diff -Nru rapmap-0.4.0+dfsg/debian/changelog rapmap-0.4.0+dfsg/debian/changelog
--- rapmap-0.4.0+dfsg/debian/changelog	2016-10-17 14:06:53.000000000 +0000
+++ rapmap-0.4.0+dfsg/debian/changelog	2016-12-05 15:32:20.000000000 +0000
@@ -1,3 +1,15 @@
+rapmap (0.4.0+dfsg-2) unstable; urgency=medium
+
+  * Set NO_NATIVE_ARCH=true
+    Closes: #847084
+  * Do not try downloading libjemalloc
+    Closes: #847083
+  * debhelper 10
+  * d/watch: version=4
+  * hardening=+all
+
+ -- Andreas Tille <tille@debian.org>  Mon, 05 Dec 2016 16:32:20 +0100
+
 rapmap (0.4.0+dfsg-1) unstable; urgency=medium
 
   * New upstream version
diff -Nru rapmap-0.4.0+dfsg/debian/compat rapmap-0.4.0+dfsg/debian/compat
--- rapmap-0.4.0+dfsg/debian/compat	2016-10-17 14:06:53.000000000 +0000
+++ rapmap-0.4.0+dfsg/debian/compat	2016-12-05 15:32:20.000000000 +0000
@@ -1 +1 @@
-9
+10
diff -Nru rapmap-0.4.0+dfsg/debian/control rapmap-0.4.0+dfsg/debian/control
--- rapmap-0.4.0+dfsg/debian/control	2016-10-17 14:06:53.000000000 +0000
+++ rapmap-0.4.0+dfsg/debian/control	2016-12-05 15:32:20.000000000 +0000
@@ -3,7 +3,7 @@
 Uploaders: Andreas Tille <tille@debian.org>
 Section: science
 Priority: optional
-Build-Depends: debhelper (>= 9),
+Build-Depends: debhelper (>= 10),
                cmake,
                zlib1g-dev,
                libdivsufsort-dev,
diff -Nru rapmap-0.4.0+dfsg/debian/patches/use-debian-libs.patch rapmap-0.4.0+dfsg/debian/patches/use-debian-libs.patch
--- rapmap-0.4.0+dfsg/debian/patches/use-debian-libs.patch	2016-10-17 14:06:53.000000000 +0000
+++ rapmap-0.4.0+dfsg/debian/patches/use-debian-libs.patch	2016-12-05 15:32:20.000000000 +0000
@@ -51,6 +51,31 @@
  
  set (FAST_MALLOC_LIB "")
  set (HAVE_FAST_MALLOC FALSE)
+@@ -252,24 +221,6 @@ if (NOT HAVE_FAST_MALLOC)
+     endif()
+ endif()
+ 
+-if (NOT HAVE_FAST_MALLOC)
+-    message("Build system will fetch and use JEMalloc")
+-    message("==================================================================")
+-    ExternalProject_Add(libjemalloc
+-        DOWNLOAD_DIR ${CMAKE_CURRENT_SOURCE_DIR}/external
+-        DOWNLOAD_COMMAND curl -k -L https://github.com/COMBINE-lab/jemalloc/archive/3.6.0.tar.gz -o jemalloc-3.6.0.tar.gz &&
+-        tar -xzf jemalloc-3.6.0.tar.gz
+-        SOURCE_DIR ${CMAKE_CURRENT_SOURCE_DIR}/external/jemalloc-3.6.0
+-        BUILD_IN_SOURCE TRUE
+-        INSTALL_DIR ${CMAKE_CURRENT_SOURCE_DIR}/external/install
+-        CONFIGURE_COMMAND sh -c "CC=${CMAKE_C_COMPILER} ./autogen.sh --prefix=<INSTALL_DIR>"
+-        INSTALL_COMMAND cp -r lib <INSTALL_DIR>/ && cp -r include <INSTALL_DIR>/
+-        )
+-
+-    set (FAST_MALLOC_LIB ${CMAKE_CURRENT_SOURCE_DIR}/external/install/lib/libjemalloc.a)
+-    set (HAVE_FAST_MALLOC TRUE)
+-endif ()
+-
+ ###
+ #
+ # Done building external dependencies.
 --- a/src/CMakeLists.txt
 +++ b/src/CMakeLists.txt
 @@ -84,9 +84,12 @@ set (SUFFARRAY64_LIB ${GAT_SOURCE_DIR}/e
diff -Nru rapmap-0.4.0+dfsg/debian/rules rapmap-0.4.0+dfsg/debian/rules
--- rapmap-0.4.0+dfsg/debian/rules	2016-10-17 14:06:53.000000000 +0000
+++ rapmap-0.4.0+dfsg/debian/rules	2016-12-05 15:32:20.000000000 +0000
@@ -3,13 +3,13 @@
 # DH_VERBOSE := 1
 
 # for hardening you might like to uncomment this:
-export DEB_BUILD_MAINT_OPTIONS=hardening=+all,-pie
+export DEB_BUILD_MAINT_OPTIONS=hardening=+all
 
 %:
 	dh $@
 
 override_dh_auto_configure:
-	dh_auto_configure -- -DJELLYFISH_ROOT=/usr
+	dh_auto_configure -- -DJELLYFISH_ROOT=/usr -DNO_NATIVE_ARCH=true
 
 override_dh_auto_build:
 	dh_auto_build
diff -Nru rapmap-0.4.0+dfsg/debian/watch rapmap-0.4.0+dfsg/debian/watch
--- rapmap-0.4.0+dfsg/debian/watch	2016-10-17 14:06:53.000000000 +0000
+++ rapmap-0.4.0+dfsg/debian/watch	2016-12-05 15:32:20.000000000 +0000
@@ -1,4 +1,4 @@
-version=3
+version=4
 
 opts="repacksuffix=+dfsg,dversionmangle=s/\+dfsg//g,repack,compression=xz" \
    https://github.com/COMBINE-lab/RapMap/releases .*/archive/v(\d[\d.-]+)\.(?:tar(?:\.gz|\.bz2)?|tgz)