various application build fixes

pkgs/amg/pin.json

@@ -2,8 +2,8 @@
   "fetch": {
     "args": {
       "fetchSubmodules": false,
-      "rev": "182582ddd924a0e06d906952e4632c25324a1120",
-      "sha256": "16166g7ndlhvy96wg3rr5cf9h7f8lxdpi2xyyrrsls701wiizd09",
+      "rev": "ac78118f79234a7c3e9fa14738a1168d6d5acb02",
+      "sha256": "01gjjjfnn4vm6yvlphbsi2yda3yiwx75p0vl5h7gpibyv1s1x4gg",
       "url": "https://xgitlab.cels.anl.gov/argo/applications/amg.git"
     },
     "fn": "fetchgit"

pkgs/default.nix

@@ -198,7 +198,7 @@ let
       name = "testEnv-with-applications";
       buildInputs = old.buildInputs ++ [
         lammps
-        #qmcpack
+        qmcpack
         openmc
         stream
         amg
@@ -234,18 +234,28 @@ let
       unpackPhase = "true";
 
       buildInputs = [
+        pkgs.pandoc
         (pkgs.rWrapper.override{ packages = with pkgs.rPackages; [
           pkgs.rlwrap
           pkgs.pandoc
           docopt
+          pracma
+          tidyr
+          readr
+          magrittr
           formatR
           purrr
+          wrapr
           knitr
           cowplot
           plotly
           lubridate
           dplyr
           ggplot2
+          fpp2
+          prospectr
+          gridExtra
+          zoo
           xtable
           ggthemes
           data_table
@@ -253,6 +263,12 @@ let
       ];
     };
 
+    hanalysis = analysis.overrideAttrs (old:{
+      buildInputs = old.buildInputs ++ [
+        (haskellPackages.ghcWithPackages(p:[p.inline-r]))
+      ];
+    });
+
     report = analysis.overrideAttrs (old:{
       buildPhase = ''
         echo "analysis/zymakefolder.R ${powerexpe}"

pkgs/qmcpack/default.nix

@@ -40,4 +40,6 @@ stdenv.mkDerivation {
     mkdir -p $out
     cp -r * $out
   '';
+
+  LIBXML2_HOME="${libxml2}/lib";
 }