debian/changelog

+blasr (5.3.3+dfsg-3) UNRELEASED; urgency=medium
+
+  * Build-Depends: s/python/python3/
+  * Standards-Version: 4.4.1
+  * Build-Depends: cmake
+  * Do not check for pbbam with meson - its ensured by Build-Depends
+  * Build-Depends: libpbcopper-dev
+
+ -- Andreas Tille <tille@debian.org>  Wed, 15 Jan 2020 11:16:19 +0100
+
 blasr (5.3.3+dfsg-2) unstable; urgency=medium
 
   * Use 2to3 to port to Python3

debian/control

@@ -4,8 +4,9 @@ Uploaders: Andreas Tille <tille@debian.org>
 Section: science
 Priority: optional
 Build-Depends: debhelper-compat (= 12),
-               python,
+               python3,
                meson,
+               cmake,
                pkg-config,
                libboost-dev,
                libhdf5-dev,
@@ -13,9 +14,10 @@ Build-Depends: debhelper-compat (= 12),
                libpbseq-dev,
                libpbbam-dev (>= 0.18.0~),
                libpbdata-dev,
+               libpbcopper-dev,
                libgtest-dev,
                libblasr-dev (>= 5.3.1+dfsg-2)
-Standards-Version: 4.4.0
+Standards-Version: 4.4.1
 Vcs-Browser: https://salsa.debian.org/med-team/blasr
 Vcs-Git: https://salsa.debian.org/med-team/blasr.git
 Homepage: https://github.com/PacificBiosciences/blasr

debian/patches/use_debian_packaged_pblibs.patch

@@ -9,7 +9,7 @@ Description: Add some missing libraries to linker
  
  # pbbam
 -blasr_pbbam_dep = dependency('pbbam', fallback : ['pbbam', 'pbbam_dep'])
-+blasr_pbbam_dep = dependency('pbbam',  required : true)
++# blasr_pbbam_dep = dependency('pbbam',  required : true)
  
  # libblasr
 -blasr_libblasr_dep = dependency('libblasr', fallback : ['blasr_libcpp', 'libblasr_dep'])
@@ -23,7 +23,7 @@ Description: Add some missing libraries to linker
 +samwriter_pbdata_deps = cpp.find_library('pbdata')
 +blasr_pbihdf_deps = cpp.find_library('pbihdf')
 +
-+blasr_deps = [blasr_thread_dep, blasr_boost_dep, blasr_pbbam_dep, blasr_libblasr_dep, blasr_zlib_dep, samwriter_pbdata_deps, blasr_pbihdf_deps]
++blasr_deps = [blasr_thread_dep, blasr_boost_dep, blasr_libblasr_dep, blasr_zlib_dep, samwriter_pbdata_deps, blasr_pbihdf_deps]
  
  ########################
  # sources + executable #