[BioRuby] GSOC: Unit testing in BioRuby

[Diana Jaunzeikare]

Thanks  a lot Michael! It worked.

Diana

On Sat, May 23, 2009 at 7:00 PM, Michael Barton <mail at michaelbarton.me.uk>wrote:

> Hi Diana.
>
> You could try adding a module along these lines to your test file,
> inside the TestPhyloXML module.
>
>   module TestPyloXMLData
>
>     bioruby_root  = Pathname.new(File.join(File.dirname(__FILE__),
> ['..'] * 5)).cleanpath.to_s
>     TEST_DATA = Pathname.new(File.join(bioruby_root, 'test', 'data',
> 'pyloxml')).cleanpath.to_s
>
>     def self.example_xml
>       File.join TEST_DATA, 'phyloxml_examples.xml'
>     end
>
>   end
>
> You can then use
>
> TestPhyloXMLData.example_xml
>
> To return the path to the example test data file.
>
>
>
> The code you described in your email adds the bioruby root to the
> library path so you can do
>
> require 'bio/db/phyloxml'
>
> at the top of your test file.
>
> Is this any help?
>
> Cheers
>
> Mike
>
>
> 2009/5/23 Diana Jaunzeikare <rozziite at gmail.com>
> >
> > Hi,
> >
> > How does unit testing in BioRuby works?
> >
> > I created new file /lib/bio/db/phyloxml.rb and
> > test/unit/bio/db/test_phyloxml.rb  I also put some sample xml files in
> > /test/unit/data/phyloxml/ directory.
> >
> > How can I access the data set in data directory from the test_phyloxml.rb
> > file?
> >
> > Can I give path relative path to the data file? for example
> > "../../../data/phyloxml/phyloxml_examples.xml"
> >
> > I saw other test files have this code:
> >
> > "require 'pathname'
> > libpath = Pathname.new(File.join(File.dirname(__FILE__), ['..'] * 3,
> > 'lib')).cleanpath.to_s
> > $:.unshift(libpath) unless $:.include?(libpath)
> > "
> > Is this code for that purpose?  I am not really sure what this piece of
> code
> > means.
> >
> > Thanks,
> >
> > Diana
> > _______________________________________________
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> > BioRuby at lists.open-bio.org
> > http://lists.open-bio.org/mailman/listinfo/bioruby
>
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