Changelog
List of changes in-between afmformats releases.
version 0.16.5
setup: migrate from igor to igor2 (Python 3 support)
tests: add test for files that contain force data but no spring constant
version 0.16.4
enh: implement AFMData.columns_innate which is a list of columns present in the original data file
enh: implement AFMData.reset_data to remove all user-defined column data (i.e. columns not in AFMData.columns_innate or columns that override those)
version 0.16.3
fix: setting column data to AFMSegment did not work when column did only exist in raw data property
version 0.16.2
enh: implement __setitem__ for AFMSegment
ref: make data and raw_data private properties of AFMSegment
version 0.16.1
enh: support .jpk-qi-series files (by extension)
enh: improve error handling when data exported from the JPK software does not contain encoder scaling offset and multiplier
ref: use f-strings more often
version 0.16.0
BREAKING CHANGE: “segment” column is no longer boolean, so it cannot be used directly for indexing (#15)
fix: support modified AFM workshop file format (#17)
fix: segment data via AFMData.appr and AFMData.retr did not use user-defined data to identify segments, but the “segment” column from the raw data (this does not affect PyJibe or nanite which fo not make excessive use of these properties)
enh: add “segment count” key to meta data
enh: optimize segment handling: new class AFMSegment that caches segment indices (#16)
enh: properly test data types of metadata when setting them
version 0.15.0
feat: generally support creep-compliance and stress-relaxation data via the new “modalities” (supercedes “modality”) recipe key
feat: support for JPK creep-compliance data
enh: extract segment duration from JPK files
fix: ignore NaN values in JPK property files
ref: add separate meta data section for modality-related keys
ref: improvements of JPK metadata reader
tests: rename test data files to reflect format
version 0.14.4
docs: add section for implementing new file formats (#13)
fix: IndexError when trying to open .txt files that are no AFM files
ref: separate submodule for formats
version 0.14.3
enh: implement LazyMetaValue to speed-up loading JPK files
enh: perform caching in LazyData (minor speed-up)
version 0.14.2
fix: partially revert breaking change in 0.14.0 (“imaging mode” was previously used when exporting data in PyJibe and this metadata key should not change)
fix: add detect function for HDF5 format (afmformats attempted to load nanite rating containers)
enh: added height span for QMap data
tests: add .tab and .h5 test files
ref: renamed QMap feature “lowest height” to “height base point”
ref: changed prefix to “data” for all QMap data
version 0.14.1
fix: populate AFMQMap grid metadata for AFM workshop format (#12)
enh: speed-up QMap computation by decorator-based caching
ref: move QMap grid index computation to MetaData class
version 0.14.0
BREAKING CHANGE: changed ‘mode’ to ‘modality’ throughout afmformats
feat: introduced afmformats.AFMGroup, a container for AFMData (#11)
feat: introduced afmformats.AFMQMap for managing quantitative AFMData (#11)
feat: allow to use other derived classes of AFMData when loading experimental data via the data_classes_by_modality option
ref: AFMData.export is deprecated in favor of AFMData.export_data
ref: renamed submodule afm_fdist to mod_force_distance
version 0.13.3
enh: improve speed when loading data by avoiding accessing data during initialization
fix: JPK file format reader speed regression caused by #10 (implemented ArchiveCache)
version 0.13.2
enh: make sure people don’t think they can load a data file with a different spring constant or sensitivity
version 0.13.1
fix: make sure callback functions are always used
version 0.13.0
feat: support zipped AFM workshop map data (#5)
feat: added find_data method
enh: make MissingMetaDataError class special (missing metadata are stored as property)
enh: add “detect” function for JPK file format
docs: add missing objects to
__all__
(autoapi)ref: code cleanup
version 0.12.6
ref: DeprecationWarning: np.float from numpy 1.20
version 0.12.5
fix: JPK file format reader kept the zip files open indefinitely which resulted in OSError “Too many open files” (#10)
ci: removed appveyor build
version 0.12.4
fix: opening .h5 files failed with AttributeError
ref: setup.py test is deprecated
version 0.12.3
build: migrate to GitHub Actions
version 0.12.2
fix: properly sort curves within JPK files
version 0.12.1
maintenance release
version 0.12.0
version 0.11.0
feat: allow defining “detect” method to determine whether a recipe can open a file (#7)
version 0.10.2
maintenance release
version 0.10.1
fix: parsing issue when loading .ibw files without AM/PM in “Time” metadata (#8)
enh: make sure “time” is always parsed as HH:MM:SS.S when adding it to MetaData
enh: compute “curve id” and “session id” from “date”, “time”, and “enum” if not given in MetaData
version 0.10.0
feat: allow to override metadata when loading data
feat: support new file format from AFM workshop (.csv)
feat: support new file format from JPK (.jpk-qi-data)
feat: support new file format from NT-MDT (.txt exported by Nova)
enh: implement AFMFormatRecipe class for handling and verifying recipe dictionaries
enh: implement register_format function
version 0.9.0
feat: support new file format from Asylum Research, Igor (.ibw)
ref: always compute piezo range metadata instead of taking it from the set value in the acquisition settings (JKP format)
version 0.8.0
enh: do not export “index” column to HDF5 files to save disk space
enh: save column units when exporting to HDF5
ref: moved class methods and constants from “afm_fdist” to “afm_data”
docs: add code reference, basic usage, and list of file formats
version 0.7.1
fix: exporting to HDF5 did not work when a h5py.Group was used
fix: exporting to HDF5 did not reset the “enum” key
enh: use gzip compression in HDF5 file format
enh: allow “h5” and “hdf5” as HDF5 file format specifiers during export
version 0.7.0
BREAKING CHANGE: piezo height is now loaded as “calibrated” and not as “nominal” (JPK file format)
fix: metadata acquisition “duration” and “point count” only showed data of apporach part (JPK file format)
enh: load metadata “speed” and “rate” separately for approach and retract part
ref: restructured meta data organization
version 0.6.0
version 0.5.2
ref: drop pandas dependency (#2)
version 0.5.1
fix: allow “force-modulation” feedback mode
version 0.5.0
feat: meta data summary with MetaData.get_summary
version 0.4.1
ref: group meta data by topic
fix: identifier in JPK file format was actually session identifier
version 0.4.0
BREAKING CHANGE: change metadata key names
enh: add class for checking metadata
version 0.3.0
feat: support tab-separated values file format (.tab)
fix: file formats were not registered correctly
ref: derive file format errors from own error classes
version 0.2.0
compatibility changes towards nanite
version 0.1.0
initial version