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Uni-Lab-OS/unilabos/resources/warehouse.py
ZiWei d0884cdbd8 bioyond_HR (#133)
* feat: Enhance Bioyond synchronization and resource management

- Implemented synchronization for all material types (consumables, samples, reagents) from Bioyond, logging detailed information for each type.
- Improved error handling and logging during synchronization processes.
- Added functionality to save Bioyond material IDs in UniLab resources for future updates.
- Enhanced the `sync_to_external` method to handle material movements correctly, including querying and creating materials in Bioyond.
- Updated warehouse configurations to support new storage types and improved layout for better resource management.
- Introduced new resource types such as reactors and tip boxes, with detailed specifications.
- Modified warehouse factory to support column offsets for naming conventions (e.g., A05-D08).
- Improved resource tracking by merging extra attributes instead of overwriting them.
- Added a new method for updating resources in Bioyond, ensuring better synchronization of resource changes.

* feat: 添加TipBox和Reactor的配置到bottles.yaml

* fix: 修复液体投料方法中的volume参数处理逻辑
2025-10-29 12:10:05 +08:00

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from typing import Dict, Optional, List, Union
from pylabrobot.resources import Coordinate
from pylabrobot.resources.carrier import ResourceHolder, create_homogeneous_resources
from unilabos.resources.itemized_carrier import ItemizedCarrier, ResourcePLR
LETTERS = "ABCDEFGHIJKLMNOPQRSTUVWXYZ"
def warehouse_factory(
name: str,
num_items_x: int = 1,
num_items_y: int = 4,
num_items_z: int = 4,
dx: float = 137.0,
dy: float = 96.0,
dz: float = 120.0,
item_dx: float = 10.0,
item_dy: float = 10.0,
item_dz: float = 10.0,
removed_positions: Optional[List[int]] = None,
empty: bool = False,
category: str = "warehouse",
model: Optional[str] = None,
col_offset: int = 0, # 新增列起始偏移量用于生成A05-D08等命名
):
# 创建16个板架位 (4层 x 4位置)
locations = []
for layer in range(num_items_z): # 4层
for row in range(num_items_y): # 4行
for col in range(num_items_x): # 1列 (每层4x1=4个位置)
# 计算位置
x = dx + col * item_dx
y = dy + (num_items_y - row - 1) * item_dy
z = dz + (num_items_z - layer - 1) * item_dz
locations.append(Coordinate(x, y, z))
if removed_positions:
locations = [loc for i, loc in enumerate(locations) if i not in removed_positions]
_sites = create_homogeneous_resources(
klass=ResourceHolder,
locations=locations,
resource_size_x=127.0,
resource_size_y=86.0,
name_prefix=name,
)
len_x, len_y = (num_items_x, num_items_y) if num_items_z == 1 else (num_items_y, num_items_z) if num_items_x == 1 else (num_items_x, num_items_z)
# 应用列偏移量支持A05-D08等命名
# 使用列优先顺序生成keys (与Bioyond坐标系统一致): A01,B01,C01,D01, A02,B02,C02,D02, ...
keys = [f"{LETTERS[j]}{i + 1 + col_offset:02d}" for i in range(len_x) for j in range(len_y)]
sites = {i: site for i, site in zip(keys, _sites.values())}
return WareHouse(
name=name,
size_x=dx + item_dx * num_items_x,
size_y=dy + item_dy * num_items_y,
size_z=dz + item_dz * num_items_z,
num_items_x = num_items_x,
num_items_y = num_items_y,
num_items_z = num_items_z,
# ordered_items=ordered_items,
# ordering=ordering,
sites=sites,
category=category,
model=model,
)
class WareHouse(ItemizedCarrier):
"""堆栈载体类 - 可容纳16个板位的载体4层x4行x1列"""
def __init__(
self,
name: str,
size_x: float,
size_y: float,
size_z: float,
num_items_x: int,
num_items_y: int,
num_items_z: int,
layout: str = "x-y",
sites: Optional[Dict[Union[int, str], Optional[ResourcePLR]]] = None,
category: str = "warehouse",
model: Optional[str] = None,
):
super().__init__(
name=name,
size_x=size_x,
size_y=size_y,
size_z=size_z,
# ordered_items=ordered_items,
# ordering=ordering,
num_items_x=num_items_x,
num_items_y=num_items_y,
num_items_z=num_items_z,
layout=layout,
sites=sites,
category=category,
model=model,
)
def get_site_by_layer_position(self, row: int, col: int, layer: int) -> ResourceHolder:
if not (0 <= layer < 4 and 0 <= row < 4 and 0 <= col < 1):
raise ValueError("无效的位置: layer={}, row={}, col={}".format(layer, row, col))
site_index = layer * 4 + row * 1 + col
return self.sites[site_index]
def add_rack_to_position(self, row: int, col: int, layer: int, rack) -> None:
site = self.get_site_by_layer_position(row, col, layer)
site.assign_child_resource(rack)
def get_rack_at_position(self, row: int, col: int, layer: int):
site = self.get_site_by_layer_position(row, col, layer)
return site.resource