[ensembl-dev] prerequisites for Bio-DB-HTS

[Mahmood Naderan]

The error is

[mahmood at cluster Bio-DB-HTS]$ perl Build.PL
Can't locate Module/Build.pm in @INC (@INC contains:
/export/home/mahmood/src/bioperl-1.6.1
/export/home/mahmood/src/ensembl/modules
/export/home/mahmood/src/ensembl-compara/modules
/export/home/mahmood/src/ensembl-variation/modules
/export/home/mahmood/src/ensembl-funcgen/modules /usr/local/lib64/perl5
/usr/local/share/perl5 /usr/lib64/perl5/vendor_perl
/usr/share/perl5/vendor_perl /usr/lib64/perl5 /usr/share/perl5 .) at
Build.PL line 20.
BEGIN failed--compilation aborted at Build.PL line 20.
[mahmood at cluster Bio-DB-HTS]$


Please see the full output (from the beginning to this step) at
https://pastebin.com/PWBiB6fA

Any thought on that?

Regards,
Mahmood



On Sun, Jun 25, 2017 at 11:40 PM, Mahmood Naderan <mahmood.nt at gmail.com>
wrote:

> Thanks for the feedback. Meanwhile, I want to know which method is
> recommended by you for "installing perl packages as non root user". There
> are some choices including perlbrew, local::lib and other things.
>
> I just want to be in the same track as you.
>
> Regards,
> Mahmood
>
>
>
> On Sun, Jun 25, 2017 at 11:11 PM, Rishi Nag <rishi at ebi.ac.uk> wrote:
>
>> Hi Mahmood
>>
>> The main thing that Bio::DB::HTS depends on that is outside of Perl, so
>> if you could do a ls $HTSLIB_DIR, and some of the error messages, that
>> would be helpful. There are issues on the latest Mac OS that mean the
>> latest HTSlib may not have compiled correctly. If you run 'perl INSTALL.pl'
>> the script will attempt to download and build an earlier HTSlib
>> automatically.
>>
>> You can find further guidance at the readme file for Bio::DB::HTS at
>> https://github.com/Ensembl/Bio-DB-HTS.
>>
>> Regards
>>
>> Rishi
>>
>>
>
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