Oops. That sounds like I introduced some problem with the shelx python module. Fixed it now. Shall be available soon.
B *************************************************** Dr. Bernhard Lohkamp Assistant Professor Div. Molecular Structural Biology Dept. of Medical Biochemistry and Biophysics (MBB) Karolinska Institutet S-17177 Stockholm Sweden phone: (+46) 08-52487673 fax: (+46) 08-327626 email: [email protected] ----- Original Message ----- From: Phil Evans <[email protected]> Date: Monday, March 30, 2009 12:30 pm Subject: Re: [COOT] problems with coot-0.6 To: [email protected] > Following these problems with the stand-alone version, I did a load > of > fink updatery (which I always find pretty confusing), ending up > with > "fink -b install coot" which has now installed coot 0.6-pre-1-1941. > > This version (/sw/bin/coot) works OK, though the fonts in the menus > > etc are different & smaller than I had before in 0.5.2 (which > worked > from the stand-alone install in /usr/local/xtal/coot) > > Just one warning in start-up > > Loading: shelx.py > /sw/share/coot/python/shelx.py:580: SyntaxWarning: import * only > allowed at module level > def read_shelx_project(file_name): > > still confused, but this will do > > thanks > Phil > > > On 29 Mar 2009, at 19:02, Phil Evans wrote: > > > On 29 Mar 2009, at 17:11, Ralf W. Grosse-Kunstleve wrote: > > > >> Hi Bill, > >> > >>> Phil Evans is having the problems you reported earlier with > this > >>> one. > >>> So I am completely stumped. > >>> > >>> I'd like to figure out what is different between your > installation > >>> and > >>> his. What X11 version, > >> > >> XQuartz 2.3.1 (xorg-server 1.4.2-apple17) > > > > Same for me > > > >> > >> > >>> OS X version > >> > >> % sw_vers > >> ProductName: Mac OS X > >> ProductVersion: 10.5.6 > >> BuildVersion: 9G55 > > > > Mac OS X 10.5.6 (9G55) > > > >> > >> > >>> and machine are you using, and > >> > >> Model Name: MacBook Pro > >> Model Identifier: MacBookPro4,1 > >> Processor Name: Intel Core 2 Duo > >> Processor Speed: 2.5 GHz > >> Number Of Processors: 1 > >> Total Number Of Cores: 2 > > > > Model Name: MacBook Pro 15" > > Model Identifier: MacBookPro2,2 > > Processor Name: Intel Core 2 Duo > > Processor Speed: 2.33 GHz > > Number Of Processors: 1 > > > > > >> > >> > >>> how do you invoke coot (if from command line, what user shell). > >> > >> source /usr/local/xtal/coot/bin/init.csh > >> coot > > > > /usr/local/xtal/coot/bin/coot > > > > > >> > >> > >>> Do you have $DYLIB_LIBRARY_PATH set, and if so, to what? > >> > >> It was set like this: > >> > >> DYLD_LIBRARY_PATH=/opt/intel/fc/10.1.015/lib > >> > >> coot still works after unsetenv DYLD_LIBRARY_PATH > > > > echo $DYLD_LIBRARY_PATH > > /usr/local/CCP4versions/Clapham/ccp4-6.1.1/share/XIAROOT/xia2// > > binaries/mac_386:/usr/local/CCP4versions/Clapham/ccp4-6.1.1/lib > > > > > >> > >> > >>> Sorry for the bother, but I would like to eliminate this headache. > >> > >> No problem. Let me know if you need anything else. > >> > >> Phil, did you try temporarily moving your .cshrc or .profile or > >> similar? > > > > It still fails without these & with the DYLD_LIBRARY_PATH unset > > > > So it looks very much the same as Ralf's > > > > The previous version that I was running did work OK, it was one > of > > Bill Scott's stand-alone builds, but unfortunately I overwrote > the > > working version with this one, though I will be able to get it > back > > from my backup tomorrow > > > > Phil >
