debian/changelog

-gclib (0.11.2-1) UNRELEASED; urgency=medium
+libgclib (0.11.2-1) UNRELEASED; urgency=medium
 
   * Initial release (Closes: #924582)
   see https://salsa.debian.org/med-team/genome-code-lib

debian/control

-Source: gclib
+Source: libgclib
 Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
-Uploaders: Andreas Tille <tille@debian.org>
+Uploaders: Steffen Moeller <moeller@debian.org>,
+           Andreas Tille <tille@debian.org>
 Section: science
 Priority: optional
-Build-Depends: debhelper (>= 12~)
+Build-Depends: debhelper (>= 12~),
+               d-shlibs,
+               libgd-dev
 Standards-Version: 4.3.0
-Vcs-Browser: https://salsa.debian.org/med-team/gclib
-Vcs-Git: https://salsa.debian.org/med-team/gclib.git
+Vcs-Browser: https://salsa.debian.org/med-team/libgclib
+Vcs-Git: https://salsa.debian.org/med-team/libgclib.git
 Homepage: https://github.com/gpertea/gclib
 
-Package: gclib
+Package: libgclib-dev
 Architecture: any
+Multi-Arch: same
+Section: libdevel
+Depends: libgclib0 (= ${binary:Version}),
+         ${misc:Depends}
+Description: header files for Genome Code Lib (GCLib)
+ This is an eclectic gathering of (mostly) C++ code which upstream used
+ for some bioinformatics projects. The main idea is to provide
+ lean code and efficient data structures, trying to avoid too many code
+ dependencies of heavy libraries while minimizing production cycles (and
+ this also implies a decent compile/build time -- looking at you,
+ bloated configure scripts and lengthy compile times of Boost code or
+ other heavy C++ template code..).
+ .
+ This code was gathered even before the C++ STL had been fully adopted as
+ a cross-platform "standard". Since STL by itself is a bit heavier for
+ most of the C++ needs, it is prefered to use simpler&leaner C++ classes
+ or templates for basic strings, containers, basic algorithms etc.
+ .
+ Header files of Genome Code Lib. It is mainly known for being
+ used by StringTie but with its own release cycle.
+
+Package: libgclib0
+Architecture: any
+Multi-Arch: same
+Section: libs
 Depends: ${shlibs:Depends},
          ${misc:Depends}
-Description: Genomic C(++) library of reusable code for bioinformatics projects
- This is an eclectic gathering of (mostly) C++ code which used for
- some of my bioinformatics projects. The main idea is to provide lean
- code and efficient data structures, trying to avoid too many code
- dependencies of heavy libraries while minimizing production cycles.
+Description: C++ library to handle biological short sequence data
+ This is an eclectic gathering of (mostly) C++ code which upstream used
+ for some bioinformatics projects. The main idea is to provide
+ lean code and efficient data structures, trying to avoid too many code
+ dependencies of heavy libraries while minimizing production cycles (and
+ this also implies a decent compile/build time -- looking at you,
+ bloated configure scripts and lengthy compile times of Boost code or
+ other heavy C++ template code..).
  .
  This code was gathered even before the C++ STL had been fully adopted as
  a cross-platform "standard". Since STL by itself is a bit heavier for
- most of my C++ needs, it is prefered to use simpler&leaner C++ classes
+ most of the C++ needs, it is prefered to use simpler&leaner C++ classes
  or templates for basic strings, containers, basic algorithms etc.

debian/patches/autoconf.patch

@@ -4,7 +4,7 @@ Descriptions: Build proper libraries via automake
 
 --- /dev/null
 +++ b/Makefile.am
-@@ -0,0 +1,29 @@
+@@ -0,0 +1,32 @@
 +lib_LTLIBRARIES  = libgclib.la
 +
 +libgclibdir=$(includedir)
@@ -13,7 +13,6 @@ Descriptions: Build proper libraries via automake
 +                       GAlnExtend.cpp \
 +                       GapAssem.cpp \
 +                       GArgs.cpp \
-+                       GBam.cpp \
 +                       GBase.cpp \
 +                       gcdb.cpp \
 +                       GCdbYank.cpp \
@@ -27,6 +26,10 @@ Descriptions: Build proper libraries via automake
 +                       GStr.cpp \
 +                       gtest.cpp \
 +                       GThreads.cpp
++
++#                       GBam.cpp # Exists but is not build by upstream Makefile
++#				 # Would need bam.h / sam.h
++
 +libgclib_la_LDFLAGS = -version-info @LIB_VERSION@
 +
 +libgclib_la_CPPFLAGS = $(INCLUDES)

debian/rules

@@ -4,28 +4,20 @@
 export LC_ALL=C.UTF-8
 
 include /usr/share/dpkg/default.mk
-# this provides:
-# DEB_SOURCE: the source package name
-# DEB_VERSION: the full version of the package (epoch + upstream vers. + revision)
-# DEB_VERSION_EPOCH_UPSTREAM: the package's version without the Debian revision
-# DEB_VERSION_UPSTREAM_REVISION: the package's version without the Debian epoch
-# DEB_VERSION_UPSTREAM: the package's upstream version
-# DEB_DISTRIBUTION: the distribution(s) listed in the current entry of debian/changelog
-# SOURCE_DATE_EPOCH: the source release date as seconds since the epoch, as
-#                    specified by <https://reproducible-builds.org/specs/source-date-epoch/>
 
-# for hardening you might like to uncomment this:
-# export DEB_BUILD_MAINT_OPTIONS=hardening=+all
+export DEB_BUILD_MAINT_OPTIONS = hardening=+all
+export DEB_CXXFLAGS_MAINT_APPEND  = -Wall -pedantic -flto -fPIC
+export DEB_LDFLAGS_MAINT_APPEND = -Wl,--as-needed -Wl,-flto
 
 %:
 	dh $@
 
-### When overriding auto_test make sure DEB_BUILD_OPTIONS will be respected
-#override_dh_auto_test:
-#ifeq (,$(filter nocheck,$(DEB_BUILD_OPTIONS)))
-#	do_stuff_for_testing
-#endif
-
-### If you **really** can not use uscan (even not with mode=git) use a debian/get-orig-script
-#get-orig-source:
-#	. debian/get-orig-source
+override_dh_install:
+	dh_install
+	d-shlibmove --commit \
+		    --multiarch \
+		    --devunversioned \
+		    --exclude-la \
+		    --movedev debian/tmp/usr/include usr \
+		    --movedev "debian/tmp/usr/lib/*/pkgconfig/*.pc" usr/lib/$(DEB_HOST_MULTIARCH)/pkgconfig \
+		    debian/tmp/usr/lib/*/*.so