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

[Lincoln Stein]

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
>
> _______________________________________________
> Bioperl-l mailing list
> Bioperl-l at portal.open-bio.org
> http://portal.open-bio.org/mailman/listinfo/bioperl-l

-- 
========================================================================
Lincoln D. Stein                           Cold Spring Harbor Laboratory
lstein at cshl.org			                  Cold Spring Harbor, NY
========================================================================