Changeset f4c0513 in sasview


Ignore:
Timestamp:
Jun 29, 2015 2:13:16 PM (9 years ago)
Author:
Paul Kienzle <pkienzle@…>
Branches:
master, ESS_GUI, ESS_GUI_Docs, ESS_GUI_batch_fitting, ESS_GUI_bumps_abstraction, ESS_GUI_iss1116, ESS_GUI_iss879, ESS_GUI_iss959, ESS_GUI_opencl, ESS_GUI_ordering, ESS_GUI_sync_sascalc, costrafo411, magnetic_scatt, release-4.1.1, release-4.1.2, release-4.2.2, release_4.0.1, ticket-1009, ticket-1094-headless, ticket-1242-2d-resolution, ticket-1243, ticket-1249, ticket885, unittest-saveload
Children:
60d08fd
Parents:
eddf6af5 (diff), 5a73356a (diff)
Note: this is a merge changeset, the changes displayed below correspond to the merge itself.
Use the (diff) links above to see all the changes relative to each parent.
Message:

Merge branch 'master' of github.com:sasview/sasview

Files:
2 added
1 deleted
21 edited

Legend:

Unmodified
Added
Removed

  • docs/sphinx-docs/build_sphinx.py

    r9bf64f6 r2fb09c4  
    2727SASVIEW_BUILD = os.path.abspath(os.path.join(CURRENT_SCRIPT_DIR, "..", "..", "build", "lib"+platform)) 
    2828SASVIEW_DOCS = os.path.join(SASVIEW_BUILD, "doc") 
     29SASVIEW_TEST = os.path.join(SASVIEW_SRC, "..", "sasview", "test", "media") 
    2930 
    3031SPHINX_BUILD = os.path.join(CURRENT_SCRIPT_DIR, "build") 
    … …  
    3435SPHINX_SOURCE_MODELS = os.path.join(SPHINX_SOURCE, "user", "models") 
    3536SPHINX_SOURCE_PERSPECTIVES = os.path.join(SPHINX_SOURCE, "user", "perspectives") 
     37SPHINX_SOURCE_TEST = os.path.join(SPHINX_SOURCE, "test") 
    3638 
    3739BUMPS_DOCS = os.path.join(CURRENT_SCRIPT_DIR, "..", "..", "..", 
    … …  
    5557    _remove_dir(SPHINX_SOURCE_MODELS) 
    5658    _remove_dir(SPHINX_SOURCE_PERSPECTIVES) 
     59    _remove_dir(SPHINX_SOURCE_TEST) 
    5760 
    5861def retrieve_user_docs(): 
    … …  
    8790 
    8891            copy_tree(docs, dest_dir) 
     92             
     93    # Now pickup testdata_help.rst 
     94#    print os.path.abspath(SASVIEW_TEST) 
     95#    print os.path.abspath(SPHINX_SOURCE_TEST) 
     96    if os.path.exists(SASVIEW_TEST): 
     97       print "Found docs folder at ", SASVIEW_TEST 
     98       shutil.copytree(SASVIEW_TEST, SPHINX_SOURCE_TEST)        
    8999 
    90100def retrieve_bumps_docs(): 

  • docs/sphinx-docs/source/conf.py

    reddf6af5 rf4c0513  
    5353# General information about the project. 
    5454project = u'SasView' 
    55 copyright = u'2013, The SasView Project' 
     55copyright = u'2015, The SasView Project' 
    5656 
    5757# The version info for the project you're documenting, acts as replacement for 
    … …  
    6060# 
    6161# The short X.Y version. 
    62 version = '3.0.0' 
     62version = '3.1.0' 
    6363# The full version, including alpha/beta/rc tags. 
    64 release = '3.0.0' 
     64release = '3.1.0' 
    6565 
    6666# The language for content autogenerated by Sphinx. Refer to documentation 

  • docs/sphinx-docs/source/index.rst

    r8042dbb r5a73356a  
    44   contain the root `toctree` directive. 
    55 
    6 SasView Documentation 
    7 ===================== 
     6SasView Documentation Index 
     7=========================== 
    88 
    99.. toctree:: 
    1010   :maxdepth: 1 
    1111 
    12    Model Documentation <user/models/model_functions> 
    13     
    1412   User Documentation <user/user> 
    1513 

  • docs/sphinx-docs/source/user/user.rst

    r28812b8 r2e5ca08  
    1 User Documentation 
    2 ================== 
     1SasView User Documentation 
     2========================== 
     3 
     4.. note:: In Windows use [Alt]-[Cursor left] to return to the previous page 
    35 
    46.. toctree:: 
    … …  
    3739   Python Shell Tool <perspectives/calculator/python_shell_help> 
    3840    
    39    Test Data <test/testdata.rst> 
     41   Test Data <../test/testdata_help.rst> 

  • sasmodels/setup.py

    r3a39c2e r038ccfe6  
    111111    version = VERSION, 
    112112    description = "Python module for SAS scattering models", 
    113     author = "SAS/DANSE", 
    114     author_email = "sansdanse@gmail.gov", 
    115     url = "http://sansviewproject.svn.sourceforge.net", 
     113    author = "SasView Team", 
     114    author_email = "developers@sasview.org", 
     115    url = "https://github.com/SasView/sasview.git", 
    116116     
    117117    # Place this module under the sas package 

  • sasview/README.txt

    r79492222 rd47b9ce  
    22============= 
    33 
    4 SasView 3.0.0 
    5  
    6     - The GUI look and feel has been refactored to be more familiar for Windows 
    7       users by using MDI frames. Graph windows are also now free-floating 
    8     - Five new models have been added: PringlesModel, CoreShellEllipsoidXTModel, 
    9       RectangularPrismModel, RectangularHollowPrismModel and  
    10       RectangularHollowPrismInfThinWallsModel 
    11     - The data loader now supports ILL DAT data files and reads the full meta  
    12       information from canSAS file formats 
    13     - Redefined convention for specifying angular parameters for anisotropic models 
    14     - A number of minor features have been added such as permitting a log  
    15       distribution of points when using a model to simulate data, and the  
    16       addition of a Kratky plot option to the linear plots 
    17     - A number of bugs have also been fixed 
    18     - Save Project and Save Analysis now work more reliably 
    19     - BETA: Magnetic contrast supporting full polarization analysis has been  
    20             implemented for some spherical and cylindrical models 
    21     - BETA: Two new tools have been added: 
    22             * A generic scattering calculator which takes an atomic, magnetic or  
    23               SLD distribution in space and generates the appropriate 2D  
    24               scattering pattern. In some cases the orientationally averaged  
    25               (powder) 1D scattering can also be computed. Supported formats  
    26               include: SLD or text, PDB, and OMF magnetic moment distribution  
    27               file. 
    28             * An image viewer/converter for data in image format; this reads in  
    29               an image file and will attempt to convert the image pixels to  
    30               data. Supported formats include: TIFF, TIF, PNG, BMP, JPG 
    31  
    32     - New in Version 2.2.1 
    33       - Minor patch to support CanSAS XML v1.1 file format 
    34       - Added DataInfo for data in the DataExplorer and plots 
    35       - Added Maximize/Restore button in the title bar of the graphs 
    36       - Added a hide button in the toolbar of the graph panel 
    37       - The 'x' button now deletes a graph 
    38       - Edit SUM Model from the menubar can now generate and save more than one sum model 
    39       - Reports can now be saved in pdf format on WIN and MAC 
    40       - Made significant improvements to the batch/grid panel and fixed several bugs 
    41       - Fixed a number of other minor bugs 
    42  
    43     - New in Version 2.2.0 
    44       - Application name changed to SasView 
    45       - New fully customizable Category Manager added for better management of 
    46         increasing number of models 
    47       - Improved the Grid Window functionality in the batch fitting mode 
    48       - Added a simpler Graph/Plot modification interface 
    49       - Added a new 'Data Operation' tool for addition, subtraction, multiplication, 
    50         division, of two data sets. 
    51       - The 'Sum Model' editor was extended and renamed 'Summation and Multiplication' 
    52         editor 
    53       - Added more plot symbols options for 1d plots 
    54       - Added improved trapping of compiling errors to the 'New model editor' 
    55       - Added some intelligent outputs (e.g., Rg, background, or rod diameter depending on the choice of axis scale of the plot) to the linear fits 
    56       - Added more models 
    57  
    58     - Feature set from Previous Versions:        
     41- Features 
     5=========== 
     6 
     7   - New in Version 3.1.0 
     8     -------------------- 
     9     - The documentation/help has had a complete overhaul including: 
     10       - A completely new presentation interface (Sphinx). 
     11       - Proof reading! 
     12       - Updating for latest features. 
     13       - A Help (or sometimes ?) button has been added to every panel, and some 
     14         sub panels if appropriate, linking to the appropriate section in the 
     15         documentation. 
     16       - The model help has been split so that the Details button now brings up 
     17         a very short pop-up giving the equation being used while HELP goes to  
     18         the section in the full documentation describing the model. 
     19       - Extensive help has also been added for the new optimizer engine (see  
     20         below) including rules of thumb on how and when to choose a given 
     21         optimizer and what the parameters do. 
     22     - The optimizer engine has been completely replaced. The new optimizer 
     23       still defaults to the standard Levenberg-Marquardt algorithm. However 4 
     24       other optimizers are now also available. Each starts with a set of default 
     25       parameters which can be tuned. The DREAM optimizer takes the longest but 
     26       is the most powerful and yields rich information including full parameter 
     27       correlation and uncertainty plots. A results panel has been added to 
     28       accommodate this. 
     29       - The five new optimizers are: 
     30         - A Levenberg-Marquardt optimizer 
     31         - A Quasi-Newton BFGS optimizer 
     32         - A Nelder-Mead Simplex optimizer 
     33         - A Differential Evolution optimizer 
     34         - A Monte Carlo optimizer (DREAM)  
     35     - New models were added: 
     36         - MicelleSphCoreModel (currently residing in the Uncategorized category) 
     37     - Existing models were updated: 
     38         - RectangularPrismModel 
     39         - RectangularHollowPrismModel 
     40         - RectangularHollowPrismInfThinWallsModel 
     41     - Infrastructure to allow SESANS data to be fit with models was added. This 
     42       will become available in a future release but can currently be used from  
     43       the command line with some caveats. 
     44     - A number of bugs were fixed including a thread crashing issue and an 
     45       incorrect slit smearing resolution calculation. 
     46     - Implemented much more robust error logging to enable much easier 
     47       debugging in general but particularly the debugging of issues reported by 
     48       SasView users. 
     49     - A number of infrastructure tasks under the hood to enhance maintainability 
     50     - Upgrade from Wx 2.8 to Wx 3.0.2 which allows several new features but 
     51       required significant additional rework as well. 
     52     - Fully implemented Sphinx to the build process to produce both better 
     53       user documentation and developer documentation. 
     54     - Restructuring of the code base to more unified nomenclature and structure 
     55       so that the source installation tree more closely matches the installer 
     56       version tree. 
     57     - Code cleanup (an ongoing task) . 
     58     - Migration of the repository to github simplifying contributions from 
     59       non-project personnel through pull requests. 
     60 
     61   - New in Version 3.0.0 
     62     -------------------- 
     63     - The GUI look and feel has been refactored to be more familiar for 
     64       Windows users by using MDI frames. Graph windows are also now free- 
     65       floating. 
     66     - Five new models have been added: PringlesModel, CoreShellEllipsoidXTModel, 
     67       RectangularPrismModel, RectangularHollowPrismModel and  
     68       RectangularHollowPrismInfThinWallsModel. 
     69     - The data loader now supports ILL DAT data files and reads the full meta  
     70       information from canSAS file formats. 
     71     - Redefined convention for specifying angular parameters for anisotropic 
     72       models. 
     73     - A number of minor features have been added such as permitting a log  
     74       distribution of points when using a model to simulate data, and the  
     75       addition of a Kratky plot option to the linear plots. 
     76     - A number of bugs have also been fixed. 
     77     - Save Project and Save Analysis now work more reliably. 
     78     - BETA: Magnetic contrast supporting full polarization analysis has been  
     79       implemented for some spherical and cylindrical models. 
     80     - BETA: Two new tools have been added: 
     81       - A generic scattering calculator which takes an atomic, magnetic or  
     82         SLD distribution in space and generates the appropriate 2D  
     83         scattering pattern. In some cases the orientationally averaged  
     84         (powder) 1D scattering can also be computed. Supported formats  
     85         include: SLD or text, PDB, and OMF magnetic moment distribution  
     86         file. 
     87       - An image viewer/converter for data in image format; this reads in  
     88         an image file and will attempt to convert the image pixels to  
     89         data. Supported formats include: TIFF, TIF, PNG, BMP, JPG. 
     90 
     91   - New in Version 2.2.1 
     92     -------------------- 
     93     - Minor patch to support CanSAS XML v1.1 file format 
     94     - Added DataInfo for data in the DataExplorer and plots 
     95     - Added Maximize/Restore button in the title bar of the graphs 
     96     - Added a hide button in the toolbar of the graph panel 
     97     - The 'x' button now deletes a graph 
     98     - Edit SUM Model from the menubar can now generate and save more than one sum model 
     99     - Reports can now be saved in pdf format on WIN and MAC 
     100     - Made significant improvements to the batch/grid panel and fixed several bugs 
     101     - Fixed a number of other minor bugs 
     102 
     103   - New in Version 2.2.0 
     104     -------------------- 
     105     - Application name changed to SasView 
     106     - New fully customizable Category Manager added for better management of 
     107       increasing number of models 
     108     - Improved the Grid Window functionality in the batch fitting mode 
     109     - Added a simpler Graph/Plot modification interface 
     110     - Added a new 'Data Operation' tool for addition, subtraction, multiplication, 
     111       division, of two data sets. 
     112     - The 'Sum Model' editor was extended and renamed 'Summation and Multiplication' 
     113       editor 
     114     - Added more plot symbols options for 1d plots 
     115     - Added improved trapping of compiling errors to the 'New model editor' 
     116     - Added some intelligent outputs (e.g., Rg, background, or rod diameter  
     117       depending on the choice of axis scale of the plot) to the linear fits 
     118     - Added more models 
     119      
     120   - Feature set from previous versions          
     121     ----------------------------------- 
     122     - Perspectives Available 
     123       - Invariant calculator: Calculates the invariant, volume fraction, and 
     124         specific surface area. 
     125       - P(r) inversion calculator: Indirect Fourier transformation method. 
     126       - Fitting: the tool used for modeling and fitting 1D and 2D data to  
     127         analytical model functions 
     128       - Tools: provides a number of useful supplementary tools such as SLD 
     129         calculation   
    59130     
    60     - Perspectives Available 
    61       - Invariant calculator: Calculates the invariant, volume fraction, and 
    62         specific surface area. 
    63       - P(r) inversion calculator: Indirect Fourier transformation method. 
    64       - Fitting: the tool used for modeling and fitting 1D and 2D data to  
    65         analytical model functions 
    66       - Tools: provides a number of useful supplementary tools such as SLD 
    67         calculation   
    68      
    69     - Fitting  
    70       - Includes a large number of model functions, both form factors and structure factors. 
    71       - Support P(Q)*S(Q) for form factors that flag they can be so multiplied. 
    72       - Supports Gaussian, lognormal, Shulz, rectangular and custom distribution 
    73         functions for models that need to include polydispersity or for orientational 
    74         distributions if appropriate. 
    75       - Anisotropic shapes and magnetic moment modeling in 2D allow for a non-uniform 
    76         distribution of orientations of a given axis leading to modeling and fitting 
    77         capabilities of non azimuthaly symmetric data.   
    78       - User can choose to weight fits or not. If using weights, the user can choose 
    79         the error bar on each point if provided in the file, the square root 
    80         of the intensity or the intensity itself.  
    81       - Instrumental resolution smearing of model or fits is provided with several 
    82         options: read the resolution/point fromt he file. Input a pinhole resolution 
    83         or a slit resolution. 
    84       - Users can define the Qrange (Qmin and Qmax) for both 1D and 2D data for 
    85         fitting and modeling, but not graphically.  The range can be reset to the 
    86         defaults (limits of q in data set for a fit) with the reset button. 
    87       - A mask can be applied to 2D calculation and fitting. 
    88       - Normalized residual plots are provided with every fit. 
    89       - Model function help available through detail button or from the fitting panel. 
    90       - Simultaneous/(advanced)constrained fitting allows for fitting a single 
    91         data set or several different sets simultaneously with the application 
    92         of advanced constraints relating fit parameters to functions of other 
    93         parameters (including from a different set). For example thickness of  
    94         shell = sin(30) times the length.   
    95       - Models that are the sum of two other models can be easily generated through the 
    96         SUM Model menubar item. 
    97       - New Python models can be added on the fly by creating an appropriate Python 
    98         file in the model plugin directory. Two tools are provided to help: 
    99         An easy to use custom model editor allows the quick generation of new Python 
    100         models by supplying only the parameters and their default value (box 1) 
    101         and the mathematical function of the model (box 2) and generating the 
    102         necessary *.py file.  A separate advanced model editor provides a full Python 
    103         file editor.  Either way once saved the model becomes immediately available  
    104         to the application.  
    105       - A batch fittng capability allows for the analysis of a series of data sets to 
    106         a sinble model and provides the results in a tabular form suitable for saving 
    107         or plotting the evolution of the fit parameters with error bars (from within 
    108         the application). 
     131     - Fitting  
     132       - Includes a large number of model functions, both form factors and structure factors. 
     133       - Support P(Q)*S(Q) for form factors that flag they can be so multiplied. 
     134       - Supports Gaussian, lognormal, Shulz, rectangular and custom distribution 
     135         functions for models that need to include polydispersity or for orientational 
     136         distributions if appropriate. 
     137       - Anisotropic shapes and magnetic moment modeling in 2D allow for a non-uniform 
     138         distribution of orientations of a given axis leading to modeling and fitting 
     139         capabilities of non azimuthaly symmetric data.   
     140       - User can choose to weight fits or not. If using weights, the user can choose 
     141         the error bar on each point if provided in the file, the square root 
     142         of the intensity or the intensity itself.  
     143       - Instrumental resolution smearing of model or fits is provided with several 
     144         options: read the resolution/point fromt he file. Input a pinhole resolution 
     145         or a slit resolution. 
     146       - Users can define the Qrange (Qmin and Qmax) for both 1D and 2D data for 
     147         fitting and modeling, but not graphically.  The range can be reset to the 
     148         defaults (limits of q in data set for a fit) with the reset button. 
     149       - A mask can be applied to 2D calculation and fitting. 
     150       - Normalized residual plots are provided with every fit. 
     151       - Model function help available through detail button or from the fitting panel. 
     152       - Simultaneous/(advanced)constrained fitting allows for fitting a single 
     153         data set or several different sets simultaneously with the application 
     154         of advanced constraints relating fit parameters to functions of other 
     155         parameters (including from a different set). For example thickness of  
     156         shell = sin(30) times the length.   
     157       - Models that are the sum of two other models can be easily generated through the 
     158         SUM Model menubar item. 
     159       - New Python models can be added on the fly by creating an appropriate Python 
     160         file in the model plugin directory. Two tools are provided to help: 
     161         An easy to use custom model editor allows the quick generation of new Python 
     162         models by supplying only the parameters and their default value (box 1) 
     163         and the mathematical function of the model (box 2) and generating the 
     164         necessary *.py file.  A separate advanced model editor provides a full Python 
     165         file editor.  Either way once saved the model becomes immediately available  
     166         to the application.  
     167       - A batch fitting capability allows for the analysis of a series of data sets to 
     168         a single model and provides the results in a tabular form suitable for saving 
     169         or plotting the evolution of the fit parameters with error bars (from within 
     170         the application). 
    109171  
    110     - Tools 
    111       - A scattering length density calculator,including some X-ray information 
    112         is provided. 
    113       - A density to vol. fraction converter is provided 
    114       - In application access to a Python shell/editor (PyCrust) is provided 
    115       - An instrument resolution calculator, including possible gravitational and 
    116         TOF effects is provided 
    117       - A slit size calculator optimized for Anton Paar Saxess is provided. 
    118       - A kiessig fringe thickness calculator is provided 
    119     - Plots and plot management 
    120       - A 3D graphing option (for 2d data/results) is provided with the view 
    121         controlled by the mouse 
    122       - 2D plots are shown with an intensity color bar. 2D Color map can be user 
    123         adjusted. 
    124       - Supports output of plot to a variety of graphic formats. Supported formats 
    125         include: png, eps, emf, jpg/jpeg, pdf, ps, tif/tiff, rawRGBbitmap(raw, rgba), 
    126         and scalable vector graphic (svg/svgz) 
    127       - Supports ouput of data in plot (1 or 2D) to limited data formats 
    128       - Multiple data sets can be loaded into a single graph for viewing (but a fit 
    129         plot can currently only have a single plot). 
    130       - Extensive context sensitive plot/fitting/manipulation options are available 
    131         through a right mouse click pop-up menu on plots.   
    132     - Data management 
    133       - Supports 2 + column 1D ASCII data, NIST 1D and 2D data, and canSAS data 
    134         via plug-in mechanism which can easily allow other readers as appropriate.  
    135       - 2D data is expected in Q space but for historical reasons accepts the 
    136         NIST 2D raw pixel format and will do conversion internally. 
    137       - The full data and metadata available to SasView is viewable in ASCII via 
    138         right clicking on a data set and choosing Data Info in the DataExplorer 
    139         or on the plots 
    140       - Supports loading a single file, multiple files, or a whole folder    
    141       - An optional Data Explorer is provided (default) which simplifies managing, 
    142         plotting, deleting, or setup for computation. Most functions however do 
    143         not require access to the explorer/manager and can be accessed through 
    144         right click menus and the toolbar.  The data explorer can be re-started 
    145         from the menu bar. 
    146     - Data manipulation 
    147       - Support various 2D averaging methods : Circular, sectors, annular, 
    148         boxsum, boxQx and boxQy. 
    149       - A 2D data maks editor is provided 
    150       - 2D mask can be applied to the circular averaging. 
    151     - Miscellaneous features 
    152       - limited reports can be generated in pdf format 
    153       - Provides multiprocessor support(Windows only) 
    154       - Limited startup customization currently includes default startup 
    155         data folder and choice of default starting with data manager 
    156       - Limited support for saving(opening) a SasView project or a SasView analysis 
    157         (subproject) is provided. 
    158       - SasView can be launched and loaded with a file of interesty by double-clicking 
    159         on that file (recognized extension) 
    160       - A data file or data folder can be passed to SasView when launched from 
    161         the command line. 
    162       - Limited bookmarking capability to later recall the results of a fit calculation 
    163         is provided. 
    164       - Extensive help is provided through context sensitive mouse roll-over, 
    165         information bar (at the bottom of the panel), the console menu, and 
    166         access to the help files in several different ways. 
    167  
     172     - Tools 
     173       - A scattering length density calculator,including some X-ray information 
     174         is provided. 
     175       - A density to vol. fraction converter is provided 
     176       - In application access to a Python shell/editor (PyCrust) is provided 
     177       - An instrument resolution calculator, including possible gravitational and 
     178         TOF effects is provided 
     179       - A slit size calculator optimized for Anton Paar Saxess is provided. 
     180       - A kiessig fringe thickness calculator is provided 
     181          
     182     - Plots and plot management 
     183       - A 3D graphing option (for 2d data/results) is provided with the view 
     184         controlled by the mouse 
     185       - 2D plots are shown with an intensity color bar. 2D Color map can be user 
     186         adjusted. 
     187       - Supports output of plot to a variety of graphic formats. Supported formats 
     188         include: png, eps, emf, jpg/jpeg, pdf, ps, tif/tiff, rawRGBbitmap(raw, rgba), 
     189         and scalable vector graphic (svg/svgz) 
     190       - Supports ouput of data in plot (1 or 2D) to limited data formats 
     191       - Multiple data sets can be loaded into a single graph for viewing (but a fit 
     192         plot can currently only have a single plot). 
     193       - Extensive context sensitive plot/fitting/manipulation options are available 
     194         through a right mouse click pop-up menu on plots. 
     195            
     196     - Data management 
     197       - Supports 2 + column 1D ASCII data, NIST 1D and 2D data, and canSAS data 
     198         via plug-in mechanism which can easily allow other readers as appropriate.  
     199       - 2D data is expected in Q space but for historical reasons accepts the 
     200         NIST 2D raw pixel format and will do conversion internally. 
     201       - The full data and metadata available to SasView is viewable in ASCII via 
     202         right clicking on a data set and choosing Data Info in the DataExplorer 
     203         or on the plots 
     204       - Supports loading a single file, multiple files, or a whole folder    
     205       - An optional Data Explorer is provided (default) which simplifies managing, 
     206         plotting, deleting, or setup for computation. Most functions however do 
     207         not require access to the explorer/manager and can be accessed through 
     208         right click menus and the toolbar.  The data explorer can be re-started 
     209         from the menu bar. 
     210            
     211     - Data manipulation 
     212       - Support various 2D averaging methods : Circular, sectors, annular, 
     213         boxsum, boxQx and boxQy. 
     214       - A 2D data maks editor is provided 
     215       - 2D mask can be applied to the circular averaging. 
     216          
     217     - Miscellaneous features 
     218       - limited reports can be generated in pdf format 
     219       - Provides multiprocessor support(Windows only) 
     220       - Limited startup customization currently includes default startup 
     221         data folder and choice of default starting with data manager 
     222       - Limited support for saving(opening) a SasView project or a SasView analysis 
     223         (subproject) is provided. 
     224       - SasView can be launched and loaded with a file of interesty by double-clicking 
     225         on that file (recognized extension) 
     226       - A data file or data folder can be passed to SasView when launched from 
     227         the command line. 
     228       - Limited bookmarking capability to later recall the results of a fit calculation 
     229         is provided. 
     230       - Extensive help is provided through context sensitive mouse roll-over, 
     231         information bar (at the bottom of the panel), the console menu, and 
     232         access to the help files in several different ways. 
    168233 
    169234 
    1702352- Downloading and Installing 
     236============================= 
    171237         
    172         *** Note 1:  Much more information is available at www.sasview.org under links. 
    173                      Look in the 'For Developers' section and particularly the wiki at 
    174                      www.sasview.org/trac/wiki. 
    175     *** Note 2:  If you have EXE or ZIP SasView installer, you won't need any of 
    176                  the following.  However it is highly recommended that any 
    177                  previous versions be un-installed prior to installing the 
    178                  new version. 
    179  
    180     2.1- System Requirements: 
     238   *** Note 1:  Much more information is available at www.sasview.org under links. 
     239                    Look in the 'For Developers' section and particularly the wiki at 
     240                www.sasview.org/trac/wiki. 
     241   *** Note 2:  If you have EXE or ZIP SasView installer, you won't need any of 
     242                the following.  However it is highly recommended that any 
     243                previous versions be un-installed prior to installing the 
     244                new version. 
     245 
     246   2.1- System Requirements 
    181247        - Python version >= 2.5 and < 3.0 should be running on the system 
    182         - We currently use Python 2.6 
    183  
    184     2.2- Installing from source: 
    185         - Get the code from sourceforge at https://svn.code.sf.net/p/sasview/code/ 
    186           for trunk end with code/trunk for a this release version end in  
    187           code/releases/sasview-3.0.0 
    188             - run 'python setup.py install' under the 'sasview-x.x.x' folder 
    189             - run 'python sasview.py' under the 'sasview' folder. 
    190         - The following modules are required (version numbers are what are used in the release build): 
    191             - wxPython 2.8.12.1 (NOTE: do NOT use version 2.9) 
    192             - matplotlib 1.1.0 
    193             - SciPy 0.10.1 (NOTE: Mac build uses 0.10.0) 
    194             - pisa 3.0.27 (DO NOT USE ver 3.0.33 on windows: it will not work!) 
    195             - setuptools 0.6c11 
    196  
    197             (The following three are easily installed using easy_install) 
    198             - lxml 2.3.0.0 (NOTE: Mac build uses 3.1.0.0) 
    199             - numpy 1.6.1 (NOTE: Mac build uses version 1.6.2) 
    200             - periodictable 1.3.0 
    201              
    202             (The following are additional dependencies for Mac) 
    203             - py2app 0.7.1 
    204              
    205             (The following are additional dependencies for Windows) 
    206             - comtypes 0.6.2 (for PDF support on windows systems) 
    207             - pywin32 build 217 (to read ms office) 
    208             - html5lib 0.95-dev 
    209             - reportlab 2.5 (NOTE: Mab build uses 2.6 though should not be needed) 
    210             - pyparsing 1.5.5 (required for periodictable and bundling 
    211               NOTE: is ALSO present on Mac Build) 
    212             - PIL 1.1.7 (Python Image Library - NOTE: is also present on Mac build) 
    213             - py2exe 0.6.9 (WIN) 
     248        - We currently use Python 2.7 
     249 
     250   2.2- Installing from source 
     251        - Get the code from GitHub at https://github.com/SasView/sasview.git 
     252          for this release version use: https://github.com/SasView/sasview/releases 
     253          - run 'python setup.py install' under the 'sasview-x.x.x' folder 
     254          - run 'python sasview.py' under the 'sasview' folder. 
     255           
     256        - The following modules are required (version numbers are what are used 
     257          in the windows release build): 
     258           
     259          - Common Packages 
     260            - reportlab 3.1.44 
     261            - lxml 3.4.4.0 (MAC 3.4.2.0) 
     262            - PIL 1.1.7 
     263            - xhtml2pdf 3.0.33 (MAC = not installed on build server) 
     264            - unittest-xml-reporting 1.12.0 (MAC 1.10.0) 
     265            - matplotlib Version Installed: 1.4.3 (MAC 1.1.1) 
     266            - bumps Version Installed: 0.7.5.6 
     267            - scipy Version Installed: 0.16.0b2 (MAC 0.11.0) 
     268            - periodictable Version Installed: 1.4.1 
     269            - setuptools Version Installed: 7.0 (MAC 12.0.5) 
     270            - sphinx Version Installed: 1.3.1 (MAC 1.3b2) 
     271            - pyparsing Version Installed: 2.0.3 
     272            - numpy Version Installed: 1.9.2 (MAC 1.6.2) 
     273            - html5lib Version Installed: 0.99999 
     274            - wx Version Installed: 3.0.2.0 
     275           
     276          - Windows Specific Packages 
     277            - pywin 219 
     278            - py2exe 0.6.9 
     279            - comtypes 1.1.1 
     280            - MinGW w/ gcc version 4.6.1 (WIN) 
    214281            - vcredist_x86.exe (version 9.0.21022.8  -microsoft visual C 2008  
    215282              re-distributable) 
    216             - subversion -1.6.0 (<1.6.1) 
    217             - MinGW w/ gcc version 4.6.1 (WIN) 
    218             - Innosetup (WIN - isetup 5.4.2-unicode). 
     283            - Innosetup (WIN - isetup 5.4.2-unicode) - used to create distributable 
     284 
     285            *** Note: Windows build dependencies can be set up using anaconda. Instructions 
     286                can be found at http://trac.sasview.org/wiki/AnacondaSetup 
    219287             
    220             (On Windows, the following site has all the dependencies nicely packaged) 
    221             http://www.lfd.uci.edu/~gohlke/pythonlibs/ 
    222  
     288          - MAC Specifc Packages 
     289            - py2app 0.7.1 
     290           
    223291 
    2242923- Known Issues 
    225  
    226     3.1- All systems: 
    227         - very old computers may not be able to run 
    228         - polydispersity on multiple parameters included in a simultaneous/ 
     293=============== 
     294 
     295   3.1- All systems: 
     296        - The documentation window may take a few seconds to load the first time 
     297          it is called. Also, an internet connection is required before 
     298          equations will render properly. Until then they will show in their 
     299          original TeX format. 
     300        - If the documentation window remains stubbornly blank, try installing a  
     301          different browser and set that as your default browser. Issues have 
     302          been noted with Internet Explorer 11. 
     303        - The copy and paste functions (^C, ^V) in the batch mode results grid 
     304          require two clicks: one to select the cell and a second to select the 
     305          contents of the cell.  
     306        - The tutorial has not yet been updated and is somewhat out of date 
     307        - Very old computers may struggle to run the 3.x and later releases 
     308        - Polydispersity on multiple parameters included in a simultaneous/ 
    229309          constrained fit will likely not be correct 
     310        - Constrained/simultaneous fit page does not have a stop button 
     311        - Constrained/simultaneous fit do not accept min/max limits 
    230312        - Save project does not store the state of all the windows 
    231313        - Loading projects can be very slow 
    232314        - Save Project only works once a data set has been associated with 
    233315          a model.  Error is reported on status bar. 
    234  
    235     3.2- Windows: 
     316        - There is a numerical precision problem with the multishell model when 
     317          the iner radius gets large enough (ticket #288) 
     318        - The angular distribution angles are not clearly defined and may in 
     319          some cases lead to incorrect calculations(ticket #332) 
     320           
     321   3.2- Windows: 
    236322        - If installed to same directory as old version without first removing 
    237323          the old version, the old desktop icon will remain but point to the 
    … …  
    240326          safest to uninstall old version prior to installing new version anyway. 
    241327                 
    242     3.3- MAC: 
    243         - multiprocessing does not currently work on MAC OS 
     328   3.3- MAC: 
     329        - Application normally starts up hidden. Click icon in Dock to view/use 
     330          application.  
     331        - Multiprocessing does not currently work on MAC OS 
    244332                 
    245     3.4- Linux: 
    246         - None 
     333   3.4- Linux: 
     334        - Not well tested 
     335 
    247336 
    2483374- SasView website 
    249  
    250     - www.sasview.org.  This main project site is the gateway to all  
    251       information about the sasview project.  It includes information 
    252       about the project, a FAQ page and links to all developer and user 
    253       information, tools and resources. 
     338================== 
     339 
     340   - www.sasview.org.  This main project site is the gateway to all  
     341     information about the sasview project.  It includes information 
     342     about the project, a FAQ page and links to all developer and user 
     343     information, tools and resources. 
     344 
    254345 
    2553465- Frequently Asked Questions 
    256  
    257     - www.sasview.org/faq.html 
     347============================= 
     348 
     349   - www.sasview.org/faq.html 
     350 
    258351 
    2593526- Installer download website 
    260  
    261     - Latest release Version 
    262         - http://sourceforge.net/projects/sasview/files/ 
    263     - Latest developer Windows or Ubuntu build 
    264         - http://build.sasview.org/ 
    265     - Latest developer Mac OS build 
    266         - http://download.mantidproject.org/jenkins/view/All/job/sasview_snowleopard_32bit/ 
     353============================= 
     354 
     355   - Latest release Version 
     356     - https://github.com/SasView/sasview/releases 
     357   - Latest developer builds 
     358     - https://jenkins.esss.dk/sasview/view/Master-Builds/ 
    267359 
    268360     

  • sasview/local_config.py

    r0ea31ca r5846bb5  
    1212__version__ = sas.sasview.__version__ 
    1313__build__ = sas.sasview.__build__ 
    14 __download_page__ = 'http://sourceforge.net/projects/sasview/files/' 
    15 __update_URL__ = ['svn.code.sf.net',  
    16                   '/p/sasview/code/trunk/sasview.latestversion'] 
     14__download_page__ = 'https://github.com/SasView/sasview/releases' 
     15__update_URL__ = ['raw.githubusercontent.com', 
     16                  '/SasView/sasview/master/sasview.latestversion'] 
    1717 
    1818 
    … …  
    2424 
    2525# Debug message should be written to a file? 
    26 __EVT_DEBUG_2_FILE__   = False 
     26__EVT_DEBUG_2_FILE__ = False 
    2727__EVT_DEBUG_FILENAME__ = "debug.log" 
    2828 
    … …  
    3939'''Reference the following website: http://www.sasview.org''' 
    4040_acknowledgement_preamble_bullet3 =\ 
    41 '''Send us your reference for our records: sansdanse@gmail.com''' 
     41'''Reference the model you used if appropriate (see documentation for refs)''' 
     42_acknowledgement_preamble_bullet4 =\ 
     43'''Send us your reference for our records: developers@sasview.org''' 
    4244_acknowledgement_publications = \ 
    43 '''This work benefited from the use of the SasView application, originally  
     45'''This work benefited from the use of the SasView application, originally 
    4446developed under NSF award DMR-0520547. 
    4547''' 
    4648_acknowledgement =  \ 
    4749'''This work originally developed as part of the DANSE project funded by the NSF 
    48 under grant DMR-0520547, and currently maintained by NIST, UMD, ORNL, ISIS, ESS  
     50under grant DMR-0520547, and currently maintained by NIST, UMD, ORNL, ISIS, ESS 
    4951and ILL. 
    5052 
    … …  
    6062logging.info("icon path: %s" % icon_path) 
    6163media_path = os.path.abspath(os.path.join(os.path.dirname(__file__), "media")) 
    62 test_path =  os.path.abspath(os.path.join(os.path.dirname(__file__), "test")) 
     64test_path = os.path.abspath(os.path.join(os.path.dirname(__file__), "test")) 
    6365 
    6466_nist_logo = os.path.join(icon_path, "nist_logo.png") 
    … …  
    9294PLUGIN_STATE_EXTENSIONS = ['.fitv', '.inv', '.prv'] 
    9395PLUGINS_WLIST = ['Fitting files (*.fitv)|*.fitv', 
    94                   'Invariant files (*.inv)|*.inv', 
    95                   'P(r) files (*.prv)|*.prv'] 
     96                 'Invariant files (*.inv)|*.inv', 
     97                 'P(r) files (*.prv)|*.prv'] 
    9698PLOPANEL_WIDTH = 415 
    9799PLOPANEL_HEIGTH = 370 
    98100DATAPANEL_WIDTH = 235 
    99101DATAPANEL_HEIGHT = 700 
    100 SPLASH_SCREEN_PATH = os.path.join(icon_path,"SVwelcome_mini.png") 
    101 TUTORIAL_PATH = os.path.join(media_path,"Tutorial.pdf") 
     102SPLASH_SCREEN_PATH = os.path.join(icon_path, "SVwelcome_mini.png") 
     103TUTORIAL_PATH = os.path.join(media_path, "Tutorial.pdf") 
    102104DEFAULT_STYLE = GUIFRAME.MULTIPLE_APPLICATIONS|GUIFRAME.MANAGER_ON\ 
    103105                    |GUIFRAME.CALCULATOR_ON|GUIFRAME.TOOLBAR_ON 
    … …  
    105107SPLASH_SCREEN_HEIGHT = 366 
    106108SS_MAX_DISPLAY_TIME = 2000 
    107 WELCOME_PANEL_ON  = True 
     109WELCOME_PANEL_ON = True 
    108110WELCOME_PANEL_SHOW = False 
    109111CLEANUP_PLOT = False 
    … …  
    131133def printEVT(message): 
    132134    if __EVT_DEBUG__: 
     135        """ 
     136        :TODO - Need method doc string 
     137        """ 
    133138        print "%g:  %s" % (time.clock(), message) 
    134          
     139 
    135140        if __EVT_DEBUG_2_FILE__: 
    136141            out = open(__EVT_DEBUG_FILENAME__, 'a') 
    137142            out.write("%10g:  %s\n" % (time.clock(), message)) 
    138143            out.close() 
    139              

  • sasview/setup_exe.py

    rc971c98 r4cf8db9  
    231231images_dir = os.path.join(path, "images") 
    232232test_dir = os.path.join(path, "test") 
     233test_1d_dir = os.path.join(path, "test\\1d_data") 
     234test_2d_dir = os.path.join(path, "test\\2d_data") 
     235test_save_dir = os.path.join(path, "test\\save_states") 
     236test_upcoming_dir = os.path.join(path, "test\\upcoming_formats") 
    233237 
    234238matplotlibdatadir = matplotlib.get_data_path() 
    … …  
    290294 
    291295# Copying the sample data user data 
    292 for f in findall(test_dir): 
    293     if not ".svn" in f: 
    294         data_files.append(("test", [f])) 
     296for f in findall(test_1d_dir): 
     297    if not ".svn" in f: 
     298        data_files.append(("test\\1d_data", [f])) 
     299 
     300# Copying the sample data user data 
     301for f in findall(test_2d_dir): 
     302    if not ".svn" in f: 
     303        data_files.append(("test\\2d_data", [f])) 
     304 
     305# Copying the sample data user data 
     306for f in findall(test_save_dir): 
     307    if not ".svn" in f: 
     308        data_files.append(("test\\save_states", [f])) 
     309 
     310# Copying the sample data user data 
     311for f in findall(test_upcoming_dir): 
     312    if not ".svn" in f: 
     313        data_files.append(("test\\upcoming_formats", [f])) 
     314 
    295315 
    296316# See if the documentation has been built, and if so include it. 
    … …  
    310330    # install the MSVC 9 runtime dll's into the application folder 
    311331    data_files.append(("Microsoft.VC90.CRT", py26MSdll_x86)) 
    312  
    313332 
    314333# NOTE: 
    … …  
    370389#initialize category stuff 
    371390#from sas.guiframe.CategoryInstaller import CategoryInstaller 
    372 #CategoryInstaller.check_install() 
     391#CategoryInstaller.check_install(s) 
    373392 
    374393setup( 

  • sasview/test/media/testdata_help.rst

    re5160aa ra32aa3e  
    2323the results for every active analysis. 
    2424 
     25Some of the available test data is described below. 
     26 
    2527.. ZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZ 
    2628 
    27 .. note::  This help document was last changed by Steve King, 17Jun2015 
     291D Test Data 
     30^^^^^^^^^^^^ 
     31 
     32AOT_Microemulsion 
     33  - Aerosol-OT surfactant stabilised oil-in-water microemulsion data at three  
     34    contrasts: core (oil core), drop (oil core + surfactant layer), and shell  
     35    (surfactant layer). 
     36  - Suitable for testing simultaneous fitting. 
     37   
     38hSDS_D2O 
     39  - h25-sodium dodecyl sulphate solutions at two concentrations: 0.5wt% (just  
     40    above the cmc), 2wt% (well above the cmc), and 2wt% but with 0.2mM NaCl  
     41    electrolyte. 
     42  - Suitable for testing charged S(Q) models. 
     43 
     44P123_D2O 
     45  - Lyotropic liquid crystalline solutions of non-ionic ABA block copolymer  
     46    Pluronic P123 in water at three concentrations: 10wt%, 30wt%, and 40wt%. 
     47  - Suitable for testing paracrystal models. 
     48 
     49ISIS_Polymer_Blend_TK49 
     50  - Monodisperse (Mw/Mn~1.02) 49wt% d8-polystyrene : 51wt% h8-polystyrene  
     51    polymer blend. 
     52  - Suitable for testing Poly_GaussCoil and RPA10 models. 
     53 
     54.. ZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZ 
     55 
     562D Test Data 
     57^^^^^^^^^^^^ 
     58 
     59P123_D2O 
     60  - Lyotropic liquid crystalline solutions of non-ionic ABA block copolymer  
     61    Pluronic P123 in water at three concentrations: 10wt%, 30wt%, and 40wt%. 
     62  - Suitable for testing paracrystal models. 
     63 
     64.. ZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZ 
     65 
     66Saved State Test Data 
     67^^^^^^^^^^^^^^^^^^^^^ 
     68 
     69_phi_weights.txt 
     70 
     71_radius_dist.txt 
     72 
     73_THETA_weights.txt 
     74 
     75fitstate.fitv 
     76 
     77newone.svs 
     78 
     79prstate.prv 
     80 
     81sld_file.sld 
     82 
     83test.inv 
     84 
     85test002.inv 
     86 
     87.. ZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZ 
     88 
     89Other Test Data 
     90^^^^^^^^^^^^^^^ 
     91 
     921000A_sphere_sm.xml 
     93 
     94diamond.pdb 
     95 
     96dna.pdb 
     97 
     98.. ZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZ 
     99 
     100.. note::  This help document was last changed by Steve King, 26Jun2015 

  • setup.py

    rc2ee2b1 r038ccfe6  
    375375    version = VERSION, 
    376376    description = "SasView application", 
    377     author = "University of Tennessee", 
    378     author_email = "sansdanse@gmail.com", 
     377    author = "SasView Team", 
     378    author_email = "developers@sasview.org", 
    379379    url = "http://sasview.org", 
    380380    license = "PSF", 
    381381    keywords = "small-angle x-ray and neutron scattering analysis", 
    382     download_url = "https://sourceforge.net/projects/sansviewproject/files/", 
     382    download_url = "https://github.com/SasView/sasview.git", 
    383383    package_dir = package_dir, 
    384384    packages = packages, 

  • src/sas/guiframe/acknowledgebox.py

    r0ea31ca rc8d22ec  
    2121      (os.path.isfile("%s/%s.pyc" % (path, 'local_config'))): 
    2222        fObj, path, descr = imp.find_module('local_config', [path]) 
    23         config = imp.load_module('local_config', fObj, path, descr)   
     23        config = imp.load_module('local_config', fObj, path, descr) 
    2424    else: 
    2525        # Try simply importing local_config 
    2626        import local_config as config 
    2727except: 
    28     # Didn't find local config, load the default  
     28    # Didn't find local config, load the default 
    2929    import config 
    30      
     30 
    3131 
    3232class DialogAcknowledge(wx.Dialog): 
    3333    """ 
    3434    "Acknowledgement" Dialog Box 
    35      
     35 
    3636    Shows the current method for acknowledging SasView in 
    3737    scholarly publications. 
    38      
     38 
    3939    """ 
    40      
     40 
    4141    def __init__(self, *args, **kwds): 
    42          
     42 
    4343        kwds["style"] = wx.DEFAULT_DIALOG_STYLE 
    4444        wx.Dialog.__init__(self, *args, **kwds) 
    45          
     45 
    4646        self.ack = wx.TextCtrl(self, style=wx.TE_LEFT|wx.TE_MULTILINE|wx.TE_BESTWRAP|wx.TE_READONLY|wx.TE_NO_VSCROLL) 
    4747        self.ack.SetValue(config._acknowledgement_publications) 
    48         self.ack.SetMinSize((-1,55)) 
     48        self.ack.SetMinSize((-1, 55)) 
    4949        self.preamble = wx.StaticText(self, -1, config._acknowledgement_preamble) 
    5050        items = [config._acknowledgement_preamble_bullet1, 
    5151                 config._acknowledgement_preamble_bullet2, 
    52                  config._acknowledgement_preamble_bullet3] 
     52                 config._acknowledgement_preamble_bullet3, 
     53                 config._acknowledgement_preamble_bullet4] 
    5354        self.list1 = wx.StaticText(self, -1, "\t(1) " + items[0]) 
    5455        self.list2 = wx.StaticText(self, -1, "\t(2) " + items[1]) 
    5556        self.list3 = wx.StaticText(self, -1, "\t(3) " + items[2]) 
     57        self.list4 = wx.StaticText(self, -1, "\t(4) " + items[3]) 
    5658        self.static_line = wx.StaticLine(self, 0) 
    5759        self.__set_properties() 
    5860        self.__do_layout() 
    59          
     61 
    6062    def __set_properties(self): 
    6163        """ 
     64        :TODO - add method documentation 
    6265        """ 
    6366        # begin wxGlade: DialogAbout.__set_properties 
    … …  
    7073    def __do_layout(self): 
    7174        """ 
     75        :TODO - add method documentation 
    7276        """ 
    7377        # begin wxGlade: DialogAbout.__do_layout 
    … …  
    7882        sizer_titles.Add(self.list2, 0, wx.ALL|wx.EXPAND, 5) 
    7983        sizer_titles.Add(self.list3, 0, wx.ALL|wx.EXPAND, 5) 
     84        sizer_titles.Add(self.list4, 0, wx.ALL|wx.EXPAND, 5) 
    8085        sizer_titles.Add(self.static_line, 0, wx.ALL|wx.EXPAND, 0) 
    8186        sizer_titles.Add(self.ack, 0, wx.ALL|wx.EXPAND, 5) 
    … …  
    8691        self.Centre() 
    8792        # end wxGlade 
    88          
     93 
    8994 
    9095##### testing code ############################################################ 
    9196class MyApp(wx.App): 
    9297    """ 
     98    Class for running module as stand alone for testing 
    9399    """ 
    94100    def OnInit(self): 
    95101        """ 
     102        Defines an init when running as standalone 
    96103        """ 
    97104        wx.InitAllImageHandlers() 

  • src/sas/guiframe/config.py

    r0ea31ca r5846bb5  
    99__version__ = '0.0.0' 
    1010__build__ = '1' 
    11 __download_page__ = 'http://sourceforge.net/projects/sasview/files/' 
    12 __update_URL__ = ['svn.code.sf.net',  
    13                   '/p/sasview/code/trunk/sasview.latestversion'] 
     11__download_page__ = 'https://github.com/SasView/sasview/releases' 
     12__update_URL__ = ['raw.githubusercontent.com', 
     13                  '/SasView/sasview/master/sasview.latestversion'] 
    1414 
    1515 
    … …  
    2121 
    2222# Debug message should be written to a file? 
    23 __EVT_DEBUG_2_FILE__   = False 
     23__EVT_DEBUG_2_FILE__ = False 
    2424__EVT_DEBUG_FILENAME__ = "debug.log" 
    2525 
    … …  
    3636'''Reference the following website: http://www.sasview.org''' 
    3737_acknowledgement_preamble_bullet3 =\ 
    38 '''Send us your reference for our records: sansdanse@gmail.com''' 
     38'''Reference the model you used if appropriate (see documentation for refs)''' 
     39_acknowledgement_preamble_bullet4 =\ 
     40'''Send us your reference for our records: developers@sasview.org''' 
    3941_acknowledgement_publications = \ 
    40 '''This work benefited from the use of the SasView application, originally  
     42'''This work benefited from the use of the SasView application, originally 
    4143developed under NSF award DMR-0520547. 
    4244''' 
    4345_acknowledgement =  \ 
    4446'''This work originally developed as part of the DANSE project funded by the NSF 
    45 under grant DMR-0520547, and currently maintained by NIST, UMD, ORNL, ISIS, ESS  
     47under grant DMR-0520547, and currently maintained by NIST, UMD, ORNL, ISIS, ESS 
    4648and ILL. 
    4749 
    … …  
    8587PLUGINS_WLIST = [] 
    8688PLUGIN_STATE_EXTENSIONS = [] 
    87 SPLASH_SCREEN_PATH = "images/danse_logo.png"      
     89SPLASH_SCREEN_PATH = "images/danse_logo.png" 
    8890DEFAULT_STYLE = GUIFRAME.SINGLE_APPLICATION 
    8991SPLASH_SCREEN_WIDTH = 500 
    9092SPLASH_SCREEN_HEIGHT = 300 
    91 WELCOME_PANEL_ON  = False 
     93WELCOME_PANEL_ON = False 
    9294TUTORIAL_PATH = None 
    9395SS_MAX_DISPLAY_TIME = 1500 
    … …  
    125127 
    126128def printEVT(message): 
     129    """ 
     130    :TODO - need method documentation 
     131    """ 
    127132    if __EVT_DEBUG__: 
    128133        print "%g:  %s" % (time.clock(), message) 
    129          
     134     
    130135        if __EVT_DEBUG_2_FILE__: 
    131136            out = open(__EVT_DEBUG_FILENAME__, 'a') 

  • src/sas/guiframe/data_processor.py

    rc85b0ae re54dbc3e  
    141141        self.Bind(wx.grid.EVT_GRID_CELL_LEFT_CLICK, self.OnLeftClick) 
    142142        self.Bind(wx.grid.EVT_GRID_CELL_RIGHT_CLICK, self.OnRightClick) 
    143         self.Bind(wx.grid.EVT_GRID_CELL_LEFT_DCLICK, self.OnLeftDoubleClick) 
     143        #self.Bind(wx.grid.EVT_GRID_CELL_LEFT_DCLICK, self.OnLeftDoubleClick) 
    144144        self.Bind(wx.grid.EVT_GRID_RANGE_SELECT, self.OnRangeSelect) 
    145145        self.Bind(wx.grid.EVT_GRID_ROW_SIZE, self.OnRowSize) 
    … …  
    187187        if self.GetNumberCols() > 0: 
    188188            self.default_col_width = self.GetColSize(0) 
    189         self.Bind(wx.grid.EVT_GRID_LABEL_LEFT_CLICK, self.on_left_click) 
    190         self.Bind(wx.grid.EVT_GRID_LABEL_RIGHT_CLICK, self.on_right_click) 
    191         self.Bind(wx.grid.EVT_GRID_CELL_LEFT_CLICK, self.on_selected_cell) 
    192         self.Bind(wx.grid.EVT_GRID_CMD_CELL_CHANGE, self.on_edit_cell) 
    193         self.Bind(wx.grid.EVT_GRID_CELL_RIGHT_CLICK, self.onContextMenu) 
    194  
     189        #self.Bind(wx.grid.EVT_GRID_LABEL_LEFT_CLICK, self.on_left_click) 
     190        #self.Bind(wx.grid.EVT_GRID_LABEL_RIGHT_CLICK, self.on_right_click) 
     191        #self.Bind(wx.grid.EVT_GRID_CELL_LEFT_CLICK, self.on_selected_cell) 
     192        #self.Bind(wx.grid.EVT_GRID_CMD_CELL_CHANGE, self.on_edit_cell) 
     193        #self.Bind(wx.grid.EVT_GRID_CELL_RIGHT_CLICK, self.onContextMenu) 
     194 
     195    def OnLeftClick(self, event): 
     196        sheet.CSheet.OnLeftClick(self, event) 
     197        self.on_selected_cell(event) 
     198         
    195199    def on_edit_cell(self, event): 
    196200        """ 
    … …  
    211215        row, col = event.GetRow(), event.GetCol() 
    212216        cell = (row, col) 
    213         event.Skip() 
    214217        if not flag and not flag_shift: 
    215218            self.selected_cols = [] 
    … …  
    273276            if cell_row > 0 and cell_row < self.max_row_touse: 
    274277                self.axis_value.append(self.GetCellValue(cell_row, cell_col)) 
     278        event.Skip() 
    275279 
    276280    def on_left_click(self, event): 
    … …  
    278282        Catch the left click on label mouse event 
    279283        """ 
    280         event.Skip() 
    281284        flag = event.CmdDown() or event.ControlDown() 
    282285 
    … …  
    317320            if not self.axis_label: 
    318321                self.axis_label = " " 
     322        event.Skip() 
    319323 
    320324    def on_right_click(self, event): 
    … …  
    13851389        wx.EVT_MENU(self, self.save_menu.GetId(), self.on_save_page) 
    13861390 
     1391        # To add the edit menu, call add_edit_menu() here. 
     1392        self.edit = None 
     1393        self.Bind(wx.EVT_MENU_OPEN, self.on_menu_open) 
     1394         
     1395        self.Bind(wx.EVT_CLOSE, self.on_close) 
     1396 
     1397    def add_edit_menu(self, menubar): 
    13871398        self.edit = wx.Menu() 
    13881399 
    … …  
    14141425        self.remove_menu = self.edit.Append(-1, 'Remove Column', hint) 
    14151426        wx.EVT_MENU(self, self.remove_menu.GetId(), self.on_remove_column) 
    1416  
    1417         self.Bind(wx.EVT_MENU_OPEN, self.on_menu_open) 
    14181427        menubar.Append(self.edit, "&Edit") 
    1419         self.Bind(wx.EVT_CLOSE, self.on_close) 
    14201428 
    14211429    def on_copy(self, event): 

  • src/sas/guiframe/documentation_window.py

    re82a901 r7a508b6  
     1""" 
     2documentation module provides a simple means to add help throughout the 
     3application. It checks for the existence of html2 package needed to support 
     4fully html panel which supports css.  The class defined here takes a title for 
     5the particular help panel, a pointer to the html documentation file of interest 
     6within the documentation tree along with a 'command' string such as a page 
     7anchor or a query string etc.  The path to the doc directory is retrieved 
     8automatically by the class itself.  Thus with these three pieces of information 
     9the class generates a panel with the appropriate title bar and help file 
     10formatted according the style sheets called in the html file.  Finally, if an 
     11old version of Python is running and the html2 package is not available the 
     12class brings up the default browser and passes the file:/// string to it.  In 
     13this case however the instruction portion is usually not passed for security 
     14reasons. 
     15""" 
    116import os 
    217import logging 
    … …  
    419import webbrowser 
    520import urllib 
     21import sys 
    622 
    7 wx_supports_html2 = True 
     23SPHINX_DOC_ENV = "SASVIEW_DOC_PATH" 
     24WX_SUPPORTS_HTML2 = True 
    825try: 
    926    import wx.html2 as html 
    1027except: 
    11     wx_supports_html2 = False 
     28    WX_SUPPORTS_HTML2 = False 
     29 
    1230 
    1331from gui_manager import get_app_dir 
    … …  
    1533 
    1634class DocumentationWindow(wx.Frame): 
    17     def __init__(self, parent, id, path, url_instruction, title, size=(850, 540)): 
    18         wx.Frame.__init__(self, parent, id, title, size=size) 
     35    """ 
     36    DocumentationWindow inherits from wx.Frame and provides a centralized 
     37    coherent framework for all help documentation.  Help files must be html 
     38    files stored in an properly organized tree below the top 'doc' folder.  In 
     39    order to display the appropriate help file from anywhere in the gui, the 
     40    code simply needs to know the location below the top level where the 
     41    help file resides along with the name of the help file. 
     42    called 
     43    (self, parent, dummy_id, path, url_instruction, title, size=(850, 540)) 
    1944 
    20         SPHINX_DOC_ENV = "SASVIEW_DOC_PATH" 
     45    :param path: path to html file beginning AFTER /doc/ and ending in the 
     46    file.html 
     47    :param url_instructions: anchor string or other query e.g. '#MyAnchor 
     48    :param title - text to place in the title bar of the help panel 
     49    """ 
     50    def __init__(self, parent, dummy_id, path, url_instruction, title, size=(850, 540)): 
     51        wx.Frame.__init__(self, parent, dummy_id, title, size=size) 
     52 
    2153        if SPHINX_DOC_ENV in os.environ: 
    2254            docs_path = os.path.join(os.environ[SPHINX_DOC_ENV]) 
    … …  
    2759            docs_path = os.path.join(get_app_dir(), "doc") 
    2860 
     61        #note that filepath for mac OS, at least in bundle starts with a 
     62        #forward slash as /Application, while the PC string begins C:\ 
     63        #It seems that mac OS is happy with four slashes as in file:////App... 
     64        #Two slashes is not sufficient to indicate path from root.  Thus for now 
     65        #we use "file:///" +... If the mac behavior changes may need to make the 
     66        #file:/// be another constant at the beginning that yields // for Mac 
     67        #and /// for PC. 
     68        #Note added June 21, 2015     PDB 
    2969        file_path = os.path.join(docs_path, path) 
    30         url = "file:///" + urllib.quote(file_path,'\:')+ url_instruction 
     70        url = "file:///" + urllib.quote(file_path, r'/\:')+ url_instruction 
    3171 
    3272        if not os.path.exists(file_path): 
    3373            logging.error("Could not find Sphinx documentation at %s \ 
    3474            -- has it been built?", file_path) 
    35         elif wx_supports_html2: 
     75        elif WX_SUPPORTS_HTML2: 
    3676            # Complete HTML/CSS support! 
    3777            self.view = html.WebView.New(self) 
    3878            self.view.LoadURL(url) 
    3979            self.Show() 
    40         else:  
     80        else: 
    4181            logging.error("No html2 support, popping up a web browser") 
    4282            #For cases that do not build against current version dependency 
    43             # Wx 3.0 we provide a webbrowser call - this is particularly for  
     83            # Wx 3.0 we provide a webbrowser call - this is particularly for 
    4484            #Red hat used at SNS for which Wx 3.0 is not available.  This 
    45             #does not deal with issue of math in docs of course.  
     85            #does not deal with issue of math in docs of course. 
    4686            webbrowser.open_new_tab(url) 
    4787 
    4888def main(): 
     89    """ 
     90    main loop function if running alone for testing. 
     91    """ 
    4992    app = wx.App() 
    5093    DocumentationWindow(None, -1, "index.html", "", "Documentation",) 

  • src/sas/guiframe/gui_manager.py

    r7801df8 raceae8c  
    2424import logging 
    2525import httplib 
     26import traceback 
    2627 
    2728 
    … …  
    12961297        #replace or add a new menu for the current plugin 
    12971298        pos = self._menubar.FindMenu(str(self._applications_menu_name)) 
     1299        if pos == -1 and self._applications_menu_pos > 0: 
     1300            pos = self._applications_menu_pos 
    12981301        if pos != -1: 
    12991302            menu_list = self._current_perspective.populate_menu(self) 
    … …  
    13021305                    self._menubar.Replace(pos, menu, name) 
    13031306                    self._applications_menu_name = name 
     1307                self._applications_menu_pos = pos 
    13041308            else: 
    13051309                self._menubar.Remove(pos) 
    13061310                self._applications_menu_name = None 
    1307             #get the position of the menu when it first added 
    1308             self._applications_menu_pos = pos 
     1311                self._applications_menu_pos = -1 
    13091312        else: 
    13101313            menu_list = self._current_perspective.populate_menu(self) 
    … …  
    13161319                        if help_pos == -1: 
    13171320                            self._menubar.Append(menu, name) 
     1321                            self._applications_menu_pos = -1 
    13181322                        else: 
    13191323                            self._menubar.Insert(help_pos-1, menu, name) 
     1324                            self._applications_menu_pos = help_pos - 1 
    13201325                    else: 
    13211326                        self._menubar.Insert(self._applications_menu_pos, menu, name) 
    … …  
    20362041        """ 
    20372042        try: 
    2038             conn = httplib.HTTPConnection(config.__update_URL__[0], 
     2043            conn = httplib.HTTPSConnection(config.__update_URL__[0], 
    20392044                                          timeout=3.0) 
    20402045            conn.request("GET", config.__update_URL__[1]) 
    … …  
    20422047            content = res.read() 
    20432048            conn.close() 
     2049            logging.info("connected to GitHub. sasview.latestversion = %s" 
     2050                         % (content)) 
    20442051        except: 
     2052            msg = traceback.format_exc() 
     2053            logging.info(msg) 
     2054            logging.info("failed to connect to GitHub") 
    20452055            content = "0.0.0" 
    20462056 
    20472057        version = content.strip() 
     2058        logging.info("Latest SasView version number: %s" % (version)) 
    20482059        if len(re.findall('\d+\.\d+\.\d+$', version)) < 0: 
    20492060            content = "0.0.0" 
    … …  
    21662177        # different place than they would otherwise. 
    21672178        from documentation_window import DocumentationWindow 
    2168         DocumentationWindow(self, -1, "index.html", "", "SasView Documentation") 
     2179        _TreeLocation = "user/user.html" 
     2180        DocumentationWindow(self, -1, _TreeLocation, "", "SasView Documentation") 
    21692181 
    21702182    def set_manager(self, manager): 

  • src/sas/models/media/model_functions.rst

    r5e880fe1 ree9fa94  
    2020 
    2121 
    22 .. note::  The contents of this document are awaiting proof reading. Feb2015 
     22.. note::  The contents of this document are presented in good faith and are  
     23           believed to be mostly correct and accurate, however they have not  
     24           yet been rigorously checked for errors. June2015 
    2325 
    2426 
    … …  
    8385======================= 
    8486 
    85 Contents 
    86 -------- 
    87 1. Background_ 
    88  
    89 2. Model_ Functions 
    90  
    91  2.1 Shape-based_ Functions 
    92   
    93  2.2 Shape-independent_ Functions 
    94   
    95  2.3 Structure-factor_ Functions 
    96   
    97  2.4 Customised_ Functions 
    98  
    99 3. References_ 
    100  
    101  
    102  
    103 .. ZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZ 
    104  
    105  
    106  
    10787.. _Background: 
    10888 
    … …  
    290270- sph_bessel_jn_ 
    291271 
     272Also see the documentation on :ref:`Adding_your_own_models` under Fitting Data.  
     273 
    292274 
    293275 

  • src/sas/perspectives/fitting/basepage.py

    r7116dffd r2c8dc19  
    28502850        if self.model != None: 
    28512851            name = self.formfactorbox.GetValue() 
    2852             _PageAnchor = '#' + name 
     2852            _PageAnchor = '#' + name.lower() 
    28532853            _doc_viewer = DocumentationWindow(self, -1, _TreeLocation, 
    2854                                               _PageAnchor, name + "Help") 
     2854                                              _PageAnchor, name + " Help") 
    28552855        else: 
    28562856            _doc_viewer = DocumentationWindow(self, -1, _TreeLocation, "", 

  • src/sas/perspectives/fitting/fitpage.py

    rf3dc56c r2b58fa5  
    31153115                    mag_on_button.Show(True) 
    31163116                mag_help_button.Show(False) 
     3117                mag_angle_help_button.Show(False) 
    31173118                if mag_on_button.IsShown(): 
    31183119                    if self.magnetic_on: 

  • src/sas/perspectives/fitting/media/fitting.rst

    rb404a3de rd896039  
    1717   Polarisation/Magnetic Scattering <mag_help> 
    1818 
    19    Information on the SasView Optimisers - Local <optimizer.rst> 
    20  
    21    Information on the SasView Optimisers - Web <https://github.com/bumps/bumps/blob/master/doc/guide/optimizer.rst> 
     19   Information on the SasView Optimisers <optimizer.rst> 
    2220    

  • src/sas/perspectives/fitting/pagestate.py

    racf8e4a5 ra15e754  
    545545                    paramval_string += CENTRE % param + "\n" 
    546546 
    547         text_string = "\n\n\n" + title + "\n\n" + file + \ 
    548                       "\n" + q_name + \ 
    549                       "\n" + chi2 + \ 
    550                       "\n\n" + paramval 
     547        text_string = "\n\n\n%s\n\n%s\n%s\n%s\n\n%s" % (title, file, q_name, chi2, paramval) 
    551548 
    552549        title_name = self._check_html_format(title_name) 

  • src/sas/perspectives/fitting/report_dialog.py

    r2f4b430 ra15e754  
    4444                self.report_html = self.report_list[0] % \ 
    4545                                    "memory:img_fit0.png" 
    46             elif len(self.report_list) == 2: 
     46            elif len(self.report_list[2]) == 2: 
    4747                self.report_html = self.report_list[0] % \ 
    4848                                    ("memory:img_fit0.png", 
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