debian/control

@@ -3,7 +3,9 @@ Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.
 Uploaders: Shayan Doust <hello@shayandoust.me>
 Section: science
 Priority: optional
-Build-Depends: debhelper (>= 12~)
+Build-Depends: debhelper (>= 12~),
+	       cmake,
+	       libgzstream-dev
 Standards-Version: 4.3.0
 Vcs-Browser: https://salsa.debian.org/med-team/mmseqs2
 Vcs-Git: https://salsa.debian.org/med-team/mmseqs2.git

debian/patches/series

+use_system_gzstream.patch

debian/patches/use_system_gzstream.patch

+Description: We use libgzstream-dev instead of that in lib
+Author: Shayan Doust <hello@shayandoust.me>
+Last-Update: 2019-07-15
+---
+Index: mmseqs2/CMakeLists.txt
+===================================================================
+--- mmseqs2.orig/CMakeLists.txt
++++ mmseqs2/CMakeLists.txt
+@@ -79,7 +79,6 @@ add_subdirectory(lib/tinyexpr EXCLUDE_FR
+ include_directories(lib)
+ include_directories(lib/kseq)
+ include_directories(lib/simd)
+-include_directories(lib/gzstream)
+ include_directories(lib/alp)
+ include_directories(lib/cacode)
+ include_directories(lib/ksw2)
+Index: mmseqs2/src/CMakeLists.txt
+===================================================================
+--- mmseqs2.orig/src/CMakeLists.txt
++++ mmseqs2/src/CMakeLists.txt
+@@ -144,6 +144,9 @@ endif ()
+ # tinyexpr
+ target_link_libraries(mmseqs-framework tinyexpr)
+ 
++# System-wide gzstream
++target_link_libraries(mmseqs-framework gzstream)
++
+ find_package(ZLIB QUIET)
+ if (ZLIB_FOUND)
+     message("-- Found ZLIB")