[Ifeffit] "PCA not enabled" on Mac version of Demeter: Athena

[Ellen Daugherty]

Bruce and Frank,

In response to Bruce's suggestion:

A simple way to test from the command line whether the modules can be
loaded is to do

   perl -e 'use PDL::Lite'

My output is:

"Can't locate PDL/Lite.pm in @INC (@INC contains:
/Library/Perl/5.16/darwin-thread-multi-2level /Library/Perl/5.16
/Network/Library/Perl/5.16/darwin-thread-multi-2level
/Network/Library/Perl/5.16 /Library/Perl/Updates/5.16.2
/System/Library/Perl/5.16/darwin-thread-multi-2level
/System/Library/Perl/5.16
/System/Library/Perl/Extras/5.16/darwin-thread-multi-2level
/System/Library/Perl/Extras/5.16 .) at -e line 1.

BEGIN failed--compilation aborted at -e line 1."

In response to Frank's suggestions:

$ port installed perl5

My output is:

-bash: port: command not found

And for,

$ echo $PATH

My output is:

/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/bin:/opt/X11/bin

Does this mean that there is a problem with the Macports location?

Thank you!

Ellen

On Tue, Oct 7, 2014 at 2:18 PM, Schima, Frank <frank.schima at nist.gov> wrote:

>  On Oct 7, 2014, at 1:29 PM, Bruce Ravel <bravel at bnl.gov> wrote:
>
> On 10/07/2014 02:43 PM, Schima, Frank wrote:
>
> I’m going to need specific steps to reproduce the issue.
>
>
> As I understood the issue from Ellen's first message, the problem is that
> Athena is not able to find the modules "PDL::Lite" (which should be
> installed when "PDL" is installed) and/or "PDL::Stats::GLM".
>
> If I force Athena to fail to load one of them, then selecting "Principle
> Components Analysis" from the main menu will look like the first attachment.
>
> If Athena can find those two modules, the selecting "Principle Components
> Analysis" will look like the second attachment.
>
> The test in Athena is really simple.  If those two modules can be loaded
> successfully, then the PCA tool will display properly.  If not, that
> message is the graceful fall back.  My guess is that one or both of those
> perl modules is not being found on Ellen's computer.
>
> A simple way to test from the command line whether the modules can be
> loaded is to do
>
>    perl -e 'use PDL::Lite'
> or
>    perl -e 'use PDL::Stats::GLM'
>
> If they cannot be found, then perl spits up an error message.  If  they
> can, then nothing happens.
>
>
>  Nothing happens for me. So they are installed. At this point it looks
> like an issue with her Macports install.
>
>  I would start by verifying that she is correctly using perl 5.16 in
> Macports. What is the output of the following?
>
>  $ port installed perl5
>
>  Here is my output.
>
>  The following ports are currently installed:
>   perl5 @5.12.4_0+perl5_16 (active)
>
>  Then the Macports perl needs to be in your path. What is the output of
> the following?
>
>  $ echo $PATH
>
>  My output is:
>
>
> /opt/local/bin:/opt/local/sbin:/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/bin
>
>
>  Cheers!
> Frank
>
>
> B
>
> --
> Bruce Ravel  ------------------------------------ bravel at bnl.gov
>
> National Institute of Standards and Technology
> Synchrotron Science Group at NSLS --- Beamlines U7A, X24A, X23A2
> Building 535A
> Upton NY, 11973
>
> Homepage:    http://bruceravel.github.io/home/
> Software:    https://github.com/bruceravel
> Demeter:     http://bruceravel.github.io/demeter/
> <pca_wrong.png><pca_right.png>
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