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CCP4BB  September 2010

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Subject:

Re: Whither pymol?

From:

"Herbert J. Bernstein" <[log in to unmask]>

Reply-To:

Herbert J. Bernstein

Date:

Tue, 21 Sep 2010 23:07:35 -0400

Content-Type:

text/plain

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Parts/Attachments

text/plain (171 lines)

Dear Colleagues,

   There is a nice pymol source code repository on sourceforge at

http://pymol.svn.sourceforge.net/viewvc/pymol/

and you can make perfectly reasonable builds from that source.  I
append a copy of the license in that repository below.  The terms
are quite simple and reasonable.

   The debian pymol 1.2r2 release (with source tarball) is available
at http://packages.debian.org/unstable/pymol

   http://ftp.de.debian.org/debian/pool/main/p/pymol/

has 1.1 and 1.2r2 kits.

Personally, I find the debian 1.2r2 kit the most useful one.

   If you don't go in for do-it-yourself, you should contact schroedinger
(see http://www.schrodinger.com/products/14/25/).  Try Jason Vertrees
([log in to unmask]).  I am sure he will reassure you
about not having to deal with the "copyright police."

   Regards,
     Herbert

Open-Source PyMOL Copyright Notice
   ==================================


   The Open-Source PyMOL source code is copyrighted, but you can freely
   use and copy it as long as you don't change or remove any of the
   Copyright notices. The Open-Source PyMOL product is made available
   under the following open-source license terms:


   ----------------------------------------------------------------------
   Open-Source PyMOL is Copyright (C) Schrodinger, LLC.


   All Rights Reserved


   Permission to use, copy, modify, distribute, and distribute modified
   versions of this software and its built-in documentation for any
   purpose and without fee is hereby granted, provided that the above
   copyright notice appears in all copies and that both the copyright
   notice and this permission notice appear in supporting documentation,
   and that the name of Schrodinger, LLC not be used in advertising or
   publicity pertaining to distribution of the software without specific,
   written prior permission.


   SCHRODINGER, LLC DISCLAIMS ALL WARRANTIES WITH REGARD TO THIS SOFTWARE,
   INCLUDING ALL IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS. IN
   NO EVENT SHALL SCHRODINGER, LLC BE LIABLE FOR ANY SPECIAL, INDIRECT OR
   CONSEQUENTIAL DAMAGES OR ANY DAMAGES WHATSOEVER RESULTING FROM LOSS
   OF USE, DATA OR PROFITS, WHETHER IN AN ACTION OF CONTRACT, NEGLIGENCE
   OR OTHER TORTIOUS ACTION, ARISING OUT OF OR IN CONNECTION WITH THE
   USE OR PERFORMANCE OF THIS SOFTWARE.
   ----------------------------------------------------------------------


   PyMOL Trademark Notice
   ======================

   PyMOL(TM) is a trademark of Schrodinger, LLC. Derivative
   software which contains PyMOL source code must be plainly
   distinguished from any and all PyMOL products distributed by Schrodinger,
   LLC in all publicity, advertising, and documentation.


   The slogans, "Includes PyMOL(TM).", "Based on PyMOL(TM) technology.",
   "Contains PyMOL(TM) source code.", and "Built using PyMOL(TM).", may
   be used in advertising, publicity, and documentation of derivative
   software provided that the notice, "PyMOL is a trademark of Schrodinger,
   LLC.", is included in a footnote or at the end of the
   document.


   All other endorsements employing the PyMOL trademark require specific,
   written prior permission.




At 7:10 PM -0700 9/21/10, William G. Scott wrote:
>Hi Citizens:
>
>I have an invoice for a PyMol academic 3 year subscription through 
>March 31, 2011, invoice #2794.
>
>When I enter my subscription access credentials into the pymol.org 
>web server, nothing happens. 
>
>The source code is no longer at http://sourceforge.net/projects/pymol/files/
>
>Bummer.
>
>A directory appears that is labelled "files_are_at_pymol_dot_org"
>
>The link at http://pymol.org/dsc/, which accepts my access 
>credentials, but does nothing, has the following text at the bottom:
>
>Open Source Project and Code
>PyMOL on SourceForge: http://sourceforge.net/projects/pymol/.
>PyMOL Source Code on SourceForge: 
>http://sourceforge.net/projects/pymol/develop.
>
>I went in circles a couple of times before I realized I was lost in the woods.
>
>In fact, the only source-code I can find for pymol is on the fink 
>mirror, for the OS X fink package I have been maintaining, i.e.,
>
>http://distfiles.master.finkmirrors.net/pymol-1.3-src.tar.bz2
>
>Funny thing is, when I use this "open source" code to build pymol, 
>and fire the thing up, I get the attached splash screen that says 
>"Open-Source PyMOL(TM)" [sic] and then goes on to explain what I 
>just built is an "Executable Build available only to PyMOL Power, 
>Casual, and Developer Users who have a valid license ..."
>
>
>Attachment converted: Macintosh HD:Screen shot 2010-09-#80D52E.png 
>(PNGf/«IC») (0080D52E)
>
>
>Now, admittedly, I'm not the brightest crayon in the box, but all 
>this this has really left me scratching my head.
>
>I'd sure hate to be led off in handcuffs by the international 
>copyright police for building Open-Source PyMOL(TM).
>
>Ironically, I even paid for it.
>
>Or so I had thought.
>
>Peace and joy,
>
>Bill
>
>
>
>
>
>
>William G. Scott
>Professor
>Department of Chemistry and Biochemistry
>and The Center for the Molecular Biology of RNA
>228 Sinsheimer Laboratories
>University of California at Santa Cruz
>Santa Cruz, California 95064
>USA
>
>phone:  +1-831-459-5367 (office)
>               +1-831-459-5292 (lab)
>fax:        +1-831-4593139  (fax)


-- 
=====================================================
  Herbert J. Bernstein, Professor of Computer Science
    Dowling College, Kramer Science Center, KSC 121
         Idle Hour Blvd, Oakdale, NY, 11769

                  +1-631-244-3035
                  [log in to unmask]
=====================================================

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