1 files changed, 18 insertions, 0 deletions
diff --git a/tools/quip-unquip.nix b/tools/quip-unquip.nix
new file mode 100644
index 0000000..8c9cc01
--- /dev/null
+++ b/tools/quip-unquip.nix
@@ -0,0 +1,18 @@
+{bionix}:
+with bionix;
+with lib.types;
+  input: let
+    bamft = matchFiletype "unquip" {qp = x: x;} input;
+    ref = matchFiletype' "unquip-sub" {bam = f: f.ref;} bamft;
+  in
+    stage {
+      name = "unquip";
+      buildInputs = [quip.app];
+      buildCommand = ''
+        ln -s ${input} input.bam.qp
+        unquip -r ${ref} input.bam.qp
+        cp input.bam $out
+      '';
+      stripStorePaths = false;
+      passthru.filetype = bamft;
+    }