diff options
| author | Justin Bedo <cu@cua0.org> | 2021-08-25 10:01:58 +1000 |
|---|---|---|
| committer | Justin Bedo <cu@cua0.org> | 2021-08-25 10:01:58 +1000 |
| commit | 73f249f6e6ab181e71464a9f305ca13656ebf901 (patch) | |
| tree | a8298e9e0d1d4aeeb51cdac70f1510a32207aba3 /tools | |
| parent | bc5709e934bbe1d477764fe153a198ccc669e6bb (diff) | |
fastp: use nixpkgs version
Diffstat (limited to 'tools')
| -rw-r--r-- | tools/fastp-app.nix | 23 | ||||
| -rw-r--r-- | tools/fastp-check.nix | 2 | ||||
| -rw-r--r-- | tools/fastp.nix | 2 |
3 files changed, 1 insertions, 26 deletions
diff --git a/tools/fastp-app.nix b/tools/fastp-app.nix deleted file mode 100644 index bb716e2..0000000 --- a/tools/fastp-app.nix +++ /dev/null @@ -1,23 +0,0 @@ -{ stdenv -, fetchFromGitHub -, zlib -}: - -stdenv.mkDerivation rec { - name = "fastp-${version}"; - version = "0.20.0"; - - src = fetchFromGitHub { - owner = "OpenGene"; - repo = "fastp"; - rev = "v${version}"; - sha256 = "0y0qfp3j3gqnmlqskna8x43acss21vxwck287c4fagxlcaba0s30"; - }; - - buildInputs = [ zlib ]; - - installPhase = '' - mkdir -p $out/bin - cp fastp $out/bin - ''; -} diff --git a/tools/fastp-check.nix b/tools/fastp-check.nix index bd522d8..06f00ae 100644 --- a/tools/fastp-check.nix +++ b/tools/fastp-check.nix @@ -16,7 +16,7 @@ let out = stage { name = "fastp"; - buildInputs = [ fastp.app ]; + buildInputs = [ pkgs.fastp ]; outputs = [ "out" "fastq1" "json" ] ++ (if input2 != null then [ "fastq2" ] else []); buildCommand = '' mkdir -p $out diff --git a/tools/fastp.nix b/tools/fastp.nix index 551d270..36bc690 100644 --- a/tools/fastp.nix +++ b/tools/fastp.nix @@ -3,8 +3,6 @@ with bionix; rec { - app = pkgs.callPackage ./fastp-app.nix {}; - /* Check and filter fastqs Type: { ... } -> { input1, input2 ? null } -> { out :: html, fastq1 :: fastq, fastq2 :: fastq, json :: JSON } */ |