/var/lib/mobyle/programs/nw_cat.xml is in mobyle-programs 5.1.2-1.
This file is owned by root:root, with mode 0o644.
The actual contents of the file can be viewed below.
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<!-- XML Authors: Herve Menager -->
<!-- 'Biological Software and Databases' Group, Institut Pasteur, Paris. -->
<!-- Distributed under LGPLv2 Licence. Please refer to the COPYING.LIB document. -->
<program>
<head>
<name>nw_cat</name>
<version>GNU 7.4</version>
<doc>
<title>nw_cat</title>
<description>
<text lang="en">concatenate phylogenetic tree files</text>
</description>
</doc>
<category>phylogeny:others</category>
<command>cat</command>
</head>
<parameters>
<parameter ismandatory="1" issimple="1">
<name>input</name>
<prompt lang="en">First treeset</prompt>
<comment>enter a phylogenetic tree</comment>
<type>
<datatype>
<class>Tree</class>
</datatype>
<dataFormat>NEWICK</dataFormat>
</type>
<format>
<code proglang="perl">" $value"</code>
<code proglang="python">" " + str(value)</code>
</format>
<argpos>1</argpos>
</parameter>
<parameter issimple="1">
<name>input_2</name>
<prompt lang="en">Second treeset</prompt>
<comment>type any kind of text</comment>
<example>example text</example>
<type>
<datatype>
<class>Tree</class>
</datatype>
<dataFormat>NEWICK</dataFormat>
</type>
<format>
<code proglang="perl">(defined $value) ? " $value" : ""</code>
<code proglang="python">("" , " " + str(value))[value is not None]</code>
</format>
<argpos>2</argpos>
</parameter>
<parameter isstdout="1">
<name>output</name>
<prompt lang="en">Output treeset</prompt>
<type>
<datatype>
<class>Tree</class>
</datatype>
<dataFormat>NEWICK</dataFormat>
</type>
<argpos>1</argpos>
<filenames>
<code proglang="perl">"nw_cat.out"</code>
<code proglang="python">"nw_cat.out"</code>
</filenames>
</parameter>
</parameters>
</program>
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