[Bioperl-l] install cpan on mac os x

[Adam Witney]

looks like its failing to install  PMQS/IO-Compress-2.027.tar.gz. Try installing it on its own

cpan> install PMQS/IO-Compress-2.027.tar.gz



On 14 Jul 2010, at 14:29, José Ramón Blas Pastor wrote:

> I follow instructions at http://www.bioperl.org/wiki/Installing_Bioperl_for_Unix
> 
> When I do:
> >perl -MCPAN -e shell
> cpan> install Bundle::CPAN
> 
> ...answer Yes to all... and the last lines of my installation are:
> 
> t/cz-06gzsetp.t               (Wstat: 65280 Tests: 0 Failed: 0)
>   Non-zero exit status: 255
>   Parse errors: No plan found in TAP output
> t/cz-08encoding.t             (Wstat: 65280 Tests: 1 Failed: 1)
>   Failed test:  1
>   Non-zero exit status: 255
>   Parse errors: Bad plan.  You planned 29 tests but ran 1.
> t/cz-14gzopen.t               (Wstat: 65280 Tests: 2 Failed: 1)
>   Failed test:  1
>   Non-zero exit status: 255
>   Parse errors: Bad plan.  You planned 255 tests but ran 2.
> Files=85, Tests=9260,  9 wallclock secs ( 1.09 usr  0.22 sys +  7.19 cusr  0.92 csys =  9.42 CPU)
> Result: FAIL
> Failed 67/85 test programs. 34/9260 subtests failed.
> make: *** [test_dynamic] Error 255
>   PMQS/IO-Compress-2.027.tar.gz
>   /usr/bin/make test -- NOT OK
> //hint// to see the cpan-testers results for installing this module, try:
>   reports PMQS/IO-Compress-2.027.tar.gz
> Running make install
>   make test had returned bad status, won't install without force
> Failed during this command:
>  ADAMK/File-HomeDir-0.91.tar.gz               : make_test NO
>  PMQS/IO-Compress-2.027.tar.gz                : make_test NO
> 
> ...any hint on where my failure comes from is appreciated.
> 
> More info:
> Mac OS X 10.4
> Xcode developer tools installed
> 
> Thanks,
> 
> JR
> 
> El 14 de julio de 2010 14:09, Adam Witney <awitney at sgul.ac.uk> escribió:
> 
> I have always found the CPAN route the best way of installing BioPerl on OSX.
> 
> If you are having problems doing this then try posting any errors and someone may be able to help
> 
> adam
> 
> 
> On 14 Jul 2010, at 11:35, José Ramón Blas Pastor wrote:
> 
> > Hi,
> > I have found several problems when installing CPAN in Mac OS X (version
> > 10.6.4) previous to install Bioperl.
> >
> > What's the best choice for installing Bioperl on Mac OS X? I had it
> > installed by using fink, but several modules are not found, I prefer a Unix
> > installation. Is there any trick that I have to bear in mind?
> >
> > Thanks,
> >
> > JR
> > _______________________________________________
> > Bioperl-l mailing list
> > Bioperl-l at lists.open-bio.org
> > http://lists.open-bio.org/mailman/listinfo/bioperl-l
> 
>