Jurgen Pletinckx wrote:
>
> Oh dear.
>
> It seems that, by following my advice on the windows-bioperl
> page, you found "XML-LibXML" (latest is
> http://www.cpan.org/modules/by-module/XML/XML-LibXML-1.31.tar.gz),
>
> rather than "libxml-perl" (latest is still
> http://www.cpan.org/modules/by-module/XML/libxml-perl-0.07.tar.gz)
I just noticed the same thing. What you need is a XML::Parser which is part
of the above package. XML::LibXML is not used by BioPerl although it could
at some point. It is the next generation XML parser which might supercede
XML::Parser.
See:
XML::LibXML - An XML::Parse Alternative
http://www.xml.com/pub/a/2001/11/14/xml-libxml.html
-Heikki
> The former uses the C library libxml2, which is why you get the
> error. Mind you, even if you do get it to work (and it seems Active-
> State hasn't ported that particular module collection for Windows),
> it won't be any use to get bioperl up and running, as bioperl needs
> one or more of the modules inside libxml-perl.
>
> On the bright side, libxml-perl is still available, and can now
> apparently be installed through PPM. That leaves XML::Node as the
> only module to be installed 'by hand'. And bioperl itself, of course.
>
> Two non-bioperl questions of my own:
> * search.cpan.org doesn't report libxml-perl when querying for 'libxml'
> or 'libxml-perl'. The FAQ for s.c.o mentions that it "only indexes
> distributions that unpack to a single top-level directory, i.e. a
> distribution that unpacks into its own directory instead of dumping
> into the current working directory."
> Can that be the reason here, or should I notify the maintainers?
>
> * The existence of the following file
> http://www.activestate.com/PPMPackages/5.6plus/XML-Node.ppd
> hints that XML-Node ought to be installable through PPM. Anyone have
> a guess why it isn't (at least for me)?
>
> --
> Jurgen Pletinckx
> AlgoNomics NV
>
> # -----Original Message-----
> # From: bioperl-l-admin@bioperl.org [mailto:bioperl-l-admin@bioperl.org]On
> # Behalf Of Elizabeth Bowen
> # Sent: Tuesday, December 18, 2001 7:57 AM
> # To: bioperl-l@bioperl.org
> # Subject: [Bioperl-l] Installing Bioperl on Windows 98
> #
> #
> # Thank you very much for the discussion regarding the install of
> # bioperl on Windows 2000. It has been helpful in my own attempts to
> # get Bioperl up and running on my computer.
> #
> # However, I too have run into some difficulties. I am trying to
> # install Bioperl on Windows 98. I have already installed the latest
> # versions of ActiveState Perl, File::Temp,
> # IO::String, IO::stringy, XML::Writer, AcePerl, and XML::Node. These
> # seemed to install correctly (fingers crossed).
> #
> # Unfortunately, whenever I try to run Makefile.pl for XML::LibXML, I
> # get the following message:
> #
> # running xml2-config... XML::LibXML needs libxml2 version 2.4.8 or higher
> # failed
> #
> # I downloaded the latest version of XML::LibXML from CPAN, so I don't
> # understand why I am having this problem.
> #
> # Any help you might be able to provide would be greatly appreciated!
> #
> # Sincerely,
> # Elizabeth Bowen
> #
> #
> # > Message: 7
> # > Date: Mon, 17 Dec 2001 07:51:29 -0800 (PST)
> # > From: Viren Konde <virenbio@yahoo.com>
> # > Subject: Re: [Bioperl-l] Re::installing bioperl on Windows 2000 (help)
> # > To: Bill Zhuang <jiapiao_z@yahoo.com>
> # > Cc: bioperl-l@bioperl.org
> # >
> # > Bill--I think you are missing something here..Please
> # > follow as given below to install BioPerl..
> # >
> # > Keep the extracted (BioPerl-0.7.2) folder in your
> # > C:\perl\lib directory so it will look like
> # > >>C:\perl\lib\BioPerl-0.7.2 and then ...
> # >
> # > copy the three files to the BioPerl-0.7.2 folder
> # > >>C:\perl\lib\BioPerl-0.7.2\three files..
> # >
> # > and then issue the commands from the same
> # > BioPerl-0.7.2 folder..
> # >
> # > 1)Perl Makefile.pl
> # > 2)Nmake
> # > 3)Nmake test (optional)
> # > 4)Nmake install
> # >
> # > I think it is going to be fine now..
> # > If not !! Please do not hesitate to ask me ..
> # >
> # > Best Wishes,
> # > Viren
> # >
> # >
> # >
> # > --- Bill Zhuang <jiapiao_z@yahoo.com> wrote:
> # > > Hi Viren,
> # > >
> # > > Thank you very much for replying.
> # > > Yes, I copied all three files to C:\perl\bin and it
> # > > is in the
> # > > path.
> # > > I am now considering two possible reasons:
> # > > 1. I don't have a Visual C++ compiler in my system
> # > > and some
> # > > article mentioned that nmake works under Visual C++.
> # > > 2. I am not sure if my environment variables have
> # > > been set
> # > > correctly.
> # > > Could you please tell me whether there was a Visual
> # > > C++
> # > > compiler in your system when you used nmake? If not,
> # > > please
> # > > copy the environment variables(path and lib)
> # > > settings for me.
> # > >
> # > > Thank you for your help.
> # > >
> # > > Bill
> # > > --- Viren Konde <virenbio@yahoo.com> wrote:
> # > > > Hi Bill:
> # > > >
> # > > > I'm Windows Me user and have installed Bioperl and
> # > > few
> # > > > ext modules..I just wanted to make sure that...
> # > > > after you have downloaded the Nmake.exe
> # > > >
> # > >
> # >
> http://download.microsoft.com/download/vc15/Patch/1.52/W95/EN-US/Nmake15.exe)
> > > > Executing this self-extracting program generates
> > > the
> > > > files readme.txt , nmake.err and nmake.exe.
> > > >
> > > > Have you copied ALL THESE THREE FILES (readme.txt
> > > ,
> > > > nmake.err and nmake.exe) to a directory on your
> > > > path..??
> > > >
> > > > If yes !!..then just give it ...one more try as
> > > below:
> > > >
> > > > 1)Perl Makefile.pl
> > > > 2)Nmake
> > > > 3)Nmake test (optional)
> > > > 4)Nmake install
> > > >
> > > > Hope this helps...and works..
> > > >
> > > > Best wishes,
> > > > Viren
> > > >
> > > >
> > > >
> > > >
> > > >
> > > > =====
> > > > Viren Konde
> > > > CNRS-Marseille
> > > > FRANCE
>
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--
______ _/ _/_____________________________________________________
_/ _/ http://www.ebi.ac.uk/mutations/
_/ _/ _/ Heikki Lehvaslaiho heikki@ebi.ac.uk
_/_/_/_/_/ EMBL Outstation, European Bioinformatics Institute
_/ _/ _/ Wellcome Trust Genome Campus, Hinxton
_/ _/ _/ Cambs. CB10 1SD, United Kingdom
_/ Phone: +44 (0)1223 494 644 FAX: +44 (0)1223 494 468
___ _/_/_/_/_/________________________________________________________