Activity
From 13 Jan 2014 to 11 Feb 2014
11 Feb 2014
- 20:29 Revision 82fa432a: Typo in python example
- 13:11 Documentation #589 (Archived): Reduce size in Mb of user manual
eps files with form factors are too huge.
Consider 100x100 channels in the histogram (instead of current 500x500) ...- 10:37 Feature #465 (Sprint): Organize BornAgain mail list with subscription
- 10:37 Feature #588 (Rejected): Extend OutputData with data structure responsible for masking and weight...
- 10:34 Feature #169 (Rejected): Implement OutputData mask to have union of two masked areas
We have preliminary agreed, that we are going to put mask/weight coefficients inside OutputData itself. So no need ...- 10:27 Feature #119 (Rejected): Fitting: implement boostrapping fit strategy to deal with local minima d...
We have implemented already the possibility to use mixture of stochastic (Genetic) and gradient descent algorithm...- 10:11 Feature #587 (Long Term Idea): Fit: investigate objective function alternatives
In image processing there are a number of "image similarity metrics" used for image comparison.
* Mean squares m...- 10:05 Feature #586 (Rejected): Investigate chi2-like objective functions
- Using sample cylinders without interference, two fit parameters (cylinder height and cylinder radius).
Plot the va...
10 Feb 2014
- 15:34 Feature #583 (Sprint): Implement beam divergence functional test
- 15:29 Feature #393 (Sprint): Create Mac installer
- 10:02 Revision fd66a351: Merge branch infbox
07 Feb 2014
- 18:28 Feature #12: Core: SLD: Calculation of refractive index for x-rays and neutrons from database
- There is related code in Mantid, which ought to be moved into a separate library ...
- 16:34 Revision a53d35fd: Merge branch 'develop' of apps.jcns.fz-juelich.de:BornAgain into develop
- 16:23 Revision 12b9c2d8: Prefactor for 1D distributions was corrected.
- 16:23 Bug #545 (Archived): PolarizedDWBAZeroMag functional test fails under windows
- 16:23 Testing #551 (Archived): Implement tests for AttLimits, FitParameter, FitParameterLinked
- 16:23 Testing #554 (Archived): Implement ParticleDecoration unit test
- 16:23 Testing #556 (Archived): Implement HomogeneousMaterial and HomogeneousMagneticMaterials unit tests
- 16:23 Testing #557 (Archived): Implement OutputData<Eigen::Matrix2d> unit test
- 16:23 Testing #445 (Archived): Implement BornAgainFit unit test infrastructure
- 16:23 Feature #521 (Archived): Implement polarized DWBA with cylindrical particles functional test
- 16:23 Testing #537 (Archived): Create MultiLayer unit test
- 16:23 Documentation #546 (Archived): Complete Appendix with all form factors listed
- 16:17 Documentation #546 (Resolved): Complete Appendix with all form factors listed
- 16:23 Documentation #549 (Archived): Doxygen API: review form factors description
- 16:18 Documentation #549 (Resolved): Doxygen API: review form factors description
- 16:23 Feature #304 (Archived): Provide compilation of HipGISAXS and run test simulation on GPU
- 16:23 Feature #318 (Archived): Implement beam divergence and wavelength distribution
- 16:23 Feature #400 (Archived): Move QtVariantManager into directory "externals" as static library
- 16:23 Feature #446 (Archived): Repair broken Genetic minimizer after we get rid from ROOT dependency
- 16:22 Bug #461 (Archived): Provide compilation on latest MacOS Maverick
- 16:22 Feature #543 (Archived): Review release script
- 16:22 Bug #567 (Archived): Restore PythonAPI generation under Maverick
- 16:22 Testing #573 (Archived): Implement DWBASimulation unit test
- 16:22 Testing #560 (Archived): Implement ScalarRTCoefficients unit test
- 16:22 Testing #561 (Archived): Implement MathFunctions unit test
- 16:22 Testing #562 (Archived): Implement MatrixRTCoefficients unit test
- 16:22 Testing #563 (Archived): Revise Beam unit test
- 16:22 Testing #564 (Archived): Implement ScalarSpecularInfoMap and MatrixSpecularInfoMap test
- 16:22 Testing #559 (Archived): Implement SpecularMatrix unit test
- 16:22 Feature #482 (Archived): Implement/review Full spheroid formfactor
- 16:22 Feature #484 (Archived): Implement/review Ellipsoid formfactor
- 16:22 Feature #485 (Archived): Implement/review Anisotropic hemi-spheroid formfactor
- 16:22 Feature #486 (Archived): Implement/review Spheroid formfactor
- 16:22 Documentation #565 (Archived): Provide simulation and fit examples for spheres with size distribu...
- 16:22 Documentation #566 (Archived): Provide ripple2 example
- 16:22 Feature #526 (Archived): Implement the ripple 1 (gaussian) formfactor
- 16:21 Bug #576 (Archived): Fix functional tests under Maverick
- 16:21 Bug #582 (Archived): Silent sigmentation fault in InterferenceFunction2DLattice
- 16:21 Feature #553 (Archived): Provide interface to perform off-specular scattering simulations
- 16:21 Feature #569 (Archived): Provide complex Bessel functions in C++ by wrapping existing fortran code
- 16:21 Feature #571 (Archived): Replace real Bessel with complex one where needed
- 16:21 Bug #220 (Archived): Gui: provide GUI compilation under Qt5/linux
- 16:05 Revision 7eb7588e: Merge release 0.9.4
- 16:03 Revision 46218ab3: Merge release 0.9.4
- 15:56 Revision ee12c3d6: Release 0.9.4
- 13:58 Revision ad385a30: Bug in performance test with double delete
- 13:52 Revision 883ba47d: Fix in release script to run performance multithreaded
- 13:28 Revision 5436b916: Defense against not complete ROOT installation
- 13:15 Revision f754c8db: Merge branch 'develop' of apps.jcns.fz-juelich.de:BornAgain into develop
- 13:14 Revision 1b15fc80: Eclipse preference file removed (should not be tracked)
- 12:51 Revision d6241187: Merge branch 'PreRelease'
- 12:50 Revision af1895fd: Minor fixed in user manual (fitting, installation)
- 12:33 Revision 9bf75de7: Win build: boost version 1.55 is used in binary package generation
- 11:41 Revision 4afc9546: Changes on Doxyfile.in to propagate directory with Figures
- 11:36 Revision f897d84f: Windows build: more BA_CORE_API
- 11:09 Revision b0620734: Corrected expressions for the 1DLattice.
- 10:54 Revision 6d919feb: Merge branch 'PreRelease' of apps.jcns.fz-juelich.de:BornAgain into PreRelease
- 10:54 Revision 2b1cc217: Windows compilation error fixed (unnecessary BA_CORE_API)
- .
- 10:53 Revision 9721cc6b: Minimizer's getAlgorithmName excluded from PythonAPI due to windows compilatio...
- 10:38 Revision 2208314f: Changed way of parsing double in scientific notation due to problems under mac
- 10:24 Revision 83614ae4: CHnaged way of parsing string to vector of doubles
- 09:53 Revision 85f82355: Commented rounding in OutputDataReadStrategy
06 Feb 2014
- 23:40 Revision f9175437: Ripple2 ff: method moved to protected section
- 23:17 Revision b5280c8f: Fixed virtual destructor, moved method from private to protected
- 18:20 Revision 6d82195a: Compilation fix for gcc 4.1.2
- 18:18 Revision 659cd1f1: Compilation fix for gcc 4.1.2
- 18:12 Revision 3057db6f: Compilation fix for 4.2 gcc (SuaredFunctionError), BAVersion remmoved from git
- 16:02 Revision 1f505c17: Changelog modified
- 15:25 Documentation #584 (Archived): Write small explanation about core shell form factor in FormFactor...
- 15:24 Feature #400 (Resolved): Move QtVariantManager into directory "externals" as static library
- 15:24 Feature #400: Move QtVariantManager into directory "externals" as static library
- Actually it is done already.
- 15:23 Feature #400 (Sprint): Move QtVariantManager into directory "externals" as static library
- 15:21 Revision 3ca42c23: Python api regenerated
- 15:21 Feature #583 (Rejected): Implement beam divergence functional test
- I still think that in addition to unit testing major features should be covered by functional tests.
I suggest, when... - 15:17 Feature #318 (Resolved): Implement beam divergence and wavelength distribution
- 15:17 Documentation #427 (Backlog): User Examples campaign
- 15:17 Testing #555 (Backlog): Implement ParticleCoreShell unit test
- 15:10 Revision f778332e: Merge branch 'Genetic'
- Conflicts:
Core/PythonAPI/src/PythonModule.cpp
Fit/PythonAPI/src/IMinimizer.pypp.cpp
Fit/PythonAPI/src/PythonModul... - 15:08 Revision 9e272d50: PythonAPI fixed for minimizer
- 14:55 Revision b880ee90: Added python example script for beam divergence
- 14:21 Revision f0881db7: Refactoring in fit suite print observer
- 14:10 Revision 1751db43: Merge branch 'beamdiv' into develop
- 13:58 Feature #543 (Resolved): Review release script
- 13:56 Revision ab2381f0: Release script is modified to resolve the issue#543.
- 13:47 Revision 3309e051: Redefined parameters of DistributionLogNormal to more natural
- names/values
- 13:34 Revision 835b24e0: Fixed python API (2)
- 11:42 Revision c71c8760: New sfit strategy for adjusting minimizer on the fly
- 11:32 Revision 5e825557: Removed temporary printing of parameterpool in
- TestDetectorResolution.cpp
- 11:31 Revision d930b998: Fixed python API
- 11:01 Revision 78d47600: Updated python API
- 10:39 Revision 0d268344: Activated stub that averages over parameter distributions
- 10:01 Revision bba5b193: Provided temporary stub around RunSimulation that does the averaging
05 Feb 2014
- 17:29 Revision 78e49502: Small correction in DistributionHandler
- 17:16 Revision cdccc141: Added a distribution handler inside Simulation
- 17:08 Revision ea9668d4: Renamed DistributionWeighter to DistributionHandler
- 17:00 Revision f84a614f: Added class to change parameter values according to distributions;
- refactored other classes to accomodate this change
- 16:10 Revision 95326a6b: Bug#582 resolved.
- 16:08 Bug #582 (Resolved): Silent sigmentation fault in InterferenceFunction2DLattice
- 14:43 Bug #582 (Sprint): Silent sigmentation fault in InterferenceFunction2DLattice
- 10:03 Bug #582 (Archived): Silent sigmentation fault in InterferenceFunction2DLattice
- Silent sigmentation fault in InterferenceFunction2DLattice if the probability distribution function is not set. I thi...
- 15:46 Revision d9e013cb: PythonAPI regenerated
- 15:09 Revision e6711f95: Merge branch 'FFRippleManual' into develop
- 15:08 Revision 3fc1654b: Fix in Minuit2 minimizer options
- 15:08 Revision 22570ae0: Addition of missing Python API
- 14:46 Revision 03da38cf: Form factors: addition of appendix to User Manual, schematic views and missing...
- 14:41 Revision eebd02b8: Python API regenerated.
- 12:03 Revision 06c7c2de: Cleanup in ROOTMinimizers
- 11:27 Revision 1530f028: Refactoring in ROOTMinimizer
- 11:02 Revision 29848ec2: Refactoring in MinimizerFactory
- 10:50 Revision ac922bd4: Python API regenerated.
- 10:08 Revision 29e06f72: FormFactorInfLongBox and InterferenceFunction1DLattice are registered in vario...
04 Feb 2014
- 17:19 Revision 2a10c1e0: Small correction to remove eclipse parsing error
- 17:08 Revision ebf8f44b: Removed new in throw statement
- 17:06 Revision 7d16b1b5: Added registered parameters to distributions
- 16:46 Revision 0aac1352: Added ParameterDistribution for use in incoherent sum of intensities
- over a distribution
- 16:09 Revision cb5f9cb1: Added samples generation to distributions
- 15:26 Revision 84b93102: InterferenceFunction1DLattice implemented, but not yet tested.
- 15:16 Revision 9720f7d5: Update in MinimizerOptions
- 14:26 Revision eeff5ad9: Added one-dimensional distribution functions
- 12:47 Revision dfef9175: Updates in RootMinimimizers to pick up last changes from ROOT
- 11:29 Revision 6b2fccb0: New application test for Genetic minimizer
03 Feb 2014
- 18:01 Revision 330f4db8: Removed obsolete TestPerformance
- 17:52 Feature #446 (Resolved): Repair broken Genetic minimizer after we get rid from ROOT dependency
- 17:47 Revision fcecb070: Refactored minimizer factory, corrected bug with wrong call to GslMultiMin fam...
- 16:01 Feature #543 (Sprint): Review release script
- 15:27 Refactoring #581 (Archived): Check naming of the coherence length
- Check the naming of the coherence length in the source code.
- 12:57 Revision ca737a45: 1D FTDistributions and UnitTests for them are implemented.
- 09:37 Refactoring #538 (Resolved): Implementation of a consistent order of variables for all form factors
31 Jan 2014
30 Jan 2014
- 21:53 Revision 540ce47a: Performance tweaks: const reference in all evaluate methods
- 20:46 Revision 9187e047: Performance tweaks: switching to mixed bessel functions
- 16:11 Bug #191 (Rejected): Gui: improve performance of TQtWidget in the case of CONT4Z option
I drop this issue since there is more fundamental problem connected with Qt5 and ROOT.- 16:08 Testing #561 (Resolved): Implement MathFunctions unit test
- 16:08 Bug #220 (Resolved): Gui: provide GUI compilation under Qt5/linux
I was not able to solve ROOT/Qt5 problem. Instead, I have implemented new scientific graphics from qcustomplot li...- 16:06 Revision 3ab59608: Cleanup
- 16:05 Revision 34acf02f: Cleanup
- 16:04 Revision 1a7fb82f: Merge branch 'Qt5Linux'
- 16:03 Revision 62146965: qtproperty browser is relocated to 'external' directory, code is updated from ...
- 15:04 Feature #491 (Rejected): Provide https access to git repository
- For access to a read-only git:// repository, the user needs to have port 9418 open, which is commonly blocked by corp...
- 14:57 Feature #304 (Resolved): Provide compilation of HipGISAXS and run test simulation on GPU
- Compilation of hipgisaxs turned out to present some difficulties. The steps for compiling in linux gcc 4.8 with CUDA ...
- 14:55 Feature #304 (Sprint): Provide compilation of HipGISAXS and run test simulation on GPU
- 14:53 Revision b55cb855: ba_fancytabbar replaced by one from Manhattan style, cleanup
- 13:38 Revision a316fcbc: JobView switched to the new graphics
- 11:03 Revision 91bfaac0: qcustomplot library inserted in the project
29 Jan 2014
- 18:21 Revision 973862be: Gui restored ISample to IView functionality
- 17:02 Revision a6f1a7f5: Disabled "big form factor" calculation
- 16:28 Revision 5d7943d5: Qt5 linux fixes (widgetbox, tqtwidgets)
- 16:28 Revision 55573844: Qt5 ROOT related fixes
- 16:27 Revision 627459ab: Code cleanup
- 16:10 Revision 88ce0526: Merge branch 'AlignmentTest'
- 13:05 Revision 9187c893: Unit tests with Eigen Matrix for:
- 1. OutputData.h
2. MathFuctions.h - 11:16 Refactoring #168 (Rejected): Create class to hold Experiment, SimulationParameters and ISample
- This issue has been resolved during a previous refactoring.
Simulation holds Experiment, Sample and SimulationParame... - 11:12 Feature #318 (Sprint): Implement beam divergence and wavelength distribution
- 11:10 Feature #513 (Rejected): Composition of transformations
- Already implemented in the refactoring of transformations
- 10:57 Testing #557 (Resolved): Implement OutputData<Eigen::Matrix2d> unit test
- 10:43 Revision 28904cc9: PythonAPI regenerated, bugfix in StandardSamples due to changes in FFCylinder ...
28 Jan 2014
- 15:39 Revision 096b8c63: Merge branch 'fixman' into develop
- 15:38 Revision cc7a43e0: Equations for the ripple formfactors in UserManual.
- 15:11 Feature #571 (Resolved): Replace real Bessel with complex one where needed
- 14:57 Revision 6385d7ab: Replace Bessel functions with their complex version where needed
- 14:57 Revision d4f60fe7: Merge branch 'bessel'
- 14:21 Revision 726c25c0: Static
- 13:35 Revision 92786ae8: Merge branch 'MesoFit'
- Conflicts:
Core/PythonAPI/src/PythonModule.cpp
Fit/PythonAPI/src/ISquaredFunction.pypp.cpp
Fit/PythonAPI/src/Pytho... - 13:12 Revision 1d33c0c5: O3 optimizaiton replaced by o2
- 13:03 Revision cc295b8d: Updated version of user manual and codes for form factors
- 11:48 Bug #578 (Archived): Initialization problem in LLData class
- There is an unhandled exception when it tries to call getTotalSum() for LLData initialized with Eigen matrix.
Fi... - 11:43 Revision ad598a2f: Fix in squared function
- 10:53 Revision ee06e568: Additional check in ChiSquaredModule for mask consistency
- 10:38 Revision 6c9eb021: Fixed unittest fail for the inflongbox. Corrected the evaluate expression for ...
- 10:06 Revision dcc7ce65: Refactoring in ISquaredFunction
27 Jan 2014
- 18:12 Revision 711ef244: New python fitting API exposed
- 18:00 Bug #576 (Resolved): Fix functional tests under Maverick
- 17:47 Revision db8c535c: Merge branch 'isgisaxs08failed' into develop
- 17:47 Revision 1dd9f7df: Changed Isgisaxs08a precision for functional test
- 15:35 Revision 3863da7e: Simplified SetUpLinux in cmake
- 15:27 Revision a29d0309: Merge branch 'isgisaxs08failed' of apps.jcns.fz-juelich.de:BornAgain into isgi...
- 15:27 Revision fdac6136: Regenerated IsGISAXS08 functional test references to take care of previous ins...
- 11:52 Revision 6af657ed: Added necessary header includes
- 10:50 Revision 1db0d01c: Implemented formfactor for an infinitely long box. Unittest fails at the getRa...
- 10:49 Revision 050f0a21: Removed .cproject from tracking, since different platforms need different proj...
24 Jan 2014
- 20:31 Bug #567 (Resolved): Restore PythonAPI generation under Maverick
The problem is with MacPort's gccxml which is now doesn't work with new Mac's clang.
Fortunately (so far) solu...- 20:25 Revision ada05736: PythonAPI regenerated from Maverick
- 17:29 Revision e472f88b: added unit test for LLData<Eigen::Matrix2d>
- 17:27 Testing #557: Implement OutputData<Eigen::Matrix2d> unit test
- test for LLData<Eigen::Matrix2d> is done. OutputData<Eigen::Matrix2d> will be completed by next day.
- 16:23 Testing #557: Implement OutputData<Eigen::Matrix2d> unit test
- LLData<Eigen::Matrix2d>()->getTotalSum() throws an Exception.
Findings:
In LLData.h(line#217), T result = 0 was a... - 16:35 Revision 0da754a9: Adapted implementation of IF2DParaCrystal
- 15:27 Revision b8074d3f: Refactoring in minimisation strategies.
23 Jan 2014
- 19:43 Feature #446 (Sprint): Repair broken Genetic minimizer after we get rid from ROOT dependency
- 18:43 Revision b06e78d0: Bugfix with Mask + ResolutionFunction + Simulation::normalise
- 15:04 Feature #482 (Resolved): Implement/review Full spheroid formfactor
- 15:04 Feature #484 (Resolved): Implement/review Ellipsoid formfactor
- 15:04 Feature #485 (Resolved): Implement/review Anisotropic hemi-spheroid formfactor
- 15:04 Feature #486 (Resolved): Implement/review Spheroid formfactor
- 14:58 Support #577 (Archived): Implement form factor of truncated cubes
- This feature has been requested by Chang-Yong Kim
from Hard X-ray MicroAnalysis Beamline
http://exshare.lightsou...
22 Jan 2014
- 17:35 Revision 5fa00a51: Unit tests for the following classes:
- 1. ScalarRTCoefficients
2. SpecularMatrix (not sure. need to check)
3. MatrixRTCoefficients
4. Beam (revise existing ... - 17:30 Testing #556 (Resolved): Implement HomogeneousMaterial and HomogeneousMagneticMaterials unit tests
- 17:29 Testing #559 (Resolved): Implement SpecularMatrix unit test
- Not sure about the functionality. I invoked all public functions. Need to check.
- 17:27 Testing #564 (Resolved): Implement ScalarSpecularInfoMap and MatrixSpecularInfoMap test
- 16:30 Testing #563 (Resolved): Revise Beam unit test
- 13:23 Revision 1ffaa12a: Fixed some integral-double ambiguities
- 12:42 Bug #576 (Archived): Fix functional tests under Maverick
- 12:36 Testing #562 (Resolved): Implement MatrixRTCoefficients unit test
- 12:12 Revision 713028c7: Trying to find ResolutionFunction bug
21 Jan 2014
- 17:59 Bug #574 (Rejected): Implement check of FFTW version
- The compilation crashes in the middle, if obsolete fftw2 is present on the system instead of fftw3
- 17:50 Feature #553 (Resolved): Provide interface to perform off-specular scattering simulations
- 17:32 Revision f379bf9c: Merge branch 'OffSpec'
- 17:16 Revision 19b12e6e: Added OffSpecSimulation for off-specular simulations
- 17:10 Revision 22b21eea: Python unit test to check masks in intensity data
- 16:53 Revision cf9fc321: Bugfix with exporting into Numpy array IntensityData with mask
- 16:51 Testing #573 (Resolved): Implement DWBASimulation unit test
- 11:46 Testing #573 (Sprint): Implement DWBASimulation unit test
- 11:46 Testing #573 (Archived): Implement DWBASimulation unit test
- 16:34 Revision 42b65099: Bug in MultiLayer while cloning in the absence of layers, new DWBASimulationTest
- 15:46 Testing #560 (Resolved): Implement ScalarRTCoefficients unit test
- 15:25 Revision 192f51d8: Bugfix in OutputDataIterator to have masked areas in multi threaded environmen...
- 11:35 Revision 3f78722d: Exposing missing fitting API in python.
20 Jan 2014
17 Jan 2014
- 15:04 Revision cfd6ee38: Merge branch 'origin/develop'
- 15:04 Revision 12cd5681: Merge branch 'AlignmentTest'
- 14:37 Revision 9ac083f5: Eclipse project settings
- 09:50 Feature #571 (Archived): Replace real Bessel with complex one where needed
- e.g. FormFactorCylinder
- 09:43 Feature #569 (Resolved): Provide complex Bessel functions in C++ by wrapping existing fortran code
New complex bessel functions (modification of C. Bond code from http://www.crbond.com/math.htm) are implemented.
...- 09:39 Revision 27069eab: Merge branch 'ComplexBessel'
- 09:33 Revision 049a1fc5: New complex bessel functions
15 Jan 2014
- 18:55 Revision 35304171: With the following unit tests:
- 1. HomogeneousMaterial test
2. HomogeneousMagneticMaterial test
14 Jan 2014
- 11:15 Revision a38d314c: Merge branch 'fixdebian' into develop
- 11:14 Revision 2780148d: Fixed debian package version in CPackDebian.cmake module.
- 10:46 Revision aead0c69: Fix in nightly build failure
- 10:45 Revision b41b6550: New ComplexBessel applicaiton test
13 Jan 2014
- 18:08 Feature #569 (Sprint): Provide complex Bessel functions in C++ by wrapping existing fortran code
- 10:50 Feature #569 (Archived): Provide complex Bessel functions in C++ by wrapping existing fortran code
- 17:16 Feature #521 (Resolved): Implement polarized DWBA with cylindrical particles functional test
- 17:14 Revision b6000bff: Merge branch 'TestPerf'
- 17:14 Revision 2dd6f049: Performance measurements
- 16:56 Revision c16348b7: Performance measurements
- 16:32 Revision 4a6d0a71: Performance measurements
- 16:29 Revision 40b56cd8: New polmagcylinders2.py functional test with magnetic cylinders and non-zero f...
- 15:21 Revision a04de83d: Cleanup in performance test, new C++ functional test PolDWBAMagCylinders2 for ...
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