[Chimera-users] Rapid Access - a different question/request

[Boaz Shaanan]

Hi Eric,

I actually find the Rapid Access very convenient, however I wonder: is the list limited to the n most recent sessions/pdb ? I actually am missing the option of paging further down the list to jobs that are not in the list but which are quite recent. Is there already an option to do this? The browse button does other things (at list in my hands).

 Cheers,

            Boaz


Boaz Shaanan, Ph.D.
Dept. of Life Sciences
Ben-Gurion University of the Negev
Beer-Sheva 84105
Israel

E-mail: bshaanan at bgu.ac.il
Phone: 972-8-647-2220  Skype: boaz.shaanan
Fax:   972-8-647-2992 or 972-8-646-1710





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From: chimera-users-bounces at cgl.ucsf.edu [chimera-users-bounces at cgl.ucsf.edu] on behalf of chimera-users-request at cgl.ucsf.edu [chimera-users-request at cgl.ucsf.edu]
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Subject: Chimera-users Digest, Vol 112, Issue 6

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Today's Topics:

   1. Modelling of missing regions ussing Chimera (Gleb Novicov)
   2. (no subject) (Merced Malabanan)
   3. Re: Rapid Access file list (Eric Pettersen)


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Message: 1
Date: Sat, 4 Aug 2012 15:44:12 +0400
From: Gleb Novicov <gnovikov87 at gmail.com>
To: chimera-users at cgl.ucsf.edu
Subject: [Chimera-users] Modelling of missing regions ussing Chimera
Message-ID:
        <CAN=J6WkT9_GH8YYT8U=Nbt-3hhor_YvNHrndwXK6L4ix75uHvA at mail.gmail.com>
Content-Type: text/plain; charset="iso-8859-1"

Dear Chimera's users!


I need to model some missing segments ( In particular case I need to build
missing N and C termi ) of my protein ussing Modeller's options.  Could you
tell me about possible solution of that issue ?


On my win7 I have installed Chimera as well as Modeller v 9.10 suite.

I've defined Modeller pathways in the Chimera's Model pool options but when
I've selected option Prune seection to define region of interest I didnt
obtain anythinf from both of Chimera or Modeller. On other hand the option
Structure -> Modeller tools also not available for me. Does it means that
I've installed modeller incorrectly ?

Also I've used  runmod.dat script with defined variables from which I
obtained the below

C:\Users\own\Desktop\worktemp>runmod.bat
usage: mod9.10 script [...]

Doest this means that all work fine ?

By the way after executing of that script I could not launch modeller by
means of mod9.10.exe from modeller folder. The error from modeller was

C:\Program Files\Modeller\bin>mod9.10.exe
FATAL ERROR: MODINSTALL9v10 environment variable not set: incomplete
MODELLER in
stallation


Could you explain me whats I've done wrong and how I could fix this problem?

Thanks for help

Gleb
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Message: 2
Date: Sun, 5 Aug 2012 22:57:31 -0400
From: Merced Malabanan <mmu4 at buffalo.edu>
To: chimera-users at cgl.ucsf.edu
Subject: [Chimera-users] (no subject)
Message-ID:
        <CACZ6DD870yvJvwBw7ohxhsusQ66S4SwP-QKqqGuOjA5rKNtobw at mail.gmail.com>
Content-Type: text/plain; charset="iso-8859-1"

Hi,

I'm trying to get used to the new Rapid Access interface of chimera. But
how do you remove the list (or items on the list) on the right side of the
interface?

Thanks.
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Message: 3
Date: Mon, 6 Aug 2012 11:11:16 -0700
From: Eric Pettersen <pett at cgl.ucsf.edu>
To: Merced Malabanan <mmu4 at buffalo.edu>
Cc: chimera-users at cgl.ucsf.edu
Subject: Re: [Chimera-users] Rapid Access file list
Message-ID: <DA3D7EC8-5E7D-4C69-AAE3-BE7AFD0761C5 at cgl.ucsf.edu>
Content-Type: text/plain; charset="us-ascii"

On Aug 5, 2012, at 7:57 PM, Merced Malabanan wrote:

> Hi,
>
> I'm trying to get used to the new Rapid Access interface of chimera. But how do you remove the list (or items on the list) on the right side of the interface?

Since the file list is typically the most useful thing in the interface, I guess I'm mystified as to why you would want to remove it. Could you describe your motivation for wanting to get rid of the list/items a little more?

--Eric

                        Eric Pettersen
                        UCSF Computer Graphics Lab
                        http://www.cgl.ucsf.edu


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