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;;;
;;; Commentary:
;;;
;;; This module contains statically linked executables meant for use
;;; with spike and gem5.
;;;
;;;
;;; Code:
;;;
(define-module (gn packages static)
#:use-module (gnu packages base)
#:use-module (gnu packages bioinformatics)
#:use-module (gnu packages compression)
#:use-module (gnu packages cpp)
#:use-module (gnu packages jemalloc)
#:use-module (gnu packages maths)
#:use-module (guix build-system gnu)
#:use-module (guix gexp)
#:use-module (guix packages)
#:use-module (guix utils))
;; Static hello, for testing
(define-public hello-static
(package
(inherit (static-package hello))
(name "hello-static")))
;; A minimal version of htslib that does not depend on curl and openssl. This
;; reduces the number of higher order dependencies in static linking.
(define htslib-minimal
(package
(inherit htslib)
(arguments
(substitute-keyword-arguments (package-arguments htslib)
((#:configure-flags flags ''())
''())))
(inputs
(list bzip2 xz))))
(define-public wfmash-static
(package
(inherit wfmash)
(name "wfmash-static")
(arguments
(substitute-keyword-arguments (package-arguments wfmash)
((#:configure-flags flags ''())
`(cons* "-DCMAKE_EXE_LINKER_FLAGS=-static"
"-DCMAKE_SKIP_RPATH=TRUE"
,flags))
((#:phases phases ''())
#~(modify-phases #$phases
;; When static linking, we need to link against the entire
;; dependency tree, not just the direct first-order dependencies.
(add-after 'unpack 'add-higher-order-dependencies
(lambda _
(substitute* "CMakeLists.txt"
(("hts" all)
(string-append all " bz2 dl lzma"))
(("jemalloc" all)
;; We add atomic because riscv64 has no lock-free atomic
;; instructions.
(string-append all " atomic pthread")))))))))
(inputs
(list atomic-queue
(list gsl "static")
htslib-minimal
jemalloc
(list zlib "static")
;; Second-order dependencies from htslib
(list bzip2 "static")
(list xz "static")))))
(define-public smithwaterman-static
(package
(inherit smithwaterman)
(name "smithwaterman-static")
(arguments
(substitute-keyword-arguments (package-arguments smithwaterman)
((#:make-flags flags ''())
#~(cons "CFLAGS=-static" #$flags))))))
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