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Pypetting

Code style: black PyPI version Test Coverage Status

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