Package: luxconnector
THIS PROJECT IS DEPRECATEDPlease switch to CytoSmartOpenAPIThis is a python wrapper for the Lux Client windows solution.
The package will only work on Windows.InstallationTo install this package follow the these steps:Step 1: DriversMake sure you have or had aCytoSmart 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 installpip install luxconnectorUsageInitializationMake 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:fromluxconnectorimportLuxConnectorconnector=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 numbersEach 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 imageWhen you want a single image taken at this moment use get_image.
This will return the image as apillow image.
You need to give the serial number of the device you want to targetimg=connector.get_image(serial_number)orimg=connector.get_image(serial_numbers[index])Changing the focusThis 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 targetconnector.set_focus(serial_number,0.5)img1=connector.get_image(serial_number)# Image with focus of 0.5connector.set_focus(serial_number,0.7)img2=connector.get_image(serial_number)# Image with focus of 0.7img3=connector.get_image(serial_number)# Image with focus of 0.7Getting the temperatureThis function returns the temperature in celsius of the device.You need to give the serial number of the device you want to targettemperature=connector.get_temperature(serial_number)Change activate camera (fluorescence)To use fluorescence you will need change the active camera.
The camera can be set to 3 different values, RED, GREEN, or BRIGHTFIELD.
This will only work if your device is a fl device otherwise only BRIGHTFIELD is available.connector.set_active_camera(serial_number,"RED")connector.set_active_camera(serial_number,"GREEN")connector.set_active_camera(serial_number,"BRIGHTFIELD")Change camera settingEach camera has its own settings.
Not all settings are available for BRIGHTFIELD.exposure: The time in milliseconds the camera is detecting light.gain: The multiplication of the camera. (Fluo only)
If very little light goes into the camera sensor make sure the gain is high.brightness: Strength of the led when it is on (Fluo only)focus_offset: the difference in focus between brightfield and fluo.
If focus is set to 0.4 and focus_offset for RED is set to 0.1 RED focus is 0.5 (Fluo only)connector.set_camera_settings(serial_number,"RED",500,gain=30,brightness=5000)connector.set_camera_settings(serial_number,"BRIGHTFIELD",10)Getting a z-stackThis function will return a list ofpillow 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 targetlist_of_imgs=connector.get_z_stack(serial_number,num_img=6,start_focus=0.5,stop_focus=1)Changing zoom modesThere 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 targetconnector.set_zoom(serial_number,"IN")img1=connector.get_image(serial_number)# Image is zoomed inconnector.set_zoom(serial_number,"OUT")img2=connector.get_image(serial_number)# Image is zoomed outLive viewThe live view of the Lux is hosted athttp://localhost:3333/cytosmartservice/live?serialNumber=##########.
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 at the place of the #-symbols.connector.set_liveview(serial_number,True)# in the browser you can see the image being updatedconnector.set_liveview(serial_number,False)# Led of Lux turns off till you take a pictureDevelopersDevelopers of the luxconnector please look at thedevelopers readmeCreditsTom NijhofKyapNoraHistory1.1.1 (2022-06-29)Update documentation1.1.0 (2021-12-03)Add change camera settingsAdd set activate camera (brightfield, red-fluo, or green-fluo)Change focus:
make sure focus always happens in brightfield camera mode
Add sleep after changing to focus so camera can move to new positionUpdate to new Cytosmart app1.0.4 (2021-04-15)Update PillowFix installation requirements1.0.3 (2021-11-22)Update requirements of websocket and websocket-client to include version 1Check if app is open before starting a new one1.0.2 (2021-04-15)Update pillowUpdate license to ACADEMIC PUBLIC LICENSE1.0.1 (2021-01-14)Added support for LUX3 FLBugfix: toggle liveview when change zoom level1.0.0 (2020-09-15)Added multi lux supportChanged output from numpy array to pillowRequire serial number with function to get informationAdd get_temperature0.1.2 (2020-06-30)Rename failing to pinging in print statement0.1.1 (2020-06-11)Update documentationMake setup.py fit for PyPI0.1.0 (2020-05-20)Update lux server to latest version0.0.3 (2020-03-30)bugfix: files were not copied into package on linux0.0.2 (2020-03-24)Bugfix: stop waiting for response after sending a message0.0.1 (2020-03-16)Add function: Copy the luxconnectorAdd function: focus change optionAdd function: z-stackBugfix: add lux app to manifest0.0.0 (2020-03-13)Copied basic package a start of luxconnectorACADEMIC PUBLIC LICENSE
                            version 1.1

                       Copyright (C) 2021


                            PreambleThis 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 Authorinfo@cytosmart.comto 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
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modified software. Also similarly to the GPL, if you distribute verbatim or
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license.By modeling the GPL, this license guarantees that you're safe when using
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Even in the unlikely case of the authors abandoning LuxConnector entirely, this
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POSSIBILITY OF SUCH DAMAGES.END OF TERMS AND CONDITIONSInitially written by Andras Varga (public domain) for OMNeT++https://omnetpp.org/intro/license,
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