Hi Marcus,
It's:
Distributor ID: Ubuntu
Description: Ubuntu 12.10
Release: 12.10
Codename: quantal
and
Avogadro:
Application 1.03
If you open Avogadro and build a molecule, you can select all (or partially)
atoms, copy-n-paste it. That works fine. It is when you copy coordinates from
a terminal window into Avogadro that is the problem. It works fine to paste
those coordinates into Avogadro. It's now the problem comes around. Copying and
pasting in Avogadro now only results in pasting the coordinates copied from the
Terminal window that is stored in the buffer, clipboard.. oo whatever it's
called. The list that stores the coordinates doesn't get updated. It's a
problem that makes me not being able to use Avogadro under Ubuntu.
On mac I have had other problems. The program crashes every time I am trying to
paste coordinates into Avogadro or paste them into, say, Emacs. I have tried to
remove Avogadro from the Mac and re-installed it. but the problem persists on
that machine. I used Avogadro for 1 1/2 year on it until this now happens. Is
it a memory allocation problem of some sort?
I love Avogadro and use it every day. best program around. It's just that it
bugs and crashes...
regards,
Fredrik
> Date: Sat, 19 Jan 2013 14:49:53 -0500
> From: marcus.hanw...@kitware.com
> To: avogadro-discuss@lists.sourceforge.net
> Subject: Re: [Avogadro-Discuss] cut-n-paste in Avogadro running on Ubuntu
>
> On Sat, Jan 19, 2013 at 1:23 PM, Marcus D. Hanwell
> <marcus.hanw...@kitware.com> wrote:
> > Hi,
> >
> > On Sat, Jan 19, 2013 at 10:52 AM, fredrik haeffner
> > <jfhaeff...@hotmail.com> wrote:
> >> Hi!
> >>
> >> Avogadro's cut-n-paste doesn't work for me running on Ubuntu. Yes, you can
> >> copy a XYZ-file from a terminal window and paste it into Avogadro. However,
> >> say, you select 3 atoms in Avogadro and copy-n-paste it in the same
> >> Avogadro
> >> window, it keeps pasting what was orginally stored (from the Terminal
> >> window). Otherwise it seems to work great.
> >
> > Could you let me know what version of Avogadro and Ubuntu this is on?
> > I don't use Ubuntu myself, but there are a few people in the office
> > who do so I could likely take a look. It works fine here on Linux
> > using Avogadro's master from today (Arch Linux 64 bit). That code has
> > not changed very much, but I know Ubuntu is probably still on Avogadro
> > 1.0.3 or so.
> >>
> >> I have been using Avogadro for years on Mac OS-X and the program is very
> >> unstable, that's why I decided to give Ubuntu a go.
> >>
> >> It would be great to hear from someone about this!
> >>
> > We have tried to reduce crashes, and with Avogadro 2 rewrite that is
> > something I am focusing on - a stable and well tested core. Work is
> > progressing well there, but it is not ready to replace Avogadro 1 yet.
> > The copy/paste code has not changed much, and I use that functionality
> > quite regularly on Linux.
> >
> Another point I just remembered about Ubuntu - they tend to break the
> Open Babel package up, I have looked at other people's systems where
> installing all of the Open Babel packages made several features work
> (I think missing data files is one culprit). This may have improved,
> if not we should try and get in touch with the Ubuntu developer to get
> them to adjust the dependencies of the Avogadro package.
>
> Marcus
>
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