debian/changelog

+unicycler (0.4.7+dfsg-3) UNRELEASED; urgency=medium
+
+  * Team upload.
+  * Inherit and use LDFLAGS and CPPFLAGS
+  * Mark unicycler-data as Multi-Arch: foreign, as recommended by the
+    Multiarch hinter.
+  * Standards-Version: 4.3.0, no changes needed
+
+ -- Michael R. Crusoe <michael.crusoe@gmail.com>  Fri, 18 Jan 2019 02:34:45 -0800
+
 unicycler (0.4.7+dfsg-2) unstable; urgency=medium
 
   [ Andreas Tille ]

debian/control

@@ -17,7 +17,7 @@ Build-Depends: debhelper (>= 11~),
                spades,
                libseqan2-dev,
                zlib1g-dev
-Standards-Version: 4.2.1
+Standards-Version: 4.3.0
 Vcs-Browser: https://salsa.debian.org/med-team/unicycler
 Vcs-Git: https://salsa.debian.org/med-team/unicycler.git
 Homepage: https://github.com/rrwick/Unicycler
@@ -45,6 +45,7 @@ Description: hybrid assembly pipeline for bacterial genomes
 
 Package: unicycler-data
 Architecture: all
+Multi-Arch: foreign
 Depends: ${misc:Depends}
 Description: hybrid assembly pipeline for bacterial genomes (data package)
  Unicycler is an assembly pipeline for bacterial genomes. It can assemble

debian/patches/append_flags

+From: Michael R. Crusoe <michael.crusoe@gmail.com>
+Subject: Inherit and use LDFLAGS and CPPFLAGS
+--- unicycler.orig/Makefile
++++ unicycler/Makefile
+@@ -66,7 +66,7 @@
+ 
+ # These flags are required for the build to work.
+ FLAGS        = -std=c++14 -Iunicycler/include -fPIC
+-LDFLAGS      = -shared -lz
++LDFLAGS      += -shared -lz
+ 
+ 
+ # Platform-specific stuff (for Seqan)
+@@ -115,4 +115,4 @@
+ 	$(RM) $(TARGET)
+ 
+ %.o: %.cpp $(HEADERS)
+-	$(CXX) $(FLAGS) $(CXXFLAGS) -c -o $@ $<
++	$(CXX) $(CPPFLAGS) $(FLAGS) $(CXXFLAGS) -c -o $@ $<

debian/patches/series

 spades.patch
 # bowtie.patch 
 install_wo_extra_steps.patch
+append_flags