From c84109b099378bd08482978bb03097bcfb06a0c8 Mon Sep 17 00:00:00 2001
From: natsukium <tomoya.otabi@gmail.com>
Date: Thu, 5 Dec 2024 18:53:30 +0900
Subject: [PATCH] mmseqs2: move to pkgs/by-name/mm/mmseqs2

---
 .../mmseqs2/default.nix => by-name/mm/mmseqs2/package.nix}    | 4 ++--
 pkgs/top-level/all-packages.nix                               | 4 ----
 2 files changed, 2 insertions(+), 6 deletions(-)
 rename pkgs/{applications/science/biology/mmseqs2/default.nix => by-name/mm/mmseqs2/package.nix} (97%)

diff --git a/pkgs/applications/science/biology/mmseqs2/default.nix b/pkgs/by-name/mm/mmseqs2/package.nix
similarity index 97%
rename from pkgs/applications/science/biology/mmseqs2/default.nix
rename to pkgs/by-name/mm/mmseqs2/package.nix
index 576ba0599174..ea16ae7f621f 100644
--- a/pkgs/applications/science/biology/mmseqs2/default.nix
+++ b/pkgs/by-name/mm/mmseqs2/package.nix
@@ -13,7 +13,7 @@
   mpi,
   cudaSupport ? config.cudaSupport,
   cudaPackages,
-  openmp,
+  llvmPackages,
   zlib,
   bzip2,
   pkgsStatic,
@@ -61,7 +61,7 @@ stdenv.mkDerivation (finalAttrs: {
 
   buildInputs =
     lib.optionals stdenv.cc.isClang [
-      openmp
+      llvmPackages.openmp
       zlib
       bzip2
     ]
diff --git a/pkgs/top-level/all-packages.nix b/pkgs/top-level/all-packages.nix
index f2a1810377b4..6db3c2c4bbcc 100644
--- a/pkgs/top-level/all-packages.nix
+++ b/pkgs/top-level/all-packages.nix
@@ -17442,10 +17442,6 @@ with pkgs;
     inherit (perlPackages) perl TextFormat;
   };
 
-  mmseqs2 = callPackage ../applications/science/biology/mmseqs2 {
-    inherit (llvmPackages) openmp;
-  };
-
   obitools3 = callPackage ../applications/science/biology/obitools/obitools3.nix { };
 
   raxml-mpi = raxml.override { useMpi = true; };