Python-based Hierarchical ENvironment for Integrated Xtallography |
(.) The binary for Mac OS X Tiger was compiled and kindly provided by Yao He. (.) The binary for Mac OS X Mountain Lion was compiled and kindly provided by Mark Brooks. (.) The binary for Mac OS X Snow Leopard was compiled and kindly provided by Kip Guja. Mtz2sca is compiled using the GPP4 library for reading mtz-file. Coot free download. CoCOOT CoCOOT is an extended collaboration system of COOT(Crystallographic Object Oriendted Toolit). Mac (3) Modern (2) Linux (2) OS X (1.
The latest gfortran binaries are available from the gfortran wiki, R for Mac OS X' (my preference), HPC on Mac OSX and fink. Note, it is not advisable to use gfortran 4.0 pre 4.0.2 to compile the ccp4 suite. X11: if X is wanted. Install X11.app and the additional X11 SDK from the OS X installation media. Download Coot - Toolkit for macromolecular model building. Coot (Crystallographic Object-Oriented Toolkit) is an Open Source tool that manages to display maps and models.
Instructions for installing external software interfacing with PHENIX
Coot
Coot is the standard programfor model-building into density, written chiefly by Paul Emsley. Theextensions included with the PHENIX GUIallow control of Coot from PHENIX, including automatic loading of models andmaps. This requires a build of Coot that includes a working Pythoninterpreter; if the PHENIX extensions are not functioning, this is almostcertainly due to the lack of Python in the Coot build. Note: the installersavailable on the CCP4 web page have not worked with PHENIX in the past; asof May 2011, the Mac installer appears to be fine, but you will need to specifythe path (/Applications/coot.app) in the PHENIX preferences.
- For Linux:
We recommend downloading installers directly fromPaulEmsley's web page. Any file with 'python' in the name is suitable for usewith PHENIX. Most of these will work on other OSes than those named, but wehaven't tested them extensively. - For Mac:
Two options are available: use the Finkpackage manager, or download a standalone installation. Both aredescribed on Bill Scott's web page. Note that you will need to berunning Snow Leopard (OS 10.6) to use many of these, but some obsolete (butstill functional) builds of Coot for older OSes are available. The builds arenow nightly, and include both command-line and graphical installers. For older versions ofMac OS (10.4 or 10.5), the more recent packages do not work with PHENIX, soyou will need to use the obsoleteCoot 0.6 build.
To run Coot from the PHENIX GUI, you will either need to have the 'coot'executable somewhere in your shell's searchpath, or enter it inPreferences->Graphics->Full path to Coot. A few specific paths are searchedautomatically. On Mac, most installations should be automatically detected,but you may need to set the path explicitly to ensure that the correct versionis used.
See Full List On Www2.mrc-lmb.cam.ac.uk
PyMOL
PyMOL is a popular open-source moleculargraphics program, written by the late Warren DeLano and now maintained bySchrodinger. We distribute anobsolete binary build of PyMOL (version 0.99) with PHENIX, but this islacking some significant features and we recommend that you use the newestrelease. A variety of options are available for both Linux and Mac, includinginstallation via some package managers (Fink, and some Linux distributions),custom installation from source, or proprietary builds (with additionalfeatures) purchased from Schrodinger. Either open-source or proprietaryversions should work well with PHENIX. (We mostly test with MacPyMOL version1.2.)
As with Coot, you may have to point PHENIX to the PyMOL executable (inPreferences->Graphics->Full path to PyMOL) if it is not found automatically.On Mac, it will use /Applications/MacPyMOL.app if present.
Apple - Support - Downloads
I stayed at a hotel in San Francisco and in their lobby were two iMacs for the guests to use, which I thought was definitely different but cool. The iMacs had an option on the screen for guest to choose whether they want to use Mac OS X or Windows XP. This startup option that I am referring to was not the regular hold down the option key and see the startup disks but more like a software or boot loader on the computer. Once you picked your platform of choice, the iMac would boot in that platform - literally boot and not a virtual boot in that platform. So, I knew the iMac was using Boot Camp but I did not know how or what software was used for the startup option.
My question to you is do you know of a setting in the Mac OS or a boot loader software that will allow this?
My question to you is do you know of a setting in the Mac OS or a boot loader software that will allow this?
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MacPro 3 GHz Dual-Core Intel Xeon, Mac OS X (10.5.7), 5GB RAM
Coot Mac Os X Download
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