Re: [Ifeffit] Macports ifeffit and Demeter Update

when I run *sudo port activate demeter-devel @0.9.20pre10_0* ---> Computing dependencies for demeter-devel ---> Activating demeter-devel @0.9.20pre10_0 Error: org.macports.activate for port demeter-devel returned: Image error: /opt/local/lib/perl5/site_perl/5.16.3/darwin-thread-multi-2level/Demeter/Plugins/SpecFileLongLine.pm already exists and does not belong to a registered port. Unable to activate port demeter-devel. Use 'port -f activate demeter-devel' to force the activation. Please see the log file for port demeter-devel for details: /opt/local/var/macports/logs/_opt_local_var_macports_registry_portfiles_demeter-devel-0.9.20pre10_0_54f3f2fd9281aa66df973ff2918ccf4354f1f896e5b2bc57d680266a42be52f1-5435/demeter-devel/main.log Warning: Failed to execute portfile from registry for demeter-devel @0.9.20pre10_0 ---> Activating demeter-devel @0.9.20pre10_0 Error: port activate failed: Image error: /opt/local/lib/perl5/site_perl/5.16.3/darwin-thread-multi-2level/Demeter/Plugins/SpecFileLongLine.pm already exists and does not belong to a registered port. Unable to activate port demeter-devel. Use 'port -f activate demeter-devel' to force the activation. ᐧ ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Jennifer L.W. Carter Assistant Professor Department of Materials Science and Engineering Case Western Reserve University *500B White Building* *10900 Euclid Ave.Cleveland, OH 44106-4901phone: (216) 368-4214email: jennifer.w.carter@case.edu * On Mon, Jul 14, 2014 at 2:46 PM, Schima, Frank wrote:

For whatever reason, you do not have any version of demeter-devel active. You must activate the latest version as follows:

sudo port activate demeter-devel @0.9.20pre10_0

-Frank

On Jul 14, 2014, at 3:43 PM, Jennifer Carter wrote:

Frank,

This is what I get for the following terminal inputs:

*169-231-92-234:~ jwc137$ port installed ifeffit p5.16-ifeffit demeter-devel* The following ports are currently installed: demeter-devel @0.9.20pre10_0 demeter-devel @0.9.20-2014-06-06_0 ifeffit @1.2.11c_0+gcc48 ifeffit @1.2.13_0+gcc48 (active) p5.16-ifeffit @1.0.0_0 p5.16-ifeffit @2_0 (active) *169-231-92-234:~ jwc137$ ls -l /opt/local/bin/athena* ls: /opt/local/bin/athena: No such file or directory *169-231-92-234:~ jwc137$ ls -l /opt/local/bin/atoms* ls: /opt/local/bin/atoms: No such file or directory 169-231-92-234:~ jwc137$ ᐧ

~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Jennifer L.W. Carter

Assistant Professor Department of Materials Science and Engineering Case Western Reserve University

*500B White Building*

*10900 Euclid Ave. Cleveland, OH 44106-4901 phone: (216) 368-4214 email: jennifer.w.carter@case.edu *

On Mon, Jul 14, 2014 at 2:00 PM, Schima, Frank wrote:

...

Jennifer,

There is nothing else to do.

What is the output of the following 3 commands?

port installed ifeffit p5.16-ifeffit demeter-devel ls -l /opt/local/bin/athena ls -l /opt/local/bin/atoms

Here is the my output (on 2 different computers):

$ port installed ifeffit p5.16-ifeffit demeter-devel The following ports are currently installed: demeter-devel @0.9.20pre10_0 (active) ifeffit @1.2.13_0+gcc48 (active) p5.16-ifeffit @2_0 (active)

$ ls -l /opt/local/bin/athena lrwxr-xr-x 1 root admin 43 Jul 14 10:53 /opt/local/bin/athena -> /opt/local/libexec/perl5.16/sitebin/dathena

$ ls -l /opt/local/bin/atoms lrwxr-xr-x 1 root admin 45 Jul 14 10:53 /opt/local/bin/atoms -> /opt/local/libexec/perl5.16/sitebin/atoms-gui

As for that perl command, make sure you are using Macports perl.

$ which perl /opt/local/bin/perl

-Frank

On Jul 14, 2014, at 2:47 PM, Jennifer Carter wrote:

Frank,

I followed the instructions for updating a current version, but now when I type "athena" or "atoms" in the terminal I get the message "command not found" am I missing a step?

running perl -e 'use Demeter; print $INC{"Demeter.pm"}, $/'

indicates that nothing was installed.

Thanks Jennifer ᐧ

~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Jennifer L.W. Carter

Assistant Professor Department of Materials Science and Engineering Case Western Reserve University

*500B White Building*

*10900 Euclid Ave. Cleveland, OH 44106-4901 phone: (216) 368-4214 email: jennifer.w.carter@case.edu *

On Mon, Jul 14, 2014 at 1:04 PM, Schima, Frank wrote:

...

Mac OS X users,

Thanks to help from Bruce Ravel and Matt Newville, I have updated ifeffit and Demeter-devel in Macports to fix a number of problems reported.

To update from your current version type the following:

sudo port selfupdate sudo port upgrade outdated

To install from scratch after installing Macports [1]:

sudo port selfupdate sudo port install demeter-devel

When done, your should see the following ports installed:

$ port installed ifeffit p5.16-ifeffit demeter-devel The following ports are currently installed: demeter-devel @0.9.20pre10_0 (active) ifeffit @1.2.13_0+gcc48 (active) p5.16-ifeffit @2_0 (active)

Please reply to the list (NOT to me directly) about how this works for you.

Cheers! Frank

[1] https://www.macports.org/install.php

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