From 4a5a23aceb6a6d90c17ee9f9be7da4917b735d2e Mon Sep 17 00:00:00 2001 From: Ricardo Wurmus Date: Mon, 22 Apr 2024 15:58:56 +0200 Subject: gnu: Add savvy. * gnu/packages/bioinformatics.scm (savvy): New variable. Change-Id: I48dcfad2c6c769778bd79dffa084332da53991ad --- gnu/packages/bioinformatics.scm | 37 +++++++++++++++++++++++++++++++++++++ 1 file changed, 37 insertions(+) diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 7cc193d4b8..d313835249 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -9386,6 +9386,43 @@ viewer.") (delete 'patch-tests) (delete 'configure)))))))) +(define-public savvy + (package + (name "savvy") + (version "2.1.0") + (source + (origin + (method git-fetch) + (uri (git-reference + (url "https://github.com/statgen/savvy") + (commit (string-append "v" version)))) + (file-name (git-file-name name version)) + (sha256 + (base32 + "03jh89gl67adnpkwx8yrdn62pd9sg69k21gxh15my2vvpfl1pxlx")))) + (build-system cmake-build-system) + (arguments + (list + #:configure-flags + '(list "-DBUILD_TESTS=ON" + "-DBUILD_EVAL=ON") + #:phases + '(modify-phases %standard-phases + (add-after 'unpack 'use-shared-libraries + (lambda _ + ;; Do not prefer static libraries. + (substitute* "CMakeLists.txt" + (("set\\(CMAKE_FIND_LIBRARY_SUFFIXES \".a;.*") ""))))))) + (native-inputs (list pkg-config)) + (inputs (list htslib)) + (propagated-inputs (list streambuf-shrinkwrap)) + (home-page "https://github.com/statgen/savvy/") + (synopsis "Interface to various variant calling formats") + (description + "Savvy is the official C++ interface for the SAV file format and offers +seamless support for BCF and VCF files.") + (license license:mpl2.0))) + (define-public morpheus (package (name "morpheus") -- cgit v1.2.3