@@ 2126,6 2126,41 @@ support for reading and writing various compression algorithms including:
@url{http://facebook.github.io/zstd/,Zstandard}.")
(license license:bsd-3))))
+(define-public python-asdf-standard
+ (package
+ (name "python-asdf-standard")
+ (version "1.3.0")
+ (source
+ (origin
+ (method url-fetch)
+ (uri (pypi-uri "asdf_standard" version))
+ (sha256
+ (base32
+ "0r7dxbiwngpwwjdbs2vqk94v1vjsgyilswkq180d5slx74grcn2r"))))
+ (build-system pyproject-build-system)
+ (native-inputs
+ (list python-asdf-bootstrap
+ python-asdf-transform-schemas-bootstrap
+ python-astropy-minimal
+ python-jsonschema
+ python-pypa-build
+ python-pytest
+ python-packaging
+ python-setuptools-next
+ python-setuptools-scm
+ python-wheel))
+ (home-page "https://asdf-standard.readthedocs.io/")
+ (synopsis "ASDF standard schemas")
+ (description
+ "This package provides Python implementation of @acronym{ASDF, Advanced
+Scientific Data Format} - a proposed next generation interchange format for
+scientific data. ASDF aims to exist in the same middle ground that made FITS
+so successful, by being a hybrid text and binary format: containing human
+editable metadata for interchange, and raw binary data that is fast to load
+and use. Unlike FITS, the metadata is highly structured and is designed
+up-front for extensibility.")
+ (license license:bsd-3)))
+
(define-public python-asdf-transform-schemas
(hidden-package
(package
@@ 5780,6 5815,54 @@ binned galaxy positions or shear) in cylindrical projection, but its core
functionality is more general.")
(license license:bsd-3)))
+(define-public python-poppy
+ (package
+ (name "python-poppy")
+ (version "1.1.2")
+ (source
+ (origin
+ (method url-fetch)
+ (uri (pypi-uri "poppy" version))
+ (sha256
+ (base32 "0mvnd9rlglb1cqhaavd2lyxnvi4xmc133x50rzzlh00xn0gyxgfq"))))
+ (build-system pyproject-build-system)
+ (arguments
+ (list
+ #:test-flags
+ #~(list "--numprocesses" (number->string (parallel-job-count)))))
+ (native-inputs
+ (list python-docutils
+ python-pytest
+ python-pytest-astropy
+ python-pytest-xdist
+ python-setuptools-scm
+ python-wheel))
+ (propagated-inputs
+ ;; XXX: With python-synphot (marked as optional) package added to the list
+ ;; it tries to download from remote host during tests and fails. Overall
+ ;; tests take up to 5-8min to pass.
+ (list python-astropy
+ python-matplotlib
+ python-numexpr
+ python-numpy
+ python-scipy))
+ (home-page "https://poppy-optics.readthedocs.io/")
+ (synopsis "Physical Optics Propagation in Python")
+ (description
+ "@acronym{POPPY, Physical Optics Propagation in Python} is a Python package that
+simulates physical optical propagation including diffraction. It implements a
+flexible framework for modeling Fraunhofer and Fresnel diffraction and point
+spread function formation, particularly in the context of astronomical
+telescopes.
+
+POPPY was developed as part of a simulation package for the James Webb Space
+Telescope, but is more broadly applicable to many kinds of imaging simulations.
+It is not, however, a substitute for high fidelity optical design software such
+as Zemax or Code V, but rather is intended as a lightweight alternative for
+cases for which diffractive rather than geometric optics is the topic of
+interest, and which require portability between platforms or ease of scripting.")
+ (license license:bsd-3)))
+
(define-public python-pvextractor
(package
(name "python-pvextractor")
@@ 6124,6 6207,48 @@ data. Pysat's plug-in design allows analysis support for any data, including
user provided data sets.")
(license license:bsd-3)))
+(define-public python-pysiaf
+ (package
+ (name "python-pysiaf")
+ (version "0.24.1")
+ (source
+ (origin
+ (method url-fetch)
+ (uri (pypi-uri "pysiaf" version))
+ (sha256
+ (base32 "0jgs50jmisv7b7am677q2c3kqjk0fch8gpvijzhdllhkav9wdhs0"))))
+ (build-system pyproject-build-system)
+ (arguments
+ (list
+ #:test-flags
+ #~(list "--numprocesses" (number->string (parallel-job-count))
+ ;; Disable 2 failing tests, see
+ ;; <https://github.com/spacetelescope/pysiaf/issues/338>
+ "-k" (string-append "not test_write_jwst_siaf_xlsx"
+ " and not test_write_jwst_siaf_xml" ))))
+ (native-inputs
+ (list python-pytest
+ python-pytest-xdist
+ python-setuptools
+ python-setuptools-scm
+ python-wheel))
+ (propagated-inputs
+ (list python-astropy
+ python-lxml
+ python-matplotlib
+ python-numpy
+ python-openpyxl
+ python-requests
+ python-scipy))
+ (home-page "https://pysiaf.readthedocs.io/")
+ (synopsis "Handling SIAF for space telescopes")
+ (description
+ "@code{pysiaf} is a python package to access, interpret, maintain, and
+generate @acronym{Handling of Science Instrument Aperture Files, SIAF}, in
+particular for JWST. Tools for applying the frame transformations, plotting,
+comparison, and validation are provided.")
+ (license license:bsd-3)))
+
(define-public python-pysiril
(package
(name "python-pysiril")
@@ 6233,6 6358,48 @@ experiments. It is a large refactor of
memory usage, improving performance and run in parallel with MPI.")
(license license:bsd-3)))
+(define-public python-pyvo
+ (package
+ (name "python-pyvo")
+ (version "1.7")
+ (source
+ (origin
+ (method url-fetch)
+ (uri (pypi-uri "pyvo" version))
+ (sha256
+ (base32 "0813ws6g6mns3g3k4xgj54pcp6hw42q47psm7q8jswqhskpxkym6"))))
+ (build-system pyproject-build-system)
+ (arguments
+ (list
+ #:test-flags
+ #~(list "--pyargs" "pyvo"
+ ;; XXX: Some data file was not copied in install phase:
+ ;; urllib.error.URLError: <urlopen error [Errno 2] No such file
+ ;; or directory
+ ;; <.../lib/python3.11/site-packages/pyvo/mivot/writer/mivot-v1.xsd>.
+ "-k" (string-join
+ (list "not test_all_properties"
+ "test_extraction_from_votable_header")
+ " and not "))))
+ (native-inputs
+ (list python-pytest-astropy
+ python-pytest-doctestplus
+ python-requests-mock
+ python-setuptools
+ python-setuptools-scm
+ python-wheel))
+ (propagated-inputs
+ (list python-astropy
+ python-defusedxml ; extra requirements
+ python-pillow ; extra requirements
+ python-requests))
+ (home-page "https://github.com/astropy/pyvo")
+ (synopsis "Access Virtual Observatory data and services")
+ (description
+ "PyVO is a package providing access to remote data and services of the
+Virtual observatory (VO) using Python.")
+ (license license:bsd-3)))
+
(define-public python-pyxsim
(package
(name "python-pyxsim")
@@ 6288,6 6455,48 @@ export the simulated X-ray events to other software packages to simulate the
end products of specific X-ray observatories.")
(license license:bsd-3)))
+(define-public python-rad
+ (package
+ (name "python-rad")
+ (version "0.27.0")
+ (source
+ (origin
+ (method url-fetch)
+ (uri (pypi-uri "rad" version))
+ (sha256
+ (base32 "04vzqkcw6la5n2jw92khmqnizs2nf5vb27nknn3c6wj1jwfwl6bv"))))
+ (build-system pyproject-build-system)
+ (arguments
+ (list
+ ;; 1131 passed, 1 skipped
+ #:test-flags
+ ;; Ignore tests requiring python-crds to break cycle:
+ ;; python-rad -> python-roman-datamodels -> python-crds -> python-rad
+ #~(list "--ignore=tests/test_schemas.py"
+ ;; E git.exc.InvalidGitRepositoryError
+ "--ignore=tests/test_versioning.py"
+ ;; E TypeError: the JSON object must be str, bytes or bytearray,
+ ;; not NoneType
+ "--ignore=tests/test_latest.py")))
+ (native-inputs
+ (list python-pytest
+ python-pytest-doctestplus
+ python-semantic-version
+ python-setuptools-next
+ python-setuptools-scm))
+ (propagated-inputs
+ (list python-asdf
+ python-asdf-astropy))
+ (home-page "https://github.com/spacetelescope/rad")
+ (synopsis "Roman Attribute Dictionary")
+ (description
+ "@acronym{RAD, The Roman Attribute Dictionary} is package which defines
+schemas for the Nancy Grace Roman Space Telescope shared attributes for
+processing and archive. These schemas are schemas for the ASDF file file
+format, which are used by ASDF to serialize and deserialize data for the Nancy
+Grace Roman Space Telescope.")
+ (license license:bsd-3)))
+
(define-public python-radiospectra
(package
(name "python-radiospectra")
@@ 6334,6 6543,49 @@ end products of specific X-ray observatories.")
solar physics.")
(license license:bsd-2)))
+(define-public python-regions
+ (package
+ (name "python-regions")
+ (version "0.10")
+ (source
+ (origin
+ (method url-fetch)
+ (uri (pypi-uri "regions" version))
+ (sha256
+ (base32 "10cswrknj3qh9i1daynlx4ild66lwcyra5rs03h8s9j4l275274n"))))
+ (build-system pyproject-build-system)
+ (arguments
+ (list
+ #:test-flags
+ #~(list "--numprocesses" (number->string (parallel-job-count)))
+ #:phases
+ #~(modify-phases %standard-phases
+ (replace 'check
+ (lambda* (#:key tests? test-flags #:allow-other-keys)
+ (with-directory-excursion #$output
+ (apply invoke "pytest" "-vv" test-flags)))))))
+ (propagated-inputs
+ (list python-astropy
+ python-h5py
+ python-matplotlib
+ python-numpy
+ python-scipy
+ python-shapely))
+ (native-inputs
+ (list python-cython-3
+ python-extension-helpers
+ python-pytest-arraydiff
+ python-pytest-astropy
+ python-pytest-runner
+ python-pytest-xdist
+ python-setuptools
+ python-setuptools-scm
+ python-wheel))
+ (home-page "https://github.com/astropy/regions")
+ (synopsis "Package for region handling")
+ (description "Regions is an Astropy package for region handling.")
+ (license license:bsd-3)))
+
(define-public python-regularizepsf
(package
(name "python-regularizepsf")
@@ 7152,54 7404,6 @@ applications, but can also be used to analyze artificial satellites in
Low-Earth Orbit (LEO).")
(license license:expat)))
-(define-public python-poppy
- (package
- (name "python-poppy")
- (version "1.1.2")
- (source
- (origin
- (method url-fetch)
- (uri (pypi-uri "poppy" version))
- (sha256
- (base32 "0mvnd9rlglb1cqhaavd2lyxnvi4xmc133x50rzzlh00xn0gyxgfq"))))
- (build-system pyproject-build-system)
- (arguments
- (list
- #:test-flags
- #~(list "--numprocesses" (number->string (parallel-job-count)))))
- (native-inputs
- (list python-docutils
- python-pytest
- python-pytest-astropy
- python-pytest-xdist
- python-setuptools-scm
- python-wheel))
- (propagated-inputs
- ;; XXX: With python-synphot (marked as optional) package added to the list
- ;; it tries to download from remote host during tests and fails. Overall
- ;; tests take up to 5-8min to pass.
- (list python-astropy
- python-matplotlib
- python-numexpr
- python-numpy
- python-scipy))
- (home-page "https://poppy-optics.readthedocs.io/")
- (synopsis "Physical Optics Propagation in Python")
- (description
- "@acronym{POPPY, Physical Optics Propagation in Python} is a Python package that
-simulates physical optical propagation including diffraction. It implements a
-flexible framework for modeling Fraunhofer and Fresnel diffraction and point
-spread function formation, particularly in the context of astronomical
-telescopes.
-
-POPPY was developed as part of a simulation package for the James Webb Space
-Telescope, but is more broadly applicable to many kinds of imaging simulations.
-It is not, however, a substitute for high fidelity optical design software such
-as Zemax or Code V, but rather is intended as a lightweight alternative for
-cases for which diffractive rather than geometric optics is the topic of
-interest, and which require portability between platforms or ease of scripting.")
- (license license:bsd-3)))
-
(define-public python-pyavm
(package
(name "python-pyavm")
@@ 7228,48 7432,6 @@ interest, and which require portability between platforms or ease of scripting."
@url{https://www.virtualastronomy.org/avm_metadata.php, vamp} project.")
(license license:expat)))
-(define-public python-pyvo
- (package
- (name "python-pyvo")
- (version "1.7")
- (source
- (origin
- (method url-fetch)
- (uri (pypi-uri "pyvo" version))
- (sha256
- (base32 "0813ws6g6mns3g3k4xgj54pcp6hw42q47psm7q8jswqhskpxkym6"))))
- (build-system pyproject-build-system)
- (arguments
- (list
- #:test-flags
- #~(list "--pyargs" "pyvo"
- ;; XXX: Some data file was not copied in install phase:
- ;; urllib.error.URLError: <urlopen error [Errno 2] No such file
- ;; or directory
- ;; <.../lib/python3.11/site-packages/pyvo/mivot/writer/mivot-v1.xsd>.
- "-k" (string-join
- (list "not test_all_properties"
- "test_extraction_from_votable_header")
- " and not "))))
- (native-inputs
- (list python-pytest-astropy
- python-pytest-doctestplus
- python-requests-mock
- python-setuptools
- python-setuptools-scm
- python-wheel))
- (propagated-inputs
- (list python-astropy
- python-defusedxml ; extra requirements
- python-pillow ; extra requirements
- python-requests))
- (home-page "https://github.com/astropy/pyvo")
- (synopsis "Access Virtual Observatory data and services")
- (description
- "PyVO is a package providing access to remote data and services of the
-Virtual observatory (VO) using Python.")
- (license license:bsd-3)))
-
(define-public python-reproject
(package
(name "python-reproject")
@@ 7949,48 8111,6 @@ astrophysical simulations supporting PKDGRAV/Gasoline, Gadget, Gadget4/Arepo,
N-Chilada and RAMSES AMR outputs.")
(license license:gpl3+)))
-(define-public python-pysiaf
- (package
- (name "python-pysiaf")
- (version "0.24.1")
- (source
- (origin
- (method url-fetch)
- (uri (pypi-uri "pysiaf" version))
- (sha256
- (base32 "0jgs50jmisv7b7am677q2c3kqjk0fch8gpvijzhdllhkav9wdhs0"))))
- (build-system pyproject-build-system)
- (arguments
- (list
- #:test-flags
- #~(list "--numprocesses" (number->string (parallel-job-count))
- ;; Disable 2 failing tests, see
- ;; <https://github.com/spacetelescope/pysiaf/issues/338>
- "-k" (string-append "not test_write_jwst_siaf_xlsx"
- " and not test_write_jwst_siaf_xml" ))))
- (native-inputs
- (list python-pytest
- python-pytest-xdist
- python-setuptools
- python-setuptools-scm
- python-wheel))
- (propagated-inputs
- (list python-astropy
- python-lxml
- python-matplotlib
- python-numpy
- python-openpyxl
- python-requests
- python-scipy))
- (home-page "https://pysiaf.readthedocs.io/")
- (synopsis "Handling SIAF for space telescopes")
- (description
- "@code{pysiaf} is a python package to access, interpret, maintain, and
-generate @acronym{Handling of Science Instrument Aperture Files, SIAF}, in
-particular for JWST. Tools for applying the frame transformations, plotting,
-comparison, and validation are provided.")
- (license license:bsd-3)))
-
(define-public python-pysynphot
;; XXX: 2.0.0 was released in 2021 there are a lot of changes since that
;; time and it failed to build with python-astropy 6.0.0, use the latest
@@ 8043,41 8163,6 @@ photometric systems are available, and users can incorporate their own filters,
spectra, and data.")
(license license:bsd-3))))
-(define-public python-asdf-standard
- (package
- (name "python-asdf-standard")
- (version "1.3.0")
- (source
- (origin
- (method url-fetch)
- (uri (pypi-uri "asdf_standard" version))
- (sha256
- (base32
- "0r7dxbiwngpwwjdbs2vqk94v1vjsgyilswkq180d5slx74grcn2r"))))
- (build-system pyproject-build-system)
- (native-inputs
- (list python-asdf-bootstrap
- python-asdf-transform-schemas-bootstrap
- python-astropy-minimal
- python-jsonschema
- python-pypa-build
- python-pytest
- python-packaging
- python-setuptools-next
- python-setuptools-scm
- python-wheel))
- (home-page "https://asdf-standard.readthedocs.io/")
- (synopsis "ASDF standard schemas")
- (description
- "This package provides Python implementation of @acronym{ASDF, Advanced
-Scientific Data Format} - a proposed next generation interchange format for
-scientific data. ASDF aims to exist in the same middle ground that made FITS
-so successful, by being a hybrid text and binary format: containing human
-editable metadata for interchange, and raw binary data that is fast to load
-and use. Unlike FITS, the metadata is highly structured and is designed
-up-front for extensibility.")
- (license license:bsd-3)))
-
(define-public python-asdf-coordinates-schemas
(hidden-package
(package
@@ 8151,48 8236,6 @@ implementation package such as asdf-astropy.")
"This package provides ASDF schemas for validating FITS tags.")
(license license:bsd-3)))))
-(define-public python-rad
- (package
- (name "python-rad")
- (version "0.27.0")
- (source
- (origin
- (method url-fetch)
- (uri (pypi-uri "rad" version))
- (sha256
- (base32 "04vzqkcw6la5n2jw92khmqnizs2nf5vb27nknn3c6wj1jwfwl6bv"))))
- (build-system pyproject-build-system)
- (arguments
- (list
- ;; 1131 passed, 1 skipped
- #:test-flags
- ;; Ignore tests requiring python-crds to break cycle:
- ;; python-rad -> python-roman-datamodels -> python-crds -> python-rad
- #~(list "--ignore=tests/test_schemas.py"
- ;; E git.exc.InvalidGitRepositoryError
- "--ignore=tests/test_versioning.py"
- ;; E TypeError: the JSON object must be str, bytes or bytearray,
- ;; not NoneType
- "--ignore=tests/test_latest.py")))
- (native-inputs
- (list python-pytest
- python-pytest-doctestplus
- python-semantic-version
- python-setuptools-next
- python-setuptools-scm))
- (propagated-inputs
- (list python-asdf
- python-asdf-astropy))
- (home-page "https://github.com/spacetelescope/rad")
- (synopsis "Roman Attribute Dictionary")
- (description
- "@acronym{RAD, The Roman Attribute Dictionary} is package which defines
-schemas for the Nancy Grace Roman Space Telescope shared attributes for
-processing and archive. These schemas are schemas for the ASDF file file
-format, which are used by ASDF to serialize and deserialize data for the Nancy
-Grace Roman Space Telescope.")
- (license license:bsd-3)))
-
(define-public python-radio-beam
(package
(name "python-radio-beam")
@@ 8230,49 8273,6 @@ channels
@end itemize")
(license license:bsd-3)))
-(define-public python-regions
- (package
- (name "python-regions")
- (version "0.10")
- (source
- (origin
- (method url-fetch)
- (uri (pypi-uri "regions" version))
- (sha256
- (base32 "10cswrknj3qh9i1daynlx4ild66lwcyra5rs03h8s9j4l275274n"))))
- (build-system pyproject-build-system)
- (arguments
- (list
- #:test-flags
- #~(list "--numprocesses" (number->string (parallel-job-count)))
- #:phases
- #~(modify-phases %standard-phases
- (replace 'check
- (lambda* (#:key tests? test-flags #:allow-other-keys)
- (with-directory-excursion #$output
- (apply invoke "pytest" "-vv" test-flags)))))))
- (propagated-inputs
- (list python-astropy
- python-h5py
- python-matplotlib
- python-numpy
- python-scipy
- python-shapely))
- (native-inputs
- (list python-cython-3
- python-extension-helpers
- python-pytest-arraydiff
- python-pytest-astropy
- python-pytest-runner
- python-pytest-xdist
- python-setuptools
- python-setuptools-scm
- python-wheel))
- (home-page "https://github.com/astropy/regions")
- (synopsis "Package for region handling")
- (description "Regions is an Astropy package for region handling.")
- (license license:bsd-3)))
-
(define-public python-roman-datamodels
(package
(name "python-roman-datamodels")