v2.11.0

v2.11.0 (2024-10-13)

Features

• io.dataloader: add new argument that can control combining (bdec5ff)

  Adds a new parameter combine to io.load. If False, returns a list of post-processed files without attempting to concatenate or merge the data into a single object. If True, retains the current default behavior.

Bug Fixes

• imagetool: allow coords of any dtype coercible to float64 (4342ebc)
• io.dataloader: properly handle combining multi-axis scans (2cd22c7)

Code Refactor

• io.plugins: update type hints (54d0c5d)
• remove unused imports (f1e35de)
• interactive: add informative error message for missing pyqt (1347a02)
• io.plugins: add warning when plugin load fails (ed5b184)

[main 8e66420] bump: version 2.10.0 → 2.11.0
2 files changed, 21 insertions(+), 1 deletion(-)

v2.10.0

v2.10.0 (2024-10-08)

Features

• io.plugins: add loader for beamline ID21 ESM at NSLS-II (c07e490)

  This commit adds a new data loader for beamline ID21 ESM at NSLS-II, Brookhaven National Laboratory.

• io.dataloader: add formatters (2ee9a4a)

  A new attribute named formatters and a new method get_formatted_attr_or_coord has been added to loaders. This allows custom per-attribute pretty-printing behavior.

• io: add parallel argument to load (88cd924)

• io: add xarray backend for igor files (1fe5ca5)

  .pxt, .pxp, and .ibw files can now be opened with xarray methods such as xr.open_dataset and xr.open_dataarray. See the updated user guide for more information.

Bug Fixes

• io.dataloader: properly reorder coordinates (3ebfb0f)

  Coordinate order was broken for loaders which assign coordinates in inherited post_process. This is now fixed, and returned data will be consistently ordered with respect to the mapping, with the dimension coordinates coming first.

• erlab.io.plugins.maestro: temporary fix for xarray issue (c2d04a3)

• io.plugins.da30: properly handle output types (6297aba)

  The DA30 loader now tries to return a dataset from .zip files only when there are no coordinate conflicts. In the case of conflicts, the loader will return a DataTree.

  Also, single region DA30 .pxt files will now return a DataArray consistent with the equivalent .ibw file.

• interactive.fermiedge: allow transposed input to fermi edge fitting tool (dcae75e)

• interactive.imagetool: retain attrs when exporting slice (1bed572)

  When accessing the data of a single slice from the right-click menu of ImageTool, the attributes of the original data are now kept. This allows saved slices or data opened in other tools to retain their attributes.

• resolve gui script not working on windows with conda (62253d0)

• io.dataloader: clear plot before loading in interactive summaries (21d6dea)

• plotting.general: fix plot_slices compatibility with slice object as argument (5948a7b)

• io: disable memmapping when loading data (c39da1b)

  Memmapping seemed to interfere loading multiple files when called through ipywidgets.

Code Refactor

• io.utils: use pathlib in get_files (b7a0f5b)

• io.plugins.merlin: combine ImageTool file menu into single entry (6e28ac2)

• io: add postprocessing and validation for DataTree objects (3fb3ff5)

• io: add warning when file is ambiguous (8daabb8)

• io: remove renaming steps from load_single in multi-file loaders (542f4f2)

  Combining before renaming coords should be more straightforward

• io: allow missing alpha coord (c9deed4)

  Validation checks will not warn about missing detector angle, allowing XPS measurements.

• io.dataloader: only allow real file or folder names as input (b9a59cc)

  The previous behavior allowed passing f_001.pxt to load f_001_S001.pxt, f_001_S002.pxt... but this was confusing since there is no file named f_001.pxt. This commit disallows such input.

• cleanup erplot namespace (007eedb)

• io: implement metaclass (e787b1c)

  Whenever the identify() method failed to find any files, subclasses had to explicitly raise FileNotFoundError. This resulted in a lot of boilerplate code and ambiguous error messages. Now, all subclasses can just return None in identify() when no files are found. The appropriate error is automatically raised.

• io.igor: raise OSError on load fail (6c7a4c4)

• move dataloader cell formatting implementation to utils module (0f2cb1c)

• io: deprecate calling igor functions from top level namespace (bb8af7c)

  Calling erlab.io.load_wave and erlab.io.load_experiment is deprecated. When writing new code, use xarray.load_dataarray and xarray.load_dataset instead.

Performance

• interactive.imagetool: improve manager speed (891c4ee)

[main 04f06a0] bump: version 2.9.1 → 2.10.0
2 files changed, 6 insertions(+), 2 deletions(-)

v2.9.1

v2.9.1 (2024-09-03)

Fix

• ui file compatibility with Qt5 (66c776d)

[main 2cf1ef8] bump: version 2.9.0 → 2.9.1
2 files changed, 7 insertions(+), 1 deletion(-)

v2.9.0

v2.9.0 (2024-08-30)

Feat

• interactive.imagetool: add rotation (fdeb8a9)

  A rotation dialog has been added to the Edit menu. Rotation guidelines can be overlaid on the main image.

• interactive.utils: add rotatable lines that can be rotated by dragging (31b55e5)

• analysis.transform: add rotate function (83a2ad8)

  Added a new function that can rotate DataArray values using spline interpolation. Previous simple implementations are marked as deprecated.

• utils.array: add new functiontrim_na (c628b5b)

  This function trims the edges of DataArrays where all values are NaN.

• accessors.kspace: add method argument (204073e)

  Momentum conversion through the convert() method of the kspace accessor now supports an additional keyword argument method that can be used to choose different interpolation methods supported by scipy.interpolate.RegularGridInterpolator. Note that methods other than 'linear' will take much longer to execute.

• analysis.interpolate: add solver args (24be3b0)

  FastInterpolator now supports solver and solver_args keyword arguments introduced in scipy 1.13.0.

• interactive.colors: implement BetterColorBarItem limit editor (7dd1477)

  A new context menu in BetterColorBarItem's viewbox enables manually editing color limits.

• analysis.interpolate: implement slicing along a vector (cba8567)

  A new function slice_along_vector has been added which enables interpolating through a line defined by a vector and a point.

• interactive.imagetool: add goldtool and dtool to menu (33d5e35)

  The interactive tools goldtool and dtool are now directly accessible from the right-click menu of 2D images in ImageTool.

• accessors.general: add option to qsel.around to disable averaging (5aaed85)

• plotting.general: add NonUniformImage functionality to plot_array (86d8c1a)

  plot_array can now plot data with unevenly spaced coordinates. It uses matplotlib.image.NonUniformImage with the default interpolation option set to 'nearest'. The resulting plot may be different from xarray.DataArray.plot which uses pcolormesh to generate image plots.

• interactive.imagetool: add copy limits to colorbar menu (29c37c4)

  Right-clicking on the colorbar will now show a menu which contains a button that copies the current color limits to the clipboard. This is useful when manually adjusting color limits.

Fix

• interactive.imagetool: properly disconnect signals (dce236f)
• interactive.imagetool: fix autoscale when loading data (2c12f59)
• interactive.imagetool: scale spinbox decimals relative to coordinate step size (9a801a5)
• interactive.utils: update BetterSpinBox width on changing decimals (0a70884)
• interactive: fix compatibility issue with PySide6 (da5f4af)
• interactive.imagetool: do not copy code when unnecessary (9131029)
• accessors.general: qshow now triggers hvplot properly for 1D data (8a84813)
• interactive.imagetool: make manager socket use default backlog (0ac7f0b)
• interactive.imagetool: ensure proper socket termination in manager (2cceb27)

Refactor

• interactive.utils: improve code generation (78c403f)

• analysis: move shift to transform (08baf05)

  The shift function has been moved from utils to transform. Calling from the utils module is now deprecated.

• analysis: cleanup namespace (e3e641d)

  Three functions that were directly accesible from the erlab.analysis namespace are now deprecated. Import them from their respective modules.

• remove deprecated module analysis.utilities (8b79ab5)

• analysis.image: add check for NaN in input (095554f)

  Derivative functions now check for NaNs in input data and raise a warning.

  The interactive derivative tool automatically fills NaNs in the input data with zeros and shows a warning message.

• remove unpacking inside np.r_ (6c27864)

• improve initial import time (f720973)

[main de5f096] bump: version 2.8.5 → 2.9.0
2 files changed, 24 insertions(+), 2 deletions(-)

v2.8.6

v2.8.6 (2024-08-07)

Refactor

• improve initial import time (f720973)

[main 511a2fc] bump: version 2.8.5 → 2.8.6
2 files changed, 7 insertions(+), 1 deletion(-)

v2.8.5

v2.8.5 (2024-07-31)

Fix

• plotting.annotations: properly pass keyword arguments in mark_points_outside (2136939)
• plotting.annotations: expose property label generation to public api (545781d)

[main 17678ef] bump: version 2.8.4 → 2.8.5
2 files changed, 8 insertions(+), 1 deletion(-)

v2.8.4

v2.8.4 (2024-07-26)

Ci

• (pre-commit) update ruff hook (709f0d2)

v2.8.4-alpha.1

v2.8.4-alpha.1 (2024-07-26)

Chore

• support numpy 2.0 (7927392)

Ci

• (semantic-release) change prerelease token to avoid conflict with setuptools-scm (8e0c726)

• (pre-commit) update config (f242ca0)

• add pre-release configuration (81a63a5)

• (rtd) cleanup obsolete environment and requirement files (37d93bc)

• (pre-commit) pre-commit autoupdate (ea5720d)

  updates: - github.com/astral-sh/ruff-pre-commit: v0.5.0 → v0.5.1

• (github) change schedule (144b554)

Documentation

• fix typos (e22d200)

• improve accessor and imagetool docstrings (5371767)

Fix

• (erlab.plotting.general) improve plot_array keyword versatility (1dc41cd)

  Enables additional kwargs with valid data dimensions as the key to be passed onto qsel.

• (erlab.analysis.gold) fix quick_fit attribute detection (3797f93)

• (interactive.imagetool) retain window title upon archiving (b5d8aa4)

Refactor

• (plotting.general) remove LabeledCursor (912b4fb)

  We skip the deprecation step since nobody is likely to be using it anyway.

• (accessors) split submodule (6ed5c03)

  Accessors in utils.py has been moved to general.py, so that utils.py only contains utilities for creating accessors.

• improve type annotations (b242f44)

Style

• apply ruff pylint checks (8265b90)

• enforce ruff SIM (1ce4d36)

• enforce ruff RET (99dd897)

• enforce ruff A (c6aa21c)

• enforce ruff E501 (885174f)

Test

• add missing tests (20e7634)

• (interactive) improve interactive tool test coverage (7f24b81)

v2.8.3

v2.8.3 (2024-07-08)

Ci

• (pre-commit) pre-commit autoupdate (4257d0c)

  updates: - github.com/astral-sh/ruff-pre-commit: v0.4.10 → v0.5.0

Fix

• (interactive.imagetool) various fixes related to manager (3d3f55e)

  This fix incorporates many changes to the ImageTool and ImageTool Manager.
  First, the archiving function of the manager now works properly, and tries to clear memory eagerly.
  When opening data from a file using the GUI, the name of the file will now be displayed in the title bar of the ImageTool. This file name is also propagated to the name displayed in the manager.
  Furthermore, the archiving and show/hide functionality of the manager has been updated to restore the window geometry automatically. When the user shows or unarchives a hidden or archived window, the previous position of the window is restored.
  Some icons and the layout of the manager has been modified, and tooltips has been added to the buttons.
  Also, some unexpected behavior regarding linking has been resolved.

• (plotting.plot3d) temporarily disable broken monkey patch (220f23f)

• replace broken signature for dynamic functions (39a3954)

• (interactive.imagetool) fix broken binning controls on loading fron GUI (0ca5437)

Refactor

• satisfy type checker (042a7b1)

• (interactive.imagetool) add batch close button to manager (efc6089)

v2.8.2

v2.8.2 (2024-07-01)

Chore

• (deps) pin numpy<2.0 until upstream dependencies are fixed (5b538ba)

Ci

• (github) allow manual trigger upload (a4c5959)

• (github) rename workflow file (e3615c4)

• (github) use single workflow file and test for different Qt libs (cd7d057)

• (pre-commit) pre-commit autoupdate (1a86288)

  updates: - github.com/astral-sh/ruff-pre-commit: v0.4.9 → v0.4.10

Documentation

• update conda installation instructions (a475543)

• improve user guide (400080e)

  Added some more information in the indexing guide and fixed typos in the curve fitting guide.

Fix

• (interactive.imagetool) fix crash while linking more than 3 tools (d5f8a30)

• update resistance loader (6fcf2ab)

Refactor

• (interactive.imagetool) show error message in GUI when opening file (287a7e8)