pypetting 0.7.1

Generate worklists for Tecan EVOware pipetting software

Pypetting

Pypetting provides a simple set of wrappers to write complex worklists for the Tecan EVOware pipetting software. Unfortunately it does not entirely avoid interacting with the original software, but it reduces the necessary interactions with it to a minimum.

Installation

Install using pip with pip install pypetting.

Pypetting has only been tested with Python 3.10.0.

Examples

Define a position on the grid

from pypetting import GridSite

site = GridSite(grid=36, site=1, carrier="MP 3Pos")

Define labwares

from pypetting import Labware

greiner96 = Labware(name="96 Well Griner", rows=8, columns=12, spacing=1)
trough100 = Labware("Trough 100+25ml", 8, 12)

Pipetting from one column to the next

from pypetting import GridSite, Labware, aspirate, dispense, write_gwl

pipetting_site = GridSite(36, 1, "MP 3Pos")
labware = Labware("96 Well Greiner", 8, 12, spacing=1)

ALL = 8 * [True]

worklist = [
    aspirate(pipetting_site, 1, ALL, 50, "LB CD ZMAX", labware=labware),
    dispense(pipetting_site, 2, ALL, 50, "LB CD ZMAX", labware=labware),
]

write_gwl("worklist.gwl", worklist)

Place plate in the incubator

from pypetting import GridSite, Labware, transfer_labware, return_plate, write_gwl

src = GridSite(36, 0, "MP 3Pos")
dest = GridSite(68, 0, "StoreX 22Pos")
labware = Labware("96 Well Greiner", 8, 12, spacing=1)

worklist = [
    transfer_labware(src, dest, labware),
    return_plate(1, 1),
]

write_gwl("worklist.gwl", worklist)

How to avoid EVOware

The authors of Pypetting have strong opinions about the design of EVOware. To implement more complex workflows, modern techniques for modularization and abstraction of logic are required. ANY general purpose programming language provides these tools. Thus outsourcing as much logic as possible is desirable.

We suggest the following workflow for any form of iterative task:

• Call an application to generate the workflow, store the return value of the application in a variable e.g. called return_value
• Execute workflows
• Jump to the application when return_value is non-zero

License

MIT License

Copyright (c) 2021 Nicolas Ochsner

Permission is hereby granted, free of charge, to any person obtaining a copy of this software and associated documentation files (the "Software"), to deal in the Software without restriction, including without limitation the rights to use, copy, modify, merge, publish, distribute, sublicense, and/or sell copies of the Software, and to permit persons to whom the Software is furnished to do so, subject to the following conditions:

The above copyright notice and this permission notice shall be included in all copies or substantial portions of the Software.

THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE SOFTWARE.