Here's what I do:
(let ((initial-buffer (current-buffer))
          (agenda-window (selected-window))
          right-window)
      ;; We're still in the root window.
      (set-frame-size (selected-frame) 162 50) ; resize the aquamacs window.
      (org-agenda nil "0")
      (tabbar-close-tab                 ; close *scratch* tab.
       (tabbar-get-tab (get-buffer "*scratch*")
                       (tabbar-current-tabset)))
      (setq right-window (split-window-horizontally 80)) ; make the right window.
      (select-window right-window)
      ;; whatever buffer we started in, make it appear in the right side.
      (switch-to-buffer initial-buffer)
      (select-window agenda-window) ; go back to the agenda.
      )

The call to org-agenda is just a custom block view.
I end up with the agenda on the left, and some initial, other buffer on the right.  No scratch or anything else visible.
Seems to work for me.

Cheers.
Fil

On 17 March 2011 06:34, Matthew Sauer <improv.philosophy@gmail.com> wrote:
No, that still gives me the scratch buffer over the top and the the two windows I want down below.  When I had the startup page activated it would override one of the two buffers that I had selected but for some reason the scratch buffer is dividing the screen horizontally and place itself over the top of the two buffers I open at the end of .emacs

Going to have to look at some of the emacs documentation.   What I am trying to create is a bit of elisp magic that will open the agenda on the right buffer and my refile.org (with everything I have captured that needs sent to a home and some dblocks with recently opened items and maybe another one with my unscheduled todo's.

Matthew

On Wed, Mar 16, 2011 at 11:45 AM, Nick Dokos <nicholas.dokos@hp.com> wrote:
Matthew Sauer <improv.philosophy@gmail.com> wrote:

> Okay, so I have been working on some ideas for a customization file for startup, an org-agenda,
> recently modified and maybe unscheduled todo's . . accessible via a function key and at startup. 
> Kind of a "home screen".   I have it working fine when I run the code but my problem is that when I
> have it run in .emacs on startup it comes up (agenda on the right and my other chosen buffer on the
> left (last code in my .emacs to be run) and then the screen is split horizontal and the scratch
> buffer opens on the top.  For me this isn't the desired behavior, didn't know if anyone knew how to
> turn off emacs opening into a file or if I should move this code to another location because emacs
> is running something to open that after it goes through .emacs???  or is that just a behavior that
> is going to occur?
>  

Add

 (setq inhibit-splash-screen t)

to your .emacs and see if that solves your problem. You might also need one
of the packages that can restore a saved window configuration on startup
if you have complicated goings-on.

Nick




--
Filippo A. Salustri, Ph.D., P.Eng.
Mechanical and Industrial Engineering
Ryerson University
350 Victoria St, Toronto, ON
M5B 2K3, Canada
Tel: 416/979-5000 ext 7749
Fax: 416/979-5265
Email: salustri@ryerson.ca
http://deseng.ryerson.ca/~fil/