Hi, We're infrequent nmrPipe users, and wondered if anyones gone to the trouble of writing a "cookbook";/"cheat sheet"/"how to" for the software. If you would...
2
D. Joe Anderson
adrs@xxxxxxxxx.xxxx.x...
Feb 5, 1999 6:18 pm
Dear nmrPipe and XEASY users: I'm trying to get 2D homonuclear Varian data processed and converted such that I can use it in spscan/xeasy. I've been using...
3
Frank Delaglio
delaglio@xxxxx.xxxxx....
Feb 5, 1999 6:27 pm
Dear Colleagues, The note from Joe regarding Linux/SGI most likely concerns the byte-ordering differences between PC hardware and most other UNIX hardware....
4
Frank Delaglio
delaglio@xxxxx.xxxxx....
Feb 9, 1999 9:51 pm
Dear Colleagues, We've just updated the usual NMRPipe installation files to include the TALOS program for prediction of protein phi and psi angles using...
5
Klaus, Werner {PRPC~B...
WERNER.KLAUS.WK1@xxxx...
Feb 15, 1999 4:17 pm
Hi Frank, thank you very much for informing me on your latest software release including TALOS. I just printed out the preprint from your website as the ...
6
Virgil Simplaceanu
vs2a+@xxxxxx.xxx.xxxx
Feb 17, 1999 5:39 pm
Hi everyone! I installed the new NMRPipe on a PC running RedHat Linux 5.2 but when I type nmrDraw, the program tries to start and then would complain that it...
7
Gerard J. Kroon
kroon@xxxxxxx.xxxx
Feb 17, 1999 5:53 pm
... Hi Virgil, Make sure you're running Xwindows using 256 colors (8bpp) only. If you're using too many colors NMRDRAW won't work. You can set the number of...
8
Virgil Simplaceanu
vs2a+@xxxxxx.xxx.xxxx
Feb 19, 1999 12:22 am
Excerpts from mail: 17-Feb-99 [nmrpipe] Re: nmrpipe on linux by "Gerard J. Kroon"@scripp ... Thanks, Gerard! I tried your suggestion, actually the command is...
9
spin@xxx.xxx.xxx.xxxx
Feb 19, 1999 8:39 am
Hi Virgil, I have nmrPipe installed on my P75 running Slackware 3.6. The same problem you described occurred to me when I tried to run some color demanding ...
10
Alex Breeze
breeze@xxxxxx.xxxxxx....
Feb 19, 1999 10:19 am
Virgil, Just in case you haven't already done so: have you tried running nmrDraw with the argument '-virt sometimes' ? Cheers, Alex -- ... Alex Breeze...
11
Virgil Simplaceanu
vs2a+@xxxxxx.xxx.xxxx
Feb 23, 1999 4:37 pm
Thanks to all who gave me hints about why my graphics server would fail to start nmrDraw, complaining about color allocation. Problem is, I already tried...
12
Kevin Gardner
kgardn@xxxxxxx.xxxxx....
Feb 24, 1999 12:15 am
Hi all: ... While I can't speak for Linux-based systems, I've been able to happily use my own Tcl/Tk on my system (Irix 6.5.3m, running Tcl 8.0.4 and Tk ...
13
Klaus, Werner {PRPC~B...
WERNER.KLAUS.WK1@xxxx...
Mar 15, 1999 2:35 pm
Hallo, nmrPipe community! when I try to peak-pick a 3D spectrum within nmrPipe (new version 1.7), I get the crazy message: "error executing system command "...
14
Frank Delaglio
delaglio@xxxxx.xxxxx....
Mar 15, 1999 9:00 pm
Dear Colleagues, Some comments on peak picking errors below, as inspired by our friend Werner K. ... Many Regards, Frank ... The NMRDraw Peak/Detect command...
15
debra.banville@xxxxxx...
Mar 23, 1999 4:01 pm
I would like to find software either on the SGI or PC that would allow me to view AND edit the .ps file output generated by nmrDraw (e.g. labeling of 2D...
16
Kevin Gardner
kgardn@xxxxxxx.xxxxx....
Mar 23, 1999 4:36 pm
Hi all: ... Hmmm. Illustrator is my preferred program for this, but I've used it almost exclusively on Mac platforms where it works well. I recall that older...
17
Deane D McIntyre
dmcintyr@xxxxxxxx.xxx
Mar 23, 1999 4:40 pm
... We have beem using Adobe Illustrator for doing this for a couple of years now, on both PC's and Macs. Have not tried the SGI version. File can be saved in ...
18
Lawrence McIntosh
mcintosh@xxxxx.xxxxxx...
Mar 23, 1999 4:43 pm
Hi - The program "IslandDraw" does a very good job of reading ps files and allowing you to edit, etc. I believe that there are Sun and SGI versions. Cheers ...
19
Virgil Simplaceanu
vs2a+@xxxxxx.xxx.xxxx
Mar 23, 1999 5:00 pm
... me to view ... contour ... can use xps ... a tiff or ... as a file ... would like ... "contour-tion-ist" to ... Hi! PostScript files are text files, so to...
20
Gerard Kroon
kroon@xxxxxxx.xxxx
Mar 23, 1999 5:48 pm
... Hi Debra, We're using CorelDraw 8 on the PC to edit the PS files. Cheers, Gerard. -- Gerard J. Kroon The Scripps Research Institute Dept. of Molecular...
21
Patricia LiWang
liwang@xxxx.xxxxxx.xxxx
Mar 23, 1999 5:48 pm
We use (but do not necessarily wholeheartedly endorse) a program called IslandDraw (now bundled with IslandWrite and some other goodies). This can read...
22
Adam Zabell
zabell@xxxxxxx.xxx.xx...
Mar 23, 1999 6:06 pm
... The problem may also have to do with the amount of RAM that Illustrator has access to. On a Mac this is an easy fix; not quite sure what to do with a PC....
23
D. Joe Anderson
adrs@xxxxxxxxx.xxxx.x...
Mar 23, 1999 6:18 pm
The GIMP (The GNU Image Manipulation Program) is a Photoshop work-alike that might allow you to do what you need. The downside of it is that it is still in...
24
spin@xxx.xxx.xxx.xxxx
Mar 24, 1999 6:12 pm
Hi Debra, My cheap way to edit Postscript file on SGI or PC Linux is first to convert it into EPS file (with preview image) by "ps2epsi", a shell script. Then...
25
liu@xxxxx.xxx.xxxxxxx...
liu@xxxxx.xxx.xxxxxxx...
Mar 24, 1999 7:47 pm
Dear colleague, I just start learning to use the nmrPipe. In the sample directory of 'varian2d', the file of ft2.com performs phase correction(-90, 180) in...
26
Lawrence McIntosh
mcintosh@xxxxx.xxxxxx...
Mar 24, 1999 10:28 pm
If f1180='n', then you should not need a phase correction in the indirect dimension - just scaling of the first data point, which is not really recorded at...
27
Jessica L. Dion
jdion@...
Apr 12, 1999 5:56 pm
Hello - We've recently been running a few of Varian's "protein pack" pulse sequences, and I've had terrible luck processing the resulting data with nmrPipe....
28
Banville Debra DL
debra.banville@xxxxxx...
Apr 12, 1999 6:53 pm
Jessica, I am pasting some of my notes on 3D conversion/processing below w/ one example a protein pack expt, the hncacb, conversion and processing .com files....
29
Dr. Keith J. Cross
k.cross@xxxx.xxxxxxx....
Apr 21, 1999 2:40 am
<!DOCTYPE HTML PUBLIC "-//W3C//DTD HTML 4.0 Transitional//EN"> <HTML> Hi, <P>I installed nmrpipe on an Indigo2 running IRIX 6.4, the installation ran with no...
30
Frank Delaglio
delaglio@xxxxx.xxxxx....
Apr 23, 1999 4:27 pm
Re: recent nmrDraw problem reported by our friend Keith -- It turns out the problem was due to executing the "nmrdraw" program directly, without arguments. The...
