New, cleaner package repository structure.

Package repositories now look like this:

    top-level-dir/
        repo.yaml
        packages/
            libelf/
                package.py
            mpich/
                package.py
            ...

This leaves room at the top level for additional metadata, source,
per-repo configs, indexes, etc., and it makes it easy to see that
something is a spack repo (just look for repo.yaml and packages).

var/spack/repos/builtin/packages/mvapich2/ad_lustre_rwcontig_open_source.patch

@@ -0,0 +1,11 @@
+--- a/src/mpi/romio/adio/ad_lustre/ad_lustre_rwcontig.c	2013-12-10 12:05:44.806417000 -0800
++++ b/src/mpi/romio/adio/ad_lustre/ad_lustre_rwcontig.c	2013-12-10 11:53:03.295622000 -0800
+@@ -8,7 +8,7 @@
+  *   Copyright (C) 2008 Sun Microsystems, Lustre group
+  */
+ 
+-#define _XOPEN_SOURCE 600
++//#define _XOPEN_SOURCE 600
+ #include <stdlib.h>
+ #include <malloc.h>
+ #include "ad_lustre.h"

var/spack/repos/builtin/packages/mvapich2/package.py

@@ -0,0 +1,104 @@
+import os
+from spack import *
+
+class Mvapich2(Package):
+    """mvapich2 is an MPI implmenetation for infiniband networks."""
+    homepage = "http://mvapich.cse.ohio-state.edu/"
+
+    version('1.9', '5dc58ed08fd3142c260b70fe297e127c',
+            url="http://mvapich.cse.ohio-state.edu/download/mvapich2/mv2/mvapich2-1.9.tgz")
+    patch('ad_lustre_rwcontig_open_source.patch', when='@1.9')
+
+    version('2.0', '9fbb68a4111a8b6338e476dc657388b4',
+            url='http://mvapich.cse.ohio-state.edu/download/mvapich/mv2/mvapich2-2.0.tar.gz')
+
+    provides('mpi@:2.2', when='@1.9')    # MVAPICH2-1.9 supports MPI 2.2
+    provides('mpi@:3.0', when='@2.0')    # MVAPICH2-2.0 supports MPI 3.0
+
+
+    def install(self, spec, prefix):
+        # we'll set different configure flags depending on our environment
+        configure_args = []
+
+        # TODO: The MPICH*_FLAGS have a different name for 1.9
+
+        if '+debug' in spec:
+            # set configure flags for debug build
+            configure_args.append("--disable-fast")
+            configure_args.append("--enable-g=dbg")
+            configure_args.append("--enable-error-checking=runtime")
+            configure_args.append("--enable-error-messages=all")
+            configure_args.append("--enable-nmpi-as-mpi")
+
+            if "%gnu" in spec:
+                # set variables for GNU compilers
+                os.environ['MPICHLIB_CFLAGS']   = "-g -O0"
+                os.environ['MPICHLIB_CXXFLAGS'] = "-g -O0"
+                os.environ['MPICHLIB_FFLAGS']   = "-g -O0 -fno-second-underscore"
+                os.environ['MPICHLIB_F90FLAGS'] = "-g -O0 -fno-second-underscore"
+            elif "%intel" in spec:
+                # set variables for Inel compilers
+                os.environ['MPICHLIB_CFLAGS']   = "-g -O0"
+                os.environ['MPICHLIB_CXXFLAGS'] = "-g -O0"
+                os.environ['MPICHLIB_FFLAGS']   = "-g -O0"
+                os.environ['MPICHLIB_F90FLAGS'] = "-g -O0"
+            elif "%pgi" in spec:
+                # set variables for PGI compilers
+                os.environ['MPICHLIB_CFLAGS']   = "-g -O0 -fPIC"
+                os.environ['MPICHLIB_CXXFLAGS'] = "-g -O0 -fPIC"
+                os.environ['MPICHLIB_FFLAGS']   = "-g -O0 -fPIC"
+                os.environ['MPICHLIB_F90FLAGS'] = "-g -O0 -fPIC"
+
+        else:
+            # set configure flags for normal optimizations
+            configure_args.append("--enable-fast=all")
+            configure_args.append("--enable-g=dbg")
+            configure_args.append("--enable-nmpi-as-mpi")
+
+            if "%gnu" in spec:
+                # set variables for what compilers
+                os.environ['MPICHLIB_CFLAGS']   = "-g -O2"
+                os.environ['MPICHLIB_CXXFLAGS'] = "-g -O2"
+                os.environ['MPICHLIB_FFLAGS']   = "-g -O2 -fno-second-underscore"
+                os.environ['MPICHLIB_F90FLAGS'] = "-g -O2 -fno-second-underscore"
+            elif "%intel" in spec:
+                # set variables for Inel compilers
+                os.environ['MPICHLIB_CFLAGS']   = "-g -O2"
+                os.environ['MPICHLIB_CXXFLAGS'] = "-g -O2"
+                os.environ['MPICHLIB_FFLAGS']   = "-g -O2"
+                os.environ['MPICHLIB_F90FLAGS'] = "-g -O2"
+            elif "%pgi" in spec:
+                # set variables for PGI compilers
+                os.environ['MPICHLIB_CFLAGS']   = "-g -O2 -fPIC"
+                os.environ['MPICHLIB_CXXFLAGS'] = "-g -O2 -fPIC"
+                os.environ['MPICHLIB_FFLAGS']   = "-g -O2 -fPIC"
+                os.environ['MPICHLIB_F90FLAGS'] = "-g -O2 -fPIC"
+
+        # determine network type by variant
+        if "+psm" in spec:
+            # throw this flag on QLogic systems to use PSM
+            configure_args.append("--with-device=ch3:psm")
+        else:
+            # throw this flag on IB systems
+            configure_args.append("--with-device=ch3:mrail", "--with-rdma=gen2")
+
+        # TODO: shared-memory build
+
+        # TODO: CUDA
+
+        # TODO: other file systems like panasis
+
+        configure(
+            "--prefix=" + prefix,
+            "--enable-f77", "--enable-fc", "--enable-cxx",
+            "--enable-shared", "--enable-sharedlibs=gcc",
+            "--enable-debuginfo",
+            "--with-pm=no", "--with-pmi=slurm",
+            "--enable-romio", "--with-file-system=lustre+nfs+ufs",
+            "--disable-mpe", "--without-mpe",
+            "--disable-silent-rules",
+            *configure_args)
+
+        make()
+
+        make("install")