[Bioperl-l] problem installing Bioperl

[Jason Stajich]

Dave - helps to have output from perl -v to see if we can diagnose it
better.

However, I'm sure you can ignore it unless you're using Bio::Variation in
your code.

The bug was in the test system not the module, the bug has been fixed on
trunk and branch and will be in the bugfix release whenever that gets
pushed out.


-jason
On Fri, 21 Mar 2003, Dave Howorth wrote:

> Hello,
>
> I'm having a problem installing the BioPerl stable release
> (bioperl-1.2.tar.gz).
>
> When I run make test, one of the tests fails:
>
> t/Variation_IO...............dubious
>
> 	Test returned status 0 (wstat 11, 0xb)
> DIED. FAILED tests 13-25
> 	Failed 13/25 tests, 48.00% okay
>
>
> I then ran the test in the perl debugger and obtained the following:
>
> perl -d -Iblib/lib t/Variation_IO.t
> ...
>    DB<1> c
> ok 1
> ok 2
> ok 3
> ok 4
> ok 5
> ok 6
> ok 7
> ok 8
> ok 9
> ok 10
> ok 11
> ok 12
> Signal SEGV at t/Variation_IO.t line 90
> 	main::io('t/data/mutations.xml', 't/data/mutations.out.xml') called at
> t/Variation_IO.t line 137
> 	eval {...} called at t/Variation_IO.t line 136
> Aborted
>
>
> I checked the bug database with Variation_IO as the search term but got
> no hits. So I'd appreciate any pointers anybody can give.
>
> Thanks, Dave
>
>

--
Jason Stajich
Duke University
jason at cgt.mc.duke.edu