Hello All, First time posting here, hopefully this is the right place to ask my question. I'm attempting to install CNS Solve 1.3 on a handful of Intel-based...
2022
Kevin Jude
kmjxxx
Feb 8, 2011 9:58 pm
Hi Nate, I believe this is the problem with $CNS_SOLVE/bin/getarch that came up recently. You can find the solution in the archives: ...
2023
Axel Brunger
brunger@...
Feb 8, 2011 10:09 pm
This should have been fixed with the latest revision (# 5) available from the CNS download site. Please download it and let me know if this latest version...
2024
Nate Michals
nate_michals
Feb 9, 2011 2:32 pm
Thank you Kevin and Alex for your suggestions. I tried both solutions (separately and together), but still encounter the same problem. (Bad CPU type in...
2025
Ed Pozharski
pozharski
Feb 9, 2011 3:57 pm
Fully realizing how ridiculous it is for me to provide any advice on Apple products, but what does getarch returns on this system? I presume that you mean...
2026
Ben Eisenbraun
bpeisenbraun
Feb 9, 2011 4:06 pm
Hi Nate, ... That only produces an error when running as root. The default user privilege on OS X only allows setting the max stacksize to the kernel max ...
2027
Ben Eisenbraun
bpeisenbraun
Feb 9, 2011 4:35 pm
(I added the list cc: back in for the archives.) Hi Nate, ... So that proves what you already know: you have a Core Duo machine, and those CPUs are 32-bit...
2028
Ed Pozharski
pozharski
Feb 9, 2011 6:16 pm
... That would explain it, but then this in CNS installation instructions must be incorrect: "A binary installation is available for Intel Macintosh OS X,...
2029
Nate Michals
nate_michals
Feb 9, 2011 7:06 pm
Thanks Ben and others, here is the update so far, I installed gfortran (and gcc) from hpc.sourceforge.net, verified that they are installed by typing gcc and...
2030
Ben Eisenbraun
bpeisenbraun
Feb 9, 2011 7:28 pm
Hi Nate, ... That looks fine. The hpc.sourceforge.net compilers install to /usr/local/bin, so you can also run 'which gfortran' to ensure that it's picking up...
2031
Nate Michals
nate_michals
Feb 9, 2011 8:58 pm
Hi Pryank, Thanks for the suggestion. I tried this, and it seems to fail with the message: Installation directory: /usr/local/cns_solve_1.3/mac-intel-darwin ...
2032
Nate Michals
nate_michals
Feb 9, 2011 9:02 pm
Hi Ben, I'll tinker with the Makefiles per your suggestion and see if I can make some progress. Thanks again ! ... Nate Michals Jr. Systems Administrator ...
2033
Nate Michals
nate_michals
Feb 10, 2011 9:35 pm
Update so far, I tested on a 64-bit Mac and didn't get the "Bad CPU type in executable" message. It still didn't install correctly but perhaps I'm getting...
2034
Nate Michals
nate_michals
Feb 10, 2011 9:36 pm
Whoops, I completely forgot this: source cns_solve_env looks like it works now ! =D Nate Michals Jr. Systems Administrator Hauptman-Woodward Institute 700...
2035
Gerard DVD Kleywegt
gerard@...
Feb 25, 2011 8:44 pm
Hi all, In October 2011, the Worldwide Protein Data Bank (wwPDB; wwpdb.org) will host a scientific symposium in Cold Spring Harbor, celebrating the 40th...
2036
Gerard DVD Kleywegt
gerard@...
Feb 25, 2011 9:01 pm
[Forwarded on behalf of the EMDataBank.org Team] We are proud to announce that the cryoEM community has reached a significant milestone: more than 1000 maps...
2037
Gerard DVD Kleywegt
gerard@...
Mar 2, 2011 7:17 pm
Hi all, As you may recall, the Protein Data Bank in Europe (PDBe; http://pdbe.org) announced a substantial make-over of its website last summer, including the ...
2038
Nate Michals
nate_michals
Mar 5, 2011 12:12 pm
Hi Pryank, I copied the file over as Makefile.header.2.gfortran, and just in case it might conflict, I renamed Makefile.header.2.pgf95 to...
2039
Rajesh kumar
ccp4_sc@...
Mar 5, 2011 12:12 pm
Hi CNSbb, I am new to Unix and I am here because I want to try CNS. I have installed Ubuntu 10.04 on my windows laptop to learn Crystallography softwares. I...
2040
Ben Eisenbraun
bpeisenbraun
Mar 5, 2011 2:13 pm
Hi Nate, ... This is also due to the fact that you have a 32-bit only CPU and are trying to run 64-bit binaries. From the gcc-snwleo-intel-bin.tar.gz tarball:...
2041
Ben Eisenbraun
bpeisenbraun
Mar 5, 2011 2:19 pm
Hello Rajesh, ... Did you run tcsh _before_ sourcing the cns_solve_env file? If not you would have gotten an error like: $ source...
2042
Gerard DVD Kleywegt
gerard@...
Mar 10, 2011 4:55 pm
Hi all, As part of its recent winter update, the Protein Data Bank in Europe (PDBe; http://pdbe.org) released a new widget, called PDBportfolio, that we hope...
2043
jianhua_cai
cai_jianhua
Mar 14, 2011 7:17 am
Hi all, Viva Biotech, located inShanghai, is a leading Contract Research Organization (CRO) company providing discovery biology services to global...
2044
waleed zalloum
waleed_zalloum
Mar 17, 2011 1:09 pm
Dear All,  I am resolving a structure of DNA:RNA hybrid. I want to ask if the hydrogen bonding follow the same rules and distances of DNA:DNA or RNA:RNA...
2045
Jochen Hub
jochen@...
Mar 18, 2011 7:50 pm
Hi CNS users, when running refine.inp *without* automatic bulk solvent parameter optimization, {===>} sol_auto=false; I receive the error: now recomputing...
2046
Gerard DVD Kleywegt
gerard@...
Mar 18, 2011 9:47 pm
Hi all, As part of its recent winter update, the Protein Data Bank in Europe (PDBe; http://pdbe.org) introduced a new, chemistry-based module of its PDB...
2047
Axel Brunger
brunger@...
Mar 19, 2011 5:14 am
I found the bug. It will be fixed soon with an upcoming revision of CNS 1.3 (revision 6). Axel ... Axel T. Brunger Investigator, Howard Hughes Medical...
2048
mariar
mariar@...
Mar 21, 2011 1:53 pm
Dear all, I'm trying to run cns within haddock, and I'm getting the following message in the generate.out file: SEGMNT-info: auto chain termination due to...
2049
akira.iname
Mar 22, 2011 5:58 am
Dear all, I tried to make difference electron density map from two same file. I think it will not show difference, but it showed. I want to ask if it is...
2050
Bru Nescaffe
b.nescaffe
Mar 23, 2011 3:51 pm
Hi CNS users   i am downloading the cns and when i try to install the CNS then i facing some problem.My problem is there written first edit the file...
