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This queue is for tickets about the Math-GSL CPAN distribution.

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The Basics
Id: 42187
Status: rejected
Priority: 0/
Queue: Math-GSL

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Owner: jonathan [...] leto.net
Requestors: martin [...] biology.ucsc.edu
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Severity: (no value)
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Subject: Can't wait using Math-GSL, but sadly fail installing it :(
Date: Tue, 6 Jan 2009 11:27:23 -0800 (PST)
To: bug-Math-Gsl [...] rt.cpan.org
From: "Martin.Laurberg" <martin [...] biology.ucsc.edu>
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Hi, I wish to use Math::GSL to calculate (eigenvector,eigenvalue) pairs in creating geometric tensors from equivalent atoms in multi-conformer refined models in X-ray crystallography. Ok, in simplicity, I'm writing a perl script for the above on my macOSX Leopard, but I fail installing Math::GSL, either from source as described in the README, or as sudo perl -MCPAN -e 'install Math::GSL' Is there a know issue installing the package, or would there be any hints for installation dummies like me? All the best, Martin Math::GSL v 1.16 perl v 5.8.8 MacOSX intel 10.5.6 (leopard) Darwin dhcp-151-100.ucsc.edu 9.6.0 Darwin Kernel Version 9.6.0: Mon Nov 24 17:37:00 PST 2008; root:xnu-1228.9.59~1/RELEASE_I386 i386 -- Martin Laurberg, PhD Noller Laboratory 225 Sinsheimer Laboratories University of California at Santa Cruz CA-95064 Santa Cruz USA Tel +1 (831) 459 35 84 Fax +1 (831) 459 37 37
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Hello Martin, Thanks for your interest in Math::GSL! Please send me the output of: perl -V gcc --version as well as build.txt and output.txt generated below: # This will drop you into the cpan build directory: perl -MCPAN -e 'look Math::GSL' perl Build.PL 2> build.txt & ./Build test 2> debug.txt & This should tell me what is going wrong with your build of Math::GSL. Cheers, On Tue Jan 06 14:31:55 2009, martin@biology.ucsc.edu wrote: Show quoted text
> Hi, > > I wish to use Math::GSL to calculate (eigenvector,eigenvalue) pairs in > creating geometric tensors from equivalent atoms in multi-conformer > refined models in X-ray crystallography. > > Ok, in simplicity, I'm writing a perl script for the above on my macOSX > Leopard, but I fail installing Math::GSL, either from source as described > in the README, or as > > sudo perl -MCPAN -e 'install Math::GSL' > > Is there a know issue installing the package, or would there be any hints > for installation dummies like me? > > All the best, > > Martin > > Math::GSL v 1.16 > perl v 5.8.8 > MacOSX intel 10.5.6 (leopard) > Darwin dhcp-151-100.ucsc.edu 9.6.0 Darwin Kernel Version 9.6.0: Mon Nov 24 > 17:37:00 PST 2008; root:xnu-1228.9.59~1/RELEASE_I386 i386 > > > > -- > Martin Laurberg, PhD > Noller Laboratory > 225 Sinsheimer Laboratories > University of California at Santa Cruz > CA-95064 Santa Cruz > USA > > Tel +1 (831) 459 35 84 > Fax +1 (831) 459 37 37 >
Subject: Re: [rt.cpan.org #42187] Can't wait using Math-GSL, but sadly fail installing it :(
Date: Mon, 12 Jan 2009 16:07:50 -0800 (PST)
To: Jonathan Leto via RT <bug-Math-Gsl [...] rt.cpan.org>
From: "Martin.Laurberg" <martin [...] biology.ucsc.edu>
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Hi Jonathan, I solved my geometric tensor problem using sweat and oldschool hardcopy textbooks (pretty picture attached). Math::GSL will make it easier next time. Since I wrote you I noticed Math::GSL installation depends on Sub::Uplevel and other modules. This one fails to install, and that dependency could be the cause of the failure (As a positive test of the installation procedure Math::MatrixReal installs without a problem, and works in a perl test script I then wrote.). Forcing installation of Sub::Uplevel wasn't productive. In short, Math::GSL installation might be failing only because its dependencies fail to install :/ A colleague of mine experienced the same scenario trying to install Math::GSL on his MacBook (intel OSX 10.5.5 Leopard) Show quoted text
> perl -V > gcc --version
Output in attached textfile perl_gcc.txt Show quoted text
> as well as build.txt and output.txt generated below: > > # This will drop you into the cpan build directory: > perl -MCPAN -e 'look Math::GSL' > > perl Build.PL 2> build.txt & > ./Build test 2> debug.txt &
The command perl -MCPAN -e 'look Math::GSL' fails (perhaps since 'install' fails ?). See output in attached textfile perl_commands_log.txt. Failing the above, I downloaded the source Math-GSL-0.16.tar from http://search.cpan.org/~leto/Math-GSL-0.16/ and issued your commands. build.txt and debug.txt attached. All the best, Martin -- Martin Laurberg, PhD Noller Laboratory 225 Sinsheimer Laboratories University of California at Santa Cruz CA-95064 Santa Cruz USA Tel +1 (831) 459 35 84 Fax +1 (831) 459 37 37 On Sat, 10 Jan 2009, Jonathan Leto via RT wrote: Show quoted text
> <URL: https://rt.cpan.org/Ticket/Display.html?id=42187 > > > Hello Martin, > > Thanks for your interest in Math::GSL! > > Please send me the output of: > > perl -V > gcc --version > > as well as build.txt and output.txt generated below: > > # This will drop you into the cpan build directory: > perl -MCPAN -e 'look Math::GSL' > > perl Build.PL 2> build.txt & > ./Build test 2> debug.txt & > > This should tell me what is going wrong with your build of Math::GSL. > > Cheers, > > > On Tue Jan 06 14:31:55 2009, martin@biology.ucsc.edu wrote:
> > Hi, > > > > I wish to use Math::GSL to calculate (eigenvector,eigenvalue) pairs in > > creating geometric tensors from equivalent atoms in multi-conformer > > refined models in X-ray crystallography. > > > > Ok, in simplicity, I'm writing a perl script for the above on my macOSX > > Leopard, but I fail installing Math::GSL, either from source as described > > in the README, or as > > > > sudo perl -MCPAN -e 'install Math::GSL' > > > > Is there a know issue installing the package, or would there be any hints > > for installation dummies like me? > > > > All the best, > > > > Martin > > > > Math::GSL v 1.16 > > perl v 5.8.8 > > MacOSX intel 10.5.6 (leopard) > > Darwin dhcp-151-100.ucsc.edu 9.6.0 Darwin Kernel Version 9.6.0: Mon Nov 24 > > 17:37:00 PST 2008; root:xnu-1228.9.59~1/RELEASE_I386 i386 > > > > > > > > -- > > Martin Laurberg, PhD > > Noller Laboratory > > 225 Sinsheimer Laboratories > > University of California at Santa Cruz > > CA-95064 Santa Cruz > > USA > > > > Tel +1 (831) 459 35 84 > > Fax +1 (831) 459 37 37 > >
> > > >
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Howdy, version 0.16 is very old and many bugs have been fixed. If you have similar problems with 0.22, then please open a ticket and I will take a look. Duke


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