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Uni-Lab-OS/unilabos/compile/wash_solid_protocol.py

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from typing import List, Dict, Any, Union
import networkx as nx
import logging
import re
logger = logging.getLogger(__name__)
def debug_print(message):
"""调试输出"""
print(f"[WASH_SOLID] {message}", flush=True)
logger.info(f"[WASH_SOLID] {message}")
def parse_time_with_units(time_input: Union[str, float, int], default_unit: str = "s") -> float:
"""
解析带单位的时间输入
Args:
time_input: 时间输入(如 "30 min", "1 h", "300", "?", 60.0
default_unit: 默认单位(默认为秒)
Returns:
float: 时间(秒)
"""
if not time_input:
return 0.0
# 处理数值输入
if isinstance(time_input, (int, float)):
result = float(time_input)
debug_print(f"数值时间输入: {time_input}{result}s默认单位")
return result
# 处理字符串输入
time_str = str(time_input).lower().strip()
debug_print(f"解析时间字符串: '{time_str}'")
# 处理特殊值
if time_str in ['?', 'unknown', 'tbd', 'to be determined']:
default_time = 300.0 # 5分钟默认值
debug_print(f"检测到未知时间,使用默认值: {default_time}s")
return default_time
# 如果是纯数字,使用默认单位
try:
value = float(time_str)
if default_unit == "s":
result = value
elif default_unit in ["min", "minute"]:
result = value * 60.0
elif default_unit in ["h", "hour"]:
result = value * 3600.0
else:
result = value # 默认秒
debug_print(f"纯数字输入: {time_str}{result}s单位: {default_unit}")
return result
except ValueError:
pass
# 使用正则表达式匹配数字和单位
pattern = r'(\d+\.?\d*)\s*([a-z]*)'
match = re.match(pattern, time_str)
if not match:
debug_print(f"⚠️ 无法解析时间: '{time_str}',使用默认值: 60s")
return 60.0
value = float(match.group(1))
unit = match.group(2) or default_unit
# 单位转换映射
unit_multipliers = {
# 秒
's': 1.0,
'sec': 1.0,
'second': 1.0,
'seconds': 1.0,
# 分钟
'm': 60.0,
'min': 60.0,
'mins': 60.0,
'minute': 60.0,
'minutes': 60.0,
# 小时
'h': 3600.0,
'hr': 3600.0,
'hrs': 3600.0,
'hour': 3600.0,
'hours': 3600.0,
# 天
'd': 86400.0,
'day': 86400.0,
'days': 86400.0,
}
multiplier = unit_multipliers.get(unit, 1.0)
result = value * multiplier
debug_print(f"时间解析: '{time_str}'{value} {unit}{result}s")
return result
def parse_volume_with_units(volume_input: Union[str, float, int], default_unit: str = "mL") -> float:
"""
解析带单位的体积输入
Args:
volume_input: 体积输入(如 "100 mL", "2.5 L", "500", "?", 100.0
default_unit: 默认单位(默认为毫升)
Returns:
float: 体积(毫升)
"""
if not volume_input:
return 0.0
# 处理数值输入
if isinstance(volume_input, (int, float)):
result = float(volume_input)
debug_print(f"数值体积输入: {volume_input}{result}mL默认单位")
return result
# 处理字符串输入
volume_str = str(volume_input).lower().strip()
debug_print(f"解析体积字符串: '{volume_str}'")
# 处理特殊值
if volume_str in ['?', 'unknown', 'tbd', 'to be determined']:
default_volume = 50.0 # 50mL默认值
debug_print(f"检测到未知体积,使用默认值: {default_volume}mL")
return default_volume
# 如果是纯数字,使用默认单位
try:
value = float(volume_str)
if default_unit.lower() in ["ml", "milliliter"]:
result = value
elif default_unit.lower() in ["l", "liter"]:
result = value * 1000.0
elif default_unit.lower() in ["μl", "ul", "microliter"]:
result = value / 1000.0
else:
result = value # 默认mL
debug_print(f"纯数字输入: {volume_str}{result}mL单位: {default_unit}")
return result
except ValueError:
pass
# 移除空格并提取数字和单位
volume_clean = re.sub(r'\s+', '', volume_str)
# 匹配数字和单位的正则表达式
match = re.match(r'([0-9]*\.?[0-9]+)\s*(ml|l|μl|ul|microliter|milliliter|liter)?', volume_clean)
if not match:
debug_print(f"⚠️ 无法解析体积: '{volume_str}',使用默认值: 50mL")
return 50.0
value = float(match.group(1))
unit = match.group(2) or default_unit.lower()
# 转换为毫升
if unit in ['l', 'liter']:
volume = value * 1000.0 # L -> mL
elif unit in ['μl', 'ul', 'microliter']:
volume = value / 1000.0 # μL -> mL
else: # ml, milliliter 或默认
volume = value # 已经是mL
debug_print(f"体积解析: '{volume_str}'{value} {unit}{volume}mL")
return volume
def parse_volume_spec(volume_spec: str) -> float:
"""
解析体积规格字符串为毫升数
Args:
volume_spec: 体积规格字符串(如 "small volume", "large volume"
Returns:
float: 体积(毫升)
"""
if not volume_spec:
return 0.0
volume_spec = volume_spec.lower().strip()
# 预定义的体积规格映射
volume_spec_map = {
# 小体积
"small volume": 10.0,
"small amount": 10.0,
"minimal volume": 5.0,
"tiny volume": 5.0,
"little volume": 15.0,
# 中等体积
"medium volume": 50.0,
"moderate volume": 50.0,
"normal volume": 50.0,
"standard volume": 50.0,
# 大体积
"large volume": 100.0,
"big volume": 100.0,
"substantial volume": 150.0,
"generous volume": 200.0,
# 极端体积
"minimum": 5.0,
"maximum": 500.0,
"excess": 200.0,
"plenty": 100.0,
}
# 直接匹配
if volume_spec in volume_spec_map:
result = volume_spec_map[volume_spec]
debug_print(f"体积规格解析: '{volume_spec}'{result}mL")
return result
# 模糊匹配
for spec, value in volume_spec_map.items():
if spec in volume_spec or volume_spec in spec:
result = value
debug_print(f"体积规格模糊匹配: '{volume_spec}''{spec}'{result}mL")
return result
# 如果无法识别,返回默认值
default_volume = 50.0
debug_print(f"⚠️ 无法识别体积规格: '{volume_spec}',使用默认值: {default_volume}mL")
return default_volume
def parse_repeats_spec(repeats_spec: str) -> int:
"""
解析重复次数规格字符串为整数
Args:
repeats_spec: 重复次数规格字符串(如 "several", "many"
Returns:
int: 重复次数
"""
if not repeats_spec:
return 1
repeats_spec = repeats_spec.lower().strip()
# 预定义的重复次数映射
repeats_spec_map = {
# 少数次
"once": 1,
"twice": 2,
"few": 3,
"couple": 2,
"several": 4,
"some": 3,
# 多次
"many": 5,
"multiple": 4,
"numerous": 6,
"repeated": 3,
"extensively": 5,
"thoroughly": 4,
# 极端情况
"minimal": 1,
"maximum": 10,
"excess": 8,
}
# 直接匹配
if repeats_spec in repeats_spec_map:
result = repeats_spec_map[repeats_spec]
debug_print(f"重复次数解析: '{repeats_spec}'{result}")
return result
# 模糊匹配
for spec, value in repeats_spec_map.items():
if spec in repeats_spec or repeats_spec in spec:
result = value
debug_print(f"重复次数模糊匹配: '{repeats_spec}''{spec}'{result}")
return result
# 如果无法识别,返回默认值
default_repeats = 3
debug_print(f"⚠️ 无法识别重复次数规格: '{repeats_spec}',使用默认值: {default_repeats}")
return default_repeats
def parse_mass_to_volume(mass: str) -> float:
"""
将质量字符串转换为体积简化假设密度约为1 g/mL
Args:
mass: 质量字符串(如 "10 g", "2.5g", "100mg"
Returns:
float: 体积(毫升)
"""
if not mass or not mass.strip():
return 0.0
mass = mass.lower().strip()
debug_print(f"解析质量字符串: '{mass}'")
# 移除空格并提取数字和单位
mass_clean = re.sub(r'\s+', '', mass)
# 匹配数字和单位的正则表达式
match = re.match(r'([0-9]*\.?[0-9]+)\s*(g|mg|kg|gram|milligram|kilogram)?', mass_clean)
if not match:
debug_print(f"⚠️ 无法解析质量字符串: '{mass}'返回0.0mL")
return 0.0
value = float(match.group(1))
unit = match.group(2) or 'g' # 默认单位为克
# 转换为毫升假设密度为1 g/mL
if unit in ['mg', 'milligram']:
volume = value / 1000.0 # mg -> g -> mL
elif unit in ['kg', 'kilogram']:
volume = value * 1000.0 # kg -> g -> mL
else: # g, gram 或默认
volume = value # g -> mL (密度=1)
debug_print(f"质量转换: {value}{unit}{volume}mL")
return volume
def parse_volume_string(volume_str: str) -> float:
"""
解析体积字符串,支持带单位的输入
Args:
volume_str: 体积字符串(如 "10", "10 mL", "2.5L", "500μL", "?"
Returns:
float: 体积(毫升)
"""
if not volume_str or not volume_str.strip():
return 0.0
volume_str = volume_str.lower().strip()
debug_print(f"解析体积字符串: '{volume_str}'")
# 🔧 新增:处理未知体积符号
if volume_str in ['?', 'unknown', 'tbd', 'to be determined', 'unspecified']:
default_unknown_volume = 50.0 # 未知体积时的默认值
debug_print(f"检测到未知体积符号 '{volume_str}',使用默认值: {default_unknown_volume}mL")
return default_unknown_volume
# 移除空格并提取数字和单位
volume_clean = re.sub(r'\s+', '', volume_str)
# 匹配数字和单位的正则表达式
match = re.match(r'([0-9]*\.?[0-9]+)\s*(ml|l|μl|ul|microliter|milliliter|liter)?', volume_clean)
if not match:
debug_print(f"⚠️ 无法解析体积字符串: '{volume_str}'返回0.0mL")
return 0.0
value = float(match.group(1))
unit = match.group(2) or 'ml' # 默认单位为毫升
# 转换为毫升
if unit in ['l', 'liter']:
volume = value * 1000.0 # L -> mL
elif unit in ['μl', 'ul', 'microliter']:
volume = value / 1000.0 # μL -> mL
else: # ml, milliliter 或默认
volume = value # 已经是mL
debug_print(f"体积转换: {value}{unit}{volume}mL")
return volume
def parse_volume_input(volume: Union[float, str], volume_spec: str = "", mass: str = "") -> float:
"""
统一的体积输入解析函数 - 增强版
Args:
volume: 体积数值或字符串
volume_spec: 体积规格字符串(优先级最高)
mass: 质量字符串(优先级第二)
Returns:
float: 体积(毫升)
"""
debug_print(f"解析体积输入: volume={volume}, volume_spec='{volume_spec}', mass='{mass}'")
# 优先级1volume_spec
if volume_spec and volume_spec.strip():
result = parse_volume_spec(volume_spec)
debug_print(f"使用volume_spec: {result}mL")
return result
# 优先级2mass质量转体积
if mass and mass.strip():
result = parse_mass_to_volume(mass)
if result > 0:
debug_print(f"使用mass转换: {result}mL")
return result
# 优先级3volume
if volume:
if isinstance(volume, str):
# 字符串形式的体积
result = parse_volume_string(volume)
if result > 0:
debug_print(f"使用volume字符串: {result}mL")
return result
elif isinstance(volume, (int, float)) and volume > 0:
# 数值形式的体积
result = float(volume)
debug_print(f"使用volume数值: {result}mL")
return result
# 默认值
default_volume = 50.0
debug_print(f"⚠️ 所有体积输入无效,使用默认值: {default_volume}mL")
return default_volume
def parse_repeats_input(repeats: int, repeats_spec: str = "") -> int:
"""
统一的重复次数输入解析函数
Args:
repeats: 重复次数数值
repeats_spec: 重复次数规格字符串优先级高于repeats
Returns:
int: 重复次数
"""
# 优先处理 repeats_spec
if repeats_spec:
return parse_repeats_spec(repeats_spec)
# 处理 repeats
if repeats > 0:
return repeats
# 默认值
debug_print(f"⚠️ 无法处理重复次数输入: repeats={repeats}, repeats_spec='{repeats_spec}',使用默认值: 1次")
return 1
def find_solvent_source(G: nx.DiGraph, solvent: str) -> str:
"""查找溶剂源容器"""
debug_print(f"查找溶剂 '{solvent}' 的源容器...")
# 可能的溶剂容器名称
possible_names = [
f"flask_{solvent}",
f"reagent_bottle_{solvent}",
f"bottle_{solvent}",
f"container_{solvent}",
f"source_{solvent}",
f"liquid_reagent_bottle_{solvent}"
]
for name in possible_names:
if name in G.nodes():
debug_print(f"找到溶剂容器: {name}")
return name
# 查找通用容器
generic_containers = [
"liquid_reagent_bottle_1",
"liquid_reagent_bottle_2",
"reagent_bottle_1",
"reagent_bottle_2",
"flask_1",
"flask_2",
"solvent_bottle"
]
for container in generic_containers:
if container in G.nodes():
debug_print(f"使用通用容器: {container}")
return container
debug_print("未找到溶剂容器,使用默认容器")
return f"flask_{solvent}"
def find_filtrate_vessel(G: nx.DiGraph, filtrate_vessel: str = "") -> str:
"""查找滤液收集容器"""
debug_print(f"查找滤液收集容器,指定容器: '{filtrate_vessel}'")
# 如果指定了容器且存在,直接使用
if filtrate_vessel and filtrate_vessel.strip():
if filtrate_vessel in G.nodes():
debug_print(f"使用指定的滤液容器: {filtrate_vessel}")
return filtrate_vessel
else:
debug_print(f"指定的滤液容器 '{filtrate_vessel}' 不存在,查找默认容器")
# 自动查找滤液容器
possible_names = [
"waste_workup", # 废液收集
"filtrate_vessel", # 标准滤液容器
"collection_bottle_1", # 收集瓶
"collection_bottle_2", # 收集瓶
"rotavap", # 旋蒸仪
"waste_flask", # 废液瓶
"flask_1", # 通用烧瓶
"flask_2" # 通用烧瓶
]
for vessel_name in possible_names:
if vessel_name in G.nodes():
debug_print(f"找到滤液收集容器: {vessel_name}")
return vessel_name
debug_print("未找到滤液收集容器,使用默认容器")
return "waste_workup"
def generate_wash_solid_protocol(
G: nx.DiGraph,
vessel: str,
solvent: str,
volume: Union[float, str] = "50", # 🔧 修改:默认为字符串
filtrate_vessel: str = "",
temp: float = 25.0,
stir: bool = False,
stir_speed: float = 0.0,
time: Union[str, float] = "0", # 🔧 修改:支持字符串时间
repeats: int = 1,
# === 现有参数保持不变 ===
volume_spec: str = "",
repeats_spec: str = "",
mass: str = "",
event: str = "",
**kwargs
) -> List[Dict[str, Any]]:
"""
生成固体清洗操作的协议序列 - 增强版(支持单位)
支持多种输入方式:
1. volume: "100 mL", "50", "2.5 L", "?"
2. time: "5 min", "300", "0.5 h", "?"
3. volume_spec: "small volume", "large volume"
4. mass: "10 g", "2.5 kg", "500 mg" 等(转换为体积)
"""
debug_print("=" * 60)
debug_print("开始生成固体清洗协议(支持单位)")
debug_print(f"输入参数:")
debug_print(f" - vessel: {vessel}")
debug_print(f" - solvent: {solvent}")
debug_print(f" - volume: {volume} (类型: {type(volume)})")
debug_print(f" - time: {time} (类型: {type(time)})")
debug_print(f" - volume_spec: '{volume_spec}'")
debug_print(f" - mass: '{mass}'")
debug_print(f" - filtrate_vessel: '{filtrate_vessel}'")
debug_print(f" - temp: {temp}°C")
debug_print(f" - stir: {stir}")
debug_print(f" - stir_speed: {stir_speed} RPM")
debug_print(f" - repeats: {repeats}")
debug_print(f" - repeats_spec: '{repeats_spec}'")
debug_print(f" - event: '{event}'")
debug_print("=" * 60)
action_sequence = []
# === 参数验证 ===
debug_print("步骤1: 参数验证...")
# 验证必需参数
if not vessel:
raise ValueError("vessel 参数不能为空")
if not solvent:
raise ValueError("solvent 参数不能为空")
if vessel not in G.nodes():
raise ValueError(f"容器 '{vessel}' 不存在于系统中")
debug_print(f"✅ 必需参数验证通过")
# === 🔧 新增:单位解析处理 ===
debug_print("步骤2: 单位解析处理...")
# 解析体积优先级volume_spec > mass > volume
if volume_spec and volume_spec.strip():
final_volume = parse_volume_spec(volume_spec)
debug_print(f"使用volume_spec: {final_volume}mL")
elif mass and mass.strip():
final_volume = parse_mass_to_volume(mass)
if final_volume > 0:
debug_print(f"使用mass转换: {final_volume}mL")
else:
final_volume = parse_volume_with_units(volume, "mL")
debug_print(f"mass转换失败使用volume: {final_volume}mL")
else:
final_volume = parse_volume_with_units(volume, "mL")
debug_print(f"使用volume: {final_volume}mL")
# 解析时间
final_time = parse_time_with_units(time, "s")
debug_print(f"解析时间: {time}{final_time}s ({final_time/60:.1f}min)")
# 处理重复次数参数repeats_spec优先
final_repeats = parse_repeats_input(repeats, repeats_spec)
debug_print(f"最终重复次数: {final_repeats}")
# 修正参数范围
if temp < 0 or temp > 200:
debug_print(f"温度 {temp}°C 超出范围,修正为 25°C")
temp = 25.0
if stir_speed < 0 or stir_speed > 500:
debug_print(f"搅拌速度 {stir_speed} RPM 超出范围,修正为 200 RPM")
stir_speed = 200.0 if stir else 0.0
if final_time < 0:
debug_print(f"时间 {final_time}s 无效,修正为 0")
final_time = 0.0
if final_repeats < 1:
debug_print(f"重复次数 {final_repeats} 无效,修正为 1")
final_repeats = 1
elif final_repeats > 10:
debug_print(f"重复次数 {final_repeats} 过多,修正为 10")
final_repeats = 10
debug_print(f"✅ 单位解析和参数处理完成")
# === 查找设备(保持原有逻辑)===
debug_print("步骤3: 查找设备...")
try:
# 查找溶剂源
solvent_source = find_solvent_source(G, solvent)
# 查找滤液收集容器
actual_filtrate_vessel = find_filtrate_vessel(G, filtrate_vessel)
# 查找过滤器(用于过滤操作)
filter_device = None
for node in G.nodes():
node_data = G.nodes[node]
node_class = node_data.get('class', '') or ''
if 'filter' in node_class.lower():
filter_device = node
break
if not filter_device:
filter_device = "filter_1" # 默认过滤器
# 查找转移泵(用于转移溶剂)
transfer_pump = None
for node in G.nodes():
node_data = G.nodes[node]
node_class = node_data.get('class', '') or ''
if 'transfer' in node_class.lower() and 'pump' in node_class.lower():
transfer_pump = node
break
if not transfer_pump:
transfer_pump = "transfer_pump_1" # 默认转移泵
# 查找搅拌器(如果需要搅拌)
stirrer_device = None
if stir:
for node in G.nodes():
node_data = G.nodes[node]
node_class = node_data.get('class', '') or ''
if 'stirrer' in node_class.lower():
stirrer_device = node
break
if not stirrer_device:
stirrer_device = "stirrer_1" # 默认搅拌器
debug_print(f"设备配置:")
debug_print(f" - 溶剂源: {solvent_source}")
debug_print(f" - 转移泵: {transfer_pump}")
debug_print(f" - 过滤器: {filter_device}")
debug_print(f" - 搅拌器: {stirrer_device}")
debug_print(f" - 滤液容器: {actual_filtrate_vessel}")
except Exception as e:
debug_print(f"❌ 设备查找失败: {str(e)}")
raise ValueError(f"设备查找失败: {str(e)}")
# === 执行清洗循环(保持原有逻辑,使用解析后的参数)===
debug_print("步骤4: 执行清洗循环...")
for cycle in range(final_repeats):
debug_print(f"=== 第 {cycle+1}/{final_repeats} 次清洗 ===")
# 1. 加入清洗溶剂
debug_print(f" 步骤 {cycle+1}.1: 加入清洗溶剂")
try:
from .pump_protocol import generate_pump_protocol_with_rinsing
transfer_actions = generate_pump_protocol_with_rinsing(
G=G,
from_vessel=solvent_source,
to_vessel=vessel,
volume=final_volume, # 使用解析后的体积
amount="",
time=0.0,
viscous=False,
rinsing_solvent="",
rinsing_volume=0.0,
rinsing_repeats=0,
solid=False,
flowrate=2.5,
transfer_flowrate=0.5,
rate_spec="",
event=event,
through=""
)
if transfer_actions:
action_sequence.extend(transfer_actions)
debug_print(f"✅ 添加了 {len(transfer_actions)} 个转移动作")
else:
debug_print("⚠️ 转移协议返回空序列")
except Exception as e:
debug_print(f"❌ 转移失败: {str(e)}")
# 2. 搅拌混合(如果需要)
if stir and stirrer_device:
debug_print(f" 步骤 {cycle+1}.2: 搅拌混合")
stir_time = max(final_time, 30.0) if final_time > 0 else 60.0 # 使用解析后的时间
stir_action = {
"device_id": stirrer_device,
"action_name": "stir",
"action_kwargs": {
"vessel": vessel,
"time": str(time), # 保持原始字符串格式
"event": event,
"time_spec": "",
"stir_time": stir_time, # 解析后的时间(秒)
"stir_speed": stir_speed,
"settling_time": 30.0
}
}
action_sequence.append(stir_action)
# 3. 过滤分离
debug_print(f" 步骤 {cycle+1}.3: 过滤分离")
filter_action = {
"device_id": filter_device,
"action_name": "filter",
"action_kwargs": {
"vessel": vessel,
"filtrate_vessel": actual_filtrate_vessel,
"stir": False, # 过滤时不搅拌
"stir_speed": 0.0,
"temp": temp,
"continue_heatchill": False,
"volume": final_volume # 使用解析后的体积
}
}
action_sequence.append(filter_action)
# 4. 等待完成
wait_time = 10.0
action_sequence.append({
"action_name": "wait",
"action_kwargs": {"time": wait_time}
})
# === 总结 ===
debug_print("=" * 60)
debug_print(f"固体清洗协议生成完成(支持单位)")
debug_print(f"总动作数: {len(action_sequence)}")
debug_print(f"清洗容器: {vessel}")
debug_print(f"使用溶剂: {solvent}")
debug_print(f"清洗体积: {final_volume}mL")
debug_print(f"清洗时间: {final_time}s ({final_time/60:.1f}min)")
debug_print(f"重复次数: {final_repeats}")
debug_print(f"滤液收集: {actual_filtrate_vessel}")
debug_print(f"事件标识: {event}")
debug_print("=" * 60)
return action_sequence
# 删除不需要的函数,简化代码
def find_wash_solid_device(G: nx.DiGraph) -> str:
"""
🗑️ 已弃用WashSolid不再作为单一设备动作
现在分解为基础动作序列transfer + stir + filter
"""
debug_print("⚠️ find_wash_solid_device 已弃用,使用基础动作序列")
return "OrganicSynthesisStation" # 兼容性返回
# === 便捷函数 ===
def generate_water_wash_protocol(
G: nx.DiGraph,
vessel: str,
volume: float = 50.0,
**kwargs
) -> List[Dict[str, Any]]:
"""水洗协议:用水清洗固体"""
return generate_wash_solid_protocol(
G, vessel, "water", volume, **kwargs
)
def generate_organic_wash_protocol(
G: nx.DiGraph,
vessel: str,
solvent: str,
volume: float = 30.0,
**kwargs
) -> List[Dict[str, Any]]:
"""有机溶剂清洗协议:用有机溶剂清洗固体"""
return generate_wash_solid_protocol(
G, vessel, solvent, volume, **kwargs
)
def generate_thorough_wash_protocol(
G: nx.DiGraph,
vessel: str,
solvent: str,
volume: float = 100.0,
**kwargs
) -> List[Dict[str, Any]]:
"""彻底清洗协议:多次清洗,搅拌,加热"""
return generate_wash_solid_protocol(
G, vessel, solvent, volume,
repeats=4, temp=50.0, stir=True, stir_speed=200.0, time=300.0, **kwargs
)