Changelog
List of changes in-between PyJibe releases.
version 0.11.2
maintenance release
version 0.11.1
fix: check for identical label when updating parameters (previously, a parameter that starts with the label of another parameter got assigned the wrong boundaries)
enh: allow to hide model parameters via key names (#20)
enh: show hidden parameters in developer mode
ref: code-cleanup and simplification using latest nanite version
setup: bump nanite from 3.2.1 to 3.3.1
version 0.11.0
feat: allow custom fit methods with custom keyword arguments in developer mode (#18)
fix: correctly handle dependencies in preprocessing tab
fix: set POC method when loading recommended preprocessing (#17)
setup: bump nanite from 3.1.3 to 3.2.1 (new POC estimation methods: Frechet distance and linear+polynomial fit)
version 0.10.1
enh: use human-readable units in missing-metadata entry dialogs
enh: change default unit for spring constant to mN/m
ref: IndentationPreprocessor is deprecated in nanite
setup: bump nanite to version 3.1.3 (ask for missing spring constant for tip position computation)
version 0.10.0
BREAKING CHANGE: The default contact point estimation method changed. This means that your fitted contact points and any E(delta)-related results will change!
feat: allow to select point of contact method (#15)
enh: restructure preprocessing tab and avoid situations where preprocessing dependencies are not met (#15)
enh: visualize contact point estimation algorithms in preprocessing tab
setup: bump nanite from 2.0.0 to 3.1.1 (improved preprocessing)
version 0.9.4
enh: only show exact sneddon model “sneddon_spher” in developer mode to avoid confusion
setup: bump afmformats from 0.15.0 to 0.16.0 (improve support for AFM workshop data)
setup: bump nanite from 1.7.6 to 2.0.0
version 0.9.3
fix: possible fix for TypeError in InfDoubleSpinBox
setup: bump afmformats from 0.14.3 to 0.15.0 as well as nanite from 1.7.6 to 1.7.8 (requirement for #14)
version 0.9.2
ref: improve speed when displaying QMap data
enh: add developer mode for loading creep-compliance data (#14)
setup: bump afmformats from 0.13.3 to 0.14.3 (mostly speed, support AFM workshop maps)
setup: bump nanite from 1.7.4 to 1.7.6 (mostly speed)
ref: speed-up QMap visualization by caching nanite.QMap instances
version 0.9.1
docs: minor update
fix: regression where left fitting range could not be set
fix: improved checks for InfDoubleSpinBox which acted up when entering absolutely sane floating point values
version 0.9.0
feat: allow users to enter missing metadata during loading of data files (#5)
fix: automatically append .h5 suffix when rating datasets
enh: add busy cursor where applicable
ref: directory for importing training datasets for rating changed (but I think this currently affects nobody)
setup: dump appdirs dependency (moved to QSettings)
setup: bump afmformats from 0.12.5 to 0.13.3 (mostly #5 and speed)
setup: bump nanite from 1.7.3 to 1.7.4 (mostly #5)
tests: increase coverage
version 0.8.8
fix: handle bad curves properly when running bulk analysis (#13)
ref: make sure there are no duplicate files when loading data (possibly fixes #12)
ref: cleanup - call overloaded processEvents
ref: properly decorate pyqtSlots
tests: add helper function for setting up datasets
version 0.8.7
fix: add workaround for macOS where the non-native PyQt5 dialogs did not allow browsing to “/Volumes” (it is now added to the sidebar)
build: bump afmformats from 0.12.4 to 0.12.5 (OSError: “Too many files open” with the JPK file format)
build: bump nanite from 1.6.2 to 1.7.3
build: pin PyQt5 for GitHub releases
tests: don’t used deprecated weight_cp function from nanite
version 0.8.6
build: bump afmformats from 0.12.2 to 0.12.4 (AttributeError when reading HDF5 files)
tests: deprecate setup.py test
version 0.8.5
build: migrate from travisCI to GitHub Actions
build: overhauled build pipeline (#9)
version 0.8.4
build: add pyinstaller hooks for afmformats
version 0.8.3
fix: main window not focused after startup
fix: Windows installation location was confusing and did not coincide configuration file location
fix: files are sorted before batch loading
fix: change visualization of fitting region by gray wraparound instead of yellow highlight (not visible on all screens)
setup: bump afmformats from 0.11.0 to 0.12.2 (improved JPK file format speed)
version 0.8.2
setup: bump matplotlib to >=3 (NavigationToolbar2QT modifications)
version 0.8.1
fix: correctly handle lmfit models with expressions
setup: bump nanite from 1.6.0 to 1.6.2 (improve contact point retrieval for bad data, check models during registration)
version 0.8.0
fix: exclude misplaced ‘available’ method from preprocessors
setup: bump nanite from 1.5.5 to 1.6.0 (improved contact point estimation - this may introduce small changes in the fit result which should not be significant, but which justify a new minor version)
version 0.7.6
maintenance release (fix macOS build)
setup: bump afmformats from 0.10.2 to 0.11.0
setup: bump nanite from 1.5.4 to 1.5.5
version 0.7.5
maintenance release (fix build)
version 0.7.4
setup: bump afmfomats from 0.10.0 to 0.10.2
setup: bump nanite from 1.5.2 to 1.5.4
build: add command-line option –version to just print the version and exit
version 0.7.3
fix: update initial parameters when the user edits the left fitting interval boundary
fix: conical indenter model did not work, because of a wrong (and unnecessary) entry in the human_units scheme.
version 0.7.2
fix: setting bad fit range lead to ValueError during plotting
version 0.7.1
fix: wrong SI units assigend to fit results parameters
setup: bump afmformats from 0.9.0 to 0.10.0 (new formats: JPK (.jpk-qi-data), AFM workshop (.csv), NT-MDT (.txt exported by Nova))
setup: bump nanite from 1.4.1 to 1.5.2
version 0.7.0
feat: add data conversion tool
enh: allow to select multiple files when loading data
ref: changed order and clarified meaning of options in file menu
setup: bump afmformats from 0.7.0 to 0.9.0 (fix HDF5 export, support new file formats)
version 0.6.8
setup: bump afmformats from 0.5.1 to 0.7.0 (improved metadata view in info tab)
setup: bump nanite from 1.4.1 to 1.5.1 (compatibility to afmformats)
enh: fit results and parameter export dialog now supports new groups in afmformats 0.7.0
enh: autosave now only stores fit results and rating parameters
enh: remember scroll position in info tab
version 0.6.7
setup: bump nanite from 1.4.0 to 1.4.1 (baseline is now a free parameter by default)
docs: add first tutorial (PAAm gels)
version 0.6.6
fix: typo lead to error when using rating threshold
version 0.6.5
build: macOS build failed due to PyInstaller issue 4626
version 0.6.4
fix: info tab did not display QMap metadata
fix: do not fit the entire dataset when applying a rating threshold but take the values from previous ratings
fix: deselecting curves of a qmap resulted in ValueError if QMap tab was selected
fix: set correct display range for residuals
docs: UI section for basics FD analysis
build: Windows build broken since 0.5.6
version 0.6.3
fix: support JPK data recorded in the “force-modulation” feedback mode (bump afmformats from 0.5.0 to 0.5.1)
fix: make sure ancillary parameters are computed from the initial parameters set in the user interface (not from the default model parameters)
version 0.6.2
enh: allow to select which metadata is exported
fix: do not apply and fit to all before exporting metadata (user may have performed individual fits)
setup: bump nanite from 1.3.0 to 1.4.0
version 0.6.1
build: workaround for Pyinstaller issue 4626
version 0.6.0
feat: initial support for ancillary parameters
fix: always display parameter units
fix: other minor UI bugs
setup: bump afmformats from 0.4.1 to 0.5.0
setup: bump nanite from 1.2.4 to 1.3.0
version 0.5.7
enh: allow to also set right part of fitting range individually
fix: improve layout of FD fitting panel
setup: bump nanite from 1.2.3 to 1.2.4 (improved default params)
version 0.5.6
setup: bump nanite from 1.2.2 to 1.2.3 (fixes issue with fits not being redone when the user changes an initial parameter)
fix: IndexError when editing the fitting range
version 0.5.5
maintenance release
version 0.5.4
enh: write maximum indentation to statistics file (#3)
fix: unicode characters were not read correctly from statistics file by libre office (added UTF-8 BOM)
version 0.5.3
enh: improved visualization of meta data parameters in the Info tab
setup: bump afmformats from 0.3.0 to 0.4.1
setup: bump nanite from 1.2.0 to 1.2.2
version 0.5.2
ref: bump nanite to 1.2.0
ref: migrate to afmformats (0.3.0)
version 0.5.1
fix: missing title in FD window and missing FD number in export menu
enh: add help menu with link to docs, about, and software used (#1)
docs: add quick guide for importing a nanite training set
docs: add black/white logo
version 0.5.0
feat: allow to import training sets produced with nanite
ref: major code refactoring of force-distance interface and cleanup
setup: bump nanite dependency to >=1.1.1
version 0.4.4
ci: pin ‘joblib==0.11.0’ on travis-CI (workaround for infinite loop in macOS build, https://github.com/pyinstaller/pyinstaller/issues/4067)
docs: add installation instructions
version 0.4.3
maintenance release (migrate to GitHub infrastructure)
experimental macOS builds
version 0.4.2
enh: merge training set and regressor selection into scheme selection (prevents confusion for users that are unsure what to choose)
enh: user rating is saved during rating, not afterwards
enh: rating containers for user rating can be reused explicitly
enh: qmap plot now better distinguishes between unavailable and invalid data
ref: migrate user rating output to nanite
version 0.4.1
fix: autoscaling according to fitting range did not work
fix: not possible to load .jpk-force-map files
ref: migrate qmap generation to nanite
version 0.4.0
migration to GitHub