You will notice that most data capture scripts start with this line: load("script://dc/common.js") The folder '' contains all the scripted modules that are currently known to Phaedra. To view or edit a data capture script as an administrator, click Administrator > File Server Browser. Likely that at some point, you will have to customize or write your own data capture script.ĭata capture scripts are stored on the file server, and can only be uploaded or modified by an administrator. Phaedra offers a number of generic data capture scripts out of the box, but in a real life scenario it is very Is very much dependent on the user's infrastructure and data file formats. The primary reason for this is the fact that data capture Phaedra's data capture component is heavily scripted. To obtain a particular service, use the get function, for example: plateService = API.get("PlateService")Īll services that are exposed by the API, are documented in the Javadoc pages. To view the list of services available in the API, type: API.list() This object is a registry of services that grant you access to data in Phaedra, and methods to manipulate that data. Object-oriented scripting languages (JavaScript, Python) by default expose an object named API. Note: most of the examples below are written in JavaScript. In the Console's toolbar, click on the blue screen icon and select the language you want to script in. To test a script snippet, you can use the Console view. Including concepts such as function calls, variables, etc. The rest of this document assumes you are familiar with scripting in general, JEP is a formula-based language, and is used only for (2): Feature calculation.Īn addon is available that allows you to script in Python as well, see the Python Addon. While JavaScript and R are well-known programming languages that can be used for all three of the above cases, Out of the box, Phaedra supports the following scripting languages: Scripts are written by users or administrators, and can be triggered in various ways in Phaedra.
CELLPROFILER CUSTOM SCRIPT SOFTWARE
Therefore Carl Zeiss Microscopy GmbH undertakes no warranty concerning those software packages, makes no representation that they will work on your system and/or hardware and will not be liable for any damages caused by the use of this extension.īy using any of those examples you agree to this disclaimer.Ĭopyright (c) 2022 Carl Zeiss AG, Germany. Use them on your own risk.Īdditionally Carl Zeiss Microscopy GmbH's ZEN software allows connection and usage to the third party software packages.
CELLPROFILER CUSTOM SCRIPT FREE
This is an collection of tools and scripts that is free to use for everybody.Ĭarl Zeiss Microscopy GmbH's ZEN software undertakes no warranty concerning the use of those scripts, image analysis settings and ZEN experiments. Open Source Cross-Platform API to read CZI:
libCZI (C++) for cross-platform applications.ZeissImgLib (.NET) to be used on Windows-based systems.Open Application Development (OAD) uses powerful Python Scripts to simplify, customize and automate your workflows.Īnalyze and Exchange data with applications like Fiji, Python, Knime, CellProfiler, Icy, MATLAB, Excel and …ĪPI for reading CZI image data using custom software Experiment Feedback - Adaptive Acquistion with Online Image Analysis.Interfaces to ZEN (TCP-IP, COM, Extensions).In order to fulfill the request for automation the ZEN Blue platform offers various features and options, which are combined inside a concept called Open Application Development (OAD). Additionally it offers various tools to automate microscopy workflows including acquisition, image analysis and image processing tasks.
ZEN Blue is an open, flexible and powerful image acquisition platform that allows controlling a wide range of microscopes systems.
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