[BioRuby] GSOC: Unit testing in BioRuby
Michael Barton
mail at michaelbarton.me.uk
Sat May 23 23:00:26 UTC 2009
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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