[Bioperl-l] bioperl graphic question
junhu54 at hotmail.com
Fri Jan 2 18:19:21 EST 2004
Happy new Year, everyone!
Thanks for the info about graphic packages, I download the rpm Jason
provided and install it on another linux 9 machine, I also download the
latest bioperl-live using cvs on the same machine.
However, when install Bundle::bioperl using `perl -MCPAN -e "install
Bundle::BioPerl"` ,one error happen...
Bundle summary: The following items in bundle Bundle::LWP had installation
This problem did not happen when I install on previous linux 7.3 machine.
Since it is related to LWP, I assue that I might be able to get away with
it... so I continue...
the other installation steps seem all right, and I have libgd2 now, so I
hope everything will be fine...
But I am not so lucky..., when I use the bioperl test program, like before,
no error message, I can get one png file (2217 bytes, which is much larger
than previous 838 bytes), however, the new png file is not viewable, at
least not on windows ... and the previous png file(when I use libgd1.8.4 on
linux 7.3), although no labels /feature, is still viewable... I was
wondering what else can go wrong ... , I also attach the png files I
generated although it is binary...
>From: Jason Stajich <jason at cgt.duhs.duke.edu>
>To: Lincoln Stein <lstein at cshl.edu>
>CC: Todd Harris <harris at cshl.org>, bioperl-l at bioperl.org, jun hu
><junhu54 at hotmail.com>
>Subject: Re: [Bioperl-l] bioperl graphic question
>Date: Wed, 31 Dec 2003 16:24:05 -0500 (EST)
>I built gd2 from the fedora SRPMs and had no problem (save other RPMs
>dependancy on libgd 1.8 (gnuplot,php,webalizer on RHL 7.3))
>SRPM is here
>I can put the compiled RPMs for 7.3 and 9.0 on the bioperl site if it
>On Wed, 31 Dec 2003, Lincoln Stein wrote:
> > Does anyone know where the gd2 RPMs can be found? I know almost
> > nothing about RPMs.
> > Lincoln
> > On Tuesday 30 December 2003 10:24 am, Jason Stajich wrote:
> > > We might want to post pointers to gd2 rpms for the redhat crowd...
> > > as RH 9 still ships with libgd 1.8.x
> > >
> > >
> > > -jason
> > >
> > > On Mon, 29 Dec 2003, Todd Harris wrote:
> > > > Hi Jun Hu -
> > > >
> > > > As noted in the install guide, you will need to upgrade your
> > > > libgd. Although using libgd 1.8.4 may not necessarily result in
> > > > runtime errors, graphical elements may not appear as intended.
> > > > Some glyphs will not render at all with 1.8.4.
> > > >
> > > > We needed to move to libgd2 in order to support the generation of
> > > > both raster (png) and vector (svg) images from the same codebase.
> > > >
> > > > todd
> > >
> > > --
> > > Jason Stajich
> > > Duke University
> > > jason at cgt.mc.duke.edu
> > > _______________________________________________
> > > Bioperl-l mailing list
> > > Bioperl-l at portal.open-bio.org
> > > http://portal.open-bio.org/mailman/listinfo/bioperl-l
>jason at cgt.mc.duke.edu
>Bioperl-l mailing list
>Bioperl-l at portal.open-bio.org
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