Activity

From 22 Oct 2016 to 20 Nov 2016

20 Nov 2016

14:50 Documentation #1654 (New): Update "Working with Python scripts" to new style "import bornagain as...: http://bornagainproject.org/documentation/usage/scripting/basic_simulation_tutorial and the other pages under http://... wuttke
13:55 Feature #1653 (Resolved): Outcome of BornAgain user meetings in November: Given issue contains a collection of user requests, observations discovered during Hamburg/Munich BornAgain tutoria... pospelov
10:43 Refactoring #1652 (Sprint): Sort namespaces, and provide Doxygen comments: * No need for namespace "Geometry"
* Namespace "Materials" contains only one function, which should be converted int... wuttke
10:41 Refactoring #1652 (Resolved): Sort namespaces, and provide Doxygen comments: wuttke
10:40 Refactoring #1651 (Resolved): remove last occurences of "using namespace BornAgain": Use of "using namespace" should be restricted to cases where a namespace is heavily used in a specific source file. T... wuttke
10:20 Configuration #1175: Provide official debian package: For acceptance in Debian, the source tree must be patched by deleting the third-party code, which instead will be pro... wuttke
10:14 Configuration #1615: in each third-party source directory, provide information about used downloa...: ROOT code is patched by substituting the namespace name "BA_ROOT" for "ROOT".
Are there other patches in the ThirdPa... wuttke
10:11 Refactoring #1650 (Resolved): Designation "ROOT" (or "Root" or "BA_ROOT") should not be used for ...: To avoid confusion, ROOT should stand for CERN ROOT, and nothing else.
Why are other minimizers wrapped by code in a... wuttke

19 Nov 2016

19:41 Bug #1641: histogram2d test fails under certain configurations: On a fresh Arch installation I re-encountered this problem with gcc+Python3 so it may not be limited to clang. jmfisher
17:28 Refactoring #1649 (Resolved): Ensure consistent use of ambientMaterial: Is ambientMaterial==nullptr allowed?
If no, prevent it from ever occuring.
If yes, make sure we don't call *ambient... wuttke

17 Nov 2016

19:59 Bug #1646 (New): Reversed order numpy array: Since version 1.6 (I think) the returned array from the simulation result using .getArray() is reversed in the first ... a.glavic

16 Nov 2016

18:51 Feature #720 (Rejected): Provide OpenMPI support in FitSuite: Since our model evaluation is parallelized, there is no case for parallelizing the enveloping fit routine. wuttke
18:45 Documentation #1638 (Backlog): Manual: Improve / restore side bar navigation: Actually, the side bar navigation is there in the online manual.
Nice to have: by default, expand to section level... wuttke
18:42 Feature #1004: GUI: revise tooltips in all GUI elements: Nice to have, even important, but not high priority wuttke
18:27 Refactoring #1582 (Sprint): Correct model for dense particles on surface: wuttke
18:18 Feature #1645 (Rejected): == Graded layer and cross-layer particles ==: Urgently requested by E13, and promised to them. wuttke
18:09 Feature #300 (Long Term Idea): Investigate alternatives to Monte-Carlo computation of non-analyti...: wuttke
18:04 Documentation #1451 (Rejected): update to Drupal 8: Not clear whether Drupal 8 is mature enough and worth the move.
Anyway, this upgrade is not an aim in itself, but ... wuttke
18:01 Envelope task #1606 (Archived): === Manual and Examples ===: merged with #966 Theory & Manual wuttke
17:40 Documentation #1644 (Rejected): "User Login" block on homepage should explain _why_ to create acc...: ... namely, to be able to post to the forum and to subscribe to our newletter (low traffic).
Question: what sounds... wuttke
17:29 Support #852 (Rejected): Make GUI available at JCNS servers: I added one step to our release procedures: submit installation request to the IT issue tracker. This is all we shoul... wuttke
15:19 Documentation #976 (In Progress): Derive scalar and polarized wave equation for both X-rays and n...: wuttke
15:18 Feature #163 (Sprint): implement IsGISAXS Example 14 (graded layer): Urgently needed by E13. I promised them we will deliver soon. wuttke
12:33 Testing #1609: Clarify relation between PyPersistence tests and tutorial examples: I'll try to work out a solution along Gennady's proposal of writing test wrappers around old-style tutorial examples. wuttke
12:27 Documentation #1628 (Resolved): Can't clone git repositiory: Web docs now clearly refer to the new repository location. Hopefully this solves the issue. wuttke
10:54 Bug #1641: histogram2d test fails under certain configurations: I have just tested clang+Python2 on Yakkety and there seems to be no problem. So the issue is restricted clang+Python3. jmfisher
10:32 Bug #1641 (Resolved): histogram2d test fails under certain configurations: The test histogram2d.py fails under certain configurations (see buildbot). On my Arch setup it fails for clang+Python... jmfisher

15 Nov 2016

12:19 Configuration #1640 (Backlog): Doxygen generation on apps server not compatible anymore with link...: Doxygen now generates all html in ./html/std, while all the links on our website refer to ./html
herck

14 Nov 2016

18:04 Bug #1639 (Sprint): GUI: crash if fitting parameter removed: Removal of parameter link from fit parameter, while keeping fit parameter alive for following re-use, is intended beh... pospelov
17:56 Bug #1639 (Resolved): GUI: crash if fitting parameter removed: To reproduce:
create a project, load the experimental data. Add fit parameter, then remove it (see screenshot). Run ... ganeva
16:57 Documentation #1638 (Backlog): Manual: Improve / restore side bar navigation: Side bar in HTML version does not show contents below Part level. Side bar navigation in PDF reader is also broken (r... wuttke
16:56 Bug #1637 (Rejected): GUI: just loaded fitting project appears as already changed: Just loaded project appears as changed - i.e. project name is "*Untitled" instead of "Untitled". Attempt to quit fr... pospelov
16:52 Bug #1634 (Resolved): MacOS dmg 1.7 installation is partly broken: pospelov
13:40 Bug #1636 (Rejected): Unexpected wavelength depent intensity Roughness vs. ParticleLayout: When implementing a DWBA model I would expect the intensities of the structure factors to mostly depend (in first ord... a.glavic

12 Nov 2016

14:10 Configuration #1635 (Resolved): update to gtest-1.8: wuttke

11 Nov 2016

17:54 Refactoring #1468 (Rfc): Migrate to stdexcept: So first we need to discuss what kind of logging we want. wuttke
16:54 Documentation #1141: Manual: describe multi layers: Basic reference comes with manual 1.7-1. wuttke
16:45 Refactoring #1548 (Rejected): choose name for fit library: not worth a separate ticket wuttke
16:21 Bug #1634 (Resolved): MacOS dmg 1.7 installation is partly broken: GUI is working, but python example not. Some @rpath problem while loading _libBornAgainCore.so pospelov
14:48 Bug #1630 (Archived): Monte Carlo and multithreading options are not propagated to GUI fitting: herck
14:48 Bug #1583 (Archived): PyPersist tests fail if build directory path contains a '.': herck
14:48 Documentation #1589 (Archived): Clone drupal website: herck
14:48 Configuration #1595 (Archived): Fix Windows builds: herck
14:48 Refactoring #1605 (Archived): Revise public API of fitting classes: herck
14:48 Feature #1620 (Archived): Extend numpy support: herck
14:48 Bug #1621 (Archived): Broken parameter name translation for certain names in GUI fitting job: herck
14:48 Feature #1513 (Archived): Provide more informational throw message from RealParameterWrapper.: herck
14:48 Bug #1558 (Archived): Memory leakges in Python on Simulation::getIntensityData call: herck
14:48 Refactoring #1565 (Archived): to associate units with parameters, use string instead of inheritance: herck
14:48 Bug #1576 (Archived): bornagain/__init__.py must not require matplotlib: herck
14:48 Configuration #1577 (Archived): Qt qcreator navigation/recognition is broken for all unit tests: herck
14:48 Refactoring #1428 (Archived): Compactify code that handles parameters (use abstract mechanism ins...: herck
14:48 Bug #1498 (Archived): Fitting in GUI: values for all fitting parameters are reported as the same: herck
14:48 Bug #1511 (Archived): Roughness simulations give incorrect scattering contribution below the samp...: herck
14:48 Bug #1512 (Archived): GUI crashes when simulating for a lognormal distribution of wavelength with...: herck
14:48 Refactoring #1524 (Archived): "FitSuite" currently used in two different meanings: herck
14:48 Refactoring #1526 (Archived): replace "FunctionalTest" by more specific terms in several test mac...: herck
14:48 Documentation #991 (Archived): Revise and reintegrate chapter on particle distributions: herck
14:22 Documentation #991 (Resolved): Revise and reintegrate chapter on particle distributions: herck
14:48 Refactoring #1477 (Archived): Provide more detailed info on Exception thrown from Polyhedron base...: herck
14:48 Bug #1499 (Archived): GUI Segmentation fault if layer is too thick: herck
14:48 Refactoring #1546 (Archived): disambiguate getRadius(): herck
14:48 Refactoring #1593 (Archived): Remove soft particle constructors that have a volume argument inste...: herck
14:48 Feature #1120 (Archived): Calculate the specular peak intensity: |R|^2 at the specular pixel: herck
14:48 Documentation #1351 (Archived): Drupal: update installation instructions, tutorials for coming re...: herck
14:48 Documentation #1351 (Resolved): Drupal: update installation instructions, tutorials for coming re...: herck
14:48 Feature #1573 (Archived): facilitate plotting from Python scripts exported by PyCore tests.: herck
14:48 Refactoring #1594 (Archived): Review and possibly refactor IFormFactor class hierarchy: herck
14:48 Refactoring #1440 (Archived): cover Python examples by functional tests: herck
14:48 Feature #1560 (Archived): Provide simulation running from Python with text version of progress bar: herck
14:48 Feature #1563 (Archived): Investigate time-of-life of SampleBuilder in Python context: herck
14:48 Bug #1571 (Archived): PyCoreTest overlooks complete obstruction of simulation: herck
14:48 Refactoring #1419 (Archived): move test code out of core: herck
14:48 Refactoring #1514 (Archived): Remove code duplication in Distributions.h and .cpp: herck
14:48 Refactoring #1527 (Archived): simplify containsMagneticMaterial, printSampleTree, genPyScript: herck
14:48 Refactoring #1550 (Archived): in .h file header comments, replace »Declares« by »Defines«: herck
14:48 Refactoring #1556 (Archived): FormFactorInfo: remove unused m_pos_x, m_pos_y: herck
14:48 Feature #1564 (Archived): split "Pi.h" from Units.h: herck
14:48 Refactoring #1487 (Archived): GUI: introduce ROI (region of interest) in MaskEditor: herck
14:48 Refactoring #1488 (Archived): GUI: provide integration of ImportDataView and InstrumentView: herck
14:48 Bug #1520 (Archived): GUI: global progress bar seems to be not updating: herck
14:48 Bug #1603 (Archived): GUI: Cancel job is not working anymore after the refactoring of ProgressHan...: herck
14:48 Documentation #1412 (Archived): avoid horizontal scrolling in code examples: herck
14:48 Configuration #1447 (Archived): Migrate to GitHub: herck
14:48 Feature #1475 (Archived): DOI for BornAgain: herck
14:48 Bug #1600 (Archived): PyPersistenceTest throws an exception from regex: herck
14:48 Configuration #1255 (Archived): MacOS: provide vagrant build configurations for Mavericks: herck
14:48 Configuration #1344 (Archived): MacOS: install buildslave to macmini: herck
14:48 Configuration #1501 (Archived): version tag must start with 'v' (change release script or instruc...: herck
14:48 Bug #1516 (Archived): Consider include of ms-win-runtime library into Windows installer: herck
14:48 Documentation #1517 (Archived): Add the case with missed msvc2015 runtime library on Windows syst...: herck
14:48 Refactoring #1542 (Archived): Make ParameterPool and RealParameter independent of IParameterized: herck
14:48 Feature #1543 (Archived): decouple FitKernel from FitSuite: herck
14:48 Refactoring #1588 (Archived): FitSuiteParameters inhibits Python iterator: herck
14:48 Refactoring #1466 (Archived): Refactor core Minimizer family to match the GUI presentation: herck
14:42 Bug #1633 (Resolved): Possible memory leakage in LayerStrategyBuilder.: Is reported by both, MacOS/Instruments and Linux/valgrind, and it is around LayerStrategyBuilder::collectFormFactor... pospelov
14:23 Refactoring #1432 (Backlog): final polish of polyhedral form factor: herck
14:22 Documentation #157 (Resolved): full documentation of implemented theory for para- and mesocrystals: herck
14:22 Documentation #157 (Sprint): full documentation of implemented theory for para- and mesocrystals: herck
14:20 Documentation #1414 (Backlog): regenerate form factor images in manual: herck
13:28 Bug #1629: GISASSimulatin setAnalyzerProperties total_transmission default parameter generates Ex...: The type of analyzed neutrons (+ or - with respect to the given vector) changes according to the sign of P.
The def... herck
12:51 Bug #1629: GISASSimulatin setAnalyzerProperties total_transmission default parameter generates Ex...: Different Solution:
Why not use the physically more suitable definition of a transmission of the analyzed neutrons? ... a.glavic
12:23 Bug #1629: GISASSimulatin setAnalyzerProperties total_transmission default parameter generates Ex...: I agree that default values should not throw exceptions. The problem here is that efficiency and total transmission a... herck
11:53 Bug #1629: GISASSimulatin setAnalyzerProperties total_transmission default parameter generates Ex...: I think if you keep a default value, that should never through an exception. My feeling is, that in typical experimen... a.glavic
11:41 Bug #1629 (Backlog): GISASSimulatin setAnalyzerProperties total_transmission default parameter ge...: Its not entirely clear to me what should be the desired behavior here. Analyzer efficiency and total transmission are... herck
12:22 Bug #1632 (Resolved): GUI: delete button doesn't work on MacBook for masks on ImportDataView: pospelov
11:13 Feature #1631 (Backlog): No impact of abundance optional argument in ParticleLayout addParticle m...: The abundance parameter passed in the addParticle method denotes a relative abundance. The relative abundances of the... herck
10:32 Feature #1631 (Rejected): No impact of abundance optional argument in ParticleLayout addParticle ...: The class ParticleLayout has the addParticle method, which takes the particle abundance as optional second parameter.... a.glavic
08:50 Configuration #1500 (Backlog): MacOS: provide vagrant test box for El Capitan: pospelov
08:49 Documentation #1014 (Backlog): Manual: describe simulation with distributed parameters: pospelov

09 Nov 2016

19:21 Documentation #976: Derive scalar and polarized wave equation for both X-rays and neutrons, and c...: Commit e73cef8 adds a manual section on X-ray propagation.
Still to do:
* derive polarization factors for X-rays
... wuttke
15:07 Refactoring #1625 (Rejected): merge classes ILayout and ParticleLayout: OK, thanks. I'll improve the class comment, and add a "to consider" note about the possible refactoring. wuttke

08 Nov 2016

17:44 Feature #1620 (Resolved): Extend numpy support: pospelov
10:23 Feature #1620 (Sprint): Extend numpy support: Will quickly implement it, to simplify my tutorial's explanations. pospelov
13:16 Bug #1630 (Resolved): Monte Carlo and multithreading options are not propagated to GUI fitting: herck
12:02 Bug #1630 (Archived): Monte Carlo and multithreading options are not propagated to GUI fitting: herck
09:51 Documentation #1628: Can't clone git repositiory: We have migrated to GitHub and will make an announcement in the next days,
meanwhile, please use
https://github.c... pospelov
08:49 Documentation #1628 (Resolved): Can't clone git repositiory: When trying the command from the Download documentation it is not possible to clone the git repository:
$ git clon... a.glavic
09:06 Bug #1629 (Rejected): GISASSimulatin setAnalyzerProperties total_transmission default parameter g...: When simulating polarizatio analysis experiments the setAnalyzerProperties method with parameters (kvector_t, 1.0, to... a.glavic
08:47 Bug #1627 (Rejected): python API kvector_t missing basic operator: The python class interface to kvector_t is missing the basic subtract (__sub__) and divide (__div__) methods necessar... a.glavic

07 Nov 2016

16:18 Bug #1626 (Rejected): Specular calculation gives weird results below critical angle in presence o...: See support script for Frielinghaus (intern) herck
15:18 Feature #1620: Extend numpy support: See also sc-intern/technologies/python-bindings/swig/numpy for an example of automatic conversion numpy arras -> pyth... jmfisher
14:08 Feature #1620: Extend numpy support: See https://docs.scipy.org/doc/numpy/reference/swig.interface-file.html for numpy support in swig jmfisher
11:34 Bug #1621 (Resolved): Broken parameter name translation for certain names in GUI fitting job: herck
11:08 Refactoring #1625: merge classes ILayout and ParticleLayout: No need to merge. First of all, ILayout should define the interface for adding 'stuff' to layers or multilayers (open... herck

04 Nov 2016

15:43 Refactoring #1625 (Rejected): merge classes ILayout and ParticleLayout: or what other child of ILayout is waiting for implementation? wuttke
15:38 Feature #31: Implement x-ray polarization factor: The polarization factor described in the IsGISAXS manual holds only for phi_i=phi_f. Instead, we should immediately g... wuttke

02 Nov 2016

15:47 Feature #1624 (Resolved): Make all reasonable parameter values into fittable parameter: Some values are not registered yet in the domain, like particle density, abundance, ...
Complete the list of possibl... herck
15:45 Refactoring #1623 (Resolved): Parameter name translation (GUI -> domain): The machinery now sits in static class methods and uses (possibly multiple) ParameterTranslators. This should be hand... herck
08:09 Refactoring #1622: avoid smart pointers in user API: SampleBuilder is, to my knowledge, is the only such usage in public API and it is somewhat special. It can be defin... pospelov

01 Nov 2016

17:40 Refactoring #1622 (Rejected): avoid smart pointers in user API: While drafting an introductory Reference chapter, I wonder whether we want to expose a C++ API like... wuttke
13:41 Bug #1621 (Archived): Broken parameter name translation for certain names in GUI fitting job: GUI fitting job is crashing when trying to fit following properties
* MultiLayer "Cross correlation length"
* I... pospelov

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