diff options
Diffstat (limited to 'gnu/packages/astronomy.scm')
| -rw-r--r-- | gnu/packages/astronomy.scm | 504 |
1 files changed, 252 insertions, 252 deletions
diff --git a/gnu/packages/astronomy.scm b/gnu/packages/astronomy.scm index eb4754a71d..497c75f974 100644 --- a/gnu/packages/astronomy.scm +++ b/gnu/packages/astronomy.scm @@ -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") |