            G.add_node(node_id, **step)
+
+            # 控制流
+            if last_control_node_id is not None:
+                G.add_edge(last_control_node_id, node_id, source_port="ready", target_port="ready")
+            last_control_node_id = node_id
+
+            # 物料流
+            params = step.get("parameters", {})
+            input_resources = {
+                "Vessel": params.get("vessel"),
+                "ToVessel": params.get("to_vessel"),
+                "FromVessel": params.get("from_vessel"),
+                "reagent": params.get("reagent"),
+                "solvent": params.get("solvent"),
+                "compound": params.get("compound"),
+                "sources": params.get("sources"),
+                "targets": params.get("targets"),
+            }
+
+            for target_port, resource_name in input_resources.items():
+                if resource_name and resource_name in resource_last_writer:
+                    source_node, source_port = resource_last_writer[resource_name].split(":")
+                    G.add_edge(source_node, node_id, source_port=source_port, target_port=target_port)
+
+            output_resources = {
+                "VesselOut": params.get("vessel"),
+                "FromVesselOut": params.get("from_vessel"),
+                "ToVesselOut": params.get("to_vessel"),
+                "FiltrateOut": params.get("filtrate_vessel"),
+                "reagent": params.get("reagent"),
+                "solvent": params.get("solvent"),
+                "compound": params.get("compound"),
+                "sources_out": params.get("sources"),
+                "targets_out": params.get("targets"),
+            }
+
+            for source_port, resource_name in output_resources.items():
+                if resource_name:
+                    resource_last_writer[resource_name] = f"{node_id}:{source_port}"
+
+    return G
+
+
+def draw_protocol_graph(protocol_graph: SimpleGraph, output_path: str):
+    """
+    (辅助功能) 使用 networkx 和 matplotlib 绘制协议工作流图，用于可视化。
+    """
+    if not protocol_graph:
+        print("Cannot draw graph: Graph object is empty.")
+        return
+
+    G = nx.DiGraph()
+
+    for node_id, attrs in protocol_graph.nodes.items():
+        label = attrs.get("description", attrs.get("template", node_id[:8]))
+        G.add_node(node_id, label=label, **attrs)
+
+    for edge in protocol_graph.edges:
+        G.add_edge(edge["source"], edge["target"])
+
+    plt.figure(figsize=(20, 15))
+    try:
+        pos = nx.nx_agraph.graphviz_layout(G, prog="dot")
+    except Exception:
+        pos = nx.shell_layout(G)  # Fallback layout
+
+    node_labels = {node: data["label"] for node, data in G.nodes(data=True)}
+    nx.draw(
+        G,
+        pos,
+        with_labels=False,
+        node_size=2500,
+        node_color="skyblue",
+        node_shape="o",
+        edge_color="gray",
+        width=1.5,
+        arrowsize=15,
+    )
+    nx.draw_networkx_labels(G, pos, labels=node_labels, font_size=8, font_weight="bold")
+
+    plt.title("Chemical Protocol Workflow Graph", size=15)
+    plt.savefig(output_path, dpi=300, bbox_inches="tight")
+    plt.close()
+    print(f"  - Visualization saved to '{output_path}'")
+
+
+from networkx.drawing.nx_agraph import to_agraph
+import re
+
+COMPASS = {"n","e","s","w","ne","nw","se","sw","c"}
+
+def _is_compass(port: str) -> bool:
+    return isinstance(port, str) and port.lower() in COMPASS
+
+def draw_protocol_graph_with_ports(protocol_graph, output_path: str, rankdir: str = "LR"):
+    """
+    使用 Graphviz 端口语法绘制协议工作流图。
+    - 若边上的 source_port/target_port 是 compass（n/e/s/w/...），直接用 compass。
+    - 否则自动为节点创建 record 形状并定义命名端口 <portname>。
+    最终由 PyGraphviz 渲染并输出到 output_path（后缀决定格式，如 .png/.svg/.pdf）。
+    """
+    if not protocol_graph:
+        print("Cannot draw graph: Graph object is empty.")
+        return
+
+    # 1) 先用 networkx 搭建有向图，保留端口属性
+    G = nx.DiGraph()
+    for node_id, attrs in protocol_graph.nodes.items():
+        label = attrs.get("description", attrs.get("template", node_id[:8]))
+        # 保留一个干净的“中心标签”，用于放在 record 的中间槽
+        G.add_node(node_id, _core_label=str(label), **{k:v for k,v in attrs.items() if k not in ("label",)})
+
+    edges_data = []
+    in_ports_by_node  = {}  # 收集命名输入端口
+    out_ports_by_node = {}  # 收集命名输出端口
+
+    for edge in protocol_graph.edges:
+        u = edge["source"]
+        v = edge["target"]
+        sp = edge.get("source_port")
+        tp = edge.get("target_port")
+
+        # 记录到图里（保留原始端口信息）
+        G.add_edge(u, v, source_port=sp, target_port=tp)
+        edges_data.append((u, v, sp, tp))
+
+        # 如果不是 compass，就按“命名端口”先归类，等会儿给节点造 record
+        if sp and not _is_compass(sp):
+            out_ports_by_node.setdefault(u, set()).add(str(sp))
+        if tp and not _is_compass(tp):
+            in_ports_by_node.setdefault(v, set()).add(str(tp))
+
+    # 2) 转为 AGraph，使用 Graphviz 渲染
+    A = to_agraph(G)
+    A.graph_attr.update(rankdir=rankdir, splines="true", concentrate="false", fontsize="10")
+    A.node_attr.update(shape="box", style="rounded,filled", fillcolor="lightyellow", color="#999999", fontname="Helvetica")
+    A.edge_attr.update(arrowsize="0.8", color="#666666")
+
+    # 3) 为需要命名端口的节点设置 record 形状与 label
+    #    左列 = 输入端口；中间 = 核心标签；右列 = 输出端口
+    for n in A.nodes():
+        node = A.get_node(n)
+        core = G.nodes[n].get("_core_label", n)
+
+        in_ports  = sorted(in_ports_by_node.get(n, []))
+        out_ports = sorted(out_ports_by_node.get(n, []))
+
+        # 如果该节点涉及命名端口，则用 record；否则保留原 box
+        if in_ports or out_ports:
+            def port_fields(ports):
+                if not ports:
+                    return " "  # 必须留一个空槽占位
+                # 每个端口一个小格子，<p> name
+                return "|".join(f"<{re.sub(r'[^A-Za-z0-9_:.|-]', '_', p)}> {p}" for p in ports)
+
+            left  = port_fields(in_ports)
+            right = port_fields(out_ports)
+
+            # 三栏：左(入) | 中(节点名) | 右(出)
+            record_label = f"{{ {left} | {core} | {right} }}"
+            node.attr.update(shape="record", label=record_label)
+        else:
+            # 没有命名端口：普通盒子，显示核心标签
+            node.attr.update(label=str(core))
+
+    # 4) 给边设置 headport / tailport
+    #    - 若端口为 compass：直接用 compass（e.g., headport="e"）
+    #    - 若端口为命名端口：使用在 record 中定义的 <port> 名（同名即可）
+    for (u, v, sp, tp) in edges_data:
+        e = A.get_edge(u, v)
+
+        # Graphviz 属性：tail 是源，head 是目标
+        if sp:
+            if _is_compass(sp):
+                e.attr["tailport"] = sp.lower()
+            else:
+                # 与 record label 中 <port> 名一致；特殊字符已在 label 中做了清洗
+                e.attr["tailport"] = re.sub(r'[^A-Za-z0-9_:.|-]', '_', str(sp))
+
+        if tp:
+            if _is_compass(tp):
+                e.attr["headport"] = tp.lower()
+            else:
+                e.attr["headport"] = re.sub(r'[^A-Za-z0-9_:.|-]', '_', str(tp))
+
+        # 可选：若想让边更贴边缘，可设置 constraint/spline 等
+        # e.attr["arrowhead"] = "vee"
+
+    # 5) 输出
+    A.draw(output_path, prog="dot")
+    print(f"  - Port-aware workflow rendered to '{output_path}'")
+
+
+def flatten_xdl_procedure(procedure_elem: ET.Element) -> List[ET.Element]:
+    """展平嵌套的XDL程序结构"""
+    flattened_operations = []
+    TEMP_UNSUPPORTED_PROTOCOL = ["Purge", "Wait", "Stir", "ResetHandling"]
+
+    def extract_operations(element: ET.Element):
+        if element.tag not in ["Prep", "Reaction", "Workup", "Purification", "Procedure"]:
+            if element.tag not in TEMP_UNSUPPORTED_PROTOCOL:
+                flattened_operations.append(element)
+
+        for child in element:
+            extract_operations(child)
+
+    for child in procedure_elem:
+        extract_operations(child)
+
+    return flattened_operations
+
+
+def parse_xdl_content(xdl_content: str) -> tuple:
+    """解析XDL内容"""
+    try:
+        xdl_content_cleaned = "".join(c for c in xdl_content if c.isprintable())
+        root = ET.fromstring(xdl_content_cleaned)
+
+        synthesis_elem = root.find("Synthesis")
+        if synthesis_elem is None:
+            return None, None, None
+
+        # 解析硬件组件
+        hardware_elem = synthesis_elem.find("Hardware")
+        hardware = []
+        if hardware_elem is not None:
+            hardware = [{"id": c.get("id"), "type": c.get("type")} for c in hardware_elem.findall("Component")]
+
+        # 解析试剂
+        reagents_elem = synthesis_elem.find("Reagents")
+        reagents = []
+        if reagents_elem is not None:
+            reagents = [{"name": r.get("name"), "role": r.get("role", "")} for r in reagents_elem.findall("Reagent")]
+
+        # 解析程序
+        procedure_elem = synthesis_elem.find("Procedure")
+        if procedure_elem is None:
+            return None, None, None
+
+        flattened_operations = flatten_xdl_procedure(procedure_elem)
+        return hardware, reagents, flattened_operations
+
+    except ET.ParseError as e:
+        raise ValueError(f"Invalid XDL format: {e}")
+
+
+def convert_xdl_to_dict(xdl_content: str) -> Dict[str, Any]:
+    """
+    将XDL XML格式转换为标准的字典格式
+
+    Args:
+        xdl_content: XDL XML内容
+
+    Returns:
+        转换结果，包含步骤和器材信息
+    """
+    try:
+        hardware, reagents, flattened_operations = parse_xdl_content(xdl_content)
+        if hardware is None:
+            return {"error": "Failed to parse XDL content", "success": False}
+
+        # 将XDL元素转换为字典格式
+        steps_data = []
+        for elem in flattened_operations:
+            # 转换参数类型
+            parameters = {}
+            for key, val in elem.attrib.items():
+                converted_val = convert_to_type(val)
+                if converted_val is not None:
+                    parameters[key] = converted_val
+
+            step_dict = {
+                "operation": elem.tag,
+                "parameters": parameters,
+                "description": elem.get("purpose", f"Operation: {elem.tag}"),
+            }
+            steps_data.append(step_dict)
+
+        # 合并硬件和试剂为统一的labware_info格式
+        labware_data = []
+        labware_data.extend({"id": hw["id"], "type": "hardware", **hw} for hw in hardware)
+        labware_data.extend({"name": reagent["name"], "type": "reagent", **reagent} for reagent in reagents)
+
+        return {
+            "success": True,
+            "steps": steps_data,
+            "labware": labware_data,
+            "message": f"Successfully converted XDL to dict format. Found {len(steps_data)} steps and {len(labware_data)} labware items.",
+        }
+
+    except Exception as e:
+        error_msg = f"XDL conversion failed: {str(e)}"
+        logger.error(error_msg)
+        return {"error": error_msg, "success": False}
 
 
 def create_workflow(

unilabos/app/ws_client.py

@@ -439,7 +439,7 @@ class MessageProcessor:
                     self.connected = True
                     self.reconnect_count = 0
 
-                    logger.trace(f"[MessageProcessor] Connected to {self.websocket_url}")
+                    logger.info(f"[MessageProcessor] Connected to {self.websocket_url}")
 
                     # 启动发送协程
                     send_task = asyncio.create_task(self._send_handler())
@@ -517,7 +517,7 @@ class MessageProcessor:
 
     async def _send_handler(self):
         """处理发送队列中的消息"""
-        logger.trace("[MessageProcessor] Send handler started")
+        logger.debug("[MessageProcessor] Send handler started")
 
         try:
             while self.connected and self.websocket:
@@ -1026,7 +1026,7 @@ class QueueProcessor:
 
     def _run(self):
         """运行队列处理主循环"""
-        logger.trace("[QueueProcessor] Queue processor started")
+        logger.debug("[QueueProcessor] Queue processor started")
 
         while self.is_running:
             try:
@@ -1236,6 +1236,7 @@ class WebSocketClient(BaseCommunicationClient):
         else:
             url = f"{scheme}://{parsed.netloc}/api/v1/ws/schedule"
 
+        logger.debug(f"[WebSocketClient] URL: {url}")
         return url
 
     def start(self) -> None:
@@ -1248,11 +1249,13 @@ class WebSocketClient(BaseCommunicationClient):
             logger.error("[WebSocketClient] WebSocket URL not configured")
             return
 
+        logger.info(f"[WebSocketClient] Starting connection to {self.websocket_url}")
+
         # 启动两个核心线程
         self.message_processor.start()
         self.queue_processor.start()
 
-        logger.trace("[WebSocketClient] All threads started")
+        logger.info("[WebSocketClient] All threads started")
 
     def stop(self) -> None:
         """停止WebSocket客户端"""

unilabos/registry/registry.py

@@ -4,8 +4,6 @@ import os
 import sys
 import inspect
 import importlib
-import threading
-from concurrent.futures import ThreadPoolExecutor, as_completed
 from pathlib import Path
 from typing import Any, Dict, List, Union, Tuple
 
@@ -62,7 +60,6 @@ class Registry:
         self.device_module_to_registry = {}
         self.resource_type_registry = {}
         self._setup_called = False  # 跟踪setup是否已调用
-        self._registry_lock = threading.Lock()  # 多线程加载时的锁
         # 其他状态变量
         # self.is_host_mode = False  # 移至BasicConfig中
 
@@ -180,7 +177,8 @@ class Registry:
                                 "result": {},
                                 "schema": test_latency_schema,
                                 "goal_default": {
-                                    arg["name"]: arg["default"] for arg in test_latency_method_info.get("args", [])
+                                    arg["name"]: arg["default"]
+                                    for arg in test_latency_method_info.get("args", [])
                                 },
                                 "handles": {},
                             },
@@ -264,115 +262,67 @@ class Registry:
         # 标记setup已被调用
         self._setup_called = True
 
-    def _load_single_resource_file(
-        self, file: Path, complete_registry: bool, upload_registry: bool
-    ) -> Tuple[Dict[str, Any], Dict[str, Any], bool]:
-        """
-        加载单个资源文件 (线程安全)
-
-        Returns:
-            (data, complete_data, is_valid): 资源数据, 完整数据, 是否有效
-        """
-        try:
-            with open(file, encoding="utf-8", mode="r") as f:
-                data = yaml.safe_load(io.StringIO(f.read()))
-        except Exception as e:
-            logger.warning(f"[UniLab Registry] 读取资源文件失败: {file}, 错误: {e}")
-            return {}, {}, False
-
-        if not data:
-            return {}, {}, False
-
-        complete_data = {}
-        for resource_id, resource_info in data.items():
-            if "version" not in resource_info:
-                resource_info["version"] = "1.0.0"
-            if "category" not in resource_info:
-                resource_info["category"] = [file.stem]
-            elif file.stem not in resource_info["category"]:
-                resource_info["category"].append(file.stem)
-            elif not isinstance(resource_info.get("category"), list):
-                resource_info["category"] = [resource_info["category"]]
-            if "config_info" not in resource_info:
-                resource_info["config_info"] = []
-            if "icon" not in resource_info:
-                resource_info["icon"] = ""
-            if "handles" not in resource_info:
-                resource_info["handles"] = []
-            if "init_param_schema" not in resource_info:
-                resource_info["init_param_schema"] = {}
-            if "config_info" in resource_info:
-                del resource_info["config_info"]
-            if "file_path" in resource_info:
-                del resource_info["file_path"]
-            complete_data[resource_id] = copy.deepcopy(dict(sorted(resource_info.items())))
-            if upload_registry:
-                class_info = resource_info.get("class", {})
-                if len(class_info) and "module" in class_info:
-                    if class_info.get("type") == "pylabrobot":
-                        res_class = get_class(class_info["module"])
-                        if callable(res_class) and not isinstance(res_class, type):
-                            res_instance = res_class(res_class.__name__)
-                            res_ulr = tree_to_list([resource_plr_to_ulab(res_instance)])
-                            resource_info["config_info"] = res_ulr
-            resource_info["registry_type"] = "resource"
-            resource_info["file_path"] = str(file.absolute()).replace("\\", "/")
-
-        complete_data = dict(sorted(complete_data.items()))
-        complete_data = copy.deepcopy(complete_data)
-
-        if complete_registry:
-            try:
-                with open(file, "w", encoding="utf-8") as f:
-                    yaml.dump(complete_data, f, allow_unicode=True, default_flow_style=False, Dumper=NoAliasDumper)
-            except Exception as e:
-                logger.warning(f"[UniLab Registry] 写入资源文件失败: {file}, 错误: {e}")
-
-        return data, complete_data, True
-
     def load_resource_types(self, path: os.PathLike, complete_registry: bool, upload_registry: bool):
         abs_path = Path(path).absolute()
         resource_path = abs_path / "resources"
         files = list(resource_path.glob("*/*.yaml"))
         logger.debug(f"[UniLab Registry] resources: {resource_path.exists()}, total: {len(files)}")
-
-        if not files:
-            return
-
-        # 使用线程池并行加载
-        max_workers = min(8, len(files))
-        results = []
-
-        with ThreadPoolExecutor(max_workers=max_workers) as executor:
-            future_to_file = {
-                executor.submit(self._load_single_resource_file, file, complete_registry, upload_registry): file
-                for file in files
-            }
-            for future in as_completed(future_to_file):
-                file = future_to_file[future]
-                try:
-                    data, complete_data, is_valid = future.result()
-                    if is_valid:
-                        results.append((file, data))
-                except Exception as e:
-                    logger.warning(f"[UniLab Registry] 处理资源文件异常: {file}, 错误: {e}")
-
-        # 线程安全地更新注册表
         current_resource_number = len(self.resource_type_registry) + 1
-        with self._registry_lock:
+        for i, file in enumerate(files):
-            for i, (file, data) in enumerate(results):
+            with open(file, encoding="utf-8", mode="r") as f:
+                data = yaml.safe_load(io.StringIO(f.read()))
+            complete_data = {}
+            if data:
+                # 为每个资源添加文件路径信息
+                for resource_id, resource_info in data.items():
+                    if "version" not in resource_info:
+                        resource_info["version"] = "1.0.0"
+                    if "category" not in resource_info:
+                        resource_info["category"] = [file.stem]
+                    elif file.stem not in resource_info["category"]:
+                        resource_info["category"].append(file.stem)
+                    elif not isinstance(resource_info.get("category"), list):
+                        resource_info["category"] = [resource_info["category"]]
+                    if "config_info" not in resource_info:
+                        resource_info["config_info"] = []
+                    if "icon" not in resource_info:
+                        resource_info["icon"] = ""
+                    if "handles" not in resource_info:
+                        resource_info["handles"] = []
+                    if "init_param_schema" not in resource_info:
+                        resource_info["init_param_schema"] = {}
+                    if "config_info" in resource_info:
+                        del resource_info["config_info"]
+                    if "file_path" in resource_info:
+                        del resource_info["file_path"]
+                    complete_data[resource_id] = copy.deepcopy(dict(sorted(resource_info.items())))
+                    if upload_registry:
+                        class_info = resource_info.get("class", {})
+                        if len(class_info) and "module" in class_info:
+                            if class_info.get("type") == "pylabrobot":
+                                res_class = get_class(class_info["module"])
+                                if callable(res_class) and not isinstance(
+                                    res_class, type
+                                ):  # 有的是类，有的是函数，这里暂时只登记函数类的
+                                    res_instance = res_class(res_class.__name__)
+                                    res_ulr = tree_to_list([resource_plr_to_ulab(res_instance)])
+                                    resource_info["config_info"] = res_ulr
+                    resource_info["registry_type"] = "resource"
+                    resource_info["file_path"] = str(file.absolute()).replace("\\", "/")
+                complete_data = dict(sorted(complete_data.items()))
+                complete_data = copy.deepcopy(complete_data)
+                if complete_registry:
+                    with open(file, "w", encoding="utf-8") as f:
+                        yaml.dump(complete_data, f, allow_unicode=True, default_flow_style=False, Dumper=NoAliasDumper)
+
                 self.resource_type_registry.update(data)
-                logger.trace(
+                logger.trace(  # type: ignore
-                    f"[UniLab Registry] Resource-{current_resource_number} File-{i+1}/{len(results)} "
+                    f"[UniLab Registry] Resource-{current_resource_number} File-{i+1}/{len(files)} "
                     + f"Add {list(data.keys())}"
                 )
                 current_resource_number += 1
-
+            else:
-        # 记录无效文件
+                logger.debug(f"[UniLab Registry] Res File-{i+1}/{len(files)} Not Valid YAML File: {file.absolute()}")
-        valid_files = {r[0] for r in results}
-        for file in files:
-            if file not in valid_files:
-                logger.debug(f"[UniLab Registry] Res File Not Valid YAML File: {file.absolute()}")
 
     def _extract_class_docstrings(self, module_string: str) -> Dict[str, str]:
         """
@@ -724,244 +674,213 @@ class Registry:
                 "handles": {},
             }
 
-    def _load_single_device_file(
-        self, file: Path, complete_registry: bool, get_yaml_from_goal_type
-    ) -> Tuple[Dict[str, Any], Dict[str, Any], bool, List[str]]:
-        """
-        加载单个设备文件 (线程安全)
-
-        Returns:
-            (data, complete_data, is_valid, device_ids): 设备数据, 完整数据, 是否有效, 设备ID列表
-        """
-        try:
-            with open(file, encoding="utf-8", mode="r") as f:
-                data = yaml.safe_load(io.StringIO(f.read()))
-        except Exception as e:
-            logger.warning(f"[UniLab Registry] 读取设备文件失败: {file}, 错误: {e}")
-            return {}, {}, False, []
-
-        if not data:
-            return {}, {}, False, []
-
-        complete_data = {}
-        action_str_type_mapping = {
-            "UniLabJsonCommand": "UniLabJsonCommand",
-            "UniLabJsonCommandAsync": "UniLabJsonCommandAsync",
-        }
-        status_str_type_mapping = {}
-        device_ids = []
-
-        for device_id, device_config in data.items():
-            if "version" not in device_config:
-                device_config["version"] = "1.0.0"
-            if "category" not in device_config:
-                device_config["category"] = [file.stem]
-            elif file.stem not in device_config["category"]:
-                device_config["category"].append(file.stem)
-            if "config_info" not in device_config:
-                device_config["config_info"] = []
-            if "description" not in device_config:
-                device_config["description"] = ""
-            if "icon" not in device_config:
-                device_config["icon"] = ""
-            if "handles" not in device_config:
-                device_config["handles"] = []
-            if "init_param_schema" not in device_config:
-                device_config["init_param_schema"] = {}
-            if "class" in device_config:
-                if "status_types" not in device_config["class"] or device_config["class"]["status_types"] is None:
-                    device_config["class"]["status_types"] = {}
-                if (
-                    "action_value_mappings" not in device_config["class"]
-                    or device_config["class"]["action_value_mappings"] is None
-                ):
-                    device_config["class"]["action_value_mappings"] = {}
-                enhanced_info = {}
-                if complete_registry:
-                    device_config["class"]["status_types"].clear()
-                    enhanced_info = get_enhanced_class_info(device_config["class"]["module"], use_dynamic=True)
-                    if not enhanced_info.get("dynamic_import_success", False):
-                        continue
-                    device_config["class"]["status_types"].update(
-                        {k: v["return_type"] for k, v in enhanced_info["status_methods"].items()}
-                    )
-                for status_name, status_type in device_config["class"]["status_types"].items():
-                    if isinstance(status_type, tuple) or status_type in ["Any", "None", "Unknown"]:
-                        status_type = "String"
-                        device_config["class"]["status_types"][status_name] = status_type
-                    try:
-                        target_type = self._replace_type_with_class(status_type, device_id, f"状态 {status_name}")
-                    except ROSMsgNotFound:
-                        continue
-                    if target_type in [dict, list]:
-                        target_type = String
-                    status_str_type_mapping[status_type] = target_type
-                device_config["class"]["status_types"] = dict(sorted(device_config["class"]["status_types"].items()))
-                if complete_registry:
-                    old_action_configs = {}
-                    for action_name, action_config in device_config["class"]["action_value_mappings"].items():
-                        old_action_configs[action_name] = action_config
-
-                    device_config["class"]["action_value_mappings"] = {
-                        k: v
-                        for k, v in device_config["class"]["action_value_mappings"].items()
-                        if not k.startswith("auto-")
-                    }
-                    device_config["class"]["action_value_mappings"].update(
-                        {
-                            f"auto-{k}": {
-                                "type": "UniLabJsonCommandAsync" if v["is_async"] else "UniLabJsonCommand",
-                                "goal": {},
-                                "feedback": {},
-                                "result": {},
-                                "schema": self._generate_unilab_json_command_schema(
-                                    v["args"],
-                                    k,
-                                    v.get("return_annotation"),
-                                    old_action_configs.get(f"auto-{k}", {}).get("schema"),
-                                ),
-                                "goal_default": {i["name"]: i["default"] for i in v["args"]},
-                                "handles": old_action_configs.get(f"auto-{k}", {}).get("handles", []),
-                                "placeholder_keys": {
-                                    i["name"]: (
-                                        "unilabos_resources"
-                                        if i["type"] == "unilabos.registry.placeholder_type:ResourceSlot"
-                                        or i["type"] == ("list", "unilabos.registry.placeholder_type:ResourceSlot")
-                                        else "unilabos_devices"
-                                    )
-                                    for i in v["args"]
-                                    if i.get("type", "")
-                                    in [
-                                        "unilabos.registry.placeholder_type:ResourceSlot",
-                                        "unilabos.registry.placeholder_type:DeviceSlot",
-                                        ("list", "unilabos.registry.placeholder_type:ResourceSlot"),
-                                        ("list", "unilabos.registry.placeholder_type:DeviceSlot"),
-                                    ]
-                                },
-                            }
-                            for k, v in enhanced_info["action_methods"].items()
-                            if k not in device_config["class"]["action_value_mappings"]
-                        }
-                    )
-                    for action_name, old_config in old_action_configs.items():
-                        if action_name in device_config["class"]["action_value_mappings"]:
-                            old_schema = old_config.get("schema", {})
-                            if "description" in old_schema and old_schema["description"]:
-                                device_config["class"]["action_value_mappings"][action_name]["schema"][
-                                    "description"
-                                ] = old_schema["description"]
-                    device_config["init_param_schema"] = {}
-                    device_config["init_param_schema"]["config"] = self._generate_unilab_json_command_schema(
-                        enhanced_info["init_params"], "__init__"
-                    )["properties"]["goal"]
-                    device_config["init_param_schema"]["data"] = self._generate_status_types_schema(
-                        enhanced_info["status_methods"]
-                    )
-
-                device_config.pop("schema", None)
-                device_config["class"]["action_value_mappings"] = dict(
-                    sorted(device_config["class"]["action_value_mappings"].items())
-                )
-                for action_name, action_config in device_config["class"]["action_value_mappings"].items():
-                    if "handles" not in action_config:
-                        action_config["handles"] = {}
-                    elif isinstance(action_config["handles"], list):
-                        if len(action_config["handles"]):
-                            logger.error(f"设备{device_id} {action_name} 的handles配置错误，应该是字典类型")
-                            continue
-                        else:
-                            action_config["handles"] = {}
-                    if "type" in action_config:
-                        action_type_str: str = action_config["type"]
-                        if not action_type_str.startswith("UniLabJsonCommand"):
-                            try:
-                                target_type = self._replace_type_with_class(
-                                    action_type_str, device_id, f"动作 {action_name}"
-                                )
-                            except ROSMsgNotFound:
-                                continue
-                            action_str_type_mapping[action_type_str] = target_type
-                            if target_type is not None:
-                                action_config["goal_default"] = yaml.safe_load(
-                                    io.StringIO(get_yaml_from_goal_type(target_type.Goal))
-                                )
-                                action_config["schema"] = ros_action_to_json_schema(target_type)
-                            else:
-                                logger.warning(
-                                    f"[UniLab Registry] 设备 {device_id} 的动作 {action_name} 类型为空，跳过替换"
-                                )
-                complete_data[device_id] = copy.deepcopy(dict(sorted(device_config.items())))
-                for status_name, status_type in device_config["class"]["status_types"].items():
-                    device_config["class"]["status_types"][status_name] = status_str_type_mapping[status_type]
-                for action_name, action_config in device_config["class"]["action_value_mappings"].items():
-                    if action_config["type"] not in action_str_type_mapping:
-                        continue
-                    action_config["type"] = action_str_type_mapping[action_config["type"]]
-                self._add_builtin_actions(device_config, device_id)
-            device_config["file_path"] = str(file.absolute()).replace("\\", "/")
-            device_config["registry_type"] = "device"
-            device_ids.append(device_id)
-
-        complete_data = dict(sorted(complete_data.items()))
-        complete_data = copy.deepcopy(complete_data)
-        try:
-            with open(file, "w", encoding="utf-8") as f:
-                yaml.dump(complete_data, f, allow_unicode=True, default_flow_style=False, Dumper=NoAliasDumper)
-        except Exception as e:
-            logger.warning(f"[UniLab Registry] 写入设备文件失败: {file}, 错误: {e}")
-
-        return data, complete_data, True, device_ids
-
     def load_device_types(self, path: os.PathLike, complete_registry: bool):
+        # return
         abs_path = Path(path).absolute()
         devices_path = abs_path / "devices"
         device_comms_path = abs_path / "device_comms"
         files = list(devices_path.glob("*.yaml")) + list(device_comms_path.glob("*.yaml"))
-        logger.trace(
+        logger.trace(  # type: ignore
             f"[UniLab Registry] devices: {devices_path.exists()}, device_comms: {device_comms_path.exists()}, "
             + f"total: {len(files)}"
         )
-
+        current_device_number = len(self.device_type_registry) + 1
-        if not files:
-            return
-
         from unilabos.app.web.utils.action_utils import get_yaml_from_goal_type
 
-        # 使用线程池并行加载
+        for i, file in enumerate(files):
-        max_workers = min(8, len(files))
+            with open(file, encoding="utf-8", mode="r") as f:
-        results = []
+                data = yaml.safe_load(io.StringIO(f.read()))
-
+            complete_data = {}
-        with ThreadPoolExecutor(max_workers=max_workers) as executor:
+            action_str_type_mapping = {
-            future_to_file = {
+                "UniLabJsonCommand": "UniLabJsonCommand",
-                executor.submit(self._load_single_device_file, file, complete_registry, get_yaml_from_goal_type): file
+                "UniLabJsonCommandAsync": "UniLabJsonCommandAsync",
-                for file in files
             }
-            for future in as_completed(future_to_file):
+            status_str_type_mapping = {}
-                file = future_to_file[future]
+            if data:
-                try:
+                # 在添加到注册表前处理类型替换
-                    data, complete_data, is_valid, device_ids = future.result()
+                for device_id, device_config in data.items():
-                    if is_valid:
+                    # 添加文件路径信息 - 使用规范化的完整文件路径
-                        results.append((file, data, device_ids))
+                    if "version" not in device_config:
-                except Exception as e:
+                        device_config["version"] = "1.0.0"
-                    logger.warning(f"[UniLab Registry] 处理设备文件异常: {file}, 错误: {e}")
+                    if "category" not in device_config:
+                        device_config["category"] = [file.stem]
+                    elif file.stem not in device_config["category"]:
+                        device_config["category"].append(file.stem)
+                    if "config_info" not in device_config:
+                        device_config["config_info"] = []
+                    if "description" not in device_config:
+                        device_config["description"] = ""
+                    if "icon" not in device_config:
+                        device_config["icon"] = ""
+                    if "handles" not in device_config:
+                        device_config["handles"] = []
+                    if "init_param_schema" not in device_config:
+                        device_config["init_param_schema"] = {}
+                    if "class" in device_config:
+                        if (
+                            "status_types" not in device_config["class"]
+                            or device_config["class"]["status_types"] is None
+                        ):
+                            device_config["class"]["status_types"] = {}
+                        if (
+                            "action_value_mappings" not in device_config["class"]
+                            or device_config["class"]["action_value_mappings"] is None
+                        ):
+                            device_config["class"]["action_value_mappings"] = {}
+                        enhanced_info = {}
+                        if complete_registry:
+                            device_config["class"]["status_types"].clear()
+                            enhanced_info = get_enhanced_class_info(device_config["class"]["module"], use_dynamic=True)
+                            if not enhanced_info.get("dynamic_import_success", False):
+                                continue
+                            device_config["class"]["status_types"].update(
+                                {k: v["return_type"] for k, v in enhanced_info["status_methods"].items()}
+                            )
+                        for status_name, status_type in device_config["class"]["status_types"].items():
+                            if isinstance(status_type, tuple) or status_type in ["Any", "None", "Unknown"]:
+                                status_type = "String"  # 替换成ROS的String，便于显示
+                                device_config["class"]["status_types"][status_name] = status_type
+                            try:
+                                target_type = self._replace_type_with_class(
+                                    status_type, device_id, f"状态 {status_name}"
+                                )
+                            except ROSMsgNotFound:
+                                continue
+                            if target_type in [
+                                dict,
+                                list,
+                            ]:  # 对于嵌套类型返回的对象，暂时处理成字符串，无法直接进行转换
+                                target_type = String
+                            status_str_type_mapping[status_type] = target_type
+                        device_config["class"]["status_types"] = dict(
+                            sorted(device_config["class"]["status_types"].items())
+                        )
+                        if complete_registry:
+                            # 保存原有的 action 配置（用于保留 schema 的 description 和 handles 等）
+                            old_action_configs = {}
+                            for action_name, action_config in device_config["class"]["action_value_mappings"].items():
+                                old_action_configs[action_name] = action_config
 
-        # 线程安全地更新注册表
+                            device_config["class"]["action_value_mappings"] = {
-        current_device_number = len(self.device_type_registry) + 1
+                                k: v
-        with self._registry_lock:
+                                for k, v in device_config["class"]["action_value_mappings"].items()
-            for file, data, device_ids in results:
+                                if not k.startswith("auto-")
-                self.device_type_registry.update(data)
+                            }
-                for device_id in device_ids:
+                            # 处理动作值映射
-                    logger.trace(
+                            device_config["class"]["action_value_mappings"].update(
-                        f"[UniLab Registry] Device-{current_device_number} Add {device_id} "
+                                {
+                                    f"auto-{k}": {
+                                        "type": "UniLabJsonCommandAsync" if v["is_async"] else "UniLabJsonCommand",
+                                        "goal": {},
+                                        "feedback": {},
+                                        "result": {},
+                                        "schema": self._generate_unilab_json_command_schema(
+                                            v["args"],
+                                            k,
+                                            v.get("return_annotation"),
+                                            # 传入旧的 schema 以保留字段 description
+                                            old_action_configs.get(f"auto-{k}", {}).get("schema"),
+                                        ),
+                                        "goal_default": {i["name"]: i["default"] for i in v["args"]},
+                                        # 保留原有的 handles 配置
+                                        "handles": old_action_configs.get(f"auto-{k}", {}).get("handles", []),
+                                        "placeholder_keys": {
+                                            i["name"]: (
+                                                "unilabos_resources"
+                                                if i["type"] == "unilabos.registry.placeholder_type:ResourceSlot"
+                                                or i["type"]
+                                                == ("list", "unilabos.registry.placeholder_type:ResourceSlot")
+                                                else "unilabos_devices"
+                                            )
+                                            for i in v["args"]
+                                            if i.get("type", "")
+                                            in [
+                                                "unilabos.registry.placeholder_type:ResourceSlot",
+                                                "unilabos.registry.placeholder_type:DeviceSlot",
+                                                ("list", "unilabos.registry.placeholder_type:ResourceSlot"),
+                                                ("list", "unilabos.registry.placeholder_type:DeviceSlot"),
+                                            ]
+                                        },
+                                    }
+                                    # 不生成已配置action的动作
+                                    for k, v in enhanced_info["action_methods"].items()
+                                    if k not in device_config["class"]["action_value_mappings"]
+                                }
+                            )
+                            # 恢复原有的 description 信息（非 auto- 开头的动作）
+                            for action_name, old_config in old_action_configs.items():
+                                if action_name in device_config["class"]["action_value_mappings"]:  # 有一些会被删除
+                                    old_schema = old_config.get("schema", {})
+                                    if "description" in old_schema and old_schema["description"]:
+                                        device_config["class"]["action_value_mappings"][action_name]["schema"][
+                                            "description"
+                                        ] = old_schema["description"]
+                            device_config["init_param_schema"] = {}
+                            device_config["init_param_schema"]["config"] = self._generate_unilab_json_command_schema(
+                                enhanced_info["init_params"], "__init__"
+                            )["properties"]["goal"]
+                            device_config["init_param_schema"]["data"] = self._generate_status_types_schema(
+                                enhanced_info["status_methods"]
+                            )
+
+                        device_config.pop("schema", None)
+                        device_config["class"]["action_value_mappings"] = dict(
+                            sorted(device_config["class"]["action_value_mappings"].items())
+                        )
+                        for action_name, action_config in device_config["class"]["action_value_mappings"].items():
+                            if "handles" not in action_config:
+                                action_config["handles"] = {}
+                            elif isinstance(action_config["handles"], list):
+                                if len(action_config["handles"]):
+                                    logger.error(f"设备{device_id} {action_name} 的handles配置错误，应该是字典类型")
+                                    continue
+                                else:
+                                    action_config["handles"] = {}
+                            if "type" in action_config:
+                                action_type_str: str = action_config["type"]
+                                # 通过Json发放指令，而不是通过特殊的ros action进行处理
+                                if not action_type_str.startswith("UniLabJsonCommand"):
+                                    try:
+                                        target_type = self._replace_type_with_class(
+                                            action_type_str, device_id, f"动作 {action_name}"
+                                        )
+                                    except ROSMsgNotFound:
+                                        continue
+                                    action_str_type_mapping[action_type_str] = target_type
+                                    if target_type is not None:
+                                        action_config["goal_default"] = yaml.safe_load(
+                                            io.StringIO(get_yaml_from_goal_type(target_type.Goal))
+                                        )
+                                        action_config["schema"] = ros_action_to_json_schema(target_type)
+                                    else:
+                                        logger.warning(
+                                            f"[UniLab Registry] 设备 {device_id} 的动作 {action_name} 类型为空，跳过替换"
+                                        )
+                        complete_data[device_id] = copy.deepcopy(dict(sorted(device_config.items())))  # 稍后dump到文件
+                        for status_name, status_type in device_config["class"]["status_types"].items():
+                            device_config["class"]["status_types"][status_name] = status_str_type_mapping[status_type]
+                        for action_name, action_config in device_config["class"]["action_value_mappings"].items():
+                            if action_config["type"] not in action_str_type_mapping:
+                                continue
+                            action_config["type"] = action_str_type_mapping[action_config["type"]]
+                        # 添加内置的驱动命令动作
+                        self._add_builtin_actions(device_config, device_id)
+                    device_config["file_path"] = str(file.absolute()).replace("\\", "/")
+                    device_config["registry_type"] = "device"
+                    logger.trace(  # type: ignore
+                        f"[UniLab Registry] Device-{current_device_number} File-{i+1}/{len(files)} Add {device_id} "
                         + f"[{data[device_id].get('name', '未命名设备')}]"
                     )
                     current_device_number += 1
-
+                complete_data = dict(sorted(complete_data.items()))
-        # 记录无效文件
+                complete_data = copy.deepcopy(complete_data)
-        valid_files = {r[0] for r in results}
+                with open(file, "w", encoding="utf-8") as f:
-        for file in files:
+                    yaml.dump(complete_data, f, allow_unicode=True, default_flow_style=False, Dumper=NoAliasDumper)
-            if file not in valid_files:
+                self.device_type_registry.update(data)
-                logger.debug(f"[UniLab Registry] Device File Not Valid YAML File: {file.absolute()}")
+            else:
+                logger.debug(
+                    f"[UniLab Registry] Device File-{i+1}/{len(files)} Not Valid YAML File: {file.absolute()}"
+                )
 
     def obtain_registry_device_info(self):
         devices = []

unilabos/resources/graphio.py

@@ -42,7 +42,7 @@ def canonicalize_nodes_data(
     Returns:
         ResourceTreeSet: 标准化后的资源树集合
     """
-    print_status(f"{len(nodes)} Resources loaded", "info")
+    print_status(f"{len(nodes)} Resources loaded:", "info")
 
     # 第一步：基本预处理（处理graphml的label字段）
     outer_host_node_id = None

unilabos/resources/resource_tracker.py

@@ -69,8 +69,8 @@ class ResourceDict(BaseModel):
     klass: str = Field(alias="class", description="Resource class name")
     pose: ResourceDictPosition = Field(description="Resource position", default_factory=ResourceDictPosition)
     config: Dict[str, Any] = Field(description="Resource configuration")
-    data: Dict[str, Any] = Field(description="Resource data, eg: container liquid data")
+    data: Dict[str, Any] = Field(description="Resource data")
-    extra: Dict[str, Any] = Field(description="Extra data, eg: slot index")
+    extra: Dict[str, Any] = Field(description="Extra data")
 
     @field_serializer("parent_uuid")
     def _serialize_parent(self, parent_uuid: Optional["ResourceDict"]):

unilabos/workflow/from_python_script.py

@@ -1,241 +0,0 @@
-import ast
-import json
-from typing import Dict, List, Any, Tuple, Optional
-
-from .common import WorkflowGraph, RegistryAdapter
-
-Json = Dict[str, Any]
-
-# ---------------- Converter ----------------
-
-class DeviceMethodConverter:
-    """
-    - 字段统一：resource_name（原 device_class）、template_name（原 action_key）
-    - params 单层；inputs 使用 'params.' 前缀
-    - SimpleGraph.add_workflow_node 负责变量连线与边
-    """
-    def __init__(self, device_registry: Optional[Dict[str, Any]] = None):
-        self.graph = WorkflowGraph()
-        self.variable_sources: Dict[str, Dict[str, Any]] = {}        # var -> {node_id, output_name}
-        self.instance_to_resource: Dict[str, Optional[str]] = {}     # 实例名 -> resource_name
-        self.node_id_counter: int = 0
-        self.registry = RegistryAdapter(device_registry or {})
-
-    # ---- helpers ----
-    def _new_node_id(self) -> int:
-        nid = self.node_id_counter
-        self.node_id_counter += 1
-        return nid
-
-    def _assign_targets(self, targets) -> List[str]:
-        names: List[str] = []
-        import ast
-        if isinstance(targets, ast.Tuple):
-            for elt in targets.elts:
-                if isinstance(elt, ast.Name):
-                    names.append(elt.id)
-        elif isinstance(targets, ast.Name):
-            names.append(targets.id)
-        return names
-
-    def _extract_device_instantiation(self, node) -> Optional[Tuple[str, str]]:
-        import ast
-        if not isinstance(node.value, ast.Call):
-            return None
-        callee = node.value.func
-        if isinstance(callee, ast.Name):
-            class_name = callee.id
-        elif isinstance(callee, ast.Attribute) and isinstance(callee.value, ast.Name):
-            class_name = callee.attr
-        else:
-            return None
-        if isinstance(node.targets[0], ast.Name):
-            instance = node.targets[0].id
-            return instance, class_name
-        return None
-
-    def _extract_call(self, call) -> Tuple[str, str, Dict[str, Any], str]:
-        import ast
-        owner_name, method_name, call_kind = "", "", "func"
-        if isinstance(call.func, ast.Attribute):
-            method_name = call.func.attr
-            if isinstance(call.func.value, ast.Name):
-                owner_name = call.func.value.id
-                call_kind = "instance" if owner_name in self.instance_to_resource else "class_or_module"
-            elif isinstance(call.func.value, ast.Attribute) and isinstance(call.func.value.value, ast.Name):
-                owner_name = call.func.value.attr
-                call_kind = "class_or_module"
-        elif isinstance(call.func, ast.Name):
-            method_name = call.func.id
-            call_kind = "func"
-
-        def pack(node):
-            if isinstance(node, ast.Name):
-                return {"type": "variable", "value": node.id}
-            if isinstance(node, ast.Constant):
-                return {"type": "constant", "value": node.value}
-            if isinstance(node, ast.Dict):
-                return {"type": "dict", "value": self._parse_dict(node)}
-            if isinstance(node, ast.List):
-                return {"type": "list", "value": self._parse_list(node)}
-            return {"type": "raw", "value": ast.unparse(node) if hasattr(ast, "unparse") else str(node)}
-
-        args: Dict[str, Any] = {}
-        pos: List[Any] = []
-        for a in call.args:
-            pos.append(pack(a))
-        for kw in call.keywords:
-            args[kw.arg] = pack(kw.value)
-        if pos:
-            args["_positional"] = pos
-        return owner_name, method_name, args, call_kind
-
-    def _parse_dict(self, node) -> Dict[str, Any]:
-        import ast
-        out: Dict[str, Any] = {}
-        for k, v in zip(node.keys, node.values):
-            if isinstance(k, ast.Constant):
-                key = str(k.value)
-                if isinstance(v, ast.Name):
-                    out[key] = f"var:{v.id}"
-                elif isinstance(v, ast.Constant):
-                    out[key] = v.value
-                elif isinstance(v, ast.Dict):
-                    out[key] = self._parse_dict(v)
-                elif isinstance(v, ast.List):
-                    out[key] = self._parse_list(v)
-        return out
-
-    def _parse_list(self, node) -> List[Any]:
-        import ast
-        out: List[Any] = []
-        for elt in node.elts:
-            if isinstance(elt, ast.Name):
-                out.append(f"var:{elt.id}")
-            elif isinstance(elt, ast.Constant):
-                out.append(elt.value)
-            elif isinstance(elt, ast.Dict):
-                out.append(self._parse_dict(elt))
-            elif isinstance(elt, ast.List):
-                out.append(self._parse_list(elt))
-        return out
-
-    def _normalize_var_tokens(self, x: Any) -> Any:
-        if isinstance(x, str) and x.startswith("var:"):
-            return {"__var__": x[4:]}
-        if isinstance(x, list):
-            return [self._normalize_var_tokens(i) for i in x]
-        if isinstance(x, dict):
-            return {k: self._normalize_var_tokens(v) for k, v in x.items()}
-        return x
-
-    def _make_params_payload(self, resource_name: Optional[str], template_name: str, call_args: Dict[str, Any]) -> Dict[str, Any]:
-        input_keys = self.registry.get_action_input_keys(resource_name, template_name) if resource_name else []
-        defaults = self.registry.get_action_goal_default(resource_name, template_name) if resource_name else {}
-        params: Dict[str, Any] = dict(defaults)
-
-        def unpack(p):
-            t, v = p.get("type"), p.get("value")
-            if t == "variable":
-                return {"__var__": v}
-            if t == "dict":
-                return self._normalize_var_tokens(v)
-            if t == "list":
-                return self._normalize_var_tokens(v)
-            return v
-
-        for k, p in call_args.items():
-            if k == "_positional":
-                continue
-            params[k] = unpack(p)
-
-        pos = call_args.get("_positional", [])
-        if pos:
-            if input_keys:
-                for i, p in enumerate(pos):
-                    if i >= len(input_keys):
-                        break
-                    name = input_keys[i]
-                    if name in params:
-                        continue
-                    params[name] = unpack(p)
-            else:
-                for i, p in enumerate(pos):
-                    params[f"arg_{i}"] = unpack(p)
-        return params
-
-    # ---- handlers ----
-    def _on_assign(self, stmt):
-        import ast
-        inst = self._extract_device_instantiation(stmt)
-        if inst:
-            instance, code_class = inst
-            resource_name = self.registry.resolve_resource_by_classname(code_class)
-            self.instance_to_resource[instance] = resource_name
-            return
-
-        if isinstance(stmt.value, ast.Call):
-            owner, method, call_args, kind = self._extract_call(stmt.value)
-            if kind == "instance":
-                device_key = owner
-                resource_name = self.instance_to_resource.get(owner)
-            else:
-                device_key = owner
-                resource_name = self.registry.resolve_resource_by_classname(owner)
-
-            module = self.registry.get_device_module(resource_name)
-            params = self._make_params_payload(resource_name, method, call_args)
-
-            nid = self._new_node_id()
-            self.graph.add_workflow_node(
-                nid,
-                device_key=device_key,
-                resource_name=resource_name,      # ✅
-                module=module,
-                template_name=method,             # ✅
-                params=params,
-                variable_sources=self.variable_sources,
-                add_ready_if_no_vars=True,
-                prev_node_id=(nid - 1) if nid > 0 else None,
-            )
-
-            out_vars = self._assign_targets(stmt.targets[0])
-            for var in out_vars:
-                self.variable_sources[var] = {"node_id": nid, "output_name": "result"}
-
-    def _on_expr(self, stmt):
-        import ast
-        if not isinstance(stmt.value, ast.Call):
-            return
-        owner, method, call_args, kind = self._extract_call(stmt.value)
-        if kind == "instance":
-            device_key = owner
-            resource_name = self.instance_to_resource.get(owner)
-        else:
-            device_key = owner
-            resource_name = self.registry.resolve_resource_by_classname(owner)
-
-        module = self.registry.get_device_module(resource_name)
-        params = self._make_params_payload(resource_name, method, call_args)
-
-        nid = self._new_node_id()
-        self.graph.add_workflow_node(
-            nid,
-            device_key=device_key,
-            resource_name=resource_name,      # ✅
-            module=module,
-            template_name=method,             # ✅
-            params=params,
-            variable_sources=self.variable_sources,
-            add_ready_if_no_vars=True,
-            prev_node_id=(nid - 1) if nid > 0 else None,
-        )
-
-    def convert(self, python_code: str):
-        tree = ast.parse(python_code)
-        for stmt in tree.body:
-            if isinstance(stmt, ast.Assign):
-                self._on_assign(stmt)
-            elif isinstance(stmt, ast.Expr):
-                self._on_expr(stmt)
-        return self

unilabos/workflow/from_xdl.py

@@ -1,131 +0,0 @@
-from typing import List, Any, Dict
-import xml.etree.ElementTree as ET
-
-
-def convert_to_type(val: str) -> Any:
-    """将字符串值转换为适当的数据类型"""
-    if val == "True":
-        return True
-    if val == "False":
-        return False
-    if val == "?":
-        return None
-    if val.endswith(" g"):
-        return float(val.split(" ")[0])
-    if val.endswith("mg"):
-        return float(val.split("mg")[0])
-    elif val.endswith("mmol"):
-        return float(val.split("mmol")[0]) / 1000
-    elif val.endswith("mol"):
-        return float(val.split("mol")[0])
-    elif val.endswith("ml"):
-        return float(val.split("ml")[0])
-    elif val.endswith("RPM"):
-        return float(val.split("RPM")[0])
-    elif val.endswith(" °C"):
-        return float(val.split(" ")[0])
-    elif val.endswith(" %"):
-        return float(val.split(" ")[0])
-    return val
-
-
-def flatten_xdl_procedure(procedure_elem: ET.Element) -> List[ET.Element]:
-    """展平嵌套的XDL程序结构"""
-    flattened_operations = []
-    TEMP_UNSUPPORTED_PROTOCOL = ["Purge", "Wait", "Stir", "ResetHandling"]
-
-    def extract_operations(element: ET.Element):
-        if element.tag not in ["Prep", "Reaction", "Workup", "Purification", "Procedure"]:
-            if element.tag not in TEMP_UNSUPPORTED_PROTOCOL:
-                flattened_operations.append(element)
-
-        for child in element:
-            extract_operations(child)
-
-    for child in procedure_elem:
-        extract_operations(child)
-
-    return flattened_operations
-
-
-def parse_xdl_content(xdl_content: str) -> tuple:
-    """解析XDL内容"""
-    try:
-        xdl_content_cleaned = "".join(c for c in xdl_content if c.isprintable())
-        root = ET.fromstring(xdl_content_cleaned)
-
-        synthesis_elem = root.find("Synthesis")
-        if synthesis_elem is None:
-            return None, None, None
-
-        # 解析硬件组件
-        hardware_elem = synthesis_elem.find("Hardware")
-        hardware = []
-        if hardware_elem is not None:
-            hardware = [{"id": c.get("id"), "type": c.get("type")} for c in hardware_elem.findall("Component")]
-
-        # 解析试剂
-        reagents_elem = synthesis_elem.find("Reagents")
-        reagents = []
-        if reagents_elem is not None:
-            reagents = [{"name": r.get("name"), "role": r.get("role", "")} for r in reagents_elem.findall("Reagent")]
-
-        # 解析程序
-        procedure_elem = synthesis_elem.find("Procedure")
-        if procedure_elem is None:
-            return None, None, None
-
-        flattened_operations = flatten_xdl_procedure(procedure_elem)
-        return hardware, reagents, flattened_operations
-
-    except ET.ParseError as e:
-        raise ValueError(f"Invalid XDL format: {e}")
-
-
-def convert_xdl_to_dict(xdl_content: str) -> Dict[str, Any]:
-    """
-    将XDL XML格式转换为标准的字典格式
-
-    Args:
-        xdl_content: XDL XML内容
-
-    Returns:
-        转换结果，包含步骤和器材信息
-    """
-    try:
-        hardware, reagents, flattened_operations = parse_xdl_content(xdl_content)
-        if hardware is None:
-            return {"error": "Failed to parse XDL content", "success": False}
-
-        # 将XDL元素转换为字典格式
-        steps_data = []
-        for elem in flattened_operations:
-            # 转换参数类型
-            parameters = {}
-            for key, val in elem.attrib.items():
-                converted_val = convert_to_type(val)
-                if converted_val is not None:
-                    parameters[key] = converted_val
-
-            step_dict = {
-                "operation": elem.tag,
-                "parameters": parameters,
-                "description": elem.get("purpose", f"Operation: {elem.tag}"),
-            }
-            steps_data.append(step_dict)
-
-        # 合并硬件和试剂为统一的labware_info格式
-        labware_data = []
-        labware_data.extend({"id": hw["id"], "type": "hardware", **hw} for hw in hardware)
-        labware_data.extend({"name": reagent["name"], "type": "reagent", **reagent} for reagent in reagents)
-
-        return {
-            "success": True,
-            "steps": steps_data,
-            "labware": labware_data,
-            "message": f"Successfully converted XDL to dict format. Found {len(steps_data)} steps and {len(labware_data)} labware items.",
-        }
-
-    except Exception as e:
-        error_msg = f"XDL conversion failed: {str(e)}"
-        return {"error": error_msg, "success": False}