to make target `AddRadii.c', needed by
`AddRadii.o'. Stop.
of course AddRadii.c does not need to be generated.
Does anyone know of changes recently made to the autotools
that causes this kind of problem?
Richard Gillilan
MacCHESS
I think it would be a very good habit to
put the Journal reference to the algorithm in
the code as a comment (for all non-trival modules).
Perhaps it you find it, you could pass it on for
inclusion.
Richard
On Sunday, June 15, 2003, at 09:59 AM, Kenneth L Gage wrote:
Dear DXers -
I've been
Sorry, I got busy. I'll download the new tarball and give it a try
this morning.
Richard
On Sunday, June 8, 2003, at 01:17 AM, David Thompson wrote:
I have updated the tarball at opendx.npaci.edu/source/dx-4.3.0.tar.gz
to reflect the recent changes with configure and fixes for compiling
not really a problem, just an annoyance.
Richard
On Sunday, June 8, 2003, at 01:17 AM, David Thompson wrote:
I have updated the tarball at opendx.npaci.edu/source/dx-4.3.0.tar.gz
to reflect the recent changes with configure and fixes for compiling
on Solaris. I do see one more fix I need to make
to give it a try the build again.
Richard
I'm not sure what the process is for making a release tarball, but
there is one job I might like to volunteer for. If the process
involves making a candidate tarball prior to giving
an official blessing, then I would take that tarball and use it
(on one
David, could you recheck that link? I get and object not found error.
Richard
On Friday, May 30, 2003, at 11:31 AM, David Thompson wrote:
http://opendx.npaci.edu/source/dx-4-3-0.tar.gz
Ok, got it. That was actually dx-4.3.0.tar.gz
Thanks
Richard
On Friday, May 30, 2003, at 11:41 AM, Richard Gillilan wrote:
David, could you recheck that link? I get and object not found error.
Richard
On Friday, May 30, 2003, at 11:31 AM, David Thompson wrote:
http://opendx.npaci.edu
building stuff. It's like my lawn tractor. Never
works when I turn the key
and always needs something to be fixed.
Richard Gillilan
MacCHESS
I noticed this too on MacOS X. It takes a VERY long time to compile
zclipQ,
but then eventually it does finish and the build works ... though there
were times
I was tempted to abort it took so long. I wonder what's up.
Richard Gillilan
MacCHESS, Cornell
On Wednesday, May 28, 2003, at 05:17
On Thursday, May 29, 2003, at 10:12 AM, Matthew Bettencourt wrote:
Richard Gillilan wrote:
I noticed this too on MacOS X. It takes a VERY long time to compile
zclipQ,
but then eventually it does finish and the build works ... though
there were times
I was tempted to abort it took so long. I
be it
was just
the phase of the moon or something (maybe I was using a cached version
of configure
done before I installed liblaninfo, though I try to avoid that problem).
Richard
I just built and installed libtool 1.5 from GNU, but I'm a bit confused.
The DX configure process seems to create its own libtool in DXROOT??
Richard
libtool --version
You may wish to upgrade to libtool 1.5. It solves all kinds of MacOS X
questions. This does sound like a parser problem. I
boxes, I get this error in the Message window:
0: ERROR: UI[1,2]: syntaxt error: [1
When I run the net, the server disconnects.
Does this mean anything to anyone?
Have upgraded bison and used recent openmotif
Richard Gillilan
MacCHESS
This was maintainer-clean build from a fresh copy of DX checked out
this morning.
Richard
On Monday, May 5, 2003, at 05:01 PM, Matthew Bettencourt wrote:
Stupid question, but this happens to me sometimes. Is this an old
build that you cvs up'ed? or a fresh checkout?? Did you do a make
to do
with the
formatting of instructions passed from dxui to dxexec. I wonder if
there is a way
to intercept the communication between the two for debugging purposes or
to capture the output of dxui.
I may to to rebuild that older version to see if it's my build
environment.
Richard
remember seeing this on other platforms
in the past. Should only re-render once at end of drag.
Richard
David Thompson wrote:
Martin,
What's the chance of adding a preference to turn off window redraws of
the Image window when the Window is resized? Some window managers are
requesting so many
).
Anyone seen this type of thing before?
Richard Gillilan
MacCHESS, Cornell
believe this was also a version I compiled under RH
7.3 and in fact
used that executable rather than recompiling under RH8.0
Richard
Lloyd A Treinish wrote:
I have run DX 4.2 on a number of RH8.0 systems -- not the binary download,
but built from the 4.2 tarball. I haven't seen
I tried a RH 8.0 compile from CVS a couple days ago and got exactly
the same CVSMake and configure errors. My system (autotools etc.) is
default
RH 8.0 installation. I ended up using precompiled binaries from
previous RH 7.3 and
it seemed to work.
Richard Gillilan
MacCHESS, Cornell
does seem to work with
many
but not all of my test nets, so, from my point of view things are quite
workable.
Thanks for your help.
Richard
On Sunday, January 12, 2003, at 11:25 AM, David Thompson wrote:
Richard and others,
Just to let you know, Apple's X11 is beta
David: seems like the autoconf loadable module template is
broken now. I get
richard% CVSMake
configure.in:70: error: m4_popdef: undefined macro: AC_Dest
acgeneral.m4:3399: AC_CONFIG_FILES is expanded from...
configure.in:70: the top level
autoconf: tracing failed
Richard
On Sunday, January 12, 2003, at 11:03 AM, David Thompson wrote:
Which Autoconf are you running?
David
According to the man page I'm running GNU autoconf version 2.52.
Probably the last
developers tools I installed.
Richard
On Sunday, January 12, 2003, at 11:25 AM, David Thompson wrote:
Richard and others,
Just to let you know, Apple's X11 is beta and there are problems with
it and X apps. For one thing the window manager does not honor any
window placement and window size requests. This can really make
just don't know my way around these systems.
Richard
anyone here successfully got
OpenMotif running under MacOS 10.2? If so where did you get it?
Richard
the
post processing is
necessary?
Anyhow, could just be some changes need be made in makefile.am. Anyone
working on this section and understand what is going on?
Richard Gillilan
MacCHESS, Cornell
to implementing matrix multiplication?
Ideally a dot [1,0]' or a.[1,0]' should equal [a00,a10]'
(I'm using the prime (') to represent transpose operation as
in MatLab.)
Richard
it will correctly
work in a multiprocessor environment. Don't know if that's still true.
Richard Gillilan
MacCHESS, Cornell
Anybody know of a set of tools to parse c and c++ that can produce a
list of functions and globals? I'd really like to clean up any
duplicates, etc as I begin libtooling.
This may be overkill for what you want, but have
you looked at doxygen? The OpenBabel group on sf
has just started
Interesting. Sourceforge itself has been having a similar problem
past couple of days.
On Tuesday, July 2, 2002, at 06:03 PM, Peter Kirchner wrote:
no, just jostling around with the recent ssh and httpd advisories.
Randall Hopper wrote:
Was about to check in a change, but...
ssh
by the bounding box of the
input object
Richard
On Tuesday, February 12, 2002, at 03:01 PM, Gregory D Abram wrote:
I agree; this seems like a scene attribute, so I'd put it on the
camera -
like the background color. I'd suggest that you look for an attribute
attached to the camera.
GregI
Randall
The pure OpenGL bits should be pretty simple. The questions in my mind
relate to how this would map to the data model (which objects are
affected
by it, are the fog bits object attributes or global Render settings, are
screen objects exempt, ...)
I think screen objects should be exempt.
, and will make a serious attempt at it soon,
but you may have already thought about it. It would seem like
a natural for enviro-viz uses.
Richard
On Saturday, January 26, 2002, at 09:51 AM, Randall Hopper wrote:
[EMAIL PROTECTED]:
|Add translucent texturing with alpha blending support to the OpenGL
Brad Ackerman wrote:
On Fri, Nov 16, 2001 at 08:29:41AM -0500, Richard Gillilan wrote:
(http://fink.sourceforge.net/files/dlcompat-20010123.tar.gz)
http://prdownloads.sourceforge.net/fink/dlcompat-20010831.tar.gz is
the current version.
Thanks Brad! Good to hear from you again.
I
your efforts.
Richard
port although
I did try increasing the memory limit on the heap with very
interesting effects.
I haven't looked at this patch yet. Does it solve the memory
problems, or are there still issues?
Richard
anyway.
Richard.
--
Richard Guenther [EMAIL PROTECTED]
WWW: http://www.tat.physik.uni-tuebingen.de/~rguenth/
The GLAME Project: http://www.glame.de/
.
Richard Gillilan
MacCHESS
Igor Grivko wrote:
Hello,
I want to use DX Data Model in my own module. So I have to read and write DX
files. I read them with DXImportDX and write them with DXExportDX functions.
But my data can be very big , so I cannot read them by only DXImportDX call
(they may
or mol2 format file. It's also easy to just create a data
component in
OpenDX and set it to some value.
Richard Gillilan
MacCHESS
Cornell
Hi David, heard anything from the MacOSX compiler folks
about the bug in union? I'm thinking of working on the port
again this weekend.
Richard
DXGetEnumeratedAttribute in the module API.
Don't
know if it's accessible directly from DX or not.
Richard
? Are there other ways to
parallelize
stuff?
Thanks
Richard
the problem is here?
Richard
David Thompson wrote:
What are you installing this from?
David
This was compiled from the CVS source a few a couple months ago at least.
(make install).
Richard
Hi!
I needed the following patch to compile the CVS verison
of opendx. It corrects incorrect use of free() on a
regex_t (should use regfree()) and a typo - should read
HAVE_REGCMP, not HAVE_EGCMP.
Please apply, Richard.
--
Richard Guenther [EMAIL PROTECTED]
WWW: http://www.tat.physik.uni
Index: parse.c
===
RCS file: /src/master/dx/src/exec/dxmods/parse.c,v
retrieving revision 1.5
diff -u -r1.5 parse.c
--- parse.c 2000/08/24 20:04:42 1.5
+++ parse.c 2001/05/24 12:39:27
@@ -69,13 +69,15 @@
for (i=0;
like that
before? I'll either try to do a generic sed module using regexp()
or a module like system which allows stdout being passed to dx
again (dont know how to do this with NT).
Which is the way you would prefer?
Richard.
--
Richard Guenther [EMAIL PROTECTED]
WWW: http://www.tat.physik.uni
For some reason, by email from home is not getting out.
I sent my porting notes out several times, but the messages
have not appeared on the list. Sorry for the delay, I'll
see if I can fix it today.
Richard
I'll write up my notes on porting and post them to the
list this evening
David Thompson wrote:
You have to use the e-mail address that you're signed up on the list
with. It is an anti-spam technique.
Yep, that would do it.
Richard
;
mib[0] = CTL_HW;
mib[1] = HW_PHYSMEM;
len = sizeof(pmem);
sysctl(mib, 2, pmem, len, NULL, 0);
physmem = (uint)((double)pmem/(1024.0*1024.0));
#endif
Richard
;
len = sizeof(pmem);
sysctl(mib, 2, pmem, len, NULL, 0);
physmem = (uint)((double)pmem/(1024.0*1024.0));
#endif
Richard
chunks in powers of 2. Why does DX need to define it's own
allocation routines at all?
It also worries me that the MacOS man page on brk/sbrk claims:
The brk and sbrk functions are historical curiosities left over from
ear-
lier days before the advent of virtual memory management.
Richard
Sorry if this is repeat, but I'm not sure it got out the first time.
Richard
Begin forwarded message:
From: richard [EMAIL PROTECTED]
Date: Tue May 08, 2001 10:18:39 PM America/New_York
To: opendx2-dev@lists.berlios.de
Subject: Darwin/MacOS X porting notes
Content-Type: text/plain; format
David: My MacOS X port stalled due
to memory problems in mem.c and memory.c
which I don't fully understand yet.
I'll take a look at the changes you made.
If you like, I'd be happy to send a summary
of the other stuff I've been able to fix.
Richard
and will probably need to be examined more carefully
in the future.
Richard
On Tuesday, April 3, 2001, at 12:38 AM, Richard Edward Gillilan wrote:
During my attempts to compile OpenDX on darwin, I get an
undefined symbol _end at the dxexec link stage. This is
such a common word, I can't figure out
defined in dx/src/exec/libdx/memory.c. In this file there are some
choices to be made. Anyone have experience with this portion of the code and
have
recommendations?
Richard Gillilan
MacCHESS
Cornell University
Michael Chupa wrote:
Hi Richard:
...
I'm curious on your setup with OpenMotif and XFree86. Where
did you find all your goodies?
...
The free X windows on MacOS X project is called XonX. The web site
is http://mrcla.com/XonX/. The port of OpenMotif comes from Logan
Donaldson and can
space, ...
That should be DXAddArray(a,0,n,NULL) and DXAllocateArray(a,0,n,NULL).
Richard
I recall seeing a comment on this list some time ago that C++ modules
were now working. I can't find it in the archives. Anyone have a simple
example of how to do this?
Richard Gillilan
MacCHESS
Molecular Biology and Genetics
Cornell
Has anyone implemented the OpenDX data model as a C++ class?
Richard Gillilan
MacCHESS/MBG
Cornell University
Strange, I only get a single field when I read in the .stk file my student
saved. Perhaps it only has one field. I'll have to check on it more.
That would be great if support is already built in.
Thanks
Richard
is a
module
that will detect the appropriate tags and output a series or other group
that can then be stacked for volumetric work.
Richard
doubt
I'll have time to even look at it for another week. There is also a nice
web site devoted to
XFree86 under Darwin/Mac OS X DP 4: http://mrcla.com/XonX/. Could be we
have all
the pieces in place now.
Richard Gillilan
Cornell Theory Center
. The copy of XFree86 I'm using came
right out of Apple's Darwin cvs repository. I have downloaded the Motif source
but have not attempted a compile yet.
Richard
David L. Thompson wrote:
I'm planning on doing this, but until we have XWindows support I
don't think I'll start.
David
cvs
repository.
Richard
alternative is to create an extra component in your field (I
often call it selected)
and use a Compute module containing a conditional based on that component.
(selected = 1)?(rotate it):(don't rotate it)
Richard
problems and not waste your time.
Richard
[EMAIL PROTECTED] wrote:
This isn't a waste of time to me. This configuration stuff needs to work.
I'd really appreciate it if we could persist here. Could I get on your
system?
Greg
Ok, let's push forward and see what the problem is. I've set up and
account for you (check your
primative. The disadvantage is that it does
not give you the final geometry within OpenDX. The CSG operations
are only applied at render time. They are also pretty slow.
Richard
defined in config.h?
Greg
You mean dxconfig.h? It appears to be commented out of that file.
Richard
/dxconfig.h to remove ushort, ulong and uint defs
7. make
Still, same problems. It's not finding socket.h
Sounds like more evidence that configure script is failing on my system.
I'll be trying to debug this today.
Richard
or not. Somewhere, configure should be
testing to see if ulong is defined eslewhere. It occurs in sys/bsd_types which
is included in sys/types.h. sys/types.h is in unistd.h and many other includes.
Richard
[EMAIL PROTECTED] wrote:
The first test looks for a typedef in the headers;
I'm confused on the logic of this whole series of tests.
I don't understand the syntax of the egrep line or the expected output
of /lib/cpp, but it looks like it's searching for instances of ulong in the
output of
into dxconfig.h by configure?
Richard
a duplicate specifier.
typedef unsigned short ushort;
This seems to happen because /usr/include/sys/bsd_types.h
defines:
#define ushort unsighed short
perhaps I'm missing a build option.
Richard
David L. Thompson wrote:
Sounds like your configure goof'd. Look at config.cache for ushort
and tell us if it says yes or no.
ac_cv_type_ushort ${ac_cv_type_ushort = no}
Are you saying that your /usr/include/sys/bsd_types.h has it declared
twice?
nope, the bsd_types.h definition
of this. When you code it,
please provide a mechanism to turn it back on if needed,
either a compile option or environment variable would be ok.
Thanks
Richard Gillilan
Cornell Theory Center
Randall Hopper wrote:
From profiling dxexec, I've found that 20-25% of it's time in the
single
, radiosity
o and more
So far, compiled only for SGI, but the code is simple and should
compile elsewhere without trouble.
You can get the code at the Cornell OpenDX repository:
ftp.tc.cornell.edu
pub/Data.Explorer/by_discipline/chemistry/RI.tar.gz
Enjoy
Richard Gillilan
Cornell
Registration closes May 25!
The Cornell Theory Center is offering a distance education course on
OpenDX. Detailed information is available at
http://www.tc.cornell.edu/Edu/OpenDX/
Introduction to OpenDX was developed by the Cornell Theory Center
(CTC)
for business and industry, federal
The Cornell Theory Center is offering a distance education course on
OpenDX. Detailed information is available at
http://www.tc.cornell.edu/Edu/OpenDX/
Introduction to OpenDX was developed by the Cornell Theory Center (CTC)
for business and industry, federal agencies, and academia.
OpenDX is
Jean-christophe Penalva wrote:
Hello,
my question is simple, is there somewhere a document about the
source (directory, description, link between files). We'd like to modify
some parts of the source for 2 reasons.
1 : we'd like to see if it's possible to use Volume rendering
however. Would be better if configure
options
existed for overiding compiler choice.
Richard
) no
--
Richard
in
to functions as a reference to an object of type base class.
Thanks for the clarification.
Richard
ps, C++ isn't that confusing, really! ;)
that
calls
it with 4. Is this legal in C++
It is common in C++ to define multiple versions of a function
with different numbers and types of arguments (function overloading).
I'm having trouble locating the prototype for DropSite::setDropWidget,
what file/directory is it in?
Richard
:
setenv DXMODULES /u/tc/richard/CMSP/bin
setenv DXMACROS /u/tc/richard/CMSP/macros
alias dx 'dx -edit -mdf /u/tc/richard/CMSP/CMSP.mdf'
setenv LD_LIBRARY_PATH /u/tc/richard/CMSP/bin
set path=(./ /usr/local/app/opendx /usr/local/app/opendx/bin
/usr/local/app/opendx/bin_sgi $path)
Sorry, I do
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