Change Log

0.11.0: 2019/07/03

  • Graphical user interface:

    • Plot:

      • Add sample code on how to update a plot3d widget from a thread

      • ScatterPlot: add the possibility to plot as a surface using Delaunay triangulation

      • ScatterView: add a tool button to change scatter visualization mode (ex. Solid)

      • (OpenGL backend) Fix memory leak when creating/deleting widgets in a loop

    • Plot3D:

      • Add an action to toggle plot3d’s PositionInfoWidget picking.

      • Add a 3D complex field visualization: Complex3DField (also available from silx view)

      • Add a PositionInfoWidget and a tool button to toggle the picking mode to SceneWindow

      • Add the possibility to render the scene with linear fog.

    • silx.gui.widgets:

      • Fix ImageFileDialog selection for a cube with shape like 1,y,x.

  • Miscellaneous:

    • Requires numpy version >= 1.12

    • HDF5 creator script

    • Support of Python 3.4 is dropped. Please upgrade to at least Python 3.5.

    • This is the last version to officially support Python 2.7.

    • The source code is Python 3.8 ready.

    • Improve PySide2 support. PyQt4 and PySide are deprecated.

0.10.0: 2019/02/19

  • Graphical user interface:

    • Plot:

    • Add support of foreground color

    • Fix plot background colors

    • Add tool to mask ellipse

    • StatsWidget:

    • Add support for plot3D widgets

    • Add a PyMca like widget

    • Colormap: Phase colormap is now editable

    • ImageView: Add ColorBarWidget

    • PrintPreview:

    • Add API to define ‘comment’ and ‘title’

    • Fix resizing in PyQt5

    • Selection: Allow style definition

    • ColormapDialog: display ‘values’ plot in log if colormap uses log

    • Synchronize ColorBar with plot background colors

    • CurvesROIWidget: ROI is now an object.

    • Plot3D:

    • SceneWidget: add ColormapMesh item

    • Add compatibility with the StatsWidget to display statistic on 3D volumes.

    • Add ScalarFieldView.get|setOuterScale

    • Fix label update in param tree

    • Add ColormapMesh item to the SceneWidget

    • HDF5 tree:

    • Allow URI drop

    • Robustness of hdf5 tree with corrupted files

    • silx.gui.widgets:

    • Add URL selection table

  • Input/output:

    • Support compressed Fabio extensions

    • Add a function to create external dataset for .vol file

  • silx view:

    • Support 2D view for 3D NXData

    • Add a NXdata for complex images

    • Add a 3d scalar field view to the NXdata views zoo

    • Improve shortcuts, view loading

    • Improve silx view loading, shortcuts and sliders ergonomy

    • Support default attribute pointing to an NXdata at any group level

  • silx convert

    • Allow to use a filter id for compression

  • Math:

    • fft: multibackend fft

  • OpenCL:

    • Compute statistics on a numpy.ndarray

    • Backprojection:

    • Add sinogram filters (SinoFilter)

    • Input and/or output can be device arrays.

  • Miscellaneous:

    • End of PySide support (use PyQt5)

    • Last version supporting numpy 1.8.0. Next version will drop support for numpy < 1.12

    • Python 2.7 support will be dropped before end 2019. From version 0.11, a deprecation warning will be issued.

    • Remove some old deprecated methods/arguments

    • Set Cython language_level to 3

0.9.0: 2018/10/23

  • Graphical user interface:

    • silx.gui.widgets:

      • Adds RangeSlider widget, a slider with 2 thumbs

      • Adds CurveLegendsWidget widget to display PlotWidget curve legends (as an alternative to LegendSelector widget)

      • Adds FlowLayout QWidget layout

    • Plot:

      • Adds CompareImages widget providing tools to compare 2 images

      • ScatterView: Adds alpha channel support

      • MaskToolsWidget: Adds load/save masks from/to HDF5 files

      • PlotWidget:

        • Adds getItems method, sigItemAdded and sigItemAboutToBeRemoved signals

        • Adds more options for active curve highlighting (see get|setActiveCurveStyle method)

        • Deprecates get|setActiveCurveColor methods

        • Adds get|setActiveCurveSelectionMode methods to change the behavior of active curve selection

        • Adds configurable line style and width to line markers

        • Fixes texture cache size in OpenGL backend

    • Plot3D:

      • Adds SceneWidget.pickItems method to retrieve the item and data at a given mouse position

      • Adds PositionInfoWidget widget to display data value at a given mouse position

    • silx.gui.utils:

      • Adds image module for QImage/numpy array conversion functions

      • Adds testutils helper module for writing Qt tests (previously available internally as silx.gui.test.utils)

    • Adds silx.gui.qt.inspect module to inspect Qt objects

  • Math:

    • Updates median filter with support for Not-a-Number and a ‘constant’ padding mode

  • silx view:

    • Fixes file synchronization

    • Adds a refresh button to synchronize file content

  • Dependencies:

    • Deprecates support of PySide Qt4 binding (We intend to drop official support of PySide in silx 0.10.0)

    • Deprecates support of PyQt4

    • Adds h5py and fabio as strong dependencies

  • Miscellaneous:

    • Adds silx.examples package to ship the example with the library

0.8.0: 2018/07/04

  • Graphical user interface:

    • Plot:

      • Adds support of x-axis date/time ticks for time series display (see silx.gui.plot.items.XAxis.setTickMode)

      • Adds support of interactive authoring of regions of interest (see silx.gui.plot.items.roi and silx.gui.plot.tools.roi)

      • Adds StatsWidget widget for displaying statistics on data displayed in a PlotWidget

      • Adds ScatterView widget for displaying scatter plot with tools such as line profile and mask

      • Overcomes the limitation to float32 precision with the OpenGL backend

      • Splits plot toolbar is several reusable thematic toolbars

    • Plot3D: Adds SceneWidget items to display many cubes, cylinders or hexagonal prisms at once

    • Adds silx.gui.utils package with submitToQtMainThread for asynchronous execution of Qt-related functions

    • Adds Qt signals to Hdf5TreeView to manage HDF5 file life-cycle

    • Adds GroupDialog dialog to select a group in a HDF5 file

    • Improves colormap computation with a Cython/OpenMP implementation

    • Main API changes:

      • Colormap is now part of silx.gui.colors

      • ColormapDialog is now part of silx.gui.dialogs

      • MaskToolsWidget.getSelectionMask method now returns None if no image is selected

      • Clean-up FrameBrowser API

  • Image

    • Adds an optimized marching squares algorithm to compute many iso contours from the same image

  • Input/output:

    • Improves handling of empty Spec scans

    • Add an API to NXdata parser to get messages about malformed input data

  • silx.sx

    • Allows to use silx.sx in script as in Python interpreter

    • sx.imshow supports custom y-axis orientation using argument origin=upper|lower

    • Adds sx.enable_gui() to enable silx widgets in IPython notebooks

  • silx convert

    • Improves conversion from EDF file series to HDF5

  • silx view

    • Adds user preferences to restore colormap, plot backend, y-axis of plot image,…

    • Adds –fresh option to clean up user preferences at startup

    • Adds a widget to create custom viewable NXdata by combining different datasets

    • Supports CTRL+C shortcut in the terminal to close the application

    • Adds buttons to collapse/expand tree items

    • NXdata view now uses the ScatterView widget for scatters

  • Miscellaneous

    • Drops official support of Debian 7

    • Drops versions of IPython console widget before the qtconsole package

    • Fixes EDF file size written by EdfFile module with Python 3

0.7.0: 2018/02/27

  • Input/output:

    • Priovides silx.io.url.DataUrl to parse supported links identifying group or dataset from files.

    • silx.io.open now supports h5pyd and silx custom URLs.

    • silx.io.get_data is provided to allow to reach a numpy array from silx.

  • OpenCL:

    • Provides an API to share memory between OpenCL tasks within the same device.

    • Provides CBF compression and decompression.

    • Simple processing on images (normalization, histogram).

    • Sift upgrade using memory sharing.

  • silx.sx:

    • Added contour3d function for displaying 3D isosurfaces.

    • Added points3d function for displaying 2D/3D scatter plots.

    • Added ginput function for interactive input of points on 1D/2D plots.

  • Graphic user interface:

    • Provides a file dialog to pick a dataset or a group from HDF5 files.

    • Provides a file dialog to pick an image from HDF5 files or multiframes formats.

    • The colormap dialog can now be used as non-modal.

    • PlotWidget can save the displayed data as a new NXentry of a HDF5 file.

    • PlotWidget exports displayed data as spec files using more digits.

    • Added new OpenGL-based 3D visualization widgets:

      • Supports 3D scalar field view 2D/3D scatter plots and images.

      • Provides an object oriented API similar to that of the 1D/2D plot.

      • Features a tree of parameters to edit visualized item’s properties (e.g., transforms, colormap…)

      • Provides interactive panning of cut and clip planes.

    • Updates of ScalarFieldView widget:

      • Added support for a 3x3 transform matrix (to support non orthogonal axes)

      • Added support of an alternative interaction when ctrl is pressed (e.g., rotate by default and pan when ctrl/command key is pressed).

      • Added 2 sliders to control light direction in associated parameter tree view.

  • silx view:

    • Uses a single colormap to show any datasets.

    • The colormap dialog can stay opened while browsing the data.

    • The application is associated with some file types to be used to load files on Debian.

    • Provides a square amplitude display mode to visualize complex images.

    • Browsing an NXentry can display a default NXdata.

    • Added explanation when an NXdata is not displayable.

    • NXdata visualization can now show multiple curves (see @auxiliary_signals).

    • Supports older NXdata specification.

  • silx convert:

    • Added handling of file series as a single multiframe

    • Default behavior changes to avoid to add an extra group at the root, unless explicitly requested (see –add-root-group).

    • Writer uses now utf-8 text as default (NeXus specification).

    • EDF files containing MCA data are now interpreted as spectrum.

  • Miscellaneous:

    • Added silx.utils.testutils to share useful unittest functions with other projects.

    • Python 2 on Mac OS X is no longer tested.

    • Experimental support to PySide2.

    • If fabio is used, a version >= 0.6 is mandatory.

0.6.0: 2017/10/02

  • OpenCl. Tomography. Implement a filtered back projection.

  • Add a PrintPreview widget and a PrintPreviewToolButton for PlotWidget.

  • Plot:

    • Add a context menu on right click.

    • Add a ComplexImageView widget.

    • Merged abstract Plot class with PlotWidget class.

    • Make colormap an object with signals (sigChanged)

    • Add a colorbar widget silx.gui.plot.ColorBar.

    • Make axis an object, allow axis synchronization between plots, allow adding constraints on axes limits.

    • Refactor plot actions, new sub-package silx.gui.plot.actions.

    • Add signals on PlotWidget items notifying updates.

    • Mask. Support loading of TIFF images.

  • Plot3d:

    • Rework toolbar and interaction to use only the left mouse button.

    • Support any colormap.

  • Hdf5TreeView:

    • Add an API to select a single tree node item (setSelectedH5Node)

    • Better support and display of types.

    • New column for displaying the kind of links.

    • Broken nodes are now selectable.

  • StackView. Add a setTitleCallback method.

  • Median filter. Add new modes (reflect, mirror, shrink) in addition to nearest.

  • IO:

    • Rename module spectoh5 to convert. Add support for conversion of fabio formats.

    • Support NPZ format.

    • Support opening an URI (silx.io.open(filename::path)).

    • Group methods .keys, .value and .items now return lists in Python 2 and iterators in Python 3.

  • Image. Add tomography utils: phantomgenerator to produce Shepp-Logan phantom, function to compute center of rotation (calc_center_corr, calc_center_centroid) and rescale the intensity of an image (rescale_intensity).

  • Commands:

    • silx view:

      • Add command line option –use-opengl-plot.

      • Add command line option –debug, to print dataset reading errors.

      • Support opening URI (silx view filename::path).

    • silx convert. New command line application to convert supported data files to HDF5.

  • Enable usage of silx.resources for other projects.

  • The silx license is now fully MIT.

0.5.0: 2017/05/12

  • Adds OpenGL backend to 1D and 2D graphics

  • Adds Object Oriented plot API with Curve, Histogram, Image, ImageRgba and Scatter items.

  • Implements generic launcher (silx view)

  • NXdataViewer. Module providing NeXus NXdata support

  • Math/OpenCL. Implementation of median filter.

  • Plot. Implementation of ColorBar widget.

  • Plot. Visualization of complex data type.

  • Plot. Implementation of Scatter Plot Item supporting colormaps and masks.

  • Plot. StackView now supports axes calibration.

  • I/O. Supports SPEC files not having #F or #S as first line character.

  • I/O. Correctly exposes UB matrix when found in file.

  • ROIs. Simplification of API: setRois, getRois, calculateRois.

  • ROIs. Correction of calculation bug when the X-axis values were not ordered.

  • Sift. Moves package from silx.image to silx.opencl.

0.4.0: 2017/02/01

  • Adds plot3D package (include visualization of 3-dimensional scalar fields)

  • Adds data viewer (it can handle n-dimensional data)

  • Adds StackView (ex. Visualization of stack of images)

  • Adds depth profile calculation (ex. extract profile of a stack of images)

  • Adds periodic table widget

  • Adds ArrayTableWidget

  • Adds pixel intensity histogram action

  • Adds histogram parameter to addCurve

  • Refactoring. Create silx.gui.data (include widgets for data)

  • Refactoring. Rename utils.load as silx.io.open

  • Changes active curve behavior in Plot. No default active curve is set by default

  • Fit Action. Add polynomial functions and background customization

  • PlotWindow. Provide API to access toolbar actions

  • Handle SPEC, HDF5 and image formats through an unified API

  • hdf5widget example. Inspect and visualize any datasets

  • Improves mask tool

  • Deprecates PlotWindow dock widgets attributes in favor of getter methods

0.3.0: 2016/10/12

  • Adds OpenCL management

  • Adds isosurface marching cubes

  • Adds sift algorithm for image alignement

  • Adds octaveh5 module to insure communication between octave and python using HDF5 file

  • Adds silx.utils module containing weakref and html-escape

  • Adds silx.sx for flat import (helper for interactive shell)

  • Adds HDF5 load API (supporting Spec files) to silx.io.utils module

  • Adds SpecFile support for multiple MCA headers

  • Adds HDF5 TreeView

  • Adds FitManager to silx.math.fit and FitWidget to silx.gui.fit

  • Adds ThreadPoolPushButton to silx.gui.widgets

  • Adds getDataRange function to plot widget

  • Adds loadUi, Slot and Property to qt.py

  • Adds SVG icons and support

  • Adds examples for plot actions, HDF5 widget, helper widgets, converter from Spec to HDF5

  • Adds tutorials for plot actions, spech5, spectoh5, sift and fitmanager

  • Improves right axis support for plot widget

  • Improves mask tool

  • Refactors widgets constructor: first argument is now the parent widget

  • Changes plot documentation and add missing module to the documentation

0.2.0: 2016/07/12

  • Adds bilinear interpolator and line-profile for images to silx.image

  • Adds Levenberg-Marquardt least-square fitting algorithm to silx.math.fit

  • Histogramnd changed to become a class rather than a function, API and return values changed

  • Adds HistogramndLut, using a lookup table to bin data onto a regular grid for several sets of data sharing the same coordinates

  • Adds legend widget and bottom toolbar to PlotWindow

  • Adds a line-profile toolbar to PlotWindow

  • Adds ImageView widget with side histograms and profile toolbar

  • Adds IPython console widget, to be started from PlotWindow toolbar

  • Adds Plot1D widget for curves and Plot2D widget for images

  • Adds ROI widget for curves in PlotWindow

  • Adds a mask widget and toolbar to plot (2D)

  • Renames silx.io.dicttoh5 to silx.io.dictdump

  • Adds configuration dictionary dumping/loading to/from JSON and INI files in silx.io.configdict

  • Adds specfile wrapper API compatible with legacy wrapper: silx.io.specfilewrapper

  • Transposes scan data in specfile module to have detector as first index

  • Set up nigthly build for sources package, debian packages (http://www.silx.org/pub/debian/) and documentation (http://www.silx.org/doc/)

0.1.0: 2016/04/14

  • Adds project build, documentation and test structure

  • Adds continuous integration set-up for Travis-CI and Appveyor

  • Adds Debian packaging support

  • Adds SPEC file reader, SPEC file conversion to HDF5 in silx.io

  • Adds histogramnd function in silx.math

  • Adds 1D, 2D plot widget with a toolbar, refactored from PyMca PlotWindow in silx.gui.plot