[phenixbb] Mac 64-bit kernel

4 Apr 2011


      Nope. I've set up to always run the 64-bit kernel. I am a bit of a Mac lover so go pretty in depth with the operating system. I think Nat fixed things. For the last many latest builds, I have always installed from the source files for linux/mac to ensure I am running at maximum memory capacity.
___________________________________________________________
Joseph P. Noel, Ph.D.
Investigator, Howard Hughes Medical Institute
Professor, The Jack H. Skirball Center for Chemical Biology and Proteomics
The Salk Institute for Biological Studies
10010 North Torrey Pines Road
La Jolla, CA  92037 USA

Phone: (858) 453-4100 extension 1442
Cell: (858) 349-4700
Fax: (858) 597-0855
E-mail: [email protected]

Web Site (Salk): http://www.salk.edu/faculty/noel.html
Web Site (HHMI): http://hhmi.org/research/investigators/noel.html
___________________________________________________________

On Apr 4, 2011, at 11:27 AM, [email protected] wrote:
...
Send phenixbb mailing list submissions to
  [email protected]
To subscribe or unsubscribe via the World Wide Web, visit
  http://phenix-online.org/mailman/listinfo/phenixbb
or, via email, send a message with subject or body 'help' to
  [email protected]
You can reach the person managing the list at
  [email protected]
When replying, please edit your Subject line so it is more specific
than "Re: Contents of phenixbb digest..."
Today's Topics:
1. Re: nqh_flips (Pavel Afonine)
  2. latest 64-bit command line build for Mac OSX 10.6.7? (Joseph Noel)
  3. Re: latest 64-bit command line build for Mac OSX 10.6.7?
     (Engin ?zkan)
  4. Re: latest 64-bit command line build for Mac OSX 10.6.7?
     (Nathaniel Echols)
  5. Re: latest 64-bit command line build for Mac OSX 10.6.7?
     (Ben Eisenbraun)
  6. Re: latest 64-bit command line build for Mac OSX 10.6.7?
     (Nathaniel Echols)
  7. Minor map-definition bug in 1.7 GUI (Joe Krahn)
  8. bug report- gui freezed (Kendall Nettles)
  9. Re: bug report- gui freezed (Nathaniel Echols)
 10. Re: Minor map-definition bug in 1.7 GUI (Nathaniel Echols)
 11. Re: latest 64-bit command line build for Mac OSX 10.6.7?
     (Nathaniel Echols)
 12. Re: latest 64-bit command line build for Mac OSX 10.6.7?
     (Ben Eisenbraun)
 13. Re: latest 64-bit command line build for Mac OSX 10.6.7?
     (Ben Eisenbraun)
 14. Modeling Disordered Domains (Damian Ekiert)
 15. Re: latest 64-bit command line build for Mac OSX 10.6.7?
     (Nathaniel Echols)
----------------------------------------------------------------------
Message: 1
Date: Sat, 02 Apr 2011 19:27:24 -0700
From: Pavel Afonine 
To: PHENIX user mailing list 
Subject: Re: [phenixbb] nqh_flips
Message-ID: <[email protected]>
Content-Type: text/plain; charset=ISO-8859-1; format=flowed
Hi Maia,
is the affected residue(s) listed within warning message in .log file 
saying that both original and flipped version do not solve the clash? If 
so, you may need to have a closer look at that residue to see what's 
wrong. Otherwise, we would be interested to see the details...
Pavel.
On 4/2/11 6:08 PM, Maia Cherney wrote:
...
Hi,
I just noticed that the nqh flips did not happen, even though the .def 
file has  nqh_flips = True.
Maia
------------------------------
Message: 2
Date: Sun, 3 Apr 2011 10:57:35 -0700
From: Joseph Noel 
To: [email protected]
Subject: [phenixbb] latest 64-bit command line build for Mac OSX
  10.6.7?
Message-ID: 
Content-Type: text/plain; charset="us-ascii"
Hi,
I was trying to install the latest nightly build but get error (shown after my salutation) when using the recommended procedure:
./install --prefix=/Applications/
Previously, I always installed from source so I could run the 64-bit version on Mac since I have some structures that require as much memory as possible. Should I just go back to that? It does take about an hour to install on my laptop. I assume this latest 64-bit option would significantly reduce the time for installation since I wouldn't be compiling from the source.
Cheers!
Joe
==========================================================================
                     PHENIX Installation
version: dev
                 release tag: 718
                machine type: mac-intel-osx-x86_64
         source machine type: mac-intel-osx
                  OS version: osx-10.6.7
                  user shell: /bin/bash
                 destination: /Applications/
=========================================================================
No binary bundles found for mac-intel-osx
bundles directory contents:
bundle-dev-718-mac-intel-osx-x86_64.tar.gz
expected one of the following:
 /Users/sandiegonoels/Downloads/2011-04-03/phenix-installer-dev-718/bundles/bundle-dev-718-mac-intel-osx.tar.gz
=============================== ERROR ===================================
No binary installer found for mac-intel-osx, installation aborted
=============================== ERROR ===================================
___________________________________________________________
Joseph P. Noel, Ph.D.
Investigator, Howard Hughes Medical Institute
Professor, The Jack H. Skirball Center for Chemical Biology and Proteomics
The Salk Institute for Biological Studies
10010 North Torrey Pines Road
La Jolla, CA  92037 USA
Phone: (858) 453-4100 extension 1442
Cell: (858) 349-4700
Fax: (858) 597-0855
E-mail: [email protected]
Web Site (Salk): http://www.salk.edu/faculty/noel.html
Web Site (HHMI): http://hhmi.org/research/investigators/noel.html
___________________________________________________________