view snpSift_macros.xml @ 5:675fa55f5c02

Ecaspe reserved chars for xml in snpSift_filter.xml test

<macros>
    <xml name="requirements">
        <requirements>
            <requirement type="package" version="4.1">snpEff</requirement>
        </requirements>
    </xml>
  <xml name="stdio">
    <stdio>
        <exit_code range=":-1"  level="fatal" description="Error: Cannot open file" />
        <exit_code range="1:"  level="fatal" description="Error" />
    </stdio>
  </xml>
  <xml name="version_command">
    <version_command>java -jar $SNPEFF_JAR_PATH/SnpEff.jar -version</version_command>
  </xml>
  <token name="@WRAPPER_VERSION@">4.1</token>
  <token name="@EXTERNAL_DOCUMENTATION@">

For details about this tool, please go to:
	http://snpeff.sourceforge.net/SnpEff_manual.html

  </token>
  <token name="@CITATION_SECTION@">------

**Citation**

For the underlying tool, please cite the following two publications:

SnpSift citation:
"Using Drosophila melanogaster as a model for genotoxic chemical mutational studies with a new program, SnpSift", Cingolani, P., et. al., Frontiers in Genetics, 3:35, 2012.

  </token>
  <xml name="citations">
      <citations>
        <citation type="doi">10.3389/fgene.2012.00035</citation>
        <yield />
      </citations>
  </xml>
</macros>