Re: bowtie2 giving help2man warnings(?) on Yosemite with exporter-pm installed

Alexander,
     This looks like https://bbs.archlinux.org/viewtopic.php?id=46281.
            Jack

On Wed, Nov 19, 2014 at 1:20 PM, Alexander Hansen
<[email protected]> wrote:
> Hi.  I saw this when building bowtie2 on Yosemite with exporter-pm-5.68-1
> installed:
>
>
> make install PREFIX=/sw DESTDIR=/sw/src/fink.build/root-bowtie2-2.2.4-1
> help2man --name="wrapper for bowtie2-align" --no-info \
> `pwd`/bowtie2 > bowtie2.1
> Constant subroutine main::LC_ALL redefined at /sw/lib/perl5/Exporter.pm line
> 66.
>  at /sw/bin/help2man line 28.
> Prototype mismatch: sub main::LC_ALL () vs none at /sw/lib/perl5/Exporter.pm
> line 66.
>  at /sw/bin/help2man line 28.
> help2man --name="building a colorspace index for bowtie2" --no-info \
> `pwd`/bowtie2-build > bowtie2-build.1
> Constant subroutine main::LC_ALL redefined at /sw/lib/perl5/Exporter.pm line
> 66.
>  at /sw/bin/help2man line 28.
> Prototype mismatch: sub main::LC_ALL () vs none at /sw/lib/perl5/Exporter.pm
> line 66.
>  at /sw/bin/help2man line 28.
> help2man --name="extracts information from a bowtie2 index" --no-info \
> `pwd`/bowtie2-inspect > bowtie2-inspect.1
> Constant subroutine main::LC_ALL redefined at /sw/lib/perl5/Exporter.pm line
> 66.
>  at /sw/bin/help2man line 28.
> Prototype mismatch: sub main::LC_ALL () vs none at /sw/lib/perl5/Exporter.pm
> line 66.
>  at /sw/bin/help2man line 28.
> help2man --name="ultrafast and memory-efficient tool for aligning sequencing
> reads to long reference sequences" --no-info \
>     `pwd`/bowtie2-align-s> bowtie2-align.1
> Constant subroutine main::LC_ALL redefined at /sw/lib/perl5/Exporter.pm line
> 66.
>  at /sw/bin/help2man line 28.
> Prototype mismatch: sub main::LC_ALL () vs none at /sw/lib/perl5/Exporter.pm
> line 66.
>  at /sw/bin/help2man line 28.
>
> It may be harmless.  I was just a bit unsettled to see the Perl functions in
> the output. :-)
> --
> Alexander Hansen, Ph.D.
> Fink User Liaison
>
>
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