On Oct 7, 2014, at 5:08 PM, Ellen Daugherty mailto:daughertyee@gmail.com> wrote:
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?
It means your path is not setup to find Macports. It says nothing about if Macports is installed or not. So when you run “perl” you are using the OS X perl and of course that won’t work. Now I’m really curious. Given this, how did you install the demeter-devel port and how are you actually running demeter programs? You would have encountered the same “command not found “ errors unless your path was correct like mine is.
-Frank
Thank you!
Ellen
On Tue, Oct 7, 2014 at 2:18 PM, Schima, Frank mailto:frank.schima@nist.gov> wrote:
On Oct 7, 2014, at 1:29 PM, Bruce Ravel mailto:bravel@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@bnl.govmailto:bravel@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/
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