cx-chadoxml2chaos.pl
cx-chadoxml2chaos.pl sample/CG10833.chado-xml cx-chadoxml2chaos.pl -x sample/CG10833.no-macros.chado-xml
Converts Chado-XML to Chaos-XML
Note that there are different "flavours" of Chado-XML. This includes both macro-ified and un-macroified flavours. This script will handle both
As a first step, this script will expand all macros in the the input file to their full expanded form. This step has no effect if the macros are already expanded.
As a second step, the expanded chado-xml is converted to chaos-xml
Both steps happen via the use of XSL Stylesheet Transforms
The input chado xml file has no macros; do not call macro-expansion step
You do not need to use this option, but performance may be faster if you omit the expansion step if it is not required
You need an XSLT Processor, such as xsltproc, available as part of libxslt
1 POD Error
The following errors were encountered while parsing the POD:
Unknown directive: =Head1
To install Bio::Chaos, copy and paste the appropriate command in to your terminal.
cpanm
cpanm Bio::Chaos
CPAN shell
perl -MCPAN -e shell install Bio::Chaos
For more information on module installation, please visit the detailed CPAN module installation guide.