gnu: Add skewer.

* gnu/packages/bioinformatics.scm (skewer): New variable.

Change-Id: Ieeb95ed7449b91ea853d73ecca05e5436121df6a

1 files changed, 36 insertions, 0 deletions

diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 437901b3a8..3ef79b4c26 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -15542,6 +15542,42 @@ browser.")
               "http://genome.ucsc.edu/license/"
               "The contents of this package are free for all uses."))))
 
+(define-public skewer
+  (let ((commit "978e8e46cba44595ece623e5387749284a86b74b")
+        (revision "1"))
+    (package
+      (name "skewer")
+      (version (git-version "0" revision commit))
+      (source
+       (origin
+         (method git-fetch)
+         (uri (git-reference
+               (url "https://github.com/relipmoc/skewer")
+               (commit commit)))
+         (file-name (git-file-name name version))
+         (sha256
+          (base32
+           "1b3skfnj3zmd2065fiyxjrg4k6xsxfy6nxz80vmajd830mk6vr69"))))
+      (build-system gnu-build-system)
+      (arguments
+       (list
+        #:tests? #f
+        #:phases
+        #~(modify-phases %standard-phases
+            (delete 'configure)
+            (replace 'install
+              (lambda _
+                (install-file "skewer" (string-append #$output "/bin")))))))
+      ;; XXX Fails to build with GCC 11.
+      (native-inputs (list gcc-10))
+      (home-page "https://github.com/relipmoc/skewer")
+      (synopsis "Bit-masked k-difference matching")
+      (description "Skewer implements the bit-masked k-difference matching
+algorithm dedicated to the task of adapter trimming and it is specially
+designed for processing next-generation sequencing (NGS) paired-end
+sequences.")
+      (license license:expat))))
+
 (define-public f-seq
   (let ((commit "6ccded34cff38cf432deed8503648b4a66953f9b")
         (revision "1"))