[PyMOL] New 16 char length restriction of object names in menu?
Has the length of the object name entry in the right hand menu been
restricted to 16 characters in v1.4.x? Prior to 1.4.x there seemed to
have been no limit on the length of the entry. For instance
cmd.load("reallylongmapnamehere",
format="ccp4",object="reallylongmapnamehere") would truncate the display
of the object to "reallylongmapna". I suppose that would be fine for
some applications, but in my case I am distributing sessions, which
contain fairly long object names to be self-explanatory, so I am
dependent on this feature to work. Could this be reverted back to
unlimited or at least implement a setting controlling the length of the
entry?
Thanks
Carsten
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Re: [PyMOL] New 16 char length restriction of object names in menu?
Hi Carsten, > Has the length of the object name entry in the right hand menu been > restricted to 16 characters in v1.4.x? Prior to 1.4.x there seemed to have > been no limit on the length of the entry. There is no such limit on the length of names. > For instance > cmd.load(“reallylongmapnamehere”, > format=”ccp4”,object=”reallylongmapnamehere”) would truncate the display of > the object to “reallylongmapna”. I suppose that would be fine for some > applications, but in my case I am distributing sessions, which contain > fairly long object names to be self-explanatory, so I am dependent on this > feature to work. Could this be reverted back to unlimited or at least > implement a setting controlling the length of the entry? You have a few options. If you want to hide the state-counter to get a few more characters on the line just "set state_counter_mode, 0". Alternatively, you could just increase the internal_gui_width--eg set internal_gui_width, 300 Cheers, -- Jason -- Jason Vertrees, PhD PyMOL Product Manager Schrodinger, LLC (e) jason.vertr...@schrodinger.com (o) +1 (603) 374-7120 -- What Every C/C++ and Fortran developer Should Know! Read this article and learn how Intel has extended the reach of its next-generation tools to help Windows* and Linux* C/C++ and Fortran developers boost performance applications - including clusters. http://p.sf.net/sfu/intel-dev2devmay ___ PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net) Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net
Re: [PyMOL] pymol 1.4.1 (incentive), segfault upon "help->about"
Hi Joachim, > I always get a segmentation fault, when I click "help"->"about" to see the > version details of pymol. The respective entry in /var/log/messages is: > > pymol.exe[4991]: segfault at 3e0019b ip f74857a0 sp f3bab9a8 > error 4 in libtcl8.5.so[f741+ed0 > 00] Indeed on a few Linux distros, there is a crash when selecting Help > About. We're trying to track down the cause. The error happens in our pure Python code and the segfault happens in the libtcl8.5 shared library. If you're checking for the PyMOL version number, please use "get_version" in the meantime. Cheers, -- Jason -- Jason Vertrees, PhD PyMOL Product Manager Schrodinger, LLC (e) jason.vertr...@schrodinger.com (o) +1 (603) 374-7120 -- What Every C/C++ and Fortran developer Should Know! Read this article and learn how Intel has extended the reach of its next-generation tools to help Windows* and Linux* C/C++ and Fortran developers boost performance applications - including clusters. http://p.sf.net/sfu/intel-dev2devmay ___ PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net) Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net
Re: [PyMOL] New 16 char length restriction of object names in menu?
Hi Carsten, I'd like to follow up on this. There is no character limit, but there is a bug. PyMOL is inappropriately clipping names in groups if the internal GUI cuts off the end of the name. The current workaround for your sessions is to expand the internal_gui to show the names, and then save your session. I'll look into fixing this ASAP. Cheers, -- Jason On Thu, May 19, 2011 at 11:33 AM, Jason Vertrees wrote: > Hi Carsten, > >> Has the length of the object name entry in the right hand menu been >> restricted to 16 characters in v1.4.x? Prior to 1.4.x there seemed to have >> been no limit on the length of the entry. > > There is no such limit on the length of names. > >> For instance >> cmd.load(“reallylongmapnamehere”, >> format=”ccp4”,object=”reallylongmapnamehere”) would truncate the display of >> the object to “reallylongmapna”. I suppose that would be fine for some >> applications, but in my case I am distributing sessions, which contain >> fairly long object names to be self-explanatory, so I am dependent on this >> feature to work. Could this be reverted back to unlimited or at least >> implement a setting controlling the length of the entry? > > You have a few options. > > If you want to hide the state-counter to get a few more characters on > the line just "set state_counter_mode, 0". Alternatively, you could > just increase the internal_gui_width--eg > > set internal_gui_width, 300 > > Cheers, > > -- Jason > > -- > Jason Vertrees, PhD > PyMOL Product Manager > Schrodinger, LLC > > (e) jason.vertr...@schrodinger.com > (o) +1 (603) 374-7120 > -- Jason Vertrees, PhD PyMOL Product Manager Schrodinger, LLC (e) jason.vertr...@schrodinger.com (o) +1 (603) 374-7120 -- What Every C/C++ and Fortran developer Should Know! Read this article and learn how Intel has extended the reach of its next-generation tools to help Windows* and Linux* C/C++ and Fortran developers boost performance applications - including clusters. http://p.sf.net/sfu/intel-dev2devmay ___ PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net) Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net
Re: [PyMOL] New 16 char length restriction of object names in menu?
Hi Jason,
thanks for the follow-up. Let us know when the issue is fixed.
Cheers,
Carsten
> -Original Message-
> From: Jason Vertrees [mailto:jason.vertr...@schrodinger.com]
> Sent: Thursday, May 19, 2011 12:11 PM
> To: Schubert, Carsten [PRDUS]
> Cc: pymol-users@lists.sourceforge.net; h...@schrodinger.com
> Subject: Re: [PyMOL] New 16 char length restriction of object names in
> menu?
>
> Hi Carsten,
>
> I'd like to follow up on this. There is no character limit, but there
> is a bug. PyMOL is inappropriately clipping names in groups if the
> internal GUI cuts off the end of the name. The current workaround for
> your sessions is to expand the internal_gui to show the names, and
> then save your session.
>
> I'll look into fixing this ASAP.
>
> Cheers,
>
> -- Jason
>
> On Thu, May 19, 2011 at 11:33 AM, Jason Vertrees
> wrote:
> > Hi Carsten,
> >
> >> Has the length of the object name entry in the right hand menu been
> >> restricted to 16 characters in v1.4.x? Prior to 1.4.x there seemed
> to have
> >> been no limit on the length of the entry.
> >
> > There is no such limit on the length of names.
> >
> >> For instance
> >> cmd.load("reallylongmapnamehere",
> >> format="ccp4",object="reallylongmapnamehere") would truncate the
> display of
> >> the object to "reallylongmapna". I suppose that would be fine for
> some
> >> applications, but in my case I am distributing sessions, which
> contain
> >> fairly long object names to be self-explanatory, so I am dependent
> on this
> >> feature to work. Could this be reverted back to unlimited or at
> least
> >> implement a setting controlling the length of the entry?
> >
> > You have a few options.
> >
> > If you want to hide the state-counter to get a few more characters on
> > the line just "set state_counter_mode, 0". Alternatively, you could
> > just increase the internal_gui_width--eg
> >
> > set internal_gui_width, 300
> >
> > Cheers,
> >
> > -- Jason
> >
> > --
> > Jason Vertrees, PhD
> > PyMOL Product Manager
> > Schrodinger, LLC
> >
> > (e) jason.vertr...@schrodinger.com
> > (o) +1 (603) 374-7120
> >
>
>
>
> --
> Jason Vertrees, PhD
> PyMOL Product Manager
> Schrodinger, LLC
>
> (e) jason.vertr...@schrodinger.com
> (o) +1 (603) 374-7120
--
What Every C/C++ and Fortran developer Should Know!
Read this article and learn how Intel has extended the reach of its
next-generation tools to help Windows* and Linux* C/C++ and Fortran
developers boost performance applications - including clusters.
http://p.sf.net/sfu/intel-dev2devmay
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Re: [PyMOL] pymol 1.4.1 (incentive), segfault upon "help->about"
hi "pymol" > > I always get a segmentation fault, when I click "help"->"about" to see the > > version details of pymol. The respective entry in /var/log/messages is: ... > Indeed on a few Linux distros, there is a crash when selecting Help > > About. We're trying to track down the cause. The error happens in > our pure Python code and the segfault happens in the libtcl8.5 shared > library. i compiled 1.4.1 from sources on freebsd-7.4 and 8.2 ... help->about works fine ... it also has tk/tcl-8.5.9 i didn't compile/install on centos/suse/slackware let me know if you guys want me to try poking around with those boxes i tend to run "online updates" regularly, freebsd are updated daily --- latest rasmol-2.7.2.1.1.13/jmol-11.8.24 also works nicely on freebsd-7.4 .. 8.2 is little whacky c ya alvin http://Linux-1U.net/BioChem -- What Every C/C++ and Fortran developer Should Know! Read this article and learn how Intel has extended the reach of its next-generation tools to help Windows* and Linux* C/C++ and Fortran developers boost performance applications - including clusters. http://p.sf.net/sfu/intel-dev2devmay ___ PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net) Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net
Re: [PyMOL] New 16 char length restriction of object names in menu?
Hi Carsten,
> thanks for the follow-up. Let us know when the issue is fixed.
The bug is now fixed. I have pushed the changes to the open-source
project and can release an updated build for incentive supporters.
Cheers,
-- Jason
On Thu, May 19, 2011 at 12:20 PM, Schubert, Carsten [PRDUS]
wrote:
> Hi Jason,
>
> thanks for the follow-up. Let us know when the issue is fixed.
>
> Cheers,
>
> Carsten
>
>> -Original Message-
>> From: Jason Vertrees [mailto:jason.vertr...@schrodinger.com]
>> Sent: Thursday, May 19, 2011 12:11 PM
>> To: Schubert, Carsten [PRDUS]
>> Cc: pymol-users@lists.sourceforge.net; h...@schrodinger.com
>> Subject: Re: [PyMOL] New 16 char length restriction of object names in
>> menu?
>>
>> Hi Carsten,
>>
>> I'd like to follow up on this. There is no character limit, but there
>> is a bug. PyMOL is inappropriately clipping names in groups if the
>> internal GUI cuts off the end of the name. The current workaround for
>> your sessions is to expand the internal_gui to show the names, and
>> then save your session.
>>
>> I'll look into fixing this ASAP.
>>
>> Cheers,
>>
>> -- Jason
>>
>> On Thu, May 19, 2011 at 11:33 AM, Jason Vertrees
>> wrote:
>> > Hi Carsten,
>> >
>> >> Has the length of the object name entry in the right hand menu been
>> >> restricted to 16 characters in v1.4.x? Prior to 1.4.x there seemed
>> to have
>> >> been no limit on the length of the entry.
>> >
>> > There is no such limit on the length of names.
>> >
>> >> For instance
>> >> cmd.load("reallylongmapnamehere",
>> >> format="ccp4",object="reallylongmapnamehere") would truncate the
>> display of
>> >> the object to "reallylongmapna". I suppose that would be fine for
>> some
>> >> applications, but in my case I am distributing sessions, which
>> contain
>> >> fairly long object names to be self-explanatory, so I am dependent
>> on this
>> >> feature to work. Could this be reverted back to unlimited or at
>> least
>> >> implement a setting controlling the length of the entry?
>> >
>> > You have a few options.
>> >
>> > If you want to hide the state-counter to get a few more characters on
>> > the line just "set state_counter_mode, 0". Alternatively, you could
>> > just increase the internal_gui_width--eg
>> >
>> > set internal_gui_width, 300
>> >
>> > Cheers,
>> >
>> > -- Jason
>> >
>> > --
>> > Jason Vertrees, PhD
>> > PyMOL Product Manager
>> > Schrodinger, LLC
>> >
>> > (e) jason.vertr...@schrodinger.com
>> > (o) +1 (603) 374-7120
>> >
>>
>>
>>
>> --
>> Jason Vertrees, PhD
>> PyMOL Product Manager
>> Schrodinger, LLC
>>
>> (e) jason.vertr...@schrodinger.com
>> (o) +1 (603) 374-7120
>
>
--
Jason Vertrees, PhD
PyMOL Product Manager
Schrodinger, LLC
(e) jason.vertr...@schrodinger.com
(o) +1 (603) 374-7120
--
What Every C/C++ and Fortran developer Should Know!
Read this article and learn how Intel has extended the reach of its
next-generation tools to help Windows* and Linux* C/C++ and Fortran
developers boost performance applications - including clusters.
http://p.sf.net/sfu/intel-dev2devmay
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