From 916bde255b94eab85c10e55104b0e088781ef943 Mon Sep 17 00:00:00 2001 From: Sharlatan Hellseher Date: Sun, 12 Jun 2022 22:25:07 +0100 Subject: [PATCH 1/1] gnu: Add casacore * gnu/packages/astronomy.scm (casacore): New variable. Modules sorted alphabetically to easy maintannce. --- gnu/packages/astronomy.scm | 102 +++++++++++++++++++++++++++++++++++-- 1 file changed, 97 insertions(+), 5 deletions(-) diff --git a/gnu/packages/astronomy.scm b/gnu/packages/astronomy.scm index 93c45d5780..a0de5a617f 100644 --- a/gnu/packages/astronomy.scm +++ b/gnu/packages/astronomy.scm @@ -26,18 +26,15 @@ ;;; along with GNU Guix. If not, see . (define-module (gnu packages astronomy) - #:use-module (guix packages) #:use-module ((guix licenses) #:prefix license:) - #:use-module (guix download) - #:use-module (guix git-download) - #:use-module (guix utils) - #:use-module (gnu packages) #:use-module (gnu packages algebra) #:use-module (gnu packages autotools) + #:use-module (gnu packages bison) #:use-module (gnu packages boost) #:use-module (gnu packages check) #:use-module (gnu packages compression) #:use-module (gnu packages curl) + #:use-module (gnu packages flex) #:use-module (gnu packages fontutils) #:use-module (gnu packages gcc) #:use-module (gnu packages gettext) @@ -49,16 +46,19 @@ (define-module (gnu packages astronomy) #:use-module (gnu packages libusb) #:use-module (gnu packages lua) #:use-module (gnu packages maths) + #:use-module (gnu packages ncurses) #:use-module (gnu packages netpbm) #:use-module (gnu packages perl) #:use-module (gnu packages pkg-config) #:use-module (gnu packages pretty-print) + #:use-module (gnu packages python) #:use-module (gnu packages python-check) #:use-module (gnu packages python-crypto) #:use-module (gnu packages python-science) #:use-module (gnu packages python-web) #:use-module (gnu packages python-xyz) #:use-module (gnu packages qt) + #:use-module (gnu packages readline) #:use-module (gnu packages time) #:use-module (gnu packages version-control) #:use-module (gnu packages video) @@ -66,9 +66,15 @@ (define-module (gnu packages astronomy) #:use-module (gnu packages xiph) #:use-module (gnu packages xml) #:use-module (gnu packages xorg) + #:use-module (gnu packages) #:use-module (guix build-system cmake) #:use-module (guix build-system gnu) #:use-module (guix build-system python) + #:use-module (guix download) + #:use-module (guix gexp) + #:use-module (guix git-download) + #:use-module (guix packages) + #:use-module (guix utils) #:use-module (ice-9 match) #:use-module (srfi srfi-1)) @@ -107,6 +113,92 @@ (define-public calceph @end itemize\n") (license license:cecill))) +(define-public casacore + (package + (name "casacore") + (version "3.4.0") + (source + (origin + (method git-fetch) + (uri (git-reference + (url "https://github.com/casacore/casacore") + (commit (string-append "v" version)))) + (sha256 + (base32 + "05ar5gykgh4dm826xplj5ri5rw7znhxrvin2l67a3mjwfys7r2a0")) + (file-name (git-file-name name version)))) + (build-system cmake-build-system) + (arguments + (list + ;; NOTE: (Sharlatan-20220611T213043+0100): There are multiple fails in + ;; tests which require additional measures data. They are + ;; distributed via FTP without any license: + ;; ftp://ftp.astron.nl/outgoing/Measures/ + ;; Check how to fix tests. + #:tests? #f + #:parallel-build? #t + #:configure-flags + #~(list "-DBUILD_PYTHON3=ON" + "-DBUILD_PYTHON=OFF" + "-DBUILD_TESTING=TRUE" + "-DUSE_HDF5=ON" + "-DUSE_OPENMP=OFF" + "-DUSE_THREADS=ON" + (string-append "-DDATA_DIR=" #$output "/data") + (string-append "-DPYTHON3_EXECUTABLE=" #$python "/bin") + (string-append "-DPYTHON3_INCLUDE_DIR=" #$python "/include") + (string-append "-DPYTHON3_LIBRARY=" #$python "/lib")) + #:phases + #~(modify-phases %standard-phases + (add-after 'unpack 'set-env + (lambda _ + (setenv "HOME" "/tmp"))) + (add-after 'unpack 'use-absolute-rm + (lambda _ + (substitute* "casa/OS/test/tFile.run" + (("/bin/rm") (which "rm"))) + #t)) + (add-after 'unpack 'use-absolute-python3 + (lambda _ + (substitute* "build-tools/casacore_floatcheck" + (("#!/usr/bin/env python") + (string-append "#!" #$python "/bin/python3"))) + #t)) + ;; NOTE: (Sharlatan-20220611T200837+0100): Workaround for casacore + ;; tests stuck with missing "qsub" issue. + ;; https://github.com/casacore/casacore/issues/1122 + (add-after 'unpack 'patch-pre-test-checks + (lambda _ + (substitute* "build-tools/casacore_assay" + (("QSUBP=.*$") "QSUBP=\n") + (("YODP=.*$") "YODP=\n")) + #t))))) + (native-inputs + (list bison + boost + flex + readline)) + (inputs + (list cfitsio + fftw + fftwf + gfortran + hdf5 + lapack + ncurses + openblas + python + python-numpy + wcslib)) + (home-page "http://casacore.github.io/casacore/") + (synopsis "Suite of C++ libraries for radio astronomy data processing") + (description + "The casacore package contains the core libraries of the old +@code{AIPS++/CASA} (Common Astronomy Software Application) package. This split +was made to get a better separation of core libraries and applications. +(CASA @url{https://casa.nrao.edu/}) is now built on top of Casacore.") + (license license:gpl2))) + (define-public cfitsio (package (name "cfitsio") -- 2.36.0