If its an old version of Chimera, it might be the machine stamp issue, although that wouldn't explain why it works in earlier versions of Coot. Let me know if you find out more, or if you can send me the file. As I'm sure you appreciate, it is easier to debug if I can do it myself.
Cheers m From: [email protected] [mailto:[email protected]] On Behalf Of Jeff Headd Sent: 28 August 2012 00:05 To: Winn, Martyn (STFC,DL,SC) Cc: [email protected] Subject: Re: .mrc maps in Coot Hi Martyn, The map I have is from a collaborator, so I'm not sure if I'm at liberty to send it to you. Let me check on that and get back to you. The map was created by Chimera, with the origin set to zero. It works just fine in some older versions of Coot on linux that I have, but not a recent one on OS X. I'm not sure if that's because of the version, or if it's OS specific. Perhaps it's the machine stamp issue. I'm not sure what version of Chimera is being used in this case. I'll see what more I can find out and get back to you. Thanks, Jeff On Sun, Aug 26, 2012 at 1:53 PM, <[email protected]<mailto:[email protected]>> wrote: Was there any more to this? I agree with Paul that the first thing to do is check the format of the "mrc" file. It would be useful to see the file, and to know how it was created (i.e. by which program). There was one problem in the CCP4 library (if memory serves, it occurred if the origin was set to non-zero) which was fixed a couple of years ago. Might you be picking up an old CCP4 library? There was a second problem with Chimera writing an incorrect machine stamp, but this was fixed by the Chimera developers again a couple of years ago. I'm happy to look into this further. Cheers Martyn > -----Original Message----- > From: Mailing list for users of COOT Crystallographic Software > [mailto:[email protected]<mailto:[email protected]>] On Behalf Of Paul > Emsley > Sent: 23 August 2012 18:55 > To: [email protected]<mailto:[email protected]> > Subject: Re: [COOT] .mrc maps in Coot > > On 23/08/12 17:49, Jeff Headd wrote: > > Hi everyone, > > > > I'm working with EM maps in .mrc format, and I'm having trouble > > loading them in recent versions of Coot running on Mountain Lion. I'm > > able to load the same .mrc files using rev 3697 on Linux just fine, > > but using any of the recent builds for Mountain Lion gives these > types > > of errors (from rev 4324): > > > > >>>>>> CCP4 library signal library_file:End of File (Error) > > raised in ccp4_file_raw_read <<<<<< > > >>>>>> System signal 35:Resource temporarily unavailable (Error) > > raised in ccp4_file_readfloat <<<<<< > > >>>>>> System signal 35:Resource temporarily unavailable (Error) > > raised in ccp4_file_read <<<<<< > > >>>>>> CCP4 library signal ccp4_map:Read failed (Error) > > raised in ccp4_cmap_read_section <<<<<< > > >>>>>> CCP4 library signal library_file:Bad mode (Error) > > raised in ccp4_file_readfloat <<<<<< > > >>>>>> System signal 35:Resource temporarily unavailable (Error) > > raised in ccp4_file_read <<<<<< > > > > etc. > > > > Any ideas? > > > > Yes, SEP. > > At a guess, the program that you used to create "mrc" maps is creating > corrupt/non-conformant maps. > > Martyn Winn is in charge of the code that loads maps into Coot (and > CCP4 > programs, of course). > > Paul. -- Scanned by iCritical. -- Scanned by iCritical.
