Hi xingya, Please reply to the mailing list as well so that the resolution of the problem can be archived.
There is clearly something very wrong with you cpan shell configuration. Have you ever used the cpan shell before trying to install gbrowse? (If you don't know what the cpan shell is, the answer is probably 'no'.) If not, when you first ran the net installer, you should have been asked some configuration questions including what continent and country your were in, if you were using a proxy and what cpan mirror to use. Did that happen? To reconfigure cpan, on the command line, run sudo cpan and then when you are in cpan, type o conf init and it will run through the configuration again. Make sure that if you are using a proxy, to configure it correctly. After you do that you can rerun the install: sudo perl gbrowse_netinstall.pl Sorry this didn't work for you the first time; I'm using Ubuntu 7.10 so it is usually a pretty well tested platform for GBrowse. Scott On Thu, 2008-02-28 at 13:59 +0800, 兴亚 许 wrote: > Hi Scott, > Thanks for your reply. But I haven't got solution yet. I attach the > detailed information of feedback, Can you give me some advice on how > to solve the problem? > > About to install GBrowse and all its prerequisites. > > You will be asked various questions during this process. You can > almost always > accept the default answer (with a notable exception of libgd on > MacOSX; > see the documentation on the GMOD website for more information.) > The whole process will take several minutes and will generate lots of > messages. > > Press return when you are ready to start! > > *** Installing Perl files needed for a net-based install *** > CPAN: Storable loaded ok > Going to read /home/xingya/.cpan/Metadata > Warning: Found only 0 objects in /home/xingya/.cpan/Metadata > CPAN: LWP::UserAgent loaded ok > Fetching with LWP: > http://cpan.linuxforum.net/authors/01mailrc.txt.gz > LWP failed with code[500] message[Can't connect to :8080 (Bad hostname > '')] > Fetching with LWP: > http://cpan.modperl.cn/authors/01mailrc.txt.gz > LWP failed with code[500] message[Can't connect to :8080 (Bad hostname > '')] > > Trying with "/usr/bin/wget -O -" to get > http://cpan.linuxforum.net/authors/01mailrc.txt.gz > Error parsing proxy URL http://:8080/: Invalid host name. > > System call "/usr/bin/wget -O - > "http://cpan.linuxforum.net/authors/01mailrc.txt.gz"; > > /home/xingya/.cpan/sources/authors/01mailrc.txt" > returned status 1 (wstat 256) > Warning: expected file > [/home/xingya/.cpan/sources/authors/01mailrc.txt.gz] doesn't exist > > Trying with "/usr/bin/wget -O -" to get > http://cpan.modperl.cn/authors/01mailrc.txt.gz > Error parsing proxy URL http://:8080/: Invalid host name. > > System call "/usr/bin/wget -O - > "http://cpan.modperl.cn/authors/01mailrc.txt.gz"; > > /home/xingya/.cpan/sources/authors/01mailrc.txt" > returned status 1 (wstat 256) > Warning: expected file > [/home/xingya/.cpan/sources/authors/01mailrc.txt.gz] doesn't exist > Please check, if the URLs I found in your configuration file > (http://cpan.linuxforum.net/, http://cpan.modperl.cn/) are valid. The > urllist can be edited. E.g. with 'o conf urllist push ftp://myurl/' > > Could not fetch authors/01mailrc.txt.gz > Fetching with LWP: > http://cpan.linuxforum.net/modules/02packages.details.txt.gz > LWP failed with code[500] message[Can't connect to :8080 (Bad hostname > '')] > Fetching with LWP: > http://cpan.modperl.cn/modules/02packages.details.txt.gz > LWP failed with code[500] message[Can't connect to :8080 (Bad hostname > '')] > > Trying with "/usr/bin/wget -O -" to get > http://cpan.linuxforum.net/modules/02packages.details.txt.gz > Error parsing proxy URL http://:8080/: Invalid host name. > > System call "/usr/bin/wget -O - > "http://cpan.linuxforum.net/modules/02packages.details.txt.gz"; > > /home/xingya/.cpan/sources/modules/02packages.details.txt" > returned status 1 (wstat 256) > Warning: expected file > [/home/xingya/.cpan/sources/modules/02packages.details.txt.gz] doesn't > exist > > Trying with "/usr/bin/wget -O -" to get > http://cpan.modperl.cn/modules/02packages.details.txt.gz > Error parsing proxy URL http://:8080/: Invalid host name. > > System call "/usr/bin/wget -O - > "http://cpan.modperl.cn/modules/02packages.details.txt.gz"; > > /home/xingya/.cpan/sources/modules/02packages.details.txt" > returned status 1 (wstat 256) > Warning: expected file > [/home/xingya/.cpan/sources/modules/02packages.details.txt.gz] doesn't > exist > Please check, if the URLs I found in your configuration file > (http://cpan.linuxforum.net/, http://cpan.modperl.cn/) are valid. The > urllist can be edited. E.g. with 'o conf urllist push ftp://myurl/' > > Could not fetch modules/02packages.details.txt.gz > Fetching with LWP: > http://cpan.linuxforum.net/modules/03modlist.data.gz > LWP failed with code[500] message[Can't connect to :8080 (Bad hostname > '')] > Fetching with LWP: > http://cpan.modperl.cn/modules/03modlist.data.gz > LWP failed with code[500] message[Can't connect to :8080 (Bad hostname > '')] > > Trying with "/usr/bin/wget -O -" to get > http://cpan.linuxforum.net/modules/03modlist.data.gz > Error parsing proxy URL http://:8080/: Invalid host name. > > System call "/usr/bin/wget -O - > "http://cpan.linuxforum.net/modules/03modlist.data.gz"; > > /home/xingya/.cpan/sources/modules/03modlist.data" > returned status 1 (wstat 256) > Warning: expected file > [/home/xingya/.cpan/sources/modules/03modlist.data.gz] doesn't exist > > Trying with "/usr/bin/wget -O -" to get > http://cpan.modperl.cn/modules/03modlist.data.gz > Error parsing proxy URL http://:8080/: Invalid host name. > > System call "/usr/bin/wget -O - > "http://cpan.modperl.cn/modules/03modlist.data.gz"; > > /home/xingya/.cpan/sources/modules/03modlist.data" > returned status 1 (wstat 256) > Warning: expected file > [/home/xingya/.cpan/sources/modules/03modlist.data.gz] doesn't exist > Please check, if the URLs I found in your configuration file > (http://cpan.linuxforum.net/, http://cpan.modperl.cn/) are valid. The > urllist can be edited. E.g. with 'o conf urllist push ftp://myurl/' > > Could not fetch modules/03modlist.data.gz > Going to write /home/xingya/.cpan/Metadata > Warning: Cannot install Archive::Zip, don't know what it is. > Try the command > > i /Archive::Zip/ > > to find objects with matching identifiers. > Warning: Cannot install YAML, don't know what it is. > Try the command > > i /YAML/ > > to find objects with matching identifiers. > Warning: Cannot install HTML::Tagset, don't know what it is. > Try the command > > i /HTML::Tagset/ > > to find objects with matching identifiers. > Warning: Cannot install LWP::Simple, don't know what it is. > Try the command > > i /LWP::Simple/ > > to find objects with matching identifiers. > Warning: Cannot install Archive::Tar, don't know what it is. > Try the command > > i /Archive::Tar/ > > to find objects with matching identifiers. > Installing GD via CPAN... > Warning: Cannot install GD, don't know what it is. > Try the command > > i /GD/ > > to find objects with matching identifiers. > > *** Installing prerequisites for BioPerl *** > Warning: Cannot install GD::SVG, don't know what it is. > Try the command > > i /GD::SVG/ > > to find objects with matching identifiers. > Warning: Cannot install IO::String, don't know what it is. > Try the command > > i /IO::String/ > > to find objects with matching identifiers. > Warning: Cannot install Text::Shellwords, don't know what it is. > Try the command > > i /Text::Shellwords/ > > to find objects with matching identifiers. > Warning: Cannot install CGI::Session, don't know what it is. > Try the command > > i /CGI::Session/ > > to find objects with matching identifiers. > Warning: Cannot install File::Temp, don't know what it is. > Try the command > > i /File::Temp/ > > to find objects with matching identifiers. > Warning: Cannot install Class::Base, don't know what it is. > Try the command > > i /Class::Base/ > > to find objects with matching identifiers. > Warning: Cannot install Digest::MD5, don't know what it is. > Try the command > > i /Digest::MD5/ > > to find objects with matching identifiers. > > *** Installing BioPerl *** > Warning: Cannot install Module::Build, don't know what it is. > Try the command > > i /Module::Build/ > > to find objects with matching identifiers. > Downloading http://bioperl.org/DIST/bioperl-1.5.2_102.tar.gz... > Could not download bioperl-1.5.2_102 distribution from > http://bioperl.org/DIST/bioperl-1.5.2_102.tar.gz. at > gbrowse_netinstall.pl line 278, <> line 1. > > > Scott Cain <[EMAIL PROTECTED]> 写道： > Hi xingya, > > It is very strange the your cpan shell doesn't know what > Module::Build > is. I would guess that it is a problem with the CPAN mirror(s) > that you > picked. While you could fix the cpan shell by adding more or > different > mirrors, you can also just us synaptic or apt-get to install > Module::Build: > > sudo apt-get install libmodule-build-perl > > Scott > > On Thu, 2008-02-28 at 09:43 +0800, 兴亚 许 wrote: > > To someon it may concern, > > when I installing GBrowse on my ubuntu 7.10 system use > > "gbrowse_netinstall.pl" commond, The problem comes as below: > > *** Installing BioPerl *** > > Warning: Cannot install Module::Build, don't know what it > is. > > Try the command > > > > i /Module::Build/ > > > > to find objects with matching identifiers. > > Downloading > http://bioperl.org/DIST/bioperl-1.5.2_102.tar.gz... > > Could not download bioperl-1.5.2_102 distribution from > > http://bioperl.org/DIST/bioperl-1.5.2_102.tar.gz. at > > gbrowse_netinstall.pl line 273, <> line 1. > > > > can you tell me how to solve this problem? > > > > Best wishes, > > > > xingya > > > > > > > > > ______________________________________________________________________ > > 雅虎邮箱传递新年祝福，个性贺卡送亲朋！ > > > > ------------------------------------------------------------------------- > > This SF.net email is sponsored by: Microsoft > > Defy all challenges. Microsoft(R) Visual Studio 2008. > > http://clk.atdmt.com/MRT/go/vse0120000070mrt/direct/01/ > > _______________________________________________ Gmod-gbrowse > mailing list [email protected] > https://lists.sourceforge.net/lists/listinfo/gmod-gbrowse > -- > > ------------------------------------------------------------------------ > Scott Cain, Ph. D. [EMAIL PROTECTED] > GMOD Coordinator (http://www.gmod.org/) 216-392-3087 > Cold Spring Harbor Laboratory > > > > > > ______________________________________________________________________ > 雅虎邮箱传递新年祝福，个性贺卡送亲朋！ -- ------------------------------------------------------------------------ Scott Cain, Ph. D. [EMAIL PROTECTED] GMOD Coordinator (http://www.gmod.org/) 216-392-3087 Cold Spring Harbor Laboratory ------------------------------------------------------------------------- This SF.net email is sponsored by: Microsoft Defy all challenges. Microsoft(R) Visual Studio 2008. http://clk.atdmt.com/MRT/go/vse0120000070mrt/direct/01/ _______________________________________________ Gmod-gbrowse mailing list [email protected] https://lists.sourceforge.net/lists/listinfo/gmod-gbrowse
