Changes in / [22d92da:2d707e3] in sasview


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  • 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/user/user.rst

    r28812b8 rb69edaa  
    3737   Python Shell Tool <perspectives/calculator/python_shell_help> 
    3838    
    39    Test Data <test/testdata.rst> 
     39   Test Data <../test/testdata_help.rst> 

  • sasview/README.txt

    r42dbcfb rd47b9ce  
    22============= 
    33 
    4 SasView 3.1.0 
    5     -The documentation/help has had a complete overhaul including 
    6       - A completely new interface. 
    7       - The text has had a clean-up and been brought up to date with the latest 
    8         features. 
    9       - A Help (or sometimes ?) button has been added to every panel, and some 
    10         sub panels if appropriate, linking to the appropriate section in the 
    11         documentation. 
    12       - The model help has been split so that the details button now brings up 
    13         a very short pop-up giving the equation being used while HELP goes to  
    14         the section in the full documentation describing the model. 
    15       - Extensive help has also been added for the new optimizer engine (see  
    16         below) including rules of thumb on how and when to choose a given 
    17         optimizer and what the parameter do. 
    18     - The optimizer package has been completely replaced.  The new optimizer 
    19       still defaults to the standard Levenberg-Marquardt algorithm.  However 4 
    20       other optimizers are now available. Each starts with a set of default 
    21       parameters which can be tuned.  The DREAM optimizer takes the longest but 
    22       is the most powerful and yields rich information including full parameter 
    23       correlation and uncertainty plots.  A results panel has been added to 
    24       accommodate this.  The five optimizers are: 
    25       - A Levenberg-Marquardt optimizer 
    26       - A Quasi-Newton BFGS optimizer 
    27       - A Nelder-Mead Simplex optimizer 
    28       - A Differential Evolution optimizer 
    29       - A Monte Carlo optimizer DREAM optimizer  
    30     - Several new models added (what are they) 
    31     - Infrastructure to allow SESANS data to bit fit with models in a future 
    32       release was added and can currently be used from command line with some 
    33       caveats. 
    34     - A number of bugs were fixed including a thread crashing issue and a 
    35       incorrect resolution slit smearing. 
    36     - Implemented much more robust error logging to better enable much easier 
    37       debugging in general and particularly debugging an issue reported by 
    38       SasView user. 
    39     - A number of infrastructure tasks under the hood to enhance maintainability 
    40       - Upgrade from Wx 2.9 to 3.0.2 which allows several new features but 
    41         required significant other rework as well. 
    42       - Fully implemented Sphinx to the build process to produce both better 
    43         user documentation and developer documentation. 
    44       - Restructuring of code base to more unified nomenclature and structure 
    45         so that source installation tree more closely matches the installer 
    46         version tree. 
    47       - Code cleanup (an ongoing task)  
    48       - Migration of repository to github simplifying contributions from 
    49         non-project personnel through pull requests 
    50  
    51  
    52     - New in Version 3.0.0 
    53       - The GUI look and feel has been refactored to be more familiar for 
    54         Windows users by using MDI frames. Graph windows are also now free- 
    55         floating. 
    56       - Five new models have been added: PringlesModel, CoreShellEllipsoidXTModel, 
    57         RectangularPrismModel, RectangularHollowPrismModel and  
    58         RectangularHollowPrismInfThinWallsModel. 
    59       - The data loader now supports ILL DAT data files and reads the full meta  
    60         information from canSAS file formats. 
    61       - Redefined convention for specifying angular parameters for anisotropic 
    62         models. 
    63       - A number of minor features have been added such as permitting a log  
    64         distribution of points when using a model to simulate data, and the  
    65         addition of a Kratky plot option to the linear plots. 
    66       - A number of bugs have also been fixed. 
    67       - Save Project and Save Analysis now work more reliably. 
    68       - BETA: Magnetic contrast supporting full polarization analysis has been  
    69             implemented for some spherical and cylindrical models. 
    70       - BETA: Two new tools have been added: 
    71             * A generic scattering calculator which takes an atomic, magnetic or  
    72               SLD distribution in space and generates the appropriate 2D  
    73               scattering pattern. In some cases the orientationally averaged  
    74               (powder) 1D scattering can also be computed. Supported formats  
    75               include: SLD or text, PDB, and OMF magnetic moment distribution  
    76               file. 
    77             * An image viewer/converter for data in image format; this reads in  
    78               an image file and will attempt to convert the image pixels to  
    79               data. Supported formats include: TIFF, TIF, PNG, BMP, JPG. 
    80  
    81     - New in Version 2.2.1 
    82       - Minor patch to support CanSAS XML v1.1 file format 
    83       - Added DataInfo for data in the DataExplorer and plots 
    84       - Added Maximize/Restore button in the title bar of the graphs 
    85       - Added a hide button in the toolbar of the graph panel 
    86       - The 'x' button now deletes a graph 
    87       - Edit SUM Model from the menubar can now generate and save more than one sum model 
    88       - Reports can now be saved in pdf format on WIN and MAC 
    89       - Made significant improvements to the batch/grid panel and fixed several bugs 
    90       - Fixed a number of other minor bugs 
    91  
    92     - New in Version 2.2.0 
    93       - Application name changed to SasView 
    94       - New fully customizable Category Manager added for better management of 
    95         increasing number of models 
    96       - Improved the Grid Window functionality in the batch fitting mode 
    97       - Added a simpler Graph/Plot modification interface 
    98       - Added a new 'Data Operation' tool for addition, subtraction, multiplication, 
    99         division, of two data sets. 
    100       - The 'Sum Model' editor was extended and renamed 'Summation and Multiplication' 
    101         editor 
    102       - Added more plot symbols options for 1d plots 
    103       - Added improved trapping of compiling errors to the 'New model editor' 
    104       - 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 
    105       - Added more models 
    106  
    107     - 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   
    108130     
    109     - Perspectives Available 
    110       - Invariant calculator: Calculates the invariant, volume fraction, and 
    111         specific surface area. 
    112       - P(r) inversion calculator: Indirect Fourier transformation method. 
    113       - Fitting: the tool used for modeling and fitting 1D and 2D data to  
    114         analytical model functions 
    115       - Tools: provides a number of useful supplementary tools such as SLD 
    116         calculation   
    117      
    118     - Fitting  
    119       - Includes a large number of model functions, both form factors and structure factors. 
    120       - Support P(Q)*S(Q) for form factors that flag they can be so multiplied. 
    121       - Supports Gaussian, lognormal, Shulz, rectangular and custom distribution 
    122         functions for models that need to include polydispersity or for orientational 
    123         distributions if appropriate. 
    124       - Anisotropic shapes and magnetic moment modeling in 2D allow for a non-uniform 
    125         distribution of orientations of a given axis leading to modeling and fitting 
    126         capabilities of non azimuthaly symmetric data.   
    127       - User can choose to weight fits or not. If using weights, the user can choose 
    128         the error bar on each point if provided in the file, the square root 
    129         of the intensity or the intensity itself.  
    130       - Instrumental resolution smearing of model or fits is provided with several 
    131         options: read the resolution/point fromt he file. Input a pinhole resolution 
    132         or a slit resolution. 
    133       - Users can define the Qrange (Qmin and Qmax) for both 1D and 2D data for 
    134         fitting and modeling, but not graphically.  The range can be reset to the 
    135         defaults (limits of q in data set for a fit) with the reset button. 
    136       - A mask can be applied to 2D calculation and fitting. 
    137       - Normalized residual plots are provided with every fit. 
    138       - Model function help available through detail button or from the fitting panel. 
    139       - Simultaneous/(advanced)constrained fitting allows for fitting a single 
    140         data set or several different sets simultaneously with the application 
    141         of advanced constraints relating fit parameters to functions of other 
    142         parameters (including from a different set). For example thickness of  
    143         shell = sin(30) times the length.   
    144       - Models that are the sum of two other models can be easily generated through the 
    145         SUM Model menubar item. 
    146       - New Python models can be added on the fly by creating an appropriate Python 
    147         file in the model plugin directory. Two tools are provided to help: 
    148         An easy to use custom model editor allows the quick generation of new Python 
    149         models by supplying only the parameters and their default value (box 1) 
    150         and the mathematical function of the model (box 2) and generating the 
    151         necessary *.py file.  A separate advanced model editor provides a full Python 
    152         file editor.  Either way once saved the model becomes immediately available  
    153         to the application.  
    154       - A batch fittng capability allows for the analysis of a series of data sets to 
    155         a sinble model and provides the results in a tabular form suitable for saving 
    156         or plotting the evolution of the fit parameters with error bars (from within 
    157         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). 
    158171  
    159     - Tools 
    160       - A scattering length density calculator,including some X-ray information 
    161         is provided. 
    162       - A density to vol. fraction converter is provided 
    163       - In application access to a Python shell/editor (PyCrust) is provided 
    164       - An instrument resolution calculator, including possible gravitational and 
    165         TOF effects is provided 
    166       - A slit size calculator optimized for Anton Paar Saxess is provided. 
    167       - A kiessig fringe thickness calculator is provided 
    168     - Plots and plot management 
    169       - A 3D graphing option (for 2d data/results) is provided with the view 
    170         controlled by the mouse 
    171       - 2D plots are shown with an intensity color bar. 2D Color map can be user 
    172         adjusted. 
    173       - Supports output of plot to a variety of graphic formats. Supported formats 
    174         include: png, eps, emf, jpg/jpeg, pdf, ps, tif/tiff, rawRGBbitmap(raw, rgba), 
    175         and scalable vector graphic (svg/svgz) 
    176       - Supports ouput of data in plot (1 or 2D) to limited data formats 
    177       - Multiple data sets can be loaded into a single graph for viewing (but a fit 
    178         plot can currently only have a single plot). 
    179       - Extensive context sensitive plot/fitting/manipulation options are available 
    180         through a right mouse click pop-up menu on plots.   
    181     - Data management 
    182       - Supports 2 + column 1D ASCII data, NIST 1D and 2D data, and canSAS data 
    183         via plug-in mechanism which can easily allow other readers as appropriate.  
    184       - 2D data is expected in Q space but for historical reasons accepts the 
    185         NIST 2D raw pixel format and will do conversion internally. 
    186       - The full data and metadata available to SasView is viewable in ASCII via 
    187         right clicking on a data set and choosing Data Info in the DataExplorer 
    188         or on the plots 
    189       - Supports loading a single file, multiple files, or a whole folder    
    190       - An optional Data Explorer is provided (default) which simplifies managing, 
    191         plotting, deleting, or setup for computation. Most functions however do 
    192         not require access to the explorer/manager and can be accessed through 
    193         right click menus and the toolbar.  The data explorer can be re-started 
    194         from the menu bar. 
    195     - Data manipulation 
    196       - Support various 2D averaging methods : Circular, sectors, annular, 
    197         boxsum, boxQx and boxQy. 
    198       - A 2D data maks editor is provided 
    199       - 2D mask can be applied to the circular averaging. 
    200     - Miscellaneous features 
    201       - limited reports can be generated in pdf format 
    202       - Provides multiprocessor support(Windows only) 
    203       - Limited startup customization currently includes default startup 
    204         data folder and choice of default starting with data manager 
    205       - Limited support for saving(opening) a SasView project or a SasView analysis 
    206         (subproject) is provided. 
    207       - SasView can be launched and loaded with a file of interesty by double-clicking 
    208         on that file (recognized extension) 
    209       - A data file or data folder can be passed to SasView when launched from 
    210         the command line. 
    211       - Limited bookmarking capability to later recall the results of a fit calculation 
    212         is provided. 
    213       - Extensive help is provided through context sensitive mouse roll-over, 
    214         information bar (at the bottom of the panel), the console menu, and 
    215         access to the help files in several different ways. 
    216  
     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. 
    217233 
    218234 
    2192352- Downloading and Installing 
     236============================= 
    220237         
    221     *** Note 1:  Much more information is available at www.sasview.org under links. 
    222                      Look in the 'For Developers' section and particularly the wiki at 
    223                      www.sasview.org/trac/wiki. 
    224     *** Note 2:  If you have EXE or ZIP SasView installer, you won't need any of 
    225                  the following.  However it is highly recommended that any 
    226                  previous versions be un-installed prior to installing the 
    227                  new version. 
    228  
    229     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 
    230247        - Python version >= 2.5 and < 3.0 should be running on the system 
    231248        - We currently use Python 2.7 
    232249 
    233     2.2- Installing from source: 
     250   2.2- Installing from source 
    234251        - Get the code from GitHub at https://github.com/SasView/sasview.git 
    235252          for this release version use: https://github.com/SasView/sasview/releases 
    236             - run 'python setup.py install' under the 'sasview-x.x.x' folder 
    237             - run 'python sasview.py' under the 'sasview' folder. 
     253          - run 'python setup.py install' under the 'sasview-x.x.x' folder 
     254          - run 'python sasview.py' under the 'sasview' folder. 
     255           
    238256        - The following modules are required (version numbers are what are used 
    239257          in the windows release build): 
    240         - Common Packages 
    241           - reportlab 3.1.44 
    242           - lxml 3.4.4.0 (MAC 3.4.2.0) 
    243           - PIL 1.1.7 
    244           - xhtml2pdf 3.0.33 (MAC = not installed on build server) 
    245           - unittest-xml-reporting 1.12.0 (MAC 1.10.0) 
    246           - matplotlib Version Installed: 1.4.3 (MAC 1.1.1) 
    247           - bumps Version Installed: 0.7.5.6 
    248           - scipy Version Installed: 0.16.0b2 (MAC 0.11.0) 
    249           - periodictable Version Installed: 1.4.1 
    250           - setuptools Version Installed: 7.0 (MAC 12.0.5) 
    251           - sphinx Version Installed: 1.3.1 (MAC 1.3b2) 
    252           - pyparsing Version Installed: 2.0.3 
    253           - numpy Version Installed: 1.9.2 (MAC 1.6.2) 
    254           - html5lib Version Installed: 0.99999 
    255           - wx Version Installed: 3.0.2.0 
    256            
    257  
    258         - Windows Specific Packages: 
    259           - pywin 219 
    260           - py2exe 0.6.9 
    261           - comtypes 1.1.1 
    262           - MinGW w/ gcc version 4.6.1 (WIN) 
    263           - vcredist_x86.exe (version 9.0.21022.8  -microsoft visual C 2008  
     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) 
     281            - vcredist_x86.exe (version 9.0.21022.8  -microsoft visual C 2008  
    264282              re-distributable) 
    265           - Innosetup (WIN - isetup 5.4.2-unicode) - used to create distributable 
     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 
    266287             
    267         - MAC Specifci Packages: 
    268           - py2app 0.7.1 
    269         - Windows build dependencies can be set up using anaconda. Instructions 
    270           can be found at http://trac.sasview.org/wiki/AnacondaSetup 
    271  
     288          - MAC Specifc Packages 
     289            - py2app 0.7.1 
     290           
    272291 
    2732923- Known Issues 
    274  
    275     3.1- All systems: 
    276         - Documentation Window may take a few seconds to load the first time 
    277           it i called.  Also, an internet connection is required before 
     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 
    278298          equations will render properly. Until then they will show in their 
    279299          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. 
    280303        - The copy and paste functions (^C, ^V) in the batch mode results grid 
    281304          require two clicks: one to select the cell and a second to select the 
    282305          contents of the cell.  
    283         - Tutorial has not yet been updated and is somewhat out of date 
    284         - Very old computers may not be able to run 
     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 
    285308        - Polydispersity on multiple parameters included in a simultaneous/ 
    286309          constrained fit will likely not be correct 
    … …  
    296319          some cases lead to incorrect calculations(ticket #332) 
    297320           
    298  
    299     3.2- Windows: 
     321   3.2- Windows: 
    300322        - If installed to same directory as old version without first removing 
    301323          the old version, the old desktop icon will remain but point to the 
    … …  
    304326          safest to uninstall old version prior to installing new version anyway. 
    305327                 
    306     3.3- MAC: 
     328   3.3- MAC: 
    307329        - Application normally starts up hidden. Click icon in Dock to view/use 
    308330          application.  
    309         - multiprocessing does not currently work on MAC OS 
     331        - Multiprocessing does not currently work on MAC OS 
    310332                 
    311     3.4- Linux: 
     333   3.4- Linux: 
    312334        - Not well tested 
    313335 
     336 
    3143374- SasView website 
    315  
    316     - www.sasview.org.  This main project site is the gateway to all  
    317       information about the sasview project.  It includes information 
    318       about the project, a FAQ page and links to all developer and user 
    319       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 
    320345 
    3213465- Frequently Asked Questions 
    322  
    323     - www.sasview.org/faq.html 
     347============================= 
     348 
     349   - www.sasview.org/faq.html 
     350 
    324351 
    3253526- Installer download website 
    326  
    327     - Latest release Version 
    328         - https://github.com/SasView/sasview/releases 
    329     - Latest developer builds 
    330         - https://jenkins.esss.dk/sasview/view/Master-Builds/ 
     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/ 
    331359 
    332360     

  • sasview/test/media/testdata_help.rst

    re5160aa r0d10aab  
    2525.. ZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZ 
    2626 
    27 .. note::  This help document was last changed by Steve King, 17Jun2015 
     271D Test Data 
     28^^^^^^^^^^^^ 
     29 
     30AOT_Microemulsion 
     31  - Aerosol-OT surfactant stabilised oil-in-water microemulsion data at three  
     32    contrasts: core (oil core), drop (oil core + surfactant layer), and shell  
     33    (surfactant layer). 
     34  - Suitable for testing simultaneous fitting. 
     35   
     36hSDS_D2O 
     37  - h25-sodium dodecyl sulphate solutions at two concentrations: 0.5wt% (just  
     38    above the cmc), 2wt% (well above the cmc), and 2wt% but with 0.2mM NaCl  
     39    electrolyte. 
     40  - Suitable for testing charged S(Q) models. 
     41 
     42P123_D2O 
     43  - Lyotropic liquid crystalline solutions of non-ionic ABA block copolymer  
     44    Pluronic P123 in water at three concentrations: 10wt%, 30wt%, and 40wt%. 
     45  - Suitable for testing paracrystal models. 
     46 
     47ISIS_Polymer_Blend_TK49 
     48  - Monodisperse (Mw/Mn~1.02) 49wt% d8-polystyrene : 51wt% h8-polystyrene  
     49    polymer blend. 
     50  - Suitable for testing Poly_GaussCoil and RPA10 models. 
     51 
     52.. ZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZ 
     53 
     542D Test Data 
     55^^^^^^^^^^^^ 
     56 
     57P123_D2O 
     58  - Lyotropic liquid crystalline solutions of non-ionic ABA block copolymer  
     59    Pluronic P123 in water at three concentrations: 10wt%, 30wt%, and 40wt%. 
     60  - Suitable for testing paracrystal models. 
     61 
     62.. ZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZ 
     63 
     64Saved State Test Data 
     65^^^^^^^^^^^^^^^^^^^^^ 
     66 
     67_phi_weights.txt 
     68 
     69_radius_dist.txt 
     70 
     71_THETA_weights.txt 
     72 
     73fitstate.fitv 
     74 
     75newone.svs 
     76 
     77prstate.prv 
     78 
     79sld_file.sld 
     80 
     81test.inv 
     82 
     83test002.inv 
     84 
     85.. ZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZ 
     86 
     87Other Test Data 
     88^^^^^^^^^^^^^^^ 
     89 
     901000A_sphere_sm.xml 
     91 
     92diamond.pdb 
     93 
     94dna.pdb 
     95 
     96.. ZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZZ 
     97 
     98.. note::  This help document was last changed by Steve King, 26Jun2015 

  • src/sas/guiframe/gui_manager.py

    r22d92da r22d92da  
    13031303            if menu_list: 
    13041304                for (menu, name) in menu_list: 
    1305                     print "[%s]" % name 
    13061305                    self._menubar.Replace(pos, menu, name) 
    13071306                    self._applications_menu_name = name 

  • 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/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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