From 1a160f714516ae4d6d8af92380b0713fdd2eadf6 Mon Sep 17 00:00:00 2001
From: Justin Bedo <cu@cua0.org>
Date: Tue, 14 May 2019 14:19:18 +1000
Subject: strip: remove store paths from outputs to minimise closures

---
 default.nix            | 23 ++++++++++++++++++++++-
 tools/fastqc-check.nix | 10 +++++++---
 2 files changed, 29 insertions(+), 4 deletions(-)

diff --git a/default.nix b/default.nix
index 25834a9..03869bc 100644
--- a/default.nix
+++ b/default.nix
@@ -75,7 +75,28 @@ let
     # Export nixpkgs and standard library lib
     pkgs = nixpkgs;
     lib = nixpkgs.lib // { types = types; shard = callBionix ./lib/shard.nix {};};
-    stage = x@{ name, ... }: { multicore = false; } // nixpkgs.stdenvNoCC.mkDerivation (x // {name = "bionix-" + name;});
+    stage = x@{ name, stripStorePaths ? true, ... }:
+      (if stripStorePaths then strip else x: x) ({ multicore = false; } // nixpkgs.stdenvNoCC.mkDerivation (x // {name = "bionix-" + name; }));
+    strip = drv: drv.overrideAttrs (attrs: {
+      buildCommand = attrs.buildCommand + ''
+
+        function rewrite {
+          sed -i 's|/nix/store/[^-]*|/nix/store/00000000000000000000000000000000|g' $1
+        }
+        function rewriteOutput {
+          if [ -f ''${!1} ] ; then
+            rewrite ''${!1}
+          else
+            for f in $(find ''${!1} -type f) ; do
+              rewrite $f
+            done
+          fi
+        }
+        for o in $outputs ; do
+          rewriteOutput $o
+        done
+      '';
+  });
 
     # splitting/joining
     splitFile = file: drv: stage {
diff --git a/tools/fastqc-check.nix b/tools/fastqc-check.nix
index d33b987..9b6dd96 100644
--- a/tools/fastqc-check.nix
+++ b/tools/fastqc-check.nix
@@ -9,12 +9,16 @@ input:
 
 stage {
   name = "fastqc-check";
-  buildInputs = [ bionix.fastqc.fastqc ];
+  buildInputs = [ bionix.fastqc.fastqc pkgs.unzip ];
+  stripStorePaths = false; # we do it explicity for fastqc
+  outputs = [ "out" "zip" ];
   buildCommand = ''
-    mkdir $out
     fastqc \
-      -o $out \
+      -o $TMPDIR \
       ${optionalString (flags != null) flags} \
       ${input}
+
+    sed  "s|$(basename ${input})|input|g" *.html > $out
+    cp *.zip $zip
   '';
 }
-- 
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