[Bioperl-l] Bioperl-ext test fails

Chris Fields cjfields at uiuc.edu
Tue Nov 27 16:09:43 EST 2007


You can always test it within the bioperl suite after it's installed;  
several tests (abi.t, ztr.t) use Bio:SeqIO::staden::read.  In general  
though if it's passing tests it should be fine.

chris

On Nov 27, 2007, at 9:41 AM, Sendu Bala wrote:

> a_arya2000 wrote:
>> Hello,
>> I downloaded latest bioperl-ext from bioperl website,
>> and I have io_lib v1.8.11 installed, and I was trying
>> to install Bio::SeqIO::staden::read (of bioperl-ext).
>> It compiled fine without any error but when I run make
>> test I got following output.
> [...]
>> All tests successful.
>> Files=1, Tests=94,  2 wallclock secs ( 1.56 cusr +
>> 0.15 csys =  1.71 CPU)
>>
>>
>> Anyone has any idea what might be going wrong here? By
>> the way, my OS is Linux. Thank you very much.
>
> Not being familiar with the test script or ext, I can at least say  
> that
> nothing actually went wrong: 'All tests successful'. Apparently there
> are some things in the test script that are known by the author to not
> work quite right, so he marked them as 'todo'. The problems seem
> harmless in any case, with things returning 0 instead of undef.
>
> So, unless you've reason to believe there is something significant  
> going
> on, all is well.


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