luxconnector 1.0.2b0

This is a python wrapper around the Lux Client windows solution

luxconnector

This is a python wrapper for the Lux Client windows solution. The package will only work on Windows.

Installation

To install this package follow the these steps:

Step 1: Drivers

Make sure you have or had a CytoSmart application installed. Recommend is the cell counter given it do not restart itself after closing. This is needed to have all the correct drivers installed. It doesn't matter if the app is uninstalled afterwards.

Step 2: pip install

pip install luxconnector

Usage

Initialization

Make sure at least one lux is physically connected to your computer via a USB3 port. The luxconnector is an object that maintains the connection with the Lux. To create the object use the following code:

from luxconnector import LuxConnector
connector = LuxConnector(number_of_devices=2)

NOTE: Make sure number_of_devices is at least the number of devices you have connected. If not the luxconnector will look for the missing devices forever.

Getting serial numbers

Each physical device has a serial number. This number is needed to send commands to a specific device.

serial_numbers = connector.get_all_serial_numbers()

Getting a single image

When you want a single image taken at this moment use get_image. This will return the image as a pillow image. You need to give the serial number of the device you want to target

img = connector.get_image(serial_number)

Changing the focus

This function will change the focus for the luxconnector object. Every image taken after this function will have the new focus.

The focus is in the range 0 until 1. (0.0 and 1.0 are valid entries)

You need to give the serial number of the device you want to target

connector.set_focus(serial_number, 0.5)
img1 = connector.get_image(serial_number) # Image with focus of 0.5
connector.set_focus(serial_number, 0.7)
img2 = connector.get_image(serial_number) # Image with focus of 0.7
img3 = connector.get_image(serial_number) # Image with focus of 0.7

Getting the temperature

This function returns the temperature in celsius of the device.

You need to give the serial number of the device you want to target

temperature = connector.get_temperature(serial_number)

Getting a z-stack

This function will return a list of pillow images. Each image will be at a different focus level.

This code will create a z-stack of 6 images. The focuses of these images will be [0.5, 0.6, 0.7, 0.8, 0.9, 1.0]

You need to give the serial number of the device you want to target

list_of_imgs = connector.get_z_stack(serial_number, num_img = 6, start_focus = 0.5, stop_focus = 1)

Changing zoom modes

There are 2 zoom modes: "IN" and "OUT". While zoomed in the resolution is higher but the ROI is smaller, zoomed out has a higher ROI but a lower resolution.

Changing this will change it for every image or z-stack taken afterwards.

You need to give the serial number of the device you want to target

connector.set_zoom(serial_number, "IN")
img1 = connector.get_image(serial_number) # Image is zoomed in
connector.set_zoom(serial_number, "OUT")
img2 = connector.get_image(serial_number) # Image is zoomed out

Live view

The live view of the Lux is hosted at http://localhost:3333/luxservice/live. This image can only been seen if the live view is turned on (by default the live view is turned on).

You need to give the serial number of the device you want to target

connector.set_liveview(serial_number, True) # in the browser you can see the image being updated
connector.set_liveview(serial_number, False) # Led of Lux turns off till you take a picture

Developers

Developers of the luxconnector please look at the developers readme

Credits

• Tom Nijhof
• Kyap
• Nora

History

1.0.2 (2021-04-15)

• Update pillow
• Update license to ACADEMIC PUBLIC LICENSE

1.0.1 (2021-01-14)

• Added support for LUX3 FL
• Bugfix: toggle liveview when change zoom level

1.0.0 (2020-09-15)

• Added multi lux support
• Changed output from numpy array to pillow
• Require serial number with function to get information
• Add get_temperature

0.1.2 (2020-06-30)

• Rename failing to pinging in print statement

0.1.1 (2020-06-11)

• Update documentation
• Make setup.py fit for PyPI

0.1.0 (2020-05-20)

• Update lux server to latest version

0.0.3 (2020-03-30)

• bugfix: files were not copied into package on linux

0.0.2 (2020-03-24)

• Bugfix: stop waiting for response after sending a message

0.0.1 (2020-03-16)

• Add function: Copy the luxconnector
• Add function: focus change option
• Add function: z-stack
• Bugfix: add lux app to manifest

0.0.0 (2020-03-13)

Copied basic package a start of luxconnector

                     ACADEMIC PUBLIC LICENSE
                            version 1.1

                       Copyright (C) 2021


                            Preamble

This license contains the terms and conditions of using LuxConnector in noncommercial settings: at academic institutions for teaching and research use and for personal or educational purposes. You will find that this license provides noncommercial users of LuxConnector with rights that are similar to the well-known GNU General Public License, yet it retains the possibility for LuxConnector authors to financially support the development by selling commercial licenses. In fact, if you intend to use LuxConnector in a "for-profit" environment, where research is conducted to develop or enhance a product, is used in a commercial service offering, or when an entity uses LuxConnector to participate in government-funded, EU-funded, military or similar research projects, then you need to obtain a commercial license. In that case, or if you are unsure, please contact the Author [e-mail] to inquire about commercial licenses.

What are the rights given to noncommercial users? Similarly to GPL, you have the right to use the software, to distribute copies, to receive source code, to change the software and distribute your modifications or the modified software. Also similarly to the GPL, if you distribute verbatim or modified copies of this software, they must be distributed under this license.

By modeling the GPL, this license guarantees that you're safe when using LuxConnector in your work, for teaching or research. This license guarantees that LuxConnector will remain available free of charge for nonprofit use. You can modify LuxConnector to your purposes, and you can also share your modifications. Even in the unlikely case of the authors abandoning LuxConnector entirely, this license permits anyone to continue developing it from the last release, and to create further releases under this license.

We believe that the combination of noncommercial open-source and commercial licensing will be beneficial for the whole user community, because income from commercial licenses will enable faster development and a higher level of software quality, while further enjoying the informal, open communication and collaboration channels of open source development.

The precise terms and conditions for using, copying, distribution and modification follow.

                     ACADEMIC PUBLIC LICENSE

TERMS AND CONDITIONS FOR USE, COPYING, DISTRIBUTION AND MODIFICATION

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"Program" means a copy of LuxConnector, which is said to be distributed under this Academic Public License.

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Initially written by Andras Varga (public domain) for OMNeT++ https://omnetpp.org/intro/license, adapted by CytoSMART TECHNOLOGIES BV. The adaptation is licensed under CC0 1.0 (Public Domain Dedication).