[ensembl-dev] VEP installation fails Bio::DB::IndexedBase Runner and Stats tests

Sarah Hunt seh at ebi.ac.uk
Mon May 15 10:41:28 BST 2017


Hi Michael,

The tests appear to be failing because CGI.pm is not available. This 
will only be a problem if you require the HTML output.

Best wishes,

Sarah

On 12/05/2017 23:11, Michael Yourshaw wrote:
> I'm trying to install the latest VEP on a Red Hat 7.3 linux box with 
> perl 5.24.0. I fail two tests (Runner and Stats). Can I safely ignore 
> these with --NO_TEST?
>
> ./t/Runner.t ......................................... Possible 
> precedence issue with control flow operator at 
> /home/yoursham/hdd/resources/vep/Bio/DB/IndexedBase.pm line 791.
> ./t/Runner.t ......................................... 1/?
> #   Failed test 'dump_stats - html exists'
> #   at ./t/Runner.t line 340.
> ./t/Runner.t ......................................... 66/? # Looks 
> like you failed 1 test of 79.
> ./t/Runner.t ......................................... Dubious, test 
> returned 1 (wstat 256, 0x100)
> Failed 1/79 subtests
>     (less 6 skipped subtests: 72 okay)
> ./t/Stats.t .......................................... Possible 
> precedence issue with control flow operator at 
> /home/yoursham/hdd/resources/vep/Bio/DB/IndexedBase.pm line 791.
> ./t/Stats.t .......................................... 8/? Can't 
> locate object method "new" via package "CGI" at 
> /home/yoursham/apps/ensembl-vep/modules/Bio/EnsEMBL/VEP/Stats.pm line 
> 522, <__ANONIO__> line 1.
> # Tests were run but no plan was declared and done_testing() was not seen.
> # Looks like your test exited with 2 just after 26.
> ./t/Stats.t .......................................... Dubious, test 
> returned 2 (wstat 512, 0x200)
>
>> Michael Yourshaw
> myourshaw at gmail.com <mailto:myourshaw at ucla.edu>
>
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