Dear all, Our group has prepared free package of programs for non-linear acquisition, which gives output also in Sparky format. It is based on simple...
hi Tom, a few questions/remark that came up since I started working with different people on the same assignment project, and at different locations. I tried...
Hi Eiso, Sparky tries to use relative paths so if you move a directory containing project/save/spectrum files then everything continues to work. Here's the...
Dear All, I want to carry out water refinement of CYANA generated structures using CNS1.1. Can you’ll please help me out? I know there are RECOORD scripts...
Hi Tom, thanks, I'll see what happens without links and/or '..' fwiw, I don't consider sparky clunky at all, although it's a pity that it's not developed...
Dear Eiso, I dont know how to execute the commands in the file generate.sh by hand, except that in the usage it says usage: \t generate.sh <name of the pdb...
... you can type [or paste] the commands that you find in generate.sh on the command line. (type /bin/bash first if your shell is not bash) did you change the:...
Dear Eiso, I did change "export SCRIPTS" to the correct location export SCRIPTS=/epp/molgraf ... /RECOORDSCRIPTS where RECOORDSCRIPTS is the directory having...
Hi Eiso, The case of the directory names Save, Projects, ... makes no different when Sparky converts paths to be relative paths in peak and project files. The...
Thanks Jinwon, Mandar and Eiso, I will try other methods now. Hope they work! Betty Jinwon Jung <jinwon.jung@...> wrote: Hi all, Here is more recent...
My recollection is that you have to set up a directory like the one in the example provided with your cyana restraints converted to cns .tbl files , a .mtf...
I agree. Its most likely that the bash on her box is not at /bin/bash. She needs to correct the path on the first line of her generate.sh (if she still wants...
Thanks you all for so many suggestions. Betty Matthew Revington <mrevingt2@...> wrote: My recollection is that you have to set up a directory like the one...
I am trying convert an NC plane by using the vnmr2ucsf executable, but when I follow the directions outlined on the website, I get an error that states: ...
The procpar parameters used by vnmr2ucsf are listed in the Sparky manual http://www.cgl.ucsf.edu/home/sparky/manual/files.html#ConvertVarian You might take a...
Hi John, There is no Sparky command to flush the spectrum data it has cached and redraw the spectrum windows. You might be able to do it in a cumbersome way...
Hi John, Ok, I see now that Sparky opens the spectrum file and does not close the file until the spectrum is no longer being viewed in Sparky. On unix systems...
I'm trying to use R to do ANOVA on spectra in ucsf format. I can read the ucsf file into R using the ucsfdata command and the "-m" modification. This puts...
Hello users, I have a NOESY spectrum of a 10 mer DNA strand with well separated peaks . I am hoping to model the DNA based on these distance and other dihedral...
Hello, I'm trying to setup the NOE's assignment possibilities using (na)... the tables shows up ..looks fine..BUT..;when I press the DIAGRAM option the diagram...
Hello all, I think this problem was discussed here before ...I have Sparky 3.113 and I cannot find which version of Chimera should I install in order to start...
... For me Chimera version 1.2143 works fine with Sparky 3.113 (Windows XP). I guess for the newer Sparky version (3.114) using python 2.5 one could/should use...
The Sparky manual describes compatible Chimera versions for Sparky versions up to 3.112. For Sparky 3.113 you should try the recommended version(s) for 3.112....
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