Re: htsjdk

[Olivier Sallou <olivier.sallou@irisa.fr>]

On 01/05/2016 11:42 AM, Olivier Sallou wrote:
>
> On 01/05/2016 11:29 AM, Andreas Tille wrote:
>> Hi Olivier,
>>
>> On Tue, Jan 05, 2016 at 11:12:13AM +0100, Olivier Sallou wrote:
>>> I updated (locally) ngs-sdk to create Java bindings and get it created.
>>>
>>> I tried to use it with htsjdk for validation, but most of tests fail
>>> (though maybe not related to the Java lib itself).
>>> It ran 22704 tests, but 229 tests fail. It gonna be hard to debug....
>> In some packages (recently python-cogent) I decided to exclude parts of
>> the test suite.  This at least documents what tests are failing and puts
>> this on a todo list for later inspection.  My guess is that if we do not
>> provide the Debian packages people will install the software manually
>> without running the tests and might have the very same problems as in
>> the package without noticing.  Creating a bug report in addition with
>> something like "Please fix problems if full test suite is activated"
>> would raise the awareness of the issues which otherwise simply stay
>> hidden.
>>
>> What do you think?
> well, without understanding test failure it is an issue as package may
> not be functional....
though my workaround may not be clean (setting LC_ALL for locale), all
tests passed with this.
I will try to update ngs-sdk will Java binding, then upload htsjdk is
everything is fine
>> Kind regards
>>
>>       Andreas.
>>

-- 
Olivier Sallou
IRISA / University of Rennes 1
Campus de Beaulieu, 35000 RENNES - FRANCE
Tel: 02.99.84.71.95

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