Wrap some tools and make an example pipeline

1 files changed, 19 insertions, 0 deletions

diff --git a/tools/bwa-index.nix b/tools/bwa-index.nix
new file mode 100644
index 0000000..8ca0eec
--- /dev/null
+++ b/tools/bwa-index.nix
@@ -0,0 +1,19 @@
+{ stdenv
+, lib
+, bwa
+}:
+
+ref:
+
+with lib;
+
+stdenv.mkDerivation {
+  name = "bwa-index";
+  buildInputs = [ bwa ];
+  buildCommand = ''
+    ln -s ${ref} ref.fa
+    bwa index ref.fa
+    mkdir $out
+    mv ref.fa.* $out
+  '';
+}