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70 Commits

Author SHA1 Message Date
Dave Marchant 2ed76f1e39 Added mainFirst option to callHooks. 2013-12-27 14:23:33 -08:00
Dave Marchant da0a0d3dd3 Modified callHooks to work when wrapping methods with no docstrings. 2013-12-18 16:15:01 -08:00
rowanc1 53233e25e5 documentation updates. 2013-12-18 11:19:42 -08:00
rowanc1 43b81e1396 Simplifications to Regularization code. 2013-12-18 11:11:32 -08:00
rowanc1 32277eff94 Documentation for Regularization. 2013-12-07 00:01:25 -08:00
rowanc1 783cd40538 Bug fixes in Save, incorporation of data into the inversion object, taken out of problem. 2013-12-06 16:54:38 -08:00
rowanc1 9e26543931 fixes to the meta classes including soft linking inside the database. These are reflected in the loaded outputs which return the same object. 2013-12-06 14:19:37 -08:00
rowanc1 5e0fb8642d MeatClasses to make every SimPEG object saveable to an hdf5 file. 
cleaned up imports in a lot of places.
Made solver not copy matrices around for GS preconditioning.
 2013-12-06 11:23:01 -08:00
rowanc1 c1767939bb Merge branch 'develop' of https://github.com/simpeg/simpeg into hdf5 2013-12-05 11:32:24 -08:00
rowanc1 3221b3c750 Updates to video function (skip frames) 2013-12-05 11:31:43 -08:00
rowanc1 1973fde6f6 Merge branch 'develop' of https://github.com/simpeg/simpeg into hdf5 2013-12-04 17:55:31 -08:00
rowanc1 e25afacd1b refactor and generalize where things are being saved 2013-12-04 17:55:09 -08:00
rowanc1 8fb9f3683b Easy way to create a padded tensor mesh. 2013-12-04 17:52:40 -08:00
rowanc1 191d0e242c Create a new inversion node every time inversion is ran. 2013-12-04 16:10:31 -08:00
rowanc1 8ce3c655b7 Merge branch 'develop' of https://github.com/simpeg/simpeg into hdf5 
Conflicts:
	SimPEG/utils/__init__.py
 2013-12-04 15:32:54 -08:00
rowanc1 ccb4d4052d Change callHooks structure. 2013-12-04 15:31:11 -08:00
rowanc1 18f9dc67d5 bug fix. 2013-12-04 14:17:56 -08:00
rowanc1 c9b98cc7c0 Recursive printing to view the inversion. 2013-12-04 14:12:37 -08:00
rowanc1 6603fe77e1 First attempt on saving to a database, have written a very light wrapper on h5py. 2013-11-26 21:35:03 -08:00
rowanc1 9eafec4895 Added options to the solver class that are dynamic based on your environment. If not available, they will fall back to ones that are. 2013-11-26 20:23:40 -08:00
David Marchant 7ef3eb578f Merged in pyMumpsSolver (pull request #30) 
Mumps backend in solver class.
 2013-11-22 17:39:27 -08:00
Dave Marchant f5e3a4171d Raise an exception if name is not provided when hooking a lambda function. 2013-11-22 16:11:43 -08:00
Dave Marchant 1439052172 Multiple RHS using mumps backend. 2013-11-22 15:39:06 -08:00
Rowan Cockett aae725ff05 TimeSteppingInversion and Estimate Initial Beta based on eigenvalues comparison. 2013-11-22 13:39:26 -08:00
Rowan Cockett c41b9f12e9 Documentation updates to optimize. Updated the hook method. 2013-11-22 11:58:31 -08:00
Rowan Cockett 6216ae977e Added hook method to utils so that we can hook new methods dynamically into the classes. 2013-11-22 10:51:01 -08:00
Rowan Cockett dbaea1fda9 callHooks generalizes some of the hook calling code in Optimize and Inversion 2013-11-21 16:56:01 -08:00
Dave Marchant 623ff674ea Added pymumps direct solver backend. 2013-11-21 15:00:51 -08:00
Dave Marchant fff2375acd Moved scipy direct code to own function. 2013-11-21 14:34:32 -08:00
Rowan Cockett 82edbf7a60 Merge branch 'master' of https://bitbucket.org/rcockett/simpeg into richards 
Conflicts:
	SimPEG/inverse/Optimize.py
	SimPEG/regularization/Regularization.py
 2013-11-21 11:56:12 -08:00
rowanc1 f87899465d Merged in boundaryConditions (pull request #25) 
Cell Gradient and Boundary Conditions
 2013-11-21 10:42:43 -08:00
rowanc1 86982e86da Merged in modelBuilder (pull request #26) 
Create a random model
 2013-11-21 10:42:00 -08:00
Rowan Cockett 2782a6fcfb Simple profiling through decorator functions. (counting and timing of functions decorated with @count and @timeIt that have a SimPEG.utils.Counter) 
e.g. output:
‘’’
Counters:
  InexactGaussNewton.doEndIteration       :        6
  InexactGaussNewton.printIter            :        7
  InexactGaussNewton.scaleSearchDirection :        6

Times:                                        mean      sum
  InexactGaussNewton.findSearchDirection  : 1.55e-02, 9.29e-02,    6x
  InexactGaussNewton.minimize             : 1.10e-01, 1.10e-01,    1x
  InexactGaussNewton.modifySearchDirection: 2.89e-04, 1.73e-03,    6x
  InexactGaussNewton.projection           : 3.69e-06, 1.11e-04,   30x
  InexactGaussNewton.stoppingCriteria     : 1.16e-04, 1.51e-03,   13x
  Inversion.dataObj                       : 6.60e-05, 8.58e-04,   13x
  Inversion.dataObj2Deriv                 : 1.03e-04, 6.20e-03,   60x
  Inversion.dataObjDeriv                  : 5.06e-05, 3.54e-04,    7x
  Inversion.evalFunction                  : 7.75e-04, 1.01e-02,   13x
  Inversion.run                           : 1.10e-01, 1.10e-01,    1x
  Regularization.modelObj                 : 3.56e-04, 4.63e-03,   13x
  Regularization.modelObj2Deriv           : 1.29e-03, 7.76e-02,   60x
  Regularization.modelObjDeriv            : 5.01e-04, 3.51e-03,    7x
‘’’
 2013-11-20 21:59:53 -08:00
Rowan Cockett 3015a78c32 Create a random model based on a convolution of a kernel and a random field. works in 1D 2D and 3D and has beautiful documentation. 2013-11-20 20:05:07 -08:00
Rowan Cockett b246b629a5 Merge branch 'BFGS' of https://bitbucket.org/rcockett/simpeg into richards 2013-11-19 17:46:48 -08:00
Rowan Cockett f71a6f8f06 Merge branch 'master' of https://bitbucket.org/rcockett/simpeg into richards 
Conflicts:
	SimPEG/__init__.py
 2013-11-19 17:46:02 -08:00
Rowan Cockett 500844ccb5 Brought BFGS into Optimize. updated InexactGaussNewton to use BFGS as a preconditioner. 2013-11-19 17:41:51 -08:00
Rowan Cockett 4472b39d6e Iterative Solvers in SimPEG.Solver 2013-11-19 16:00:36 -08:00
Rowan Cockett b6ec17a4d3 Merge branch 'master' of https://bitbucket.org/rcockett/simpeg into boundaryConditions 
Conflicts:
	SimPEG/__init__.py
 2013-11-18 12:33:09 -08:00
Dave Marchant a950ba8dd1 Bug fix in emSources. Beginning to change Cyl1DMesh to be more comparable with TensorMesh/BaseMesh. 2013-11-18 10:54:54 -08:00
Dave Marchant cdf1dcf79f Reorganized. 2013-11-14 15:48:32 -08:00
Dave Marchant 72e844c87d Added a sub-module to utils to put analytics and source functions. 2013-11-14 11:53:14 -08:00
Rowan Cockett 358411792d Cleaned up averaging. Put it in an AveExtrap function. 2013-11-13 19:37:14 -08:00
Rowan Cockett 5248ac81ce Merge branch 'master' of https://bitbucket.org/rcockett/simpeg into seismicExample 
Conflicts:
	docs/api_TestResults.rst
 2013-11-12 13:43:06 -08:00
Rowan Cockett cea1141dcd Bug fix for documentation. 2013-11-12 12:14:58 -08:00
Rowan Cockett 130592a9e2 Bug fix to solver. and Documentation. 2013-11-12 11:34:49 -08:00
Rowan Cockett 1f13a74bb9 Merge branch 'master' of https://bitbucket.org/rcockett/simpeg into BoundConstraint 
Conflicts:
	.gitignore
	SimPEG/utils/__init__.py
 2013-11-12 11:24:40 -08:00
Rowan Cockett d3f38047e4 Multiple RHSs on solvers in Fortran. ~2x speed up on matlab implementation for a single RHS. for multiple RHS there are still some problems. 
Someone with some knowledge of how fortran works should look at this code.

Added a setup.py script that complies things. f2py should work on most computers, because it is included in the numpy distribution.
 2013-11-12 10:36:20 -08:00
Rowan Cockett ea5dc21517 Fortran Solvers. Faster than Matlab!! 
Need to implement multiple RHSs.
 2013-11-10 17:38:23 -08:00
Rowan Cockett 19f79b3275 updates to Inversion. Bug Fixes. 2013-11-07 17:42:24 -08:00