jvarkit

BatchIGVPictures

Usage

Usage: batchigvpictures [options] Files
  Options:
    -h, --help
      print help and exits
    --version
      print version and exits

Description

Compilation

Requirements / Dependencies

Download and Compile

$ git clone "https://github.com/lindenb/jvarkit.git"
$ cd jvarkit
$ make batchigvpictures

The *.jar libraries are not included in the main jar file, so you shouldn’t move them (https://github.com/lindenb/jvarkit/issues/15#issuecomment-140099011 ). The required libraries will be downloaded and installed in the dist directory.

edit ‘local.mk’ (optional)

The a file local.mk can be created edited to override/add some definitions.

For example it can be used to set the HTTP proxy:

http.proxy.host=your.host.com
http.proxy.port=124567

Source code

https://github.com/lindenb/jvarkit/tree/master/src/main/java/com/github/lindenb/jvarkit/tools/batchpicts/BatchIGVPictures.java

Contribute

License

The project is licensed under the MIT license.

Citing

Should you cite batchigvpictures ? https://github.com/mr-c/shouldacite/blob/master/should-I-cite-this-software.md

The current reference is:

http://dx.doi.org/10.6084/m9.figshare.1425030

Lindenbaum, Pierre (2015): JVarkit: java-based utilities for Bioinformatics. figshare. http://dx.doi.org/10.6084/m9.figshare.1425030

##Motivation

Takes IGV pictures in batch. Save as HTML+png images or OpenOffice/ODP.

This application is available as a [[JavaWebStart]] application.

##Screenshot

screenshot