[Ifeffit] demeter-devel: Athena autosave hang issue

2014-07-16 Thread Jennifer Carter
Installed the newest version of the software for the Mac OS X earlier this
week.

v129-22-124-229:~ jwc137$ port installed ifeffit p5.16-ifeffit demeter-devel

The following ports are currently installed:

  demeter-devel @0.9.20pre10_0 (active)

  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)


Now when I try to run athena the software hangs on an autosave file. I am
unable to click either button the the pop-up menu to advance the software
and I get the application not responding error. I searched for an
athena.autosave file, as discussed in a previous thread about this issue,
but don't find one.


v129-22-124-229:~ jwc137$ find athena.autosave

find: athena.autosave: No such file or directory


Cheers

Jennifer
ᐧ
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Re: [Ifeffit] demeter-devel: Athena autosave hang issue

2014-07-16 Thread Jennifer Carter
Bruce,

I don't have an Athena.autosave (or athena.autosave), or a demeter.ini (or
Demeter.ini) as checked using find FileName in the terminal

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 44106-4901phone: (216)
368-4214email: jennifer.w.car...@case.edu jennifer.w.car...@case.edu*


On Wed, Jul 16, 2014 at 7:51 AM, Bruce Ravel bra...@bnl.gov wrote:

 On 07/16/2014 10:17 AM, Jennifer Carter wrote:

 Now when I try to run athena the software hangs on an autosave file. I
 am unable to click either button the the pop-up menu to advance the
 software and I get the application not responding error. I searched
 for an athena.autosave file, as discussed in a previous thread about
 this issue, but don't find one.


 v129-22-124-229:~ jwc137$ find athena.autosave

 find: athena.autosave: No such file or directory


 A few different sorts of answers:

 1.  Try find -iname athena.autosave to search case insensitively.
 Or try find Athena.autosave.

 2.  Edit (in a text editor) $HOME/.horae/demeter.ini, search for the
 [athena] section, set 'autosave' to 'false'.

 I don't really recommend this.  Turning off the autosave feature
 seems like a bad idea.

 3.  This is the second example of a dialog control hanging on the Mac.
 The control in question this time certainly does not hang on linux
 or Windows.  And if this control does not work, then many parts of
 Athena and Artemis will be broken.  This dialog is used anytime
 one of the programs needs to ask a yes/no question.  There's a lot
 of those.

 It's tough for me to figure out Mac-specific problems without
 help.  I'd need a patient volunteer to help track this down.

 B


 --
  Bruce Ravel   bra...@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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Re: [Ifeffit] Macports ifeffit and Demeter Update

2014-07-14 Thread Jennifer Carter
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 44106-4901phone: (216)
368-4214email: jennifer.w.car...@case.edu jennifer.w.car...@case.edu*


On Mon, Jul 14, 2014 at 1:04 PM, Schima, Frank frank.sch...@nist.gov
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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Re: [Ifeffit] Macports ifeffit and Demeter Update

2014-07-14 Thread Jennifer Carter
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.car...@case.edu jennifer.w.car...@case.edu*


On Mon, Jul 14, 2014 at 2:46 PM, Schima, Frank frank.sch...@nist.gov
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 jwc...@case.edu 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.car...@case.edu jennifer.w.car...@case.edu*


 On Mon, Jul 14, 2014 at 2:00 PM, Schima, Frank frank.sch...@nist.gov
 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 jwc...@case.edu 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.car...@case.edu jennifer.w.car...@case.edu*


 On Mon, Jul 14, 2014 at 1:04 PM, Schima, Frank frank.sch...@nist.gov
 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

Re: [Ifeffit] Athena/Artemis/Atoms OSX (10.9.3) issues

2014-07-11 Thread Jennifer Carter
Frank and Bruce,

Frank and Bruce, thanks for your fast response. I downloaded demeter-devel,
which fixed both problems (since it appears to have also deleted the
autosave file).

*Now Athena is hanging on the tip of the day.*

I found the archive thread on this topic from 07/03/14
http://www.mail-archive.com/ifeffit@millenia.cars.aps.anl.gov/msg04471.html

but I can't seem to find the demeter.ini file  to change the tips
parameter to false.
1) I tried using the search function in the Finder
2) I also used the terminal to find the demeter folder:

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


Is there a better method of finding this file so that I can fixe the tips
hanging problem?

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 44106-4901phone: (216)
368-4214email: jennifer.w.car...@case.edu jennifer.w.car...@case.edu*


On Fri, Jul 11, 2014 at 9:36 AM, Bruce Ravel bra...@bnl.gov wrote:


 The second issue is known and has been discussed on the mailing list. It's
 one o fthe main reasons Frank made the demeter-devel package:


 http://www.mail-archive.com/ifeffit@millenia.cars.aps.anl.
 gov/msg04404.html

 As for the first issue, I am not clear what exactly is happening.  This
 works as expected, at least on my linux machine.  Are you not able to press
 either of the buttons on the dialog?  Do you press one or the other and it
 hangs?  Does the dialog not appear on the screen?

 What happens if you simply delete the autosave file?  (It should be
 $HOME/.horae/stash/Athena.autosave)

 B



 On 07/11/2014 10:19 AM, Jennifer Carter wrote:

 I am running into the following issues (screen shots for each are
 attached)

 *1st) starting athena from the terminal*


 I get the following message but the software hangs (rainbow wheel of
 death) and I am unable to advance to the main page

 Athena found and autosave file. Would you like to import

 I tried uninstalling in terminal:sudo port uninstall xorg-server demeter
 and reinstalling in terminal:sudo port install xorg-server demeter

 but the program still hangs


 *2nd) The screens for artemis and atoms have black backgrounds so that
 the text is hidden.*

 As a new user I am having a hard time using the software in a semi-blind
 mode.

 Thanks
 Jennifer

 ~
 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.car...@case.edu mailto:jennifer.w.car...@case.edu/
 Inline image 3

 Inline image 4


 ᐧ


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 --
  Bruce Ravel   bra...@bnl.gov

  National Institute of Standards and Technology
  Synchrotron Science Group at NSLS --- Beamlines U7A, X24A, X23A2
  Building 535A
  Upton NY, 11973

  Homepage:http://xafs.org/BruceRavel
  Software:https://github.com/bruceravel
  Demeter: http://bruceravel.github.io/demeter/
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Re: [Ifeffit] Athena/Artemis/Atoms OSX (10.9.3) issues

2014-07-11 Thread Jennifer Carter
Bruce,

Not frustrated...

I changed the variable=tips to default=false in athena.demeter_conf
file with and without changing restart=1 to restart=0 with no change in
the opening of the tips screen on the starting of Athena.

Will the update of the -devel package be announced to the mailing list or
should I just periodically check the demeter website?
ᐧ

Jennifer


On Fri, Jul 11, 2014 at 10:44 AM, Bruce Ravel bra...@bnl.gov wrote:

 On 07/11/2014 11:30 AM, Jennifer Carter wrote:

 but I can't seem to find the demeter.ini file  to change the tips
 parameter to false.


 It should be at $HOME/.horae/demeter.ini

 However, if you have never run Athena, then the tip dialog may show up
 before the .ini file gets written.  Hmmm...

 If so, then you need to find the athena.demeter_conf file with is
 under the place found by


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

 in Demeter/configuration/.  Near the top is a line that says
 variable=tips.  Soon after that is a line that says default=true.
 Edit true to false and try again.


 I am sorry I cannot be more helpful and less command-line-y, but I
 just don't own a Mac.  This is the best I can do.

 Or you can wait a few more days until the -devel package gets updated.

 I am sorry if this is frustrating for you.  I am working on it just as
 fast as I can.


 B


 --
  Bruce Ravel   bra...@bnl.gov

  National Institute of Standards and Technology
  Synchrotron Science Group at NSLS --- Beamlines U7A, X24A, X23A2
  Building 535A
  Upton NY, 11973

  Homepage:http://xafs.org/BruceRavel
  Software:https://github.com/bruceravel
  Demeter: http://bruceravel.github.io/demeter/
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