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| author | Efraim Flashner <efraim@flashner.co.il> | 2020-01-08 12:49:17 +0200 |
|---|---|---|
| committer | Efraim Flashner <efraim@flashner.co.il> | 2020-01-09 14:30:38 +0200 |
| commit | 2604ecb3a9fc00c98359ecb6059eacfa6573e515 (patch) | |
| tree | 64538a96643a6bc7e81600a99bcc07cd874860eb | |
| parent | 0ab7f6c5f4646ca52d6aa54e0adbb4f8b45f9263 (diff) | |
gnu: smithwaterman: Update to 0.0.0-2.2610e25.
* gnu/packages/bioinformatics.scm (smithwaterman): Update to 0.0.0-2.2610e25.
[arguments]: Add make-flags to build static library. Adjust custom
'install phase to install static library.
| -rw-r--r-- | gnu/packages/bioinformatics.scm | 15 |
1 files changed, 9 insertions, 6 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index bde4aad785..0e4cb5b1db 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -14942,11 +14942,10 @@ some of the details of opening and jumping in tabix-indexed files.") (license license:expat))) (define-public smithwaterman - ;; TODO: Upgrading smithwaterman breaks FreeBayes. - (let ((commit "203218b47d45ac56ef234716f1bd4c741b289be1")) + (let ((commit "2610e259611ae4cde8f03c72499d28f03f6d38a7")) (package (name "smithwaterman") - (version (string-append "0-1." (string-take commit 7))) + (version (git-version "0.0.0" "2" commit)) (source (origin (method git-fetch) (uri (git-reference @@ -14954,17 +14953,21 @@ some of the details of opening and jumping in tabix-indexed files.") (commit commit))) (file-name (git-file-name name version)) (sha256 - (base32 "0z9xsmsv452kgdfbbwydyc6nymg3fwyv8zswls8qjin3r4ia4415")))) + (base32 "0i9d8zrxpiracw3mxzd9siybpy62p06rqz9mc2w93arajgbk45bs")))) (build-system gnu-build-system) (arguments `(#:tests? #f ; There are no tests to run. + #:make-flags '("libsw.a" "all") #:phases (modify-phases %standard-phases (delete 'configure) ; There is no configure phase. (replace 'install (lambda* (#:key outputs #:allow-other-keys) - (let ((bin (string-append (assoc-ref outputs "out") "/bin"))) - (install-file "smithwaterman" bin)) + (let* ((out (assoc-ref outputs "out")) + (bin (string-append out "/bin")) + (lib (string-append out "/lib"))) + (install-file "smithwaterman" bin) + (install-file "libsw.a" lib)) #t))))) (home-page "https://github.com/ekg/smithwaterman") (synopsis "Implementation of the Smith-Waterman algorithm") |