Changelog
List of changes in-between Shape-Out releases.
version 2.16.1
setup: bump dclab to 0.58.4 (reduced memory usage when computing contour-based features such as volume, export dataset configuration as metadata in .tsv export, support both posix and nt relative basin paths)
version 2.16.0
feat: enable storage strategy (basin control) in export dialog (#159)
fix: ask for .tsv output path before computing statistics
enh: color feature data in QuickView combobox according to availability
enh: hide basinmap features in scatter plot selections (#159)
docs: remove reference to Shape-Out 1 in introduction
docs: mention basins and link to dclab (#159)
docs: add quick guide for data export
ref: reduce usage of dclab.dfn.scalar_feature_names (#108)
setup: bump dclab to 0.58.2
version 2.15.5
fix: right-click menu not working for plot widgets (#160)
ref: introduce FeatureComboBox class for listing features
version 2.15.4
version 2.15.3
build: PyInstaller to rebuild its bootloader (avoid false positive malware detection)
version 2.15.2
fix: handle zero-valued contour spacing
setup: bump dclab to 0.57.4 (handle zero-valued spacing for KDE contour)
version 2.15.1
fix: statistics not updating when changing plot axes (#154)
setup: bump dclab from 0.57.0 to 0.57.1
version 2.15.0
enh: avoid creating hierarchy when no filters are applied (speed)
enh: cache computed statistics
ref: avoid division-by-zero warning
setup: bump dclab from 0.56.3 to 0.57.0 (speed)
version 2.14.3
fix: intermediate plotting of first event whenever a slot is added
fix: catch zero-division warning when plotting empty image
enh: remember selected events in QuickView
enh: avoid showing first dataset event when user clicks in QuickView
setup: bump dclab from 0.55.7 to 0.56.3 (enhanced basin support)
version 2.14.2
setup: bump dclab from 0.55.6 to 0.55.7
version 2.14.1
fix: perform sanity check for contour spacing before plotting
fix: use pyqtgraph.SpinBox to edit box filters (#149)
enh: minor optimization of min/max feature algorithm
enh: only preselect innate features when computing statistics (#150)
setup: bump dclab to 0.55.6 (new scalar features, dcor access)
setup: bump pyqtgraph from 0.12.4 to 0.13.3
version 2.14.0
ref: don’t set RTDCBase.identifier to slot identifier
setup: drop support for Python 3.8
setup: bump dclab from 0.54.2 to 0.55.4 (better DCOR support)
build: use Python 3.10 for building executables
version 2.13.7
ci: fix rtd build pipeline
setup: bump dclab from 0.52.0 to 0.54.2 (improved basin support)
version 2.13.6
ci: fix Windows build pipeline
version 2.13.5
setup: bump requests to 2.31.0 (CVE-2023-32681)
setup: bump scipy to 1.10.0 (CVE-2023-25399)
setup: bump dclab from 0.50.4 to 0.52.0
version 2.13.4
tests: fix fake dataset creation
version 2.13.3
fix: casting error when using integer feature for plot color
fix: also export logs and tables to .rtdc with prefix “so2exp_”
enh: minor minimization in waiting times
ref: unify json dumps when saving sessions
setup: bump dclab from 0.48.4 to 0.50.4
version 2.13.2
docs: don’t build PDF on rtd (failed)
setup: bump dclab from 0.48.2 to 0.48.4 (don’t load invalid inertia ratio data from existing HDF5 files)
version 2.13.1
setup: bump dclab from 0.48.1 to 0.48.2 (improved speed, fixed bug with inertia ratio in long channels)
version 2.13.0
feat: support new viscosity model buyukurganci-2022 (#136)
enh: increase speed of QuickView event visualization
enh: turn on auto-apply in QuickView by default
setup: bump dclab from 0.47.2 to 0.48.1
version 2.12.0
feat: allow to disable KDE or use feature data as marker hue in QuickView
fix: do not perform auto-apply when changing downsampling value and downsampling is disabled in QuickView
fix: catch IndexError when trying to view an event that is not there anymore in polygon-selection-mode in QuickView
enh: make auto-apply in QuickView plot settings optional
docs: update screenshot scripts
version 2.11.11
enh: strip http(s):// from DCOR server string in settings
enh: improve GUI of QuickView (#133, #43)
setup: bump dclab from 0.47.0 to 0.47.2
version 2.11.10
fix: detect chaged files on disk when reloading metadata
setup: bump dclab from 0.46.4 to 0.47.0 (new bg_med feature and other convenience methods)
version 2.11.9
fix: include logs when exporting data (#126)
setup: bump dclab from 0.46.2 to 0.46.4 (new features)
version 2.11.8
version 2.11.7
build: fix build pipelines
version 2.11.6
setup: bump dclab from 0.43.0 to 0.45.0 (scalar feature support)
version 2.11.5
build: use InnoSetup “autopf” feature for installation directory
version 2.11.4
enh: preselect only innate features in data export to reduce computation time
docs: minor improvements
setup: bump dclab from 0.42.2 to 0.43.0 (improved compression)
setup: include zstandard library in distribution installer
version 2.11.3
setup: bump dclab from 0.42.1 to 0.42.2 (lazy-load .rtdc data which increases initial opening times)
setup: bump pyqtgraph from 0.12.3 to 0.12.4
version 2.11.2
setup: bump dclab from 0.42.0 to 0.42.1 (support background image access from DCOR)
version 2.11.1
fix: allow to specify 0.5 increments when filtering integer features (#123)
setup: bump dclab from 0.41.0 to 0.42.0
version 2.11.0
feat: allow to load encrypted dcor access tokens (#122)
setup: bump dclab from 0.39.17 to 0.41.0
setup: bump scipy to 1.8.0
build: bump Python version to 3.9
version 2.10.0
version 2.9.6
fix: extensions not loaded during startup on Windows (#117)
version 2.9.5
version 2.9.4
enh: display session file name in window title
setup: drop support for older numpy versions
setup: bump dclab from 0.39.9 to 0.39.13 (fix visualization of the “ml_class” score when the ml_score features contain nans)
version 2.9.3
fix: implement closeEvent in main and ask user before exiting
fix: fix possible failure during update check
fix: show a message box when the R version is incompatible (#114)
ref: only reload R/lme4 information in preferences when the corresponding tab is selected to avoid preferences lock-up (#114)
tests: use hidden settings variable to skip asking the user to clear the session
setup: bump dclab from 0.39.5 to 0.39.9
version 2.9.2
setup: bump dclab from 0.39.3 to 0.39.5 (fix opening files with some online filter settings)
version 2.9.1
enh: add button “Find best spacing” in Plot tab in Analysis View that iteratively finds sane spacing values (#110)
enh: notify user in plot if contour spacing is too large (#110)
enh: add action to remove all datasets from a session (#97)
fix: mysterious behavior of subclassed pg.ColorBarItem (#109)
setup: bump dclab from 0.39.1 to 0.39.3 (increased verbosity, renamed feature labels, refactored DCOR access)
version 2.9.0
feat: add support for extensions in the form of loading dclab plugin and machine-learning features (#85)
setup: drop support for Python 3.7
setup: bump dclab from 0.37.2 to 0.39.1
version 2.8.1
version 2.8.0
BREAKING CHANGE: The volume feature in all previous versions was overestimated by about 2µm³. Please re-run your analysis pipeline.
setup: bump pyqtgraph from 0.12.2 to 0.12.3
setup: bump dclab from 0.36.1 to 0.37.0 (faulty volume computation)
version 2.7.4
setup: bump dclab from 0.35.6 to 0.36.1 (improved export speed)
version 2.7.3
build: remove console window (#102)
version 2.7.2
setup: bump dclab from 0.35.4 to 0.35.6 (Young’s modulus could not be computed in some cases)
version 2.7.1
version 2.7.0
feat: accept DCOR drag events from DCOR-Aid data browser
version 2.6.9
fix: don’t reset color and name of dataset during duplicate matrix action (#96)
version 2.6.8
fix: adapt color scheme to work in dark mode (#92)
version 2.6.7
fix: correctly handle missing features on data export (#80)
ref: cleanup (default arguments and PyQt5 object references)
setup: bump dclab from 0.34.2 to 0.34.3 (set R_HOME)
build: bump rpy2 from 3.4.2 to 3.4.5
build: bump pyqtgraph from 0.12.1 to 0.12.2 and remove colorbar export workarounds
version 2.6.6
fix: false alarms about wrong pyqtgraph version on startup (removed the responsible code, because there are now more regular releases of pyqtgraph)
enh: allow passing session files, datasets, and filters via the command line (#88)
enh: associate the .so2 file format with Shape-Out on Windows (#88)
build: migrate to Inno Setup 6
ref: avoid pyqtgraph DeprecationWarning due to translate
version 2.6.5
version 2.6.4
fix: HTML-escape plot titles and axis labels (#82)
version 2.6.3
build: pin rpy2 to 3.4.2 on Windows (#84)
version 2.6.2
setup: migrate to pyqtgraph 0.12.0
setup: bump dclab from 0.33.1 to 0.33.3
docs: fix rtd build
version 2.6.1
setup: remove deprecated setup.py test
setup: bump dclab to 0.33.1 (filters were ignored when exporting trace data to hdf5, see https://github.com/DC-analysis/DCKit/issues/17)
version 2.6.0
version 2.5.2
build: add pyinstaller hook for pyqtgraph
version 2.5.1
fix: preferences dialog did not open in macOS App bundle (#76)
enh: disable R settings in preferences dialog if rpy2 is missing
build: bump dclab from 0.29.1 to 0.32.4 (this should have happened in the 2.5.0 release which introduced R-lme4 analysis)
build: bump pyqtgraph to commit c1900 (post 0.11.1) which mainly improves plot export (#59)
tests: introduce manual tests that require a human in “tests-manual”
ref: key [calculation]: “emodulus model” is deprecated in dclab
ref: use “lut_identifier” instead of deprecated “method” keyword when retrieving isoelasticity lines
version 2.5.0
feat: implement linear-mixed effects models with R/lme4 (#55)
ci: overhauled build process
version 2.4.15
ci: fix rtd build
fix: typo in infobox in analysis view (#69)
fix: macOS builds did not use our pyqtgraph fork (reported in #70)
version 2.4.14
maintenance release
version 2.4.13
maintenance release
version 2.4.12
maintenance release
version 2.4.11
maintenance release
version 2.4.10
maintenance release
version 2.4.9
maintenance release
version 2.4.8
maintenance release
version 2.4.7
maintenance release
version 2.4.6
maintenance release
version 2.4.5
maintenance release
version 2.4.4
fix: box filters selections bled to other filters (#67)
build: do not use development version of dclab
ci: move to GitHub Actions
version 2.4.3
enh: improve UI (tooltips, icons)
build: Windows build won’t start due to breaking change in Windows ucrtbase.dll (#64)
build: Migrate Windows build to PyInstaller 4.1
version 2.4.2
fix: a regression introduced during refactoring in 2.4.0 made it impossible to select the temperature for known media
fix: allow to reorder the dataset list (#46)
enh: iconify buttons at top of Analysis View
version 2.4.1
fix: strip white-space characters from line edits in the preferences to avoid line breaks introduced in the API key via copy-paste
fix: not possible to create plots for datasets without the bright_avg feature; added a check for feature availability before updating the interface (#62)
version 2.4.0
feat: allow to set Young’s modulus parameters for all open datasets via the “Bulk action” menu (#60)
fix: force temperature for Young’s modulus computation to the value stored in the dataset for the “config” scenario
enh: update menu keyboard shortcuts
version 2.3.0
enh: added preferences dialog
enh: improved user experience for searching DCOR data
ref: migrate settings to QSettings
setup: remove appdirs dependency, because we let QSettings determine where to store settings
version 2.2.6
version 2.2.5
setup: correct installation directory on Windows
setup: bump dclab from 0.27.11 to 0.29.0
fix: main window not focused after startup (#52)
version 2.2.4
fix: UI slot issues (probably a racing condition) in the analysis view; editing the viscosity for “other” medium not possible on frozen Windows and macOS application (#49)
version 2.2.3
fix: update Quick View plot when values for the Young’s modulus computation are changed (#44)
fix: use fixed point size in Block Matrix
enh: improve plot matrix column/row visualization and show flow rate (#45)
docs: update visualization of Young’s modulus look-up tables using new figure script from dclab
build: bump Python to 3.8 for Windows builds
setup: bump dclab from 0.27.5 to 0.27.11 (improvement of hierarchy child handling)
version 2.2.2
fix: correct box filter ranges when feature contains inf values
enh: add pretty tool icons from KDE breeze theme
version 2.2.1
fix: zero-division error when setting “one plot per dataset” for an empty plot (#41)
build: pin PyQt5 to 5.14.2 on Linux/macOS
version 2.2.0
setup: bump dclab from 0.26.2 to 0.27.5 (support for machine learning features)
fix: modify the GUI to enable box filtering for ml_score_??? features
ref: pipeline.get_features now only returns features that are available (previously all features were returned when no datasets were in the pipeline)
version 2.1.6
fix: export file names were allowed to have invalid characters
fix: Quick View showed filtered events that were not plotted (statistics were computed correctly though)
fix: Quick View was not very informative when all events were filtered away - a message is now shown
setup: bump dclab from 0.26.1 to 0.26.2 (fix bin num computation using Doane’s formula)
version 2.1.5
fix: marker hue feature data min/max was always computed even if not selected; for datasets without bright_avg (standard hue) this resulted in long waiting times
fix: avoid pyqtgraph error messages in pipeline plots by disabling hovering events (not used anyway)
fix: plot export did not work for single plots
fix: exported event images sometimes had wrong contrast
version 2.1.4
enh: add busy cursors wherever it seems fitting
setup: bump dclab from 0.24.7 to 0.26.1 (volume-deformation isoelasticity lines, improved DCOR caching)
version 2.1.3
fix: opening sessions did not work due to missing slot decorator
fix: in some cases the temperature/viscosity setting was not correctly written to the UI for individual slots when switching between slots with fundamentally different settings (e.g. channel and reservoir)
fix: KeyError when switching between slots with different temperature options
setup: bump dclab from 0.23.0 to 0.24.7 (equidistant isoelastics, faster polygon filtering, crosstalk correction failed due to improper configuration update since Shape-Out 2.1.1)
version 2.1.2
fix: ValueError when trying to compute contour spacing, because no datasets are selected for a plot
fix: coloring scatter plot by feature did not work when the feature contains nan values
fix: search path in session should not be filename but its directory
setup: bump dclab from 0.22.5 to 0.23.0 (possible HDF5 export issue)
version 2.1.1
fix: include private datasets when searching with DCOR API Key
fix: remove UI option to compute Young’s modulus for reservoir data (new “emodulus enabled” key in pipeline slot)
fix: Pipeline object not returned by session.open_session
setup: bump dclab from 0.22.1 to 0.22.5 (improve contour retrieval for mask images with artefacts, disable computation of Young’s modulus for reservoir measurements)
version 2.1.0
feat: basic DCOR support
fix: improved session support (older pre-release sessions)
docs: add DCOR guick guide
enh: export event image via context menu in Quick View (#35)
setup: bump dclab from 0.21.1 to 0.22.1 (DCOR support)
version 2.0.3
setup: bump dclab from 0.20.3 to 0.21.1
docs: add terminology section (#12)
version 2.0.2
fix: IndexError when removing a plot (#36)
fix: ValueError when filtering all events in Quick View (#37)
fix: TypeError when removing datasets and opening Quick View (#38)
fix: RuntimeError when removing datasets and opening Quick View (#38)
fix: ValueError when removing activated datasets and opening Quick View
version 2.0.1
fix: correctly distinguish prereleases when checking for new versions
enh: allow loading data via drag&drop
version 2.0.0
initial release