Log of /trunk/escript/src
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Revision
2283 -
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Modified
Fri Feb 20 01:08:21 2009 UTC
(11 years, 11 months ago)
by
jfenwick
doxygen doco now correctly reports global project revsion number.
link to epydoc is now via a relative URL (avoids the problem of nightly doxygen pointing at out of date release epydoc).
Revision
2282 -
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Modified
Thu Feb 19 06:30:19 2009 UTC
(11 years, 11 months ago)
by
jfenwick
setTaggedValueByName now throws if the tag name does not exist.
The documentation says this is what happens - now the code matches the doco.
This resolves issue 238
Revision
2278 -
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Modified
Tue Feb 17 07:39:16 2009 UTC
(11 years, 11 months ago)
by
gross
for some reason my gcc version requires NL at the end of the source files.
Revision
2273 -
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Modified
Tue Feb 17 01:22:48 2009 UTC
(11 years, 11 months ago)
by
jfenwick
Added compile flags to turn autolazy on and off.
These are for testing purposes only.
Revision
2272 -
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Modified
Mon Feb 16 23:40:03 2009 UTC
(11 years, 11 months ago)
by
jfenwick
Stop icpc on savanna warning about ignoring namespaces.
Revision
2271 -
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Mon Feb 16 05:08:29 2009 UTC
(11 years, 11 months ago)
by
jfenwick
Merging version 2269 to trunk
Revision
2260 -
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Tue Feb 10 04:50:10 2009 UTC
(11 years, 11 months ago)
by
jfenwick
That should be the last of the copyWithMask related errors.
Revision
2256 -
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Modified
Mon Feb 9 06:20:32 2009 UTC
(11 years, 11 months ago)
by
jfenwick
Throw an exception if AbstractDomain::MPIBarrier is called (This shouldn't happen).
Added Barrier to saveVTK.
Replaced some misused keywords.
Revision
2246 -
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Modified
Thu Feb 5 06:04:55 2009 UTC
(11 years, 11 months ago)
by
jfenwick
Made some changes to the way copyWithMask works.
Revision
2204 -
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Modified
Fri Jan 9 01:33:39 2009 UTC
(12 years ago)
by
caltinay
Fixed a little doxygen typo in the hyperlink.
Revision
2200 -
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Modified
Thu Jan 8 23:55:40 2009 UTC
(12 years ago)
by
jfenwick
Fixed python string substitution in error messages for trace and transpose.
Added tests for invalid axis offsets for trace on the c++ side.
Revision
2199 -
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Modified
Thu Jan 8 06:10:52 2009 UTC
(12 years ago)
by
jfenwick
Misc fixes:
Added some svn:ignore properties for output files that were cluttering things up.
Lazy fixes:
Fixed shape calculations for TRACE and TRANSPOSE for rank>2.
Adjusted unit test accordingly.
As a Temporary change to DataC.cpp to test for lazy data in DataC's expanded check.
This is wrong but would only affect people using lazy data.
The proper fix will come when the numarray removal code moves over from the branch.
Made tensor product AUTOLAZY capable.
Fixed some bugs resolving tensor products (incorrect offsets in buffers).
Macro'd some stray couts.
- It appears that AUTOLAZY now passes all unit tests.
- It will not be _really_ safe for general use until I can add COW.
- (Everything's better with COW)
Revision
2197 -
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Modified
Thu Jan 8 05:49:16 2009 UTC
(12 years ago)
by
gross
modifications to the way cosntraints are handeled in the Transport problem
Revision
2195 -
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Modified
Wed Jan 7 04:13:52 2009 UTC
(12 years ago)
by
jfenwick
Fixed a bug in lazy evaluation of Tensor Products.
Added / to end of boost path
Revision
2182 -
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Modified
Thu Dec 18 03:30:17 2008 UTC
(12 years, 1 month ago)
by
caltinay
Fixed some more typos
Revision
2179 -
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Modified
Thu Dec 18 00:23:55 2008 UTC
(12 years, 1 month ago)
by
caltinay
Fixed compilation with boost 1.37 (namespace clash).
Revision
2177 -
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Modified
Wed Dec 17 23:51:23 2008 UTC
(12 years, 1 month ago)
by
jfenwick
used unused variable.
Added support for limiting the size of lazy expression trees.
500,000 seems a bit high
Revision
2171 -
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Modified
Wed Dec 17 08:21:29 2008 UTC
(12 years, 1 month ago)
by
phornby
Unitary minus applied to unsigned returns unsigned error fixed
lines 1124 & 1142. Probably not what was intended......
Revision
2166 -
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Modified
Tue Dec 16 06:08:02 2008 UTC
(12 years, 1 month ago)
by
jfenwick
Fixed a bug related to lazy trace
Revision
2157 -
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Modified
Mon Dec 15 06:05:58 2008 UTC
(12 years, 1 month ago)
by
jfenwick
Some lazy fixes to the symmetric operation.
Revision
2154 -
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Mon Dec 15 01:50:56 2008 UTC
(12 years, 1 month ago)
by
trankine
* added include based on Joel's advice. Build now working on win32. unit tests not run yet...
Revision
2153 -
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Modified
Fri Dec 12 00:18:18 2008 UTC
(12 years, 1 month ago)
by
jfenwick
Fixed a bug related to lazy tensor product.
Revision
2152 -
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Thu Dec 11 04:26:42 2008 UTC
(12 years, 1 month ago)
by
jfenwick
Fixed some errors related to lazy processing of scalars.
AutoLazy passes more unit tests before failing.
Revision
2147 -
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Modified
Wed Dec 10 04:41:26 2008 UTC
(12 years, 1 month ago)
by
jfenwick
Made some changes to c++ unit tests to accomodate AUTOLAZY.
whereZero and whereNonZero can now work with lazy data.
There are some double frees if AUTOLAZY is turned on so don't use it yet.
Revision
2146 -
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Modified
Wed Dec 10 02:59:46 2008 UTC
(12 years, 1 month ago)
by
jfenwick
Replaced duplicate code in Data with macro calls.
Added AUTOLAZY parameter (defaults to off for now.)
Revision
2142 -
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Tue Dec 9 06:22:57 2008 UTC
(12 years, 1 month ago)
by
jfenwick
Added showEscriptParams to output a list of available params.
Revision
2125 -
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Modified
Wed Dec 3 09:13:10 2008 UTC
(12 years, 1 month ago)
by
phornby
Just the usual signed/unsigned mismatch corrections. Should be harmless.
this checkin is to propagate the changes to other platforms for testing.
Revision
2105 -
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Modified
Fri Nov 28 01:52:12 2008 UTC
(12 years, 1 month ago)
by
jfenwick
Data::copySelf() now returns an object instead of a pointer.
Fixed a bug in copyFromArray relating to expanded data.
Revision
2100 -
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Modified
Wed Nov 26 08:13:00 2008 UTC
(12 years, 1 month ago)
by
gross
This commit cleans up the incompressible solver and adds a DarcyFlux solver in model module.
Some documentation for both classes has been added.
The convection code is only linear at the moment.
Revision
2098 -
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Tue Nov 25 12:04:36 2008 UTC
(12 years, 1 month ago)
by
phornby
Fix unsigned/signed comparison.
Revision
2097 -
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Tue Nov 25 12:03:29 2008 UTC
(12 years, 1 month ago)
by
phornby
moved the code
#ifndef __const
# if (defined __STDC__ && __STDC__) || defined __cplusplus
# define __const const
# else
# define __const
# endif
#endif
from escript/src/system_dep.h to esysUtils/src/system_dep.h, just for blocktimer's sake.
Revision
2092 -
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Modified
Tue Nov 25 04:18:17 2008 UTC
(12 years, 1 month ago)
by
jfenwick
Added macro to disable debug output from Lazy Data.
Revision
2089 -
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Modified
Mon Nov 24 06:07:29 2008 UTC
(12 years, 2 months ago)
by
jfenwick
Resolve mantis issue 216.
Removed the asAbstractContinuousDomain(X) member which did not take cast
failure into account.
Rewrote the few places where it was used.
Revision
2087 -
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Modified
Mon Nov 24 04:51:30 2008 UTC
(12 years, 2 months ago)
by
jfenwick
Addressing mantis issue #221.
Interpolation.. and probeInterpolation.. now "work" for the NullDomain.
Work means throw a descriptive exception if you try to move into or out
of the NullDomain.
The bad_cast exception related to this has been fixed.
Revision
2086 -
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Modified
Mon Nov 24 02:38:50 2008 UTC
(12 years, 2 months ago)
by
jfenwick
Added checks in C_GeneralTensorProduct (Data:: and Delayed forms) as
well as the DataAbstract Constructor to prevent Objects with Rank>4
being created.
Moved the relevant #define into systemdep.
Removed some comments.
Revision
2085 -
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Modified
Mon Nov 24 00:45:48 2008 UTC
(12 years, 2 months ago)
by
jfenwick
Added c++ unit tests for new operations.
Added resolve to some operations in Data
Revision
2084 -
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Modified
Fri Nov 21 05:20:42 2008 UTC
(12 years, 2 months ago)
by
jfenwick
Fixed a warning in cpp unit tests under dodebug
Pointed the url for python doco at shake200 rather than iservo.
Added support for trace and transpose to LazyData.
Fixed bug in trace to initialise running totals.
Revision
2082 -
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Modified
Fri Nov 21 01:46:05 2008 UTC
(12 years, 2 months ago)
by
caltinay
Removed unused variable.
Revision
2081 -
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Modified
Fri Nov 21 01:28:31 2008 UTC
(12 years, 2 months ago)
by
caltinay
escript/Data: Another fix for parallel var initialization. Also, the (error) return value of MPI_Gather was not used. I applied the same 'hack' as in other places in the file, namely declaring the variable beforehand but still ignoring the return value :-/
Revision
2078 -
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Modified
Thu Nov 20 16:10:10 2008 UTC
(12 years, 2 months ago)
by
phornby
Two changes.
1. Move blocktimer from escript to esysUtils.
2. Make it possible to link to paso as a DLL or .so.
Should have no effect on 'nix's
In respect of 1., blocktimer had begun to spring up everywhere, so
for the moment I thought it best to move it to the only other library that
pops up all over the place.
In respect of 2., paso needed to be a DLL in order to use the windows intelc /fast
option, which does aggressive multi-file optimisations. Even in its current form, it either
vectorises or parallelises hundreds more loops in the esys system than appear in the pragmas.
In achieving 2. I have not been too delicate in adding
PASO_DLL_API
declarations to the .h files in paso/src. Only toward the end of the process of
the conversion, when the number of linker errors dropped below 20, say, did I choosy about what
functions in a header I declared PASO_DLL_API. As a result, there are likely to be many routines
declared as external functions symbols that are in fact internal to the paso DLL.
Why is this an issue? It prevents the intelc compiler from getting aggressive on the paso module.
With pain there is sometimes gain. At least all the DLL rules in windows give good
(non-microsoft) compiler writers a chance to really shine.
So, if you should see a PASO_DLL_API on a function in a paso header file,
and think to yourself, "that function is only called in paso, why export it?", then feel free to
delete the PASO_DLL_API export declaration.
Here's hoping for no breakage.....
Revision
2076 -
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Modified
Thu Nov 20 12:34:17 2008 UTC
(12 years, 2 months ago)
by
phornby
I may get into trouble for this.
boost-python 1.34 does have a docstring_options class,
but does not have a 3 argument constructor for
it. So the test has been modified to
#if ((BOOST_VERSION/100)%1000 > 34) || (BOOST_VERSION/100000 >1)
If you wish to make things more delicate, one can define a 2 argument construction
of docopt just for 1.34 (with an #elif). Probably not worth the effort frankly.
Hope that this has not broken anything for anyone else. The SVN logs suggest this is a
little fragile.....
Also, please be aware that much of our chemistry interface code, that we wish to use with
escript, makes extensive use of boost python.
Having two different boost versions mucking with the python interpreter sounds
like a really bad idea, I'm sure you'll agree.
The problem is that it is not a simple task for us to build new versions of boost-python
on all our platforms. Consequently, it would be nice to be informed when you guys
intend to upgrade a support library of this nature so that we can plan and allocate
resources to keep up.
Cheers.
Revision
2066 -
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Modified
Thu Nov 20 05:31:33 2008 UTC
(12 years, 2 months ago)
by
jfenwick
Fixed Data::toString to look at the amount of data actually stored rather than the number of points in the domain.
Added support for GeneralTensorProduct to LazyData
Revision
2064 -
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Modified
Thu Nov 20 04:06:34 2008 UTC
(12 years, 2 months ago)
by
jfenwick
docstring_options was added in boost 1.34 - macro'd it out if you are
compiling earlier than that.
Revision
2063 -
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Modified
Wed Nov 19 04:59:43 2008 UTC
(12 years, 2 months ago)
by
jfenwick
- Removed some deprecated directories.
- Removed the pythfilter script for converting python doco into c++ stubs. The license was unspecified and we don't use it.
- Suppressed long long warnings on gcc (the Mac complained).
- svn:ignored Mac library suffixes in lib directory
Revision
2061 -
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Modified
Wed Nov 19 03:40:21 2008 UTC
(12 years, 2 months ago)
by
jfenwick
Fixing some warnings from epydoc.
Disabled c++ signatures in python docstrings.
Removed references to Bruce in epydoc and the users guide.
Revision
2050 -
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Modified
Mon Nov 17 08:59:57 2008 UTC
(12 years, 2 months ago)
by
phornby
OK, I have to include this file in the experiment
to use the intelc math library on windows.
Revision
2049 -
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Modified
Mon Nov 17 08:54:33 2008 UTC
(12 years, 2 months ago)
by
phornby
A little refinement of what to leave out of UnaryFuncs.h
if using the intelc compiler on windows.
Revision
2048 -
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Modified
Mon Nov 17 08:46:00 2008 UTC
(12 years, 2 months ago)
by
phornby
Experimental commit to move the code to a windows box
on the other side of a firewall. Purpose: add support for the
imploved intelc math library on windows.
Revision
2041 -
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Modified
Sat Nov 15 12:45:15 2008 UTC
(12 years, 2 months ago)
by
phornby
ESYS_STATIC_LIB no longer needs to be defined in SConscript files.
Revision
2037 -
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Modified
Thu Nov 13 06:17:12 2008 UTC
(12 years, 2 months ago)
by
jfenwick
Fixed some warnings in the unit tests.
Added support for symmetric and nonsymmetric operations on LazyData.
Revision
2032 -
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Modified
Wed Nov 12 08:11:19 2008 UTC
(12 years, 2 months ago)
by
phornby
Missed an extra additional CPPDEFINES for the py_wrapper_local_env.
Revision
2031 -
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Modified
Wed Nov 12 08:02:33 2008 UTC
(12 years, 2 months ago)
by
phornby
Need finer control than INTERFACE_STATIC_LIB could exert. Now there is a
XXX_STATIC_LIB for each lib.
Revision
2030 -
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Modified
Wed Nov 12 07:34:08 2008 UTC
(12 years, 2 months ago)
by
phornby
Fix the undef'fing of _DLL_API in windows case.
Revision
2029 -
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Modified
Wed Nov 12 07:27:05 2008 UTC
(12 years, 2 months ago)
by
phornby
Test a more elegant way of handling XXX_DLL_API macros.
Revision
2027 -
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Modified
Tue Nov 11 02:52:24 2008 UTC
(12 years, 2 months ago)
by
phornby
Ensure ESCRIPT_EXPORTS is defined only while compiling escript on windows.
A similar comment applies to FINLEY_EXPORTS.
SConstruct:
Fixed a comment.
reformatted the Export() call, and added IS_WINDOWS_PLATFORM to the exports.
Revision
2021 -
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Modified
Mon Nov 10 14:07:49 2008 UTC
(12 years, 2 months ago)
by
phornby
Use the NO_ARG trick on the PROC_OP macro expansions.
Revision
2019 -
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Modified
Mon Nov 10 13:49:00 2008 UTC
(12 years, 2 months ago)
by
phornby
Yet another concerted effort to handle missing macro arguments
in a portable way.
Revision
2018 -
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Modified
Mon Nov 10 13:31:43 2008 UTC
(12 years, 2 months ago)
by
phornby
Only import mathimf.h on win32 with intelc. Allow others to use the
standard math.h
change the #ifndef const -> #ifndef __const (oops!!)
Revision
2008 -
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Modified
Mon Nov 10 08:59:14 2008 UTC
(12 years, 2 months ago)
by
phornby
Signed/unsigned comparisons eliminated (just loop variables, easy fix).
Revision
2007 -
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Modified
Mon Nov 10 06:34:11 2008 UTC
(12 years, 2 months ago)
by
jfenwick
Added a private operator= to Taipan to prevent people from copying trying to copy instances.
Not that we have any of that.... but if someone ever tries, we'll be ready for them.
I have come to the conclusion that -Weffc++ is not usable for us. Its output is too noisy complaining about classes which we do not control.
Revision
2005 -
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Modified
Mon Nov 10 01:21:39 2008 UTC
(12 years, 2 months ago)
by
jfenwick
Bringing all changes across from schroedinger.
(Note this does not mean development is done, just that it will happen
on the trunk for now).
If anyone notices any problems please contact me.
Revision
1981 -
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Modified
Thu Nov 6 05:27:33 2008 UTC
(12 years, 2 months ago)
by
jfenwick
More warning removal.
Revision
1977 -
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Modified
Thu Nov 6 03:54:35 2008 UTC
(12 years, 2 months ago)
by
jfenwick
More warning removal.
Revision
1962 -
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Modified
Tue Nov 4 07:17:31 2008 UTC
(12 years, 2 months ago)
by
gross
there is an offet missing when copy data to a data point.
Revision
1953 -
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Modified
Thu Oct 30 07:01:11 2008 UTC
(12 years, 2 months ago)
by
phornby
removed one signed/unsigned value comparison. The remaining one at line 863 is far more difficult to deal with.
Revision
1952 -
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Modified
Thu Oct 30 06:16:00 2008 UTC
(12 years, 2 months ago)
by
jfenwick
Fixed /* in a comment.
The rank of a datapoint is now an unsigned int.
Revision
1946 -
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Modified
Wed Oct 29 05:48:53 2008 UTC
(12 years, 2 months ago)
by
jfenwick
A cleanup of some of the problems I found doing a Wall compile.
Removed some commented out lines.
Swapped some member initialisers.
Removed virtual qualifiers from some methods in FunctionSpace.
Fixed some unused or (possibly) uninitialised variables.
Revision
1921 -
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Modified
Thu Oct 23 11:32:24 2008 UTC
(12 years, 3 months ago)
by
phornby
Jump through hoops to meet the OPENMP 2.5 restrictions on loop variables.
It's all ready for OPENMP 3.0 improvments, and should compile cleanly on other platforms.
Revision
1918 -
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Modified
Thu Oct 23 09:14:13 2008 UTC
(12 years, 3 months ago)
by
phornby
fix a signed and unsigned integer comparison. As your meshes get larger, this type of error will bite.
Revision
1897 -
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Modified
Mon Oct 20 00:32:30 2008 UTC
(12 years, 3 months ago)
by
jfenwick
Modified Data::toString() so it doesn't throw on DataEmpty.
Added setEscriptParamInt and getEscriptParamInt as free functions.
At the moment all they do is allow you to set the param TOO_MANY_LINES.
This is used to determine when printing a Data object will show you the
points and when it will print a summary.
I've set the default value back to 80 lines.
If you need to see more lines use (in python):
setEscriptParamInt("TOO_MANY_LINES",80000)
Revision
1887 -
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Modified
Wed Oct 15 03:26:25 2008 UTC
(12 years, 3 months ago)
by
ksteube
Fixed two typos that stopped the test suite from running.
Also, gcc 4.3.2 issued several warnings not seen before:
ignoring the return value of fscanf and using the wrong format
with printf.
Revision
1878 -
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Modified
Tue Oct 14 03:39:13 2008 UTC
(12 years, 3 months ago)
by
gross
new version of JacobiFree Newton GMRES + test added.
Revision
1877 -
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Modified
Tue Oct 14 02:58:39 2008 UTC
(12 years, 3 months ago)
by
ksteube
convection.py checkpointing uses mkdir/rmdir, and under MPI there
was a race condition.
mkdir needs to be run on only one CPU and then a barrier to prevent
working processors from using the directory before it exists.
Added methods domain.MPIBarrier and domain.onMasterProcessor() to
implement this technique.
A more general solution might be possible in the future.
Revision
1873 -
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Modified
Mon Oct 13 04:32:22 2008 UTC
(12 years, 3 months ago)
by
jfenwick
Fixed a compile error under MPI.
Cleaned up a comment.
Revision
1872 -
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Modified
Mon Oct 13 00:18:55 2008 UTC
(12 years, 3 months ago)
by
jfenwick
Closing the moreshared branch
Revision
1859 -
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Modified
Wed Oct 8 03:03:37 2008 UTC
(12 years, 3 months ago)
by
gross
first version of testing for transport solver.
Revision
1857 -
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Modified
Tue Oct 7 23:58:44 2008 UTC
(12 years, 3 months ago)
by
jfenwick
Updated doco to describe the behaviour of inf, sup and Lsup for cases
where none of the tags in use in the domain have values.
It confused me when I was testing.
Revision
1855 -
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Modified
Tue Oct 7 05:25:30 2008 UTC
(12 years, 3 months ago)
by
jfenwick
Modified Data::copyWithMask to have a less cryptic implementation.
Revision
1847 -
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Modified
Fri Oct 3 06:45:34 2008 UTC
(12 years, 3 months ago)
by
phornby
OK, these get the blahcpp.so names correct now.
Revision
1846 -
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Modified
Fri Oct 3 06:42:35 2008 UTC
(12 years, 3 months ago)
by
gross
bug fixed.
Revision
1845 -
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Modified
Fri Oct 3 05:23:47 2008 UTC
(12 years, 3 months ago)
by
gross
some naming problem for the installation of escriptcpp and finleycpp. Apparently this came is trough some mofifications in windows
Revision
1841 -
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Modified
Fri Oct 3 03:57:52 2008 UTC
(12 years, 3 months ago)
by
gross
modification on LinearPDE class and a first version of Transport class
Revision
1840 -
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Fri Oct 3 03:16:11 2008 UTC
(12 years, 3 months ago)
by
phornby
These now install the correct .pyd files on windows.
Revision
1838 -
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Modified
Fri Oct 3 02:05:01 2008 UTC
(12 years, 3 months ago)
by
phornby
add 4 missing ESCRIPT_DLL_API that prevented linking.
Revision
1837 -
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Modified
Fri Oct 3 02:03:07 2008 UTC
(12 years, 3 months ago)
by
phornby
Just getting run_tests going. I now recall that windows python will look for a .pyd
and not a .dll. So somehow we must install the python wrapper .dlls as a .pyds
I'll get to that later.
Revision
1835 -
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Modified
Thu Oct 2 10:18:03 2008 UTC
(12 years, 3 months ago)
by
phornby
There is no unistd.h on windows, as the name would imply.
I assume it is included for gethostname only.
Revision
1834 -
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Modified
Thu Oct 2 09:48:45 2008 UTC
(12 years, 3 months ago)
by
phornby
Remove a signed/unsigned comparison
Revision
1833 -
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Modified
Thu Oct 2 09:47:24 2008 UTC
(12 years, 3 months ago)
by
phornby
One cannot give a static function external linkage
(eigenvalues_and_eigenvectors and swapaxes).
I'm not even sure the external linkage is needed for inline functions.
Revision
1827 -
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Modified
Thu Oct 2 04:28:07 2008 UTC
(12 years, 3 months ago)
by
ksteube
MPI parallelized dump/load for Constant and Tagged data.
run_escriptOnFinley.py runs hybrid MPI/OpenMP.
Revision
1819 -
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Modified
Tue Sep 30 05:58:06 2008 UTC
(12 years, 3 months ago)
by
artak
Firs version of symmetric Gauss-Seidel preconditioner with coloring
Revision
1811 -
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Modified
Thu Sep 25 23:11:13 2008 UTC
(12 years, 3 months ago)
by
ksteube
Copyright updated in all files
Revision
1808 -
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Modified
Thu Sep 25 03:14:56 2008 UTC
(12 years, 3 months ago)
by
jfenwick
Removed some commented out lines.
Modified DataExpanded to not throw when creating objects with zero
samples.
Modified toString() to report "(data contains no samples)" rather than
printing a blank line.
Modified DataExpanded::dump() and load so that they do not attempt so
save/load the ids and data fields if the data object contains no
samples.
Revision
1806 -
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Modified
Thu Sep 25 00:36:10 2008 UTC
(12 years, 3 months ago)
by
ksteube
Cleaned up use of gethostname
Revision
1805 -
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Modified
Wed Sep 24 23:39:00 2008 UTC
(12 years, 3 months ago)
by
ksteube
Added python-level methods getMPISizeWorld() and getMPIRankWorld() for MPI process info.
Test suite run_inputOutput.py runs on any number of cores now, hybrid may still be a problem.
Revision
1803 -
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Modified
Wed Sep 24 06:20:29 2008 UTC
(12 years, 4 months ago)
by
jfenwick
All about making DataEmpty instances throw.
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Exposed getDim from AbstractDomain to python to fix bug.
Added isEmpty member to DataAbstract to allow it to throw is queries are
made about a DataEmpty instance.
Added exceptions to DataAbstract, DataEmpty and Data to prevent calls
being made against DataEmpty objects.
The following still work as expected on DataEmpty instances
copy, getDomain, getFunctionSpace, isEmpty, isExpanded, isProtected,
isTagged, setprotection.
You can also call interpolate, however it should throw if you try to
change FunctionSpaces.
Revision
1802 -
Directory Listing
Modified
Tue Sep 23 01:03:29 2008 UTC
(12 years, 4 months ago)
by
jfenwick
Added canTag methods to FunctionSpace and AbstractDomain (and its
offspring).
This checks to see if the domain supports tags for the given type of
function space.
Constructors for DataTagged now throw exceptions if you attempt to make
a DataTagged with a FunctionSpace which does not support tags.
To allow the default constructor to work, NullDomain has a single
functioncode which "supports" tagging.
Fixed a bug in DataTagged::toString and DataTypes::pointToString.
Added FunctionSpace::getListOfTagsSTL.
algorithm(DataTagged, BinaryFunction) in DataAlgorithm now only
processes tags known to be in use.
This fixes mantis issue #0000186.
Added comment to Data.h intro warning about holding references if the
underlying DataAbstract changes.
_python_ unit tests have been updated to test TaggedData with invalid
FunctionSpaces and to give the correct answers to Lsup etc.
Revision
1801 -
Directory Listing
Modified
Fri Sep 19 01:37:09 2008 UTC
(12 years, 4 months ago)
by
ksteube
Fixed serialization of I/O for MPI...code didn't compile without MPI
Revision
1800 -
Directory Listing
Modified
Thu Sep 18 05:28:20 2008 UTC
(12 years, 4 months ago)
by
ksteube
Serialized parallel I/O when writing mesh or data to NetCDF file on multiple MPI processors.
Added domain method getMPIComm() to complement getMPISize() and getMPIRank().
Revision
1799 -
Directory Listing
Modified
Wed Sep 17 06:33:18 2008 UTC
(12 years, 4 months ago)
by
jfenwick
Added Data::copySelf() [Note: this is exposed as copy() in python].
This method returns a pointer to a deep copy of the target.
There are c++ tests but no python tests for this yet.
All DataAbstracts now have a deepCopy() which simplifies the
implementation of the compy methods.
Revision
1796 -
Directory Listing
Modified
Wed Sep 17 01:45:46 2008 UTC
(12 years, 4 months ago)
by
jfenwick
Merged noarrayview branch onto trunk.
Revision
1787 -
Directory Listing
Modified
Mon Sep 15 01:36:34 2008 UTC
(12 years, 4 months ago)
by
artak
MINRES solver is added to escript. Additional 16 tests are added to run_simplesolve for MINRES and TFQMR solvers
Revision
1757 -
Directory Listing
Modified
Mon Sep 8 02:28:38 2008 UTC
(12 years, 4 months ago)
by
gross
no ifdef _OPENMP required
Revision
1748 -
Directory Listing
Modified
Wed Sep 3 06:10:39 2008 UTC
(12 years, 4 months ago)
by
ksteube
MPI parallelism for Data().dump and load. Use multiple NetCDF
files, one file per MPI process
Revision
1719 -
Directory Listing
Modified
Thu Aug 21 06:24:29 2008 UTC
(12 years, 5 months ago)
by
gross
robust function to normalize data object added
Revision
1718 -
Directory Listing
Modified
Thu Aug 21 05:50:11 2008 UTC
(12 years, 5 months ago)
by
gross
method returning reference id added to FunctionSpace class
Revision
1716 -
Directory Listing
Modified
Thu Aug 21 05:03:49 2008 UTC
(12 years, 5 months ago)
by
gross
getListOfTags method added to FunctionSpace class
Revision
1705 -
Directory Listing
Modified
Thu Aug 14 05:56:40 2008 UTC
(12 years, 5 months ago)
by
ksteube
Branch scons-dev is hereby closed.
Some parts of scons scripts have been re-written.
Revision
1703 -
Directory Listing
Modified
Thu Aug 14 05:34:25 2008 UTC
(12 years, 5 months ago)
by
artak
TFQMR solver is added to PASO solver. It is not parallelised yet.
Revision
1693 -
Directory Listing
Modified
Fri Aug 8 04:22:58 2008 UTC
(12 years, 5 months ago)
by
jfenwick
Modified toString() on Data objects.
str(x) or print x will now print a summary of the data rather than all
the points if the output would take more than 80 lines.
Revision
1664 -
Directory Listing
Modified
Tue Jul 22 03:41:38 2008 UTC
(12 years, 6 months ago)
by
ksteube
Install() on Mac OS was naming shared libs file.dylib...not OK for our
libraries for python calling C++ (escriptcpp.so and finleycpp.so).
This is because python's dlopen() calls only look for .so files.
Revision
1662 -
Directory Listing
Modified
Tue Jul 22 01:49:21 2008 UTC
(12 years, 6 months ago)
by
ksteube
Ran a simple Escript program on Mac OS Darwin. Still much to do.
Revision
1649 -
Directory Listing
Modified
Tue Jul 15 08:41:02 2008 UTC
(12 years, 6 months ago)
by
phornby
Make operator=() on exception non-virtual. Should silence the Altix compiler.
However, if an exception is cast to another parent type, and
operator=() is called when the exception so cast is an l-value in the assignment,
an "incomplete" assignment will occur, copying only the parent class members of the
l-value in the assignmnet.
Revision
1644 -
Directory Listing
Modified
Tue Jul 15 05:25:32 2008 UTC
(12 years, 6 months ago)
by
phornby
tmp_str was unused var on windows.
Revision
1639 -
Directory Listing
Modified
Mon Jul 14 08:55:25 2008 UTC
(12 years, 6 months ago)
by
gross
Revision
1637 -
Directory Listing
Modified
Mon Jul 14 05:34:59 2008 UTC
(12 years, 6 months ago)
by
ksteube
Resolved some compiler warnings
Changed blocktimer to not use strdup, intead malloc and strcpy
Revision
1635 -
Directory Listing
Modified
Sat Jul 12 10:00:50 2008 UTC
(12 years, 6 months ago)
by
phornby
Last commit hung. Trying to recover. Also, remove excessive extern C {} I introduced
Revision
1634 -
Directory Listing
Modified
Sat Jul 12 09:08:33 2008 UTC
(12 years, 6 months ago)
by
phornby
linux_gcc_eg_options.py:
remove the std99 option, it is no longer needed as the code compiles without
C 1999 extension (need for these extensions elinminated in windows port).
Turn on all warnings except unknown pragmas. Should catch a lot of stuff.
SConstruct:
Impassioned plea
system_dep.h:
Add the standard incantation for dealing with const declarations
in C code called from C and C++
blocktimer:
Get the calling interface right for C code called from C and C++
and use __const as defined in system_dep.h
(Should be re-factored into compiler_dep.h file).
MeshAdapterFactory.cpp:
Since we have (effectively) no control over netCDF policy,
cast const char *'s to char *'s
Revision
1631 -
Directory Listing
Modified
Sat Jul 12 07:16:39 2008 UTC
(12 years, 6 months ago)
by
trankine
eliminate unused var argument of catch statement.
Revision
1628 -
Directory Listing
Modified
Fri Jul 11 13:12:46 2008 UTC
(12 years, 6 months ago)
by
phornby
Merge in /branches/windows_from_1456_trunk_1620_merged_in branch.
You will find a preserved pre-merge trunk in tags under tags/trunk_at_1625.
That will be useful for diffing & checking on my stupidity.
Here is a list of the conflicts and their resolution at this
point in time.
=================================================================================
(LLWS == looks like white space).
finley/src/Assemble_addToSystemMatrix.c - resolve to branch - unused var. may be wrong.....
finley/src/CPPAdapter/SystemMatrixAdapter.cpp - resolve to branch - LLWS
finley/src/CPPAdapter/MeshAdapter.cpp - resolve to branch - LLWS
paso/src/PCG.c - resolve to branch - unused var fixes.
paso/src/SolverFCT.c - resolve to branch - LLWS
paso/src/FGMRES.c - resolve to branch - LLWS
paso/src/Common.h - resolve to trunk version. It's omp.h's include... not sure it's needed,
but for the sake of saftey.....
paso/src/Functions.c - resolve to branch version, indentation/tab removal and return error
on bad unimplemented Paso_FunctionCall.
paso/src/SolverFCT_solve.c - resolve to branch version, unused vars
paso/src/SparseMatrix_MatrixVector.c - resolve to branch version, unused vars.
escript/src/Utils.cpp - resloved to branch, needs WinSock2.h
escript/src/DataExpanded.cpp - resolved to branch version - LLWS
escript/src/DataFactory.cpp - resolve to branch version
=================================================================================
This currently passes tests on linux (debian), but is not checked on windows or Altix yet.
This checkin is to make a trunk I can check out for windows to do tests on it.
Known outstanding problem is in the operator=() method of exceptions
causing warning messages on the intel compilers.
May the God of doughnuts have mercy on my soul.
Revision
1620 -
Directory Listing
Modified
Fri Jun 27 02:30:18 2008 UTC
(12 years, 6 months ago)
by
ksteube
Included more MPI configuration options on Savanna
Revision
1568 -
Directory Listing
Modified
Sat May 24 03:15:08 2008 UTC
(12 years, 8 months ago)
by
ksteube
Some testing on ac.apac.edu.au, more work needed
New pyvisi example offscreen.py for offscreen rendering
Revision
1567 -
Directory Listing
Modified
Thu May 22 22:52:41 2008 UTC
(12 years, 8 months ago)
by
ksteube
scons all_tests passes on Savanna with OMP=1 and OMP=4.
New boost for Savanna.
A few more cases of #s -> %s.
Revision
1561 -
Directory Listing
Modified
Wed May 21 06:58:52 2008 UTC
(12 years, 8 months ago)
by
ksteube
Added python method printParallelThreadCounts() to tell how many MPI CPUs and OpenMP threads we are using (for testing hybrid runs)
Revision
1559 -
Directory Listing
Modified
Wed May 21 04:27:15 2008 UTC
(12 years, 8 months ago)
by
ksteube
Compiles and runs on Savanna (hostname service0)
Revision
1513 -
Directory Listing
Modified
Tue Apr 15 08:47:57 2008 UTC
(12 years, 9 months ago)
by
gross
pragma ivdep removed. icc produced wrong code.
Revision
1487 -
Directory Listing
Modified
Thu Apr 10 05:28:01 2008 UTC
(12 years, 9 months ago)
by
gross
reordering when reading Netcfd files added.
Revision
1455 -
Directory Listing
Modified
Thu Feb 28 17:19:44 2008 UTC
(12 years, 10 months ago)
by
phornby
Merge of branches/windows_from_1431_trunk.
Revamp of the exception system.
Fix unused vars and signed/unsigned comparisons.
defined a macro THROW(ARG) in the system_dep.h's to
deal with the expectations of declarations on different architectures.
Details in the logs of branches/windows_from_1431_trunk.
pre-merge snapshot of the trunk in tags/trunk_at_1452
Revision
1431 -
Directory Listing
Modified
Wed Feb 27 09:52:25 2008 UTC
(12 years, 10 months ago)
by
trankine
This trunk now compiles and links under windows.
It passes the FunctionSpace.__str__() test 50000 times on windows.
It fails scons run_tests and scons_py_tests as it always did, but I have an idea why.
Please remember to add the appropriate dll linkage info to declarations that are to be visible outside a .so or .dll. Terry (BTW, PGH here) spent a lot of hacks clearing out blocktimer from the rest of the code when these 5 or 6 lines would have done the trick.
Revision
1430 -
Directory Listing
Modified
Wed Feb 27 09:07:19 2008 UTC
(12 years, 10 months ago)
by
trankine
Get the windows dll linkage right fo C_TensorBinaryOperation
Revision
1429 -
Directory Listing
Modified
Wed Feb 27 08:53:20 2008 UTC
(12 years, 10 months ago)
by
trankine
"and" and "or" are not C or C++ boolean operations.
Revision
1428 -
Directory Listing
Modified
Wed Feb 27 08:07:11 2008 UTC
(12 years, 10 months ago)
by
trankine
Merge changes from windows port branch to test build on *nix not broken.
Revision
1426 -
Directory Listing
Modified
Wed Feb 27 06:12:15 2008 UTC
(12 years, 10 months ago)
by
trankine
Merge the changes to these few files with the windows port branch to test just these changes under linux and altix.
Revision
1417 -
Directory Listing
Modified
Mon Feb 25 04:45:48 2008 UTC
(12 years, 10 months ago)
by
gross
some more work on the transport solver.
Revision
1409 -
Directory Listing
Modified
Wed Feb 6 22:44:28 2008 UTC
(12 years, 11 months ago)
by
gross
getTagNumber called the wrong corresponding FunctionSpace method. Results were wrong for number of data points per sample >1.
Revision
1407 -
Directory Listing
Modified
Mon Feb 4 06:45:48 2008 UTC
(12 years, 11 months ago)
by
gross
new upwinding algorithm (still fails)
Revision
1388 -
Directory Listing
Modified
Fri Jan 11 07:45:58 2008 UTC
(13 years ago)
by
trankine
And get the *(&(*&(* name right
Revision
1387 -
Directory Listing
Modified
Fri Jan 11 07:45:26 2008 UTC
(13 years ago)
by
trankine
Original Path:
temp/escript/src
Restore the trunk that existed before the windows changes were committed to the (now moved to branches) old trunk.
Revision
1370 -
Directory Listing
Modified
Wed Jan 2 09:21:43 2008 UTC
(13 years ago)
by
gross
explicit upwinding scheme added.
Revision
1367 -
Directory Listing
Modified
Wed Dec 19 02:45:07 2007 UTC
(13 years, 1 month ago)
by
gross
finley can now assemble a transport problem.
Revision
1364 -
Directory Listing
Modified
Mon Dec 17 07:22:45 2007 UTC
(13 years, 1 month ago)
by
gross
finley interface to paso's transport solver added.
Revision
1361 -
Directory Listing
Modified
Fri Dec 14 09:26:51 2007 UTC
(13 years, 1 month ago)
by
gross
first steps towards a flux controlled transport solver.
Revision
1358 -
Directory Listing
Modified
Wed Dec 5 03:41:06 2007 UTC
(13 years, 1 month ago)
by
gross
setTaggedValue works now for expanded data.
Revision
1353 -
Directory Listing
Modified
Thu Nov 22 06:05:35 2007 UTC
(13 years, 2 months ago)
by
matt
Reversed the removal of blocktimer code. This needs to be fixed properly for
the Windows stuff to work.
Revision
1351 -
Directory Listing
Modified
Thu Nov 22 01:54:26 2007 UTC
(13 years, 2 months ago)
by
matt
Removed blocktimer code from gradOn().
Revision
1350 -
Directory Listing
Modified
Thu Nov 22 01:17:20 2007 UTC
(13 years, 2 months ago)
by
matt
Disambiguation of more template argument parameters so that it compiles under Windows.
Revision
1349 -
Directory Listing
Modified
Wed Nov 21 06:38:08 2007 UTC
(13 years, 2 months ago)
by
matt
Disambiguation of several template argument parameters so that it compiles under Windows.
Revision
1347 -
Directory Listing
Modified
Fri Nov 16 05:37:07 2007 UTC
(13 years, 2 months ago)
by
ksteube
Completed mesh.dump(file) and mesh=LoadMesh(file) by adding TagMap and
implementing MPI parallelism.
Now allocating ElementFile for ContactElements even if there are none.
Removed file Mesh_dump.c since dump/loadMesh are in CPPAdapter/MeshAdapter*.cpp.
Revision
1334 -
Directory Listing
Modified
Thu Oct 25 05:08:54 2007 UTC
(13 years, 3 months ago)
by
matt
Initial rewrite of escript unary operations. The rewritten operations are now single-pass.
Revision
1332 -
Directory Listing
Modified
Tue Oct 23 03:28:51 2007 UTC
(13 years, 3 months ago)
by
matt
Pow now uses the new binary function interface of C_TensorBinaryOperation.
Revision
1328 -
Directory Listing
Modified
Mon Oct 15 03:23:15 2007 UTC
(13 years, 3 months ago)
by
matt
Fixed bug in power operation.
Revision
1327 -
Directory Listing
Modified
Fri Oct 12 07:10:40 2007 UTC
(13 years, 3 months ago)
by
matt
Initial rewrite of binary escript operations.
Revision
1325 -
Directory Listing
Modified
Mon Oct 1 06:28:24 2007 UTC
(13 years, 3 months ago)
by
matt
DataArray has been removed as it is no longer used. Unit tests have been
updated accordingly with substitute constructs. Any files pertaining to
DataArray have been removed.
Revision
1323 -
Directory Listing
Modified
Thu Sep 27 06:20:29 2007 UTC
(13 years, 3 months ago)
by
matt
Minor inconsistency.
Revision
1319 -
Directory Listing
Modified
Thu Sep 27 00:27:51 2007 UTC
(13 years, 3 months ago)
by
matt
DataArray is no longer needed. However, the unit tests still require it.
Revision
1314 -
Directory Listing
Modified
Tue Sep 25 01:46:27 2007 UTC
(13 years, 4 months ago)
by
ksteube
Copied a couple more files from MPI branch to trunk
Revision
1313 -
Directory Listing
Modified
Tue Sep 25 01:44:26 2007 UTC
(13 years, 4 months ago)
by
ksteube
Copied a handful of files from trunk-mpi-branch into trunk
Revision
1312 -
Directory Listing
Modified
Mon Sep 24 06:18:44 2007 UTC
(13 years, 4 months ago)
by
ksteube
The MPI branch is hereby closed. All future work should be in trunk.
Previously in revision 1295 I merged the latest changes to trunk into trunk-mpi-branch.
In this revision I copied all files from trunk-mpi-branch over the corresponding
trunk files. I did not use 'svn merge', it was a copy.
Revision
1310 -
Directory Listing
Modified
Mon Sep 24 04:00:47 2007 UTC
(13 years, 4 months ago)
by
ksteube
A few additions to make trunk match trunk-mpi-branch
Revision
1250 -
Directory Listing
Modified
Thu Aug 16 02:54:42 2007 UTC
(13 years, 5 months ago)
by
ksteube
Minor repairs to scons files
Revision
1247 -
Directory Listing
Modified
Tue Aug 14 01:29:20 2007 UTC
(13 years, 5 months ago)
by
ksteube
New python method getVersion() which returns the Subversion revision
from which escript was compiled
Revision
1246 -
Directory Listing
Modified
Mon Aug 13 22:09:00 2007 UTC
(13 years, 5 months ago)
by
phornby
Add the esys and lib directories to the repository.
Remove the IS_WINDOWS_PLATFORM from the SConscripts, and
do the logic once in SConstruct.
SConstruct now includes example options files if the hostname_options file is not present.
This needs some more work for the altix.
The tests now depend upon the build target. This is important it seems, as there appears to be the
possibility of calling linking different libraries
against incompatible versions of sub-libraries.
This addressed most of the exceptions we were getting on windows.
All the useNetCDF logic is now done by SConstruct.
Made the init_target part of the build alias so that __ini__.py is created on a fresh checkout.
py_tests mostly pass on windows, only need to track down the exception in run_tests.
Revision
1235 -
Directory Listing
Modified
Mon Aug 13 00:25:29 2007 UTC
(13 years, 5 months ago)
by
phornby
Started the removal of IS_WINDOWS_PLATFORM, and now insis that the windows options file be kept up to date, and be complete.
boost_libs -> boost_lib.
Revision
1149 -
Directory Listing
Modified
Thu May 17 00:30:15 2007 UTC
(13 years, 8 months ago)
by
gross
some fixes from the windows version
Revision
1141 -
Directory Listing
Modified
Tue May 15 04:24:51 2007 UTC
(13 years, 8 months ago)
by
gross
Some changes to make things run on windows. There is still a problem with netcdf an long file names on windows but there is the suspicion that this is a bigger problem related to boost (compiler options). In fact runs with large numbers of iteration/time steps tend to create seg faults.
Revision
1139 -
Directory Listing
Modified
Mon May 14 05:12:53 2007 UTC
(13 years, 8 months ago)
by
ksteube
Finished renaming of boost_lib to boost_libs and boost_lib_path to boost_libs_path.
Revision
1137 -
Directory Listing
Modified
Thu May 10 08:11:31 2007 UTC
(13 years, 8 months ago)
by
gross
This version passes the tests on windows except for
* vtk
* netCDF
The version needs to be tested on altix and linux
Revision
1131 -
Directory Listing
Modified
Tue May 8 05:52:21 2007 UTC
(13 years, 8 months ago)
by
gross
netcdf c++ interface removed
Revision
1118 -
Directory Listing
Modified
Tue Apr 24 08:55:04 2007 UTC
(13 years, 9 months ago)
by
gross
problem with reset of faulty PDE rhs fixed.
Revision
1092 -
Directory Listing
Modified
Fri Apr 13 03:39:49 2007 UTC
(13 years, 9 months ago)
by
gross
the useless profilinf for data.cpp removed (doDebug=yes should work again)
and a small bug in the gmsh reader fixed.
Revision
1063 -
Directory Listing
Modified
Mon Mar 26 08:29:18 2007 UTC
(13 years, 10 months ago)
by
gross
test for creation of reduced function spaces added.
tests for dumping data on reduced function spaces added.
This showed a small bug with compilation setting for compilation with netCDF which is fixed
Revision
1062 -
Directory Listing
Modified
Mon Mar 26 06:17:53 2007 UTC
(13 years, 10 months ago)
by
gross
reduced integration schemes are implemented now for grad, integrate, etc. Tests still to be added.
Revision
1059 -
Directory Listing
Modified
Fri Mar 23 11:01:53 2007 UTC
(13 years, 10 months ago)
by
gross
first steps toward reduced element integration order. The escript bit is done but the finley part still needs work.
Revision
1044 -
Directory Listing
Modified
Mon Mar 19 07:29:31 2007 UTC
(13 years, 10 months ago)
by
gross
clear name tagging is supported now.
Revision
1034 -
Directory Listing
Modified
Wed Mar 14 23:49:20 2007 UTC
(13 years, 10 months ago)
by
gross
In VC++ boost has problems with numarray arguments from python. This
fixes that problem by taking python::object arguments from the python
level and converting it into python::numeric::array on the C++ level.
This hasn't been tested with VC++ yet.
Moreover the two Data methods dealing with big numarrays as argument and
return value have been removed.
Revision
1032 -
Directory Listing
Modified
Wed Mar 14 06:32:09 2007 UTC
(13 years, 10 months ago)
by
phornby
Implement inverse hyp. functions.
Revision
1031 -
Directory Listing
Modified
Wed Mar 14 06:03:21 2007 UTC
(13 years, 10 months ago)
by
phornby
Finer control of the inverse hyp. functions.
Revision
1030 -
Directory Listing
Modified
Wed Mar 14 05:14:44 2007 UTC
(13 years, 10 months ago)
by
phornby
Assemble_CopyElementData.c - resolve with my local edits.
Mesh_saveVTK.c - remove debug print.
DataArrayView.h - remove dllim/export declarations on template functions.
Revision
1028 -
Directory Listing
Modified
Wed Mar 14 00:15:24 2007 UTC
(13 years, 10 months ago)
by
gross
modifications to be compliant with _WIN32. The substitutes for asinh, acosh, atanh are still missing (erf will through an exception)
Revision
1026 -
Directory Listing
Modified
Tue Mar 13 08:25:00 2007 UTC
(13 years, 10 months ago)
by
phornby
Data.cpp - indefed out the erf & inv. hyperbolics on windows.
DataAlgorithmAdapterTestCase & DataTestCase - Fix the ifndef on _WIN32 & _INTEL_COMPILER
SConstruct - chamges to the PATH so windows can find DLLs.
Revision
1023 -
Directory Listing
Modified
Tue Mar 13 05:43:36 2007 UTC
(13 years, 10 months ago)
by
gross
netCDF can now be switched off at compilation. Consequently load and dump of data objects is not available then.
Revision
1022 -
Directory Listing
Modified
Tue Mar 13 02:25:53 2007 UTC
(13 years, 10 months ago)
by
phornby
Now define the destructors for all the Exceptions (sorry guys & gals).
Revision
1020 -
Directory Listing
Modified
Mon Mar 12 10:12:36 2007 UTC
(13 years, 10 months ago)
by
phornby
Added explicit destructors to all Exception classes.
Fixed an ifdef in TestCase.cpp
Made the conditional definition of M_PI in LocalOps.h
depend only on M_PI being undefined.
Replace dynamically dimensioned arrays in DataFactory & DataTagged with malloc.
sort() method of list does not take a named argument
(despite the manual's claims to the contary).
Revision
985 -
Directory Listing
Modified
Tue Feb 20 04:02:10 2007 UTC
(13 years, 11 months ago)
by
gross
small bug for openmp fixed.
Revision
984 -
Directory Listing
Modified
Tue Feb 20 03:33:45 2007 UTC
(13 years, 11 months ago)
by
gross
warning in dump and load at altix fixed.
Revision
983 -
Directory Listing
Modified
Tue Feb 20 02:49:08 2007 UTC
(13 years, 11 months ago)
by
gross
full Data object dump and load now available. Tests added.
Revision
982 -
Directory Listing
Modified
Mon Feb 19 23:55:52 2007 UTC
(13 years, 11 months ago)
by
gross
data object load checks for sample ordering now.
Revision
971 -
Directory Listing
Modified
Wed Feb 14 04:40:49 2007 UTC
(13 years, 11 months ago)
by
ksteube
Had to undo commit to new MPI branch. The changes went into the original and
not the branch. The files committed here are exactly the same as revision 969.
Revision
969 -
Directory Listing
Modified
Tue Feb 13 23:02:23 2007 UTC
(13 years, 11 months ago)
by
ksteube
Parallelization using MPI for solution of implicit problems.
Parallelization for explicit problems has already been accomplished in
the main SVN branch.
This is incomplete and is not ready for use.
Revision
967 -
Directory Listing
Modified
Tue Feb 13 09:40:12 2007 UTC
(13 years, 11 months ago)
by
gross
dump and load of expanded data via netCDF added. some test are still missing.
Revision
966 -
Directory Listing
Modified
Tue Feb 13 05:45:18 2007 UTC
(13 years, 11 months ago)
by
gross
ops! escript/src/DataExpanded.cpp should not be in there
Revision
965 -
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Modified
Tue Feb 13 05:38:45 2007 UTC
(13 years, 11 months ago)
by
gross
johns local setting removed.
Revision
964 -
Directory Listing
Modified
Tue Feb 13 05:10:26 2007 UTC
(13 years, 11 months ago)
by
gross
The set/getRefVal functions of Data objects have been removed (mainly to avoid later problems with MPI).
Moreover, a faster access to the reference id of samples has been introduced. I don't think that anybody will
profit form this at this stage but it will allow a faster dump of data objects.
Revision
950 -
Directory Listing
Modified
Tue Feb 6 07:01:11 2007 UTC
(13 years, 11 months ago)
by
gross
escript data objects can now be saved to netCDF files, see http://www.unidata.ucar.edu/software/netcdf/.
Currently only constant data are implemented with expanded and tagged data to follow.
There are two new functions to dump a data object
s=Data(...)
s.dump(<filename>)
and to recover it
s=load(<filename>, domain)
Notice that the function space of s is recovered but domain is still need.
dump and load will replace archive and extract.
The installation needs now the netCDF installed.
Revision
924 -
Directory Listing
Modified
Wed Jan 10 03:39:27 2007 UTC
(14 years ago)
by
trankine
Win32 port modifications
"or" is not a valid modifier under win intel compiler
* Data.cpp - incorrect "or"s
* DataExpanded.cpp - incorrect "or"s
Revision
922 -
Directory Listing
Modified
Fri Jan 5 04:23:05 2007 UTC
(14 years ago)
by
gross
setValueOfDataPoint accepts double value as argument now
Revision
921 -
Directory Listing
Modified
Fri Jan 5 00:54:37 2007 UTC
(14 years ago)
by
gross
I have done some clarification on functions that allow to access individual data point values in a Data object.
The term "data point number" is always local on a MPI process and referes to the value (data_point_in_sample, sample)
as a single identifyer (data_point_in_sample + sample * number_data_points_per_sample). a "global data point number"
referes to a tuple of a processour id and local data point number.
The function convertToNumArrayFromSampleNo has been removed now and convertToNumArrayFromDPNo renamed to getValueOfDataPoint.
There are two new functions:
getNumberOfDataPoints
setValueOfDataPoint
This allows you to do things like:
in=Data(..)
out=Data(..)
for i in xrange(in.getNumberOfDataPoints())
in_loc=in.getValueOfDataPoint(i)
out_loc=< some operations on in_loc>
out.setValueOfDataPoint(i,out_loc)
Also mindp is renamed to minGlobalDataPoint and there is a new function getValueOfGlobalDataPoint. While in MPI the functions getNumberOfDataPoints and getValueOfDataPoint are working locally on each process (so the code above is executed in parallel).
the latter allows getting a single value across all processors.
Revision
914 -
Directory Listing
Modified
Thu Dec 14 04:38:18 2006 UTC
(14 years, 1 month ago)
by
gross
access to the number of samples added
Revision
906 -
Directory Listing
Modified
Tue Nov 21 05:34:15 2006 UTC
(14 years, 2 months ago)
by
gross
some minor fixes
Revision
876 -
Directory Listing
Modified
Thu Oct 19 03:50:23 2006 UTC
(14 years, 3 months ago)
by
ksteube
Added erf (error function) implementation
Revision
856 -
Directory Listing
Modified
Tue Sep 26 01:00:36 2006 UTC
(14 years, 3 months ago)
by
gross
data print shows now the element reference number
Revision
854 -
Directory Listing
Modified
Thu Sep 21 05:29:42 2006 UTC
(14 years, 4 months ago)
by
gross
Some modifications to the binary operations +,-,*/, pow.
The code is a bit simpler now and more efficient has there is
no reseising required now. the resizing method has been removed as
it is very, very inefficient. Even serial code should be faster now.
It is now forbidden to do an inplace update of scalar data object with an object
of rank >0 as this is very slow (and does not make much sense).
Revision
826 -
Directory Listing
Modified
Tue Aug 29 09:12:33 2006 UTC
(14 years, 4 months ago)
by
gross
ken and I did not have a good afternoon. our checkin was very buggy. fixed
Revision
824 -
Directory Listing
Modified
Tue Aug 29 05:22:50 2006 UTC
(14 years, 4 months ago)
by
ksteube
C_GeneralTensorProduct was modifying the function space of the
first arg. Now creating a shallow copy and using the copy to
avoid this.
Revision
814 -
Directory Listing
Modified
Wed Aug 23 09:31:10 2006 UTC
(14 years, 5 months ago)
by
gross
small bug in general tensor propduct fixed
Revision
813 -
Directory Listing
Modified
Mon Aug 21 02:08:47 2006 UTC
(14 years, 5 months ago)
by
ksteube
Tensor products for Data objects are now computed by a C++ method
C_GeneralTensorProduct, which calls C function matrix_matrix_product
to do the actual calculation.
Can perform product with either input transposed in place, meaning
without first computing the transpose in a separate step.
Revision
804 -
Directory Listing
Modified
Thu Aug 10 01:12:16 2006 UTC
(14 years, 5 months ago)
by
gross
the new function swap_axes + tests added. (It replaces swap).
Revision
800 -
Directory Listing
Modified
Tue Aug 8 11:23:18 2006 UTC
(14 years, 5 months ago)
by
gross
new function _swap. Python wrapper + testing is still missing.
Revision
798 -
Directory Listing
Modified
Fri Aug 4 01:05:36 2006 UTC
(14 years, 5 months ago)
by
gross
Reimplementation of the assemblage with persistent jacobeans.
There are also a few changes to the tests which has now
dramatically reduced the memory demand.
Revision
797 -
Directory Listing
Modified
Thu Aug 3 02:03:18 2006 UTC
(14 years, 5 months ago)
by
gross
function added to manually free unused memory in the memory manager
Revision
790 -
Directory Listing
Modified
Wed Jul 26 23:12:34 2006 UTC
(14 years, 6 months ago)
by
bcumming
changes to escript/py_src/pdetools.py and /escript/src/Data.h/.cpp to
make the Locator work in MPI. escript::Data::mindp now returns a 3 tuple,
with the MPI rank of the process on which the minimum value occurs
included. escript::Data::convertToNumArrayFromDPNo also takes the ProcNo
to perform the MPI reduction.
This had to be implemented in both the MPI and non-MPI versions to allow
the necesary changes to the Python code in pdetools.py. In the non-MPI
version ProcNo is set to 0. This works for the explicit scripts tested
thus far, however if it causes problems in your scripts contact Ben or
Lutz, or revert the three files (pdetools.py, Data.h and Data.cpp) to
the previous version.
Revision
789 -
Directory Listing
Modified
Wed Jul 26 05:41:11 2006 UTC
(14 years, 6 months ago)
by
dhawcroft
Inserted PASO_MPI macro in Data.h to match source file
Revision
783 -
Directory Listing
Modified
Tue Jul 18 01:32:50 2006 UTC
(14 years, 6 months ago)
by
gross
coordinates, element size and normals returned by corresponding
FunctionSpace mesthods are now protected against updates. So
+=, -=, *=, /=, setTaggedValue, fillFromNumArray will through an
excpetion.
The FunctionSpace class does nut buffer the oordinates, element size and
normals yet.
Revision
782 -
Directory Listing
Modified
Tue Jul 18 00:47:47 2006 UTC
(14 years, 6 months ago)
by
bcumming
Large number of changes to Finley for meshing in MPI.
- optimisation and neatening up of rectcanglular mesh generation code
- first and second order 1D, 2D and 3D rectangular meshes are now
available in finley and escript using MPI.
- reduced meshes now generated in MPI, and interpolation to and from
reduced data types now supported.
Revision
779 -
Directory Listing
Modified
Fri Jul 14 07:41:31 2006 UTC
(14 years, 6 months ago)
by
woo409
+ Updated compilation options for Cognac to squeeze out a bit more performance
+ Now compiles using the Intel Math headers (mathimf.h) rather than plain math.h on both Win32 and Linux platforms when using the Intel compiler. Gives a small boost to performance on Altix and is essential on Windows
Revision
775 -
Directory Listing
Modified
Mon Jul 10 04:00:08 2006 UTC
(14 years, 6 months ago)
by
ksteube
Modified the following python methods in escript/py_src/util.py to
call faster C++ methods:
escript_trace
escript_transpose
escript_symmetric
escript_nonsymmetric
Revision
767 -
Directory Listing
Modified
Fri Jun 30 07:29:08 2006 UTC
(14 years, 6 months ago)
by
gross
new FunctionSpace method setTags added
Revision
758 -
Directory Listing
Modified
Mon Jun 26 13:52:42 2006 UTC
(14 years, 7 months ago)
by
woo409
+ Added PASO_MPI conditional compilation guard to prevent inclusion of mpi.h when not using mpi.
Trunk now compiles and runs on both win32 and linux.
Revision
757 -
Directory Listing
Modified
Mon Jun 26 13:12:56 2006 UTC
(14 years, 7 months ago)
by
woo409
+ Merge of intelc_win32 branch (revision 741:755) with trunk. Tested on iVEC altix (run_tests and py_tests all pass)
Revision
751 -
Directory Listing
Modified
Mon Jun 26 01:46:34 2006 UTC
(14 years, 7 months ago)
by
bcumming
Changes relating to the MPI version of escript
The standard OpenMP version of escript is unchanged
- updated data types (Finley_Mesh, Finley_NodeFile, etc) to store meshes
over multiple MPI processes.
- added CommBuffer code in Paso for communication of Data associated
with distributed meshes
- updates in Finley and Escript to support distributed data and operations
on distributed data (such as interpolation).
- construction of RHS in MPI, so that simple explicit schemes (such as
/docs/examples/wave.py without IO and the Locator) can run in MPI.
- updated mesh generation for first order line, rectangle and brick
meshes and second order line meshes in MPI.
- small changes to trunk/SConstruct and trunk/scons/ess_options.py to
build the MPI version, these changes are turned off by default.
Revision
711 -
Directory Listing
Modified
Wed Apr 26 22:39:51 2006 UTC
(14 years, 8 months ago)
by
gross
tests pass now on gcc: some tests did not take round-off errors into consideration
Revision
700 -
Directory Listing
Modified
Thu Apr 6 00:13:40 2006 UTC
(14 years, 9 months ago)
by
gross
A few changes in the build mechanism and the file structure so scons can build release tar files:
* paso/src/Solver has been moved to paso/src
* all test_.py are now run_.py files and are assumed to be passing python tests. they can run by
scons py_tests and are part of the release test set
* escript/py_src/test_ are moved to escript/test/python and are installed in to the build directory
(rather then the PYTHONPATH).
* all py files in test/python which don't start with run_ or test_ are now 'local_py_tests'. they are installed i
by not run automatically.
* CppUnitTest is now treated as a escript module (against previous decisions).
* scons realse builds nor tar/zip files with relvant source code (src and tests in seperate files)
the python tests don't pass yet due to path problems.
Revision
699 -
Directory Listing
Modified
Fri Mar 31 06:27:56 2006 UTC
(14 years, 9 months ago)
by
gross
now float**Data is running
Revision
698 -
Directory Listing
Modified
Fri Mar 31 04:52:55 2006 UTC
(14 years, 9 months ago)
by
gross
test with tagged data pass now
Revision
697 -
Directory Listing
Modified
Fri Mar 31 04:48:56 2006 UTC
(14 years, 9 months ago)
by
gross
bug with tagged data fixed
Revision
693 -
Directory Listing
Modified
Thu Mar 30 08:34:08 2006 UTC
(14 years, 9 months ago)
by
gross
DataVariable removed. it is not used.
Revision
682 -
Directory Listing
Modified
Mon Mar 27 02:43:09 2006 UTC
(14 years, 10 months ago)
by
robwdcock
+ NEW BUILD SYSTEM
This commit contains the new build system with cross-platform support.
Most things work are before though you can have more control.
ENVIRONMENT settings have changed:
+ You no longer require LD_LIBRARY_PATH or PYTHONPATH to point to the
esysroot for building and testing performed via scons
+ ACcESS altix users: It is recommended you change your modules to load
the latest intel compiler and other libraries required by boost to match
the setup in svn (you can override). The correct modules are as follows
module load intel_cc.9.0.026
export
MODULEPATH=${MODULEPATH}:/data/raid2/toolspp4/modulefiles/gcc-3.3.6
module load boost/1.33.0/python-2.4.1
module load python/2.4.1
module load numarray/1.3.3
Revision
615 -
Directory Listing
Modified
Wed Mar 22 02:12:00 2006 UTC
(14 years, 10 months ago)
by
elspeth
More copyright information.
Revision
595 -
Directory Listing
Modified
Tue Mar 14 23:52:45 2006 UTC
(14 years, 10 months ago)
by
gross
test_utilOnFinley fixed (did run the tests that still fail)
Revision
594 -
Directory Listing
Modified
Tue Mar 14 23:36:08 2006 UTC
(14 years, 10 months ago)
by
gross
print message removed
Revision
588 -
Directory Listing
Modified
Fri Mar 10 04:45:04 2006 UTC
(14 years, 10 months ago)
by
gross
1D and 3D tests for eigenvalues_and_eigenvector added.
Revision
587 -
Directory Listing
Modified
Fri Mar 10 02:26:50 2006 UTC
(14 years, 10 months ago)
by
gross
eigenvalues_and_eigenvector fucntion added. test for 2D problem is added and is passed.
Revision
585 -
Directory Listing
Modified
Thu Mar 9 23:47:42 2006 UTC
(14 years, 10 months ago)
by
gross
problem with eigenvalue of zero matrix fixed (thanks Dr Hale)
Revision
584 -
Directory Listing
Modified
Thu Mar 9 23:03:38 2006 UTC
(14 years, 10 months ago)
by
gross
eigenvalues: compiles and passes tests on altix now
Revision
583 -
Directory Listing
Modified
Wed Mar 8 08:15:34 2006 UTC
(14 years, 10 months ago)
by
gross
_eigenvalues_and_eigenvector method added of data object. the algorithm has been tested on floats in python but not on data objects.
Revision
580 -
Directory Listing
Modified
Wed Mar 8 05:45:51 2006 UTC
(14 years, 10 months ago)
by
gross
faster version of the local eigenvalue calculation
Revision
577 -
Directory Listing
Modified
Fri Mar 3 08:32:16 2006 UTC
(14 years, 10 months ago)
by
gross
installation of new inc file
Revision
576 -
Directory Listing
Modified
Fri Mar 3 08:28:42 2006 UTC
(14 years, 10 months ago)
by
gross
some steps towards eigenvalue and eigenvector calculation
Revision
571 -
Directory Listing
Modified
Tue Feb 28 06:53:17 2006 UTC
(14 years, 10 months ago)
by
jgs
modify whereZero etc methods to also accept a tolerance parameter
Revision
562 -
Directory Listing
Modified
Thu Feb 23 05:03:16 2006 UTC
(14 years, 11 months ago)
by
jgs
further fix for DataTAgged::dp_algorithm, was not working for DataTagged objects with 0 tags
Revision
559 -
Directory Listing
Modified
Thu Feb 23 01:43:44 2006 UTC
(14 years, 11 months ago)
by
jgs
reimplement dp_algorithm for DataTagged, existing
implementation was complete rubbish
(ich bin so beschämt!)
Revision
555 -
Directory Listing
Modified
Wed Feb 22 04:44:10 2006 UTC
(14 years, 11 months ago)
by
jgs
fixed binaryOp for combination of DataTagged and scalar values.
calculation of default value where RHS was a scalar was not yet
implemented
Revision
547 -
Directory Listing
Modified
Tue Feb 21 06:10:54 2006 UTC
(14 years, 11 months ago)
by
gross
solution and reduced solution can have reference numbers now!
Revision
544 -
Directory Listing
Modified
Tue Feb 21 01:23:23 2006 UTC
(14 years, 11 months ago)
by
jgs
minor comment fixes
Revision
543 -
Directory Listing
Modified
Tue Feb 21 01:18:38 2006 UTC
(14 years, 11 months ago)
by
jgs
fix BinaryOp for DataTagged values - existing implementation was adding
tags from RHS to LHS using RHS's default value - should have been using
LHS's default value! fixed now
Revision
541 -
Directory Listing
Modified
Mon Feb 20 06:50:39 2006 UTC
(14 years, 11 months ago)
by
jgs
ensure src and dest objects have matching tag sets in setSlice
by adding tags present in src but not in dest to dest using
dest's default value before doing actual slicing
Revision
535 -
Directory Listing
Modified
Fri Feb 17 02:27:06 2006 UTC
(14 years, 11 months ago)
by
jgs
minor comment changes
Revision
519 -
Directory Listing
Modified
Tue Feb 14 05:30:50 2006 UTC
(14 years, 11 months ago)
by
jgs
fix comments for setSlice - were totally misleading!
Revision
513 -
Directory Listing
Modified
Mon Feb 13 04:46:51 2006 UTC
(14 years, 11 months ago)
by
jgs
comment and formatting changes
Revision
509 -
Directory Listing
Modified
Fri Feb 10 03:24:44 2006 UTC
(14 years, 11 months ago)
by
jgs
minor comment changes
Revision
507 -
Directory Listing
Modified
Thu Feb 9 06:13:07 2006 UTC
(14 years, 11 months ago)
by
jgs
minor comment changes
Revision
500 -
Directory Listing
Modified
Tue Feb 7 05:19:07 2006 UTC
(14 years, 11 months ago)
by
jgs
fix a reference indicator
Revision
496 -
Directory Listing
Modified
Tue Feb 7 01:27:14 2006 UTC
(14 years, 11 months ago)
by
jgs
minor fix to DataTagged::getTagNumber
changes to comments and formatting
inline two methods
Revision
484 -
Directory Listing
Modified
Thu Feb 2 02:12:08 2006 UTC
(14 years, 11 months ago)
by
jgs
add remainder of includes to SConscript includes install
Revision
481 -
Directory Listing
Modified
Wed Feb 1 05:57:50 2006 UTC
(14 years, 11 months ago)
by
jgs
add mechanism to install .h files to inc directories
(still need to specify full lists of .h files to install)
Revision
480 -
Directory Listing
Modified
Wed Feb 1 05:15:12 2006 UTC
(14 years, 11 months ago)
by
jgs
rationalise #includes and forward declarations
Revision
478 -
Directory Listing
Modified
Tue Jan 31 02:21:49 2006 UTC
(14 years, 11 months ago)
by
jgs
rationalise #includes
Revision
477 -
Directory Listing
Modified
Mon Jan 30 07:20:20 2006 UTC
(14 years, 11 months ago)
by
jgs
rationalise #includes
Revision
474 -
Directory Listing
Modified
Mon Jan 30 04:23:44 2006 UTC
(14 years, 11 months ago)
by
jgs
restructure escript source tree
move src/Data/* -> src
remove inc
modify #includes and cpppath settings accordingly
Revision
468 -
Directory Listing
Modified
Wed Jan 25 06:50:39 2006 UTC
(15 years ago)
by
jgs
reorganised esysUtils to remove inc directory
Revision
436 -
Directory Listing
Modified
Thu Jan 19 22:36:36 2006 UTC
(15 years ago)
by
gross
bug fixed in integrate method. don;t use a[i,j]=.. to set a value in the numeric::array a but
a[make_tuple(i,j)].
Revision
430 -
Directory Listing
Modified
Wed Jan 11 06:40:50 2006 UTC
(15 years ago)
by
gross
ILU has been replicated is called RILU (recursive ILU) now. ILU will now be reimplemented.
Revision
392 -
Directory Listing
Modified
Tue Dec 20 05:39:30 2005 UTC
(15 years, 1 month ago)
by
gross
Utils added for compilation
Revision
391 -
Directory Listing
Modified
Tue Dec 20 05:36:50 2005 UTC
(15 years, 1 month ago)
by
gross
intreface for setting the number of threads from python
Revision
358 -
Directory Listing
Modified
Wed Dec 14 07:55:19 2005 UTC
(15 years, 1 month ago)
by
cochrane
Updated link to epydoc generated documentation on the web site.
Revision
352 -
Directory Listing
Modified
Wed Dec 14 02:21:37 2005 UTC
(15 years, 1 month ago)
by
jgs
turns out Install() targets should also be made Default()
targets if you want them to actually reliably work!
Revision
288 -
Directory Listing
Modified
Fri Dec 2 01:55:04 2005 UTC
(15 years, 1 month ago)
by
jgs
now automatically build unit tests as required based on dependencies
between unit tests and libraries
Revision
286 -
Directory Listing
Modified
Thu Dec 1 06:40:20 2005 UTC
(15 years, 1 month ago)
by
gross
length method is removed as it is too slow. use length in util.py instead
Revision
285 -
Directory Listing
Modified
Thu Dec 1 06:40:04 2005 UTC
(15 years, 1 month ago)
by
gross
length method is removed as it is too slow. use length in util.py instead
Revision
277 -
Directory Listing
Modified
Wed Nov 30 04:52:39 2005 UTC
(15 years, 1 month ago)
by
jgs
explicitly define dependencies between modules
Revision
223 -
Directory Listing
Modified
Thu Nov 24 23:12:13 2005 UTC
(15 years, 2 months ago)
by
jgs
pass in cc/cxx settings from config file
Revision
192 -
Directory Listing
Modified
Mon Nov 21 04:52:14 2005 UTC
(15 years, 2 months ago)
by
jgs
pass in top level install directory for finley/escript/bruce/paso
libraries when building via top level scons script
Revision
191 -
Directory Listing
Modified
Mon Nov 21 04:10:12 2005 UTC
(15 years, 2 months ago)
by
jgs
push platform dependent compiler flags and include directories up to library level scons files - these will eventually be brought in from external config files
Revision
190 -
Directory Listing
Modified
Mon Nov 21 03:27:42 2005 UTC
(15 years, 2 months ago)
by
jgs
pass in value for esysroot and use this to determine include file locations
Revision
188 -
Directory Listing
Modified
Mon Nov 21 01:20:26 2005 UTC
(15 years, 2 months ago)
by
jgs
explicitly add -fpic option to all compiler options lists
to ensure relocatable code is generated
Revision
181 -
Directory Listing
Modified
Fri Nov 18 04:28:47 2005 UTC
(15 years, 2 months ago)
by
jgs
first draft of config/construct scripts for escript library
Revision
160 -
Directory Listing
Modified
Thu Nov 10 05:09:25 2005 UTC
(15 years, 2 months ago)
by
jgs
fixed a broken constructor - simply didn't work
Revision
155 -
Directory Listing
Modified
Wed Nov 9 02:02:19 2005 UTC
(15 years, 2 months ago)
by
jgs
move all directories from trunk/esys2 into trunk and remove esys2
