Merge pull request #2470 from silx-kit/2025.03

branch for the 2025.03 release

Author: kif

README.rst

@@ -171,13 +171,12 @@ Getting help
 A mailing-list, [email protected], is available to get help on the program and how to use it.
 One needs to subscribe by sending an email to [email protected] with a subject "subscribe pyfai".
 
-
 Maintainers
 -----------
 
 * Jérôme Kieffer (ESRF)
 * Edgar Gutierrez Fernandez (ESRF)
-* Maciej Jankowski (ESRF)
+* Loïc Huder (ESRF)
 
 Contributors
 ------------
@@ -189,12 +188,12 @@ Contributors
 * Aurore Deschildre (Formerly ESRF)
 * Giannis Ashiotis (Formerly ESRF)
 * Zubair Nawaz (Formerly Sesame)
-* Loïc Huder (ESRF)
 * Jon Wright (ESRF)
 * Amund Hov (Formerly ESRF)
 * Dodogerstlin @github
 * Gunthard Benecke (Desy)
 * Gero Flucke (Desy)
+* Maciej Jankowski (ESRF)
 
 Indirect contributors (ideas...)
 --------------------------------

doc/source/changelog.rst

@@ -1,10 +1,32 @@
 :Author: Jérôme Kieffer
-:Date: 30/01/2025
+:Date: 13/03/2025
 :Keywords: changelog
 
 Change-log of versions
 ======================
 
+2025.03 14/03/2025
+------------------
+
+- Bug fix version (Thanks to Fred Picca/Debian for testing on many architectures)
+- Use automatically dynamic mask for Dectris detector data
+
+  * Automatically recognizes and masks out bad pixel
+  * `dummy` and `delta_dummy` values are already known from the manufacturer
+  * empty bins are no more marked with the `dummy` value (which can be very large for Eiger) but with the `empty` value which is fully under control of the user, 0.0 by default.
+
+- Improve the plot generated by the benchmarking tool (Thanks to Jon)
+- `MultiGeometry` allows the mixing of different kind of detectors (Thanks ThomasK)
+- `WorkerConfig` dataclass, many fixes at several places, Ewoks compatibility.
+- `Diffmap` compatiblity with binned images
+- `Pilx` uses now the dynamic mask to hide hot/defective pixels
+- Improvement of the `fake_calibration_image` to provide both `Imin` and `Imax`
+- New Lambda 9M detector
+- Improved support of FiberIntegrator for using the correct fiber units and key parameters
+- Supports python 3.9 to 3.13. The GIL-free version on python 3.13 is untested.
+- Tested by the developers on Windows (amd64), linux (amd64, arm64 and ppc64le) and MacOS (amd64 and arm64).
+- A dozen of Pull-requests by Thomas Kluyver, Loic Huder, Edgar Gutierrez-Fernandez and Jérôme Kieffer
+
 2025.01 31/01/2025
 ------------------
 

doc/source/coverage.rst

@@ -1,7 +1,7 @@
 Test coverage report for pyFAI
 ==============================
 
-Measured on *pyFAI* version 2025.1.0-beta0, 30/01/2025
+Measured on *pyFAI* version 2025.3.0, 13/03/2025
 
 .. csv-table:: Test suite coverage
    :header: "Name", "Stmts", "Exec", "Cover"
@@ -11,25 +11,25 @@ Measured on *pyFAI* version 2025.1.0-beta0, 30/01/2025
    "average.py", "516", "361", "70.0 %"
    "azimuthalIntegrator.py", "11", "11", "100.0 %"
    "blob_detection.py", "502", "191", "38.0 %"
-   "calibrant.py", "508", "377", "74.2 %"
+   "calibrant.py", "513", "382", "74.5 %"
    "containers.py", "504", "457", "90.7 %"
    "control_points.py", "360", "136", "37.8 %"
-   "diffmap.py", "512", "213", "41.6 %"
+   "diffmap.py", "515", "214", "41.6 %"
    "directories.py", "21", "16", "76.2 %"
-   "distortion.py", "605", "386", "63.8 %"
+   "distortion.py", "605", "387", "64.0 %"
    "geometryRefinement.py", "571", "293", "51.3 %"
    "goniometer.py", "566", "340", "60.1 %"
    "grid.py", "38", "15", "39.5 %"
    "load_integrators.py", "11", "11", "100.0 %"
-   "massif.py", "240", "199", "82.9 %"
-   "method_registry.py", "353", "288", "81.6 %"
+   "massif.py", "240", "196", "81.7 %"
+   "method_registry.py", "353", "299", "84.7 %"
    "multi_geometry.py", "371", "164", "44.2 %"
    "parallax.py", "249", "211", "84.7 %"
    "ring_extraction.py", "119", "111", "93.3 %"
    "spline.py", "427", "252", "59.0 %"
-   "units.py", "372", "350", "94.1 %"
-   "version.py", "63", "51", "81.0 %"
-   "worker.py", "445", "298", "67.0 %"
+   "units.py", "382", "358", "93.7 %"
+   "version.py", "63", "46", "73.0 %"
+   "worker.py", "487", "336", "69.0 %"
    "app/__init__.py", "7", "7", "100.0 %"
    "app/average.py", "175", "34", "19.4 %"
    "app/benchmark.py", "63", "18", "28.6 %"
@@ -41,18 +41,18 @@ Measured on *pyFAI* version 2025.1.0-beta0, 30/01/2025
    "app/diff_tomo.py", "108", "24", "22.2 %"
    "app/drawmask.py", "106", "33", "31.1 %"
    "app/eiger_mask.py", "58", "23", "39.7 %"
-   "app/integrate.py", "507", "378", "74.6 %"
+   "app/integrate.py", "525", "395", "75.2 %"
    "app/mx_calibrate.py", "26", "16", "61.5 %"
    "app/peakfinder.py", "290", "55", "19.0 %"
    "app/pilx.py", "27", "14", "51.9 %"
    "app/recalib.py", "27", "16", "59.3 %"
    "app/saxs.py", "86", "24", "27.9 %"
    "app/sparsify.py", "285", "56", "19.6 %"
    "app/waxs.py", "98", "25", "25.5 %"
-   "benchmark/__init__.py", "626", "86", "13.7 %"
+   "benchmark/__init__.py", "632", "86", "13.6 %"
    "detectors/__init__.py", "24", "24", "100.0 %"
    "detectors/_adsc.py", "76", "76", "100.0 %"
-   "detectors/_common.py", "875", "637", "72.8 %"
+   "detectors/_common.py", "888", "647", "72.9 %"
    "detectors/_dectris.py", "420", "302", "71.9 %"
    "detectors/_esrf.py", "97", "83", "85.6 %"
    "detectors/_hexagonal.py", "73", "70", "95.9 %"
@@ -61,27 +61,27 @@ Measured on *pyFAI* version 2025.1.0-beta0, 30/01/2025
    "detectors/_others.py", "133", "120", "90.2 %"
    "detectors/_psi.py", "197", "120", "60.9 %"
    "detectors/_rayonix.py", "264", "226", "85.6 %"
-   "detectors/_xspectrum.py", "51", "48", "94.1 %"
+   "detectors/_xspectrum.py", "61", "53", "86.9 %"
    "detectors/orientation.py", "36", "36", "100.0 %"
    "engines/CSC_engine.py", "211", "140", "66.4 %"
    "engines/CSR_engine.py", "250", "244", "97.6 %"
    "engines/__init__.py", "19", "19", "100.0 %"
-   "engines/histogram_engine.py", "94", "87", "92.6 %"
+   "engines/histogram_engine.py", "94", "88", "93.6 %"
    "engines/preproc.py", "114", "93", "81.6 %"
    "ext/__init__.py", "3", "3", "100.0 %"
    "geometry/__init__.py", "9", "9", "100.0 %"
-   "geometry/core.py", "1247", "1028", "82.4 %"
+   "geometry/core.py", "1268", "1046", "82.5 %"
    "geometry/crystfel.py", "162", "148", "91.4 %"
    "geometry/cxi.py", "1", "1", "100.0 %"
    "geometry/fit2d.py", "114", "103", "90.4 %"
    "geometry/imaged11.py", "116", "101", "87.1 %"
-   "gui/ApplicationContext.py", "107", "52", "48.6 %"
+   "gui/ApplicationContext.py", "107", "50", "46.7 %"
    "gui/CalibrationContext.py", "224", "130", "58.0 %"
    "gui/CalibrationWindow.py", "192", "169", "88.0 %"
-   "gui/IntegrationDialog.py", "205", "55", "26.8 %"
+   "gui/IntegrationDialog.py", "207", "56", "27.1 %"
    "gui/__init__.py", "4", "4", "100.0 %"
    "gui/cli_calibration.py", "1599", "104", "6.5 %"
-   "gui/diffmap_widget.py", "462", "74", "16.0 %"
+   "gui/diffmap_widget.py", "461", "74", "16.1 %"
    "gui/matplotlib.py", "34", "27", "79.4 %"
    "gui/mpl_calib.py", "244", "40", "16.4 %"
    "gui/mpl_calib_qt.py", "49", "21", "42.9 %"
@@ -129,28 +129,28 @@ Measured on *pyFAI* version 2025.1.0-beta0, 30/01/2025
    "gui/model/PreProcessedImageModel.py", "55", "46", "83.6 %"
    "gui/model/__init__.py", "4", "4", "100.0 %"
    "gui/pilx/HorizontalRangeROI.py", "17", "13", "76.5 %"
-   "gui/pilx/MainWindow.py", "274", "46", "16.8 %"
+   "gui/pilx/MainWindow.py", "285", "49", "17.2 %"
    "gui/pilx/__init__.py", "0", "0", "0.0 %"
    "gui/pilx/models.py", "10", "10", "100.0 %"
    "gui/pilx/point.py", "20", "7", "35.0 %"
-   "gui/pilx/utils.py", "63", "24", "38.1 %"
+   "gui/pilx/utils.py", "75", "26", "34.7 %"
    "gui/pilx/widgets/ClearPointsAction.py", "17", "13", "76.5 %"
    "gui/pilx/widgets/DiffractionImagePlotWidget.py", "44", "20", "45.5 %"
    "gui/pilx/widgets/ImagePlotWidget.py", "69", "29", "42.0 %"
    "gui/pilx/widgets/IntegratedPatternPlotWidget.py", "97", "30", "30.9 %"
    "gui/pilx/widgets/MapPlotContextMenu.py", "50", "22", "44.0 %"
-   "gui/pilx/widgets/MapPlotWidget.py", "148", "39", "26.4 %"
+   "gui/pilx/widgets/MapPlotWidget.py", "149", "39", "26.2 %"
    "gui/pilx/widgets/OpenAxisDatasetAction.py", "30", "16", "53.3 %"
    "gui/pilx/widgets/RoiModeAction.py", "25", "15", "60.0 %"
    "gui/pilx/widgets/RoiRangeWidget.py", "51", "19", "37.3 %"
    "gui/pilx/widgets/TitleWidget.py", "13", "10", "76.9 %"
    "gui/pilx/widgets/__init__.py", "0", "0", "0.0 %"
    "gui/tasks/AbstractCalibrationTask.py", "79", "72", "91.1 %"
    "gui/tasks/ExperimentTask.py", "344", "251", "73.0 %"
-   "gui/tasks/GeometryTask.py", "814", "376", "46.2 %"
-   "gui/tasks/IntegrationTask.py", "845", "304", "36.0 %"
+   "gui/tasks/GeometryTask.py", "814", "382", "46.9 %"
+   "gui/tasks/IntegrationTask.py", "831", "304", "36.6 %"
    "gui/tasks/MaskTask.py", "221", "148", "67.0 %"
-   "gui/tasks/PeakPickingTask.py", "1361", "588", "43.2 %"
+   "gui/tasks/PeakPickingTask.py", "1361", "592", "43.5 %"
    "gui/tasks/__init__.py", "4", "4", "100.0 %"
    "gui/test/__init__.py", "51", "34", "66.7 %"
    "gui/utils/FilterBuilder.py", "44", "14", "31.8 %"
@@ -189,7 +189,7 @@ Measured on *pyFAI* version 2025.1.0-beta0, 30/01/2025
    "gui/widgets/QuantityLabel.py", "132", "80", "60.6 %"
    "gui/widgets/UnitLabel.py", "69", "35", "50.7 %"
    "gui/widgets/UnitSelector.py", "84", "81", "96.4 %"
-   "gui/widgets/WorkerConfigurator.py", "476", "313", "65.8 %"
+   "gui/widgets/WorkerConfigurator.py", "467", "305", "65.3 %"
    "gui/widgets/__init__.py", "4", "4", "100.0 %"
    "gui/widgets/model/AllDetectorItemModel.py", "65", "62", "95.4 %"
    "gui/widgets/model/CalibrantFilterProxyModel.py", "34", "23", "67.6 %"
@@ -199,26 +199,26 @@ Measured on *pyFAI* version 2025.1.0-beta0, 30/01/2025
    "gui/widgets/test/TestQuantityEdit.py", "71", "69", "97.2 %"
    "gui/widgets/test/__init__.py", "16", "14", "87.5 %"
    "integrator/__init__.py", "9", "9", "100.0 %"
-   "integrator/azimuthal.py", "1214", "956", "78.7 %"
-   "integrator/common.py", "757", "359", "47.4 %"
-   "integrator/fiber.py", "183", "176", "96.2 %"
+   "integrator/azimuthal.py", "1222", "962", "78.7 %"
+   "integrator/common.py", "758", "360", "47.5 %"
+   "integrator/fiber.py", "230", "190", "82.6 %"
    "integrator/load_engines.py", "166", "121", "72.9 %"
-   "io/__init__.py", "568", "371", "65.3 %"
+   "io/__init__.py", "575", "375", "65.2 %"
    "io/_json.py", "15", "12", "80.0 %"
    "io/image.py", "32", "27", "84.4 %"
-   "io/integration_config.py", "420", "346", "82.4 %"
-   "io/nexus.py", "437", "373", "85.4 %"
-   "io/ponifile.py", "205", "177", "86.3 %"
+   "io/integration_config.py", "470", "391", "83.2 %"
+   "io/nexus.py", "448", "380", "84.8 %"
+   "io/ponifile.py", "216", "177", "81.9 %"
    "io/sparse_frame.py", "153", "24", "15.7 %"
    "io/spots.py", "212", "139", "65.6 %"
    "io/xrdml.py", "77", "76", "98.7 %"
    "opencl/OCLFullSplit.py", "199", "24", "12.1 %"
-   "opencl/__init__.py", "50", "42", "84.0 %"
-   "opencl/azim_csr.py", "708", "498", "70.3 %"
-   "opencl/azim_hist.py", "477", "344", "72.1 %"
-   "opencl/azim_lut.py", "333", "251", "75.4 %"
+   "opencl/__init__.py", "50", "34", "68.0 %"
+   "opencl/azim_csr.py", "708", "496", "70.1 %"
+   "opencl/azim_hist.py", "477", "340", "71.3 %"
+   "opencl/azim_lut.py", "333", "247", "74.2 %"
    "opencl/ocl_hist_pixelsplit.py", "223", "27", "12.1 %"
-   "opencl/peak_finder.py", "472", "370", "78.4 %"
+   "opencl/peak_finder.py", "472", "366", "77.5 %"
    "opencl/preproc.py", "226", "174", "77.0 %"
    "opencl/sort.py", "282", "223", "79.1 %"
    "opencl/test/__init__.py", "27", "27", "100.0 %"
@@ -231,16 +231,16 @@ Measured on *pyFAI* version 2025.1.0-beta0, 30/01/2025
    "utils/__init__.py", "129", "75", "58.1 %"
    "utils/bayes.py", "100", "67", "67.0 %"
    "utils/callback.py", "14", "11", "78.6 %"
-   "utils/decorators.py", "72", "70", "97.2 %"
+   "utils/decorators.py", "72", "71", "98.6 %"
    "utils/ellipse.py", "82", "79", "96.3 %"
    "utils/grid.py", "87", "64", "73.6 %"
    "utils/header_utils.py", "74", "59", "79.7 %"
    "utils/logging_utils.py", "50", "48", "96.0 %"
    "utils/mask_utils.py", "73", "41", "56.2 %"
-   "utils/mathutil.py", "508", "357", "70.3 %"
+   "utils/mathutil.py", "512", "361", "70.5 %"
    "utils/multiprocessing.py", "18", "13", "72.2 %"
    "utils/orderedset.py", "54", "13", "24.1 %"
    "utils/shell.py", "55", "46", "83.6 %"
-   "utils/stringutil.py", "89", "81", "91.0 %"
+   "utils/stringutil.py", "89", "77", "86.5 %"
 
-   "pyFAI total", "40536", "22731", "56.1 %"
+   "pyFAI total", "40805", "22900", "56.1 %"