[Bioperl-l] Installation on Win32

[Brian Osborne]

Pauline,

You have a number of questions, I can answer the ones having to do with
Cygwin. If you're going the Cygwin route, and have no need for ActiveState
Perl for any other reason, then you can uninstall AS. Unfortunately I don't
know how to do this if you don't see it in Add/Remove. Then install the Perl
that comes with Cygwin, Cygwin will not install Perl by default. If you
really can't uninstall AS, and are afraid to just delete the directory, just
make sure that Cygwin's Perl comes first in your Cygwin PATH variable. Me,
I'd just delete the directory if that's the last resort.

You will also want to check so see that Cygwin has installed its own make,
you won't be using dmake or nmake within Cygwin, just plain GNU make. This
will solve that MAXLINELENGTH problem, I think. I've come to believe that
it's simplest to just use everything from Cygwin, as opposed to installing
things "separately" (example: Cygwin's apache, not the Windows binary from
apache.org, Cygwin's make, not nmake).

My apologies for the Cygwin digression but the combination of Windows and
Bioperl has been unsatisfying to a number of users, and Cygwin is the
solution, in my opinion.

Brian O.

-----Original Message-----
From: bioperl-l-bounces at portal.open-bio.org
[mailto:bioperl-l-bounces at portal.open-bio.org]On Behalf Of Pauline Ward
Sent: Wednesday, July 09, 2003 10:21 AM
To: bioperl-l at portal.open-bio.org
Subject: [Bioperl-l] Installation on Win32

Hi

I'm having trouble installing BioPerl 1.2.1 on my Win 2000 machine.
Makefile.PL works fine but then when I type 'dmake' I get this error:
dmake.exe:  makefile:  line 1937:  Error -- Input line too long, increase
MAXLINELENGTH

I don't know what MAXLINELENGTH is, but I had no such problem installing
Bundle-BioPerl.

I did some digging on the internet for an answer but I basically couldn't
find any information because all the info is for ActiveState Perl - I chose
the unusual and apparently stupid path of compiling and installing Perl
(5.8.0) from the source distribution. I noticed Brian Osborne posted a
message in May recommending using Cygwin for BioPerl on Windows machines so
I thought it might be a good idea to switch. I installed Cygwin on my PC
today.  However, it doesn't seem to have installed its own Perl: when I
type 'perl -V' it gives me the details of the installation which was
already on my hard drive. Does this mean I need to uninstall Perl before I
can install it under Cygwin? The problem here is that there's no
uninstall.bat file in my Perl directory. Nor does Perl appear in my
Add/Remove Programs in Control Panel (I think it does if you have
ActiveState Perl). So I'm not sure it's possible or safe to install Perl in
Cygwin.

If anyone can come up with a quick fix for the MAXLINELENGTH then I'll
probably just soldier on with my current Perl installation (I should be
getting a UNIX/Linux server to work on soon anyway). Otherwise, any advice
on uninstalling would be welcome. Thanks.

Pauline

Pauline Ward
Wellcome Centre for Molecular Parasitology
56 Dumbarton Rd, Glasgow
tel 0141 330 6766

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