[Bioperl-l] Trying to use Bio::Graphics

[Vikas Daga]

Hi Lincoln,

Thanks for the feedback. Removing the tabs and reinstalling libpng,libgd,
and GD now generates viewable png files.  Your update does quench the
warnings.

Thanks. 

Vikas 

On Thu, 22 May 2003, Lincoln Stein wrote:

> Hi Vikas,
> 
> Probably you statically linked libgd to libpng so that removing and 
> reinstalling libpng wouldn't help.  If I were you I would uninstall 
> everything (being careful to search all possible paths from root) and 
> reinstall known versions one at a time.
> 
> Be careful to remove the header files as well as the library files.
> 
> About the uninitialized variable warnings; when you run render1.pl you need to 
> be careful to run it on the tab-delimited similarity hit file given with the 
> examples, and *NOT* on a real blast output file.  If you continue to get 
> uninit value warnings, please try a CVS update with bioperl-live and tell me 
> if my fix has quenched them.
> 
> Lincoln
> 
> On Wednesday 21 May 2003 09:18 pm, Vikas Daga wrote:
> > Hi,
> >
> > I installed GD 2.07, libgd2.0.12, libpng-1.0.15, zlib-1.1.4, and
> > Text::Shellwords on my linux account - local install.  While running the
> > render1.pl file without piping to display I get the foll:
> >
> > Use of uninitialized value in string eq at
> > /u/dagav/my_perl_modules/Bio/Graphics/Panel.pm line 274, <> line 2.
> > Use of uninitialized value in string eq at
> > /u/dagav/my_perl_modules/Bio/Graphics/Panel.pm line 275, <> line 2.
> > Use of uninitialized value in string eq at
> > /u/dagav/my_perl_modules/Bio/Graphics/Panel.pm line 274, <> line 3.
> > Use of uninitialized value in string eq at
> > /u/dagav/my_perl_modules/Bio/Graphics/Panel.pm line 275, <> line 3.
> > Use of uninitialized value in string eq at
> > /u/dagav/my_perl_modules/Bio/Graphics/Panel.pm line 274, <> line 4.
> > Use of uninitialized value in string eq at
> > /u/dagav/my_perl_modules/Bio/Graphics/Panel.pm line 275, <> line 4.
> > Use of uninitialized value in string eq at
> > /u/dagav/my_perl_modules/Bio/Graphics/Panel.pm line 274, <> line 5.
> > Use of uninitialized value in string eq at
> > /u/dagav/my_perl_modules/Bio/Graphics/Panel.pm line 275, <> line 5.
> > Use of uninitialized value in string eq at
> > /u/dagav/my_perl_modules/Bio/Graphics/Panel.pm line 274, <> line 6.
> > Use of uninitialized value in string eq at
> > /u/dagav/my_perl_modules/Bio/Graphics/Panel.pm line 275, <> line 6.
> > Use of uninitialized value in string eq at
> > /u/dagav/my_perl_modules/Bio/Graphics/Panel.pm line 274, <> line 7.
> > Use of uninitialized value in string eq at
> > /u/dagav/my_perl_modules/Bio/Graphics/Panel.pm line 275, <> line 7.
> > Use of uninitialized value in string eq at
> > /u/dagav/my_perl_modules/Bio/Graphics/Panel.pm line 274, <> line 8.
> > Use of uninitialized value in string eq at
> > /u/dagav/my_perl_modules/Bio/Graphics/Panel.pm line 275, <> line 8.
> > Use of uninitialized value in string eq at
> > /u/dagav/my_perl_modules/Bio/Graphics/Panel.pm line 274, <> line 9.
> > Use of uninitialized value in string eq at
> > /u/dagav/my_perl_modules/Bio/Graphics/Panel.pm line 275, <> line 9.
> > Use of uninitialized value in string eq at
> > /u/dagav/my_perl_modules/Bio/Graphics/Panel.pm line 274, <> line 10.
> > Use of uninitialized value in string eq at
> > /u/dagav/my_perl_modules/Bio/Graphics/Panel.pm line 275, <> line 10.
> > libpng warning: Application was compiled with png.h from libpng-1.0.15
> > libpng warning: Application  is  running with png.c from libpng-1.2.5
> > gd-png:  fatal libpng error: Incompatible libpng version in application
> > and library
> > Segmentation fault
> >
> > I did manually remove libpng-1.2.15 libraries and installed libpng-1.0.15.
> >
> > Suggestions welcome,
> >
> > Vikas
> >
> > _______________________________________________
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> 
> -- 
> ========================================================================
> Lincoln D. Stein                           Cold Spring Harbor Laboratory
> lstein at cshl.org			                  Cold Spring Harbor, NY
> ========================================================================
> 
>