Difference between revisions of "Learnathon 2018"

(Jupyter Notebooks)
(ImageJ Legacy)
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===ImageJ Legacy===
 
===ImageJ Legacy===
* [https://github.com/maarzt/imagej-legacy-course ImageJ Legacy Exercises]
+
The ImageJ Legacy Course covered the topics: images, tables, regions of interest and command execution.
 +
* [https://github.com/maarzt/imagej-legacy-course ImageJ Legacy Exercises (Slides Included)]
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* Last years [https://github.com/maarzt/imagej-legacy-course/blob/master/slides/ij_legacy_cheetsheet.pdf cheatsheet]
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* Last years course [https://github.com/mpicbg-scicomp/ij2course-images/blob/master/slides/ij_legacy.pdf Slides] [https://github.com/mpicbg-scicomp/ij2course-images Old Exercise 1] [https://github.com/mpicbg-scicomp/ij2course-regions Old Exercise 2] [https://github.com/mpicbg-scicomp/ij2course-tables Old Exercise 3]
  
 
===Jupyter Notebooks===
 
===Jupyter Notebooks===

Revision as of 10:02, 5 June 2018

The second DAIS Learnathon took place from June 3 until June 9 2018.

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

Slides online:

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

  • ImageJ Tutorials
  • Installation:
    • Anaconda (we suggest miniconda) should be installed on your system.
    • Clone to a place of your choice: git clone https://github.com/imagej/tutorials
    • go into the tutorials folder you just cloned
    • create a conda environment: conda env create
    • activate the new environment: source activate scijava
    • start jupyter notebook: jupyter notebook
  • Useful link to beakerx