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Learnathon 2018

The second DAIS Learnathon took place from June 3 until June 9 2018.
This page is the Learnathon Wiki page of last year’s event!

Schedule

See this page!

Setting up your system

Check if you have this set up:

  • Eclipse (Neon)
  • bash / zsh
  • GIT
  • Maven
  • Gitter

Monday

Intro session…

See slides!

Start a Maven project with Eclipse

See slides

Git repos to clone:

  • git@github.com:imagej/example-imagej-command.git

Notes: In case you want to switch to the legacy UI (ImageJ 1), you change the dependencies section in your POM to…

<dependencies>
    <dependency>
        <groupId>net.imagej</groupId>
        <artifactId>imagej</artifactId>
    </dependency>
    <dependency>
        <groupId>net.imagej</groupId>
        <artifactId>imagej-legacy</artifactId>
    </dependency>
</dependencies>

Introduction to ImgLib2

Git repos to clone:

(Slides are contained in the repository.)

Tuesday

ImageJ2 and SciJava

ImageJ2 Ops

ImageJ Legacy

The ImageJ Legacy Course covered the topics: images, tables, regions of interest and command execution.

Jupyter Notebooks

Git

  • See the Git page!

Wednesday

KNIME Usage

  • Download and install the KNIME Analytics Platform from here

KNIME Development Introduction

  • Make sure you have Eclipse Oxygen installed
  • Clone https://github.com/knime-ip/knip-sdk-setup
  • Clone https://github.com/knime-ip/knip-course

Developing ImageJ Ops

  • Clone https://github.com/imagej/tutorials (but you already have it, right?)
  • Import maven-projects/create-a-new-op in Eclipse.
  • See also the Adding new ops guide
  • See also the “Extending ImageJ: Ops” notebook linked from here

ImageJ Server

Thursday

ClearVolume and BDV VisTools

scenery & SciView

KNIME ImageJ2 Integration

Friday

Imglib2 Algorithm

Imglib2 Advanced