~simon-funke/fluidity/wetting_and_drying

~simon-funke/fluidity/wetting_and_drying_paper » Changes from revision 3560

From Revision 3560 to 3541

Rev	Summary	Authors	Date
3560	the updated monai valley configuration the updated monai valley configuration	Simon Funke	12 years ago
3559	monai valley contour plotting scripts monai valley contour plotting scripts	Simon Funke	12 years ago
3558	buildsystem: Move version definition out of include/confdefs... buildsystem: Move version definition out of include/confdefs.h Setting the version number of Fluidity during configure is the wrong thing to do, and writing it into include/confdefs.h doubly so. Instead, add a new rule to the top-level Makefile to generate include/version.h. If you need to know __FLUIDITY_VERSION__ you must now explicitly include version.h as well confdefs.h. While we're at it, remove any last vestiges of svnversion from the configure scripts.	Lawrence Mitchell	12 years ago
3557	Description of the Change from Patrick: Description of the Change from Patrick: Extensions to the python-state system to expose CSR matrices. User code can access CSR matrices like: m = state.csr_matrices['PressureMeshMassMatrix'] The interface is quite extensive, as it subclasses scipy.sparse.csr_matrix. So you can do almost anything with it: multiply it by a vector (m * field.val), solve mu = b (scipy.sparse.linalg.spsolve), etc. This code was written by Nan Mao; I just cleaned it up and prepared it for merging. Note that it only exposes CSR matrices that happened to exist in state when it was passed to calculate_diagnostic_fields. In many cases, that appears to be precisely 0. One can test this by adding a call to get_mass_matrix(state, velocity_mesh) just before the call to calculate_diagnostic_variables. When this is merged, I will investigate the lifecycle of the CSR matrices in state so that there is actually data to expose.	Timothy Bond	12 years ago
3556	Bug-fix in interpolation manager for periodic meshes. This f... Bug-fix in interpolation manager for periodic meshes. This fixes bug https://bugs.launchpad.net/fluidity/+bug/822355 reported by Flora.	Stephan Kramer	12 years ago
3555	Fix invalid element in adaptivity_options schema Fix invalid element in adaptivity_options schema Relax-NG doesn't allow mixing string and data in a single group in an element, so don't do it.	Lawrence Mitchell	12 years ago
3554	Reverting 3553; this fixes 4.6 but breaks Intel 10, and the ... Reverting 3553; this fixes 4.6 but breaks Intel 10, and the latter is more important to us at the moment.	Timothy Bond	12 years ago
3553	Small bufix targetting bug: Small bufix targetting bug: https://bugs.launchpad.net/fluidity/+bug/823966 swapping the order of the parmetis and zoltan checks in configure.in to fix a linking bug using gcc 4.6 on oneiric.	Timothy Bond	12 years ago
3552	Bugfix pointed out by hhiester. cv_stats were not parallel ... Bugfix pointed out by hhiester. cv_stats were not parallel safe.	Cian Wilson	12 years ago
3551	Fix for the failing flredecomp test. Probably better ways to... Fix for the failing flredecomp test. Probably better ways to fix this long term, but this will suffice for now	Jon Hill	12 years ago
3550	Bringing partition.cpp back - effectively revoking r3549 (ap... Bringing partition.cpp back - effectively revoking r3549 (apologies for the break in history).	Adam Candy	12 years ago
3549	Automatic sync to launchpad Automatic sync to launchpad	Adam Candy	12 years ago
3548	Apparently ar -q does add new object files into the archive ... Apparently ar -q does add new object files into the archive if they alreadt exist there on some systems (i.e. Ubuntu). This means when you chnage existing code it doesn't get built into the binary. Switching to -r	Jon Hill	12 years ago
3547	Adding the missing hyperlight back in Adding the missing hyperlight back in	Jon Hill	12 years ago
3546	For for the ext3_build fix. The line ar -cr lib/libfluidity.... For for the ext3_build fix. The line ar -cr lib/libfluidity.a /.o was including all .o files in all directories. Some of these contained a main() function (e.g. climatology) which was being used for some binaries (e.g. periodise) This fix now lists explicitly the directories which are to have their .o files included in libfluidity.a Note that listing each ar -cr seperately was very slow (~45 seconds for a build where no files are touched). The current fix takes ~9 seconds on rubik for such a build.	Jon Hill	12 years ago
3545	When generating a sigma layered mesh undesirable elements ne... When generating a sigma layered mesh undesirable elements near the bottom of the mesh should no longer be created. The mesh should now be nicely layered. This is done through first creating the mesh using a dummy vector field from a single chain to get the desired topological properties. This node locations are then over written with the correct ones.	Rhodri Nelson	12 years ago
3544	Various changes supplied by James Maddison based on his work... Various changes supplied by James Maddison based on his work over the last year, comprising: Bugfixes and obsolete code removal: * Updated bibliography for the manual, correcting reference errors * Removing unused 'decomp' directory * Correcting misleading (wrong!) ewrite messages * Removing unused old-adjoint code * Various small but important bugfixes * Removing legacy shallow water codes * Removing broken diagnostic And a new addition: * Adding boundary conditions to diagnostic field algorithms	Timothy Bond	12 years ago
3543	Fix for bugs #798736 and #799658 where Zoltan produces empty Fix for bugs #798736 and #799658 where Zoltan produces empty partitions. Within Zoltan we now check for whether an empty partition would be created prior to migrating any data. If an empty partition would be created we tighten the load imbalance tolerance and try again.	Paul Woodhams	12 years ago
3542	Fix the build system for filsesystems that have 1 second or ... Fix the build system for filsesystems that have 1 second or poorer temporal resolution. libfluidity.a is now built after all subdirectories.	Jon Hill	12 years ago
3541	Updating the NetCDF reader so that it can handle files in a ... Updating the NetCDF reader so that it can handle files in a similar form to the CF-1.0 convention but with missing attributes. The manual and schema have also been updated to hopefully be a little more clear about the format of the data required.	Rhodri Nelson	12 years ago

Older »