From 6571231f2dfb433e643e3ca36b21661d46c9c0fe Mon Sep 17 00:00:00 2001
From: Efraim Flashner <efraim@flashner.co.il>
Date: Mon, 6 May 2024 23:40:45 +0300
Subject: gnu: minimap2: Update to 2.28.

* gnu/packages/bioinformatics.scm (minimap2): Update to 2.28.
[arguments]: Adjust custom 'install phase to not delete non-existent
file.  Remove trailing #t from phase.

Change-Id: Ie6cc21f2b761532f08967efea54d3a12b944f213
---
 gnu/packages/bioinformatics.scm | 9 +++------
 1 file changed, 3 insertions(+), 6 deletions(-)

(limited to 'gnu')

diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index aa522b76c6..abcb47d39c 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -16622,7 +16622,7 @@ (define-public sjcount
 (define-public minimap2
   (package
     (name "minimap2")
-    (version "2.24")
+    (version "2.28")
     (source
      (origin
        (method url-fetch)
@@ -16631,7 +16631,7 @@ (define-public minimap2
                            "minimap2-" version ".tar.bz2"))
        (sha256
         (base32
-         "05d6h2c1h95s5vblf1fijn9g0r4g69nsvkabji42j642y0gw7m4x"))))
+         "1d50j9fdmmaj7sdf4f49xddc235f7032lwh5ijgi2afj6lkp39gz"))))
     (build-system gnu-build-system)
     (arguments
      `(#:tests? #f                      ; there are none
@@ -16668,8 +16668,6 @@ (define-public minimap2
                (install-file "minimap2.1" man)
                (map (cut install-file <> inc)
                     (find-files "." "\\.h$"))
-               ;; Not this file.
-               (delete-file (string-append inc "/emmintrin.h"))
                (mkdir-p (string-append lib "/pkgconfig"))
                (with-output-to-file (string-append lib "/pkgconfig/minimap2.pc")
                 (lambda _
@@ -16683,8 +16681,7 @@ (define-public minimap2
                           Description: A versatile pairwise aligner for genomic and spliced nucleotide sequence~@
                           Libs: -L${libdir} -lminimap2~@
                           Cflags: -I${includedir}~%"
-                          out ,version))))
-             #t)))))
+                          out ,version)))))))))
     (inputs
      (list zlib))
     (home-page "https://lh3.github.io/minimap2/")
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