diff options
Diffstat (limited to 'gnu/packages/image-processing.scm')
| -rw-r--r-- | gnu/packages/image-processing.scm | 79 |
1 files changed, 79 insertions, 0 deletions
diff --git a/gnu/packages/image-processing.scm b/gnu/packages/image-processing.scm index 6c199792f8..ceef83f3b1 100644 --- a/gnu/packages/image-processing.scm +++ b/gnu/packages/image-processing.scm @@ -50,6 +50,7 @@ #:use-module (guix build-system cmake) #:use-module (guix build-system gnu) #:use-module (guix build-system python) + #:use-module (guix build-system pyproject) #:use-module (gnu packages) #:use-module (gnu packages algebra) #:use-module (gnu packages base) @@ -90,6 +91,7 @@ #:use-module (gnu packages pretty-print) #:use-module (gnu packages protobuf) #:use-module (gnu packages python) + #:use-module (gnu packages python-build) #:use-module (gnu packages python-check) #:use-module (gnu packages python-science) #:use-module (gnu packages python-xyz) @@ -1702,6 +1704,83 @@ purposes.") segmentation.") (license license:expat))) +(define-public python-pims + (package + (name "python-pims") + (version "0.6.1") + (source + (origin + (method url-fetch) + (uri (pypi-uri "PIMS" version)) + (sha256 + (base32 "0fsg353mbbj1ad06nwrp8p9xcrzy6rca6b52nvlbraaf3m309dz2")))) + (build-system pyproject-build-system) + (arguments + (list + #:test-flags + ;; We don't have all the (sometimes very large) data files, so we skip + ;; these tests. + '(list "--ignore=pims/tests/test_imseq.py" + "--ignore=pims/tests/test_norpix.py" + "-k" + (string-append " not TestImageReaderTIFF" + " and not TestOpenFiles" + " and not TestSpeStack" + " and not TestTiffStack_pil" + " and not TestTiffStack_tifffile" + " and not TestVideo_ImageIO")))) + (propagated-inputs + (list python-imageio python-numpy python-slicerator)) + (native-inputs (list python-pytest)) + (home-page "https://github.com/soft-matter/pims") + (synopsis "Python Image Sequence") + (description "Scientific video can be packaged in various ways: familiar +video formats like @file{.AVI} and @file{.MOV}, folders full of numbered +images, or \"stacks\" of TIFF images. Each of these requires a separate +Python module. And, once loaded, they have different methods for accessing +individual images, looping through the images in bulk, accessing a specific +range, or dealing with multidimensional files. PIMS can do all of these using +a consistent interface, handling the differences between different inputs +invisibly.") + (license license:bsd-3))) + +(define-public python-spatial-image + (package + (name "python-spatial-image") + (version "1.0.0") + (source + (origin + (method url-fetch) + (uri (pypi-uri "spatial_image" version)) + (sha256 + (base32 "0blyjwgv6bqpg7r3f4dcs7x27ysfm8n9y0zk5j7dxj74lma3wdsm")))) + (build-system pyproject-build-system) + (propagated-inputs (list python-numpy python-pytest python-pytest-mypy + python-xarray python-xarray-dataclasses)) + (native-inputs (list python-flit-core python-pytest)) + (home-page "https://github.com/spatial-image/spatial-image") + (synopsis "Multi-dimensional spatial image data structure") + (description "This package implements a multi-dimensional spatial image +data structure for scientific Python. + +To facilitate: + +@itemize +@item Multi-scale processing and analysis +@item Registration +@item Resampling +@item Subregion parallel processing +@item Coupling with meshes, point sets, and annotations +@end itemize + +with scientific images, which are typically multi-dimensional with anisotropic +sampling, this package provides a spatial-image data structure. In addition +to an N-dimensional array of pixel values, spatial metadata defines the +location of the pixel sampling grid in space time. It also labels the array +dimensions. This metadata is easily utilized and carried through image +processing pipelines.") + (license license:expat))) + (define-public labelme (package (name "labelme") |