debian/changelog

-libbpp-seq-omics (2.4.1-2) UNRELEASED; urgency=medium
+libbpp-seq-omics (2.4.1-2) unstable; urgency=medium
 
+  [ Jelmer Vernooij ]
   * Use secure copyright file specification URI.
   * Trim trailing whitespace.
 
- -- Jelmer Vernooij <jelmer@debian.org>  Wed, 24 Oct 2018 22:54:36 +0000
+  [ Andreas Tille ]
+  * Easier way to provide symbols for amd64 only
+  * Adapt symbols
+    Closes: #917591
+  * Standards-Version: 4.3.0
+  * Remove trailing whitespace in debian/copyright
+
+ -- Andreas Tille <tille@debian.org>  Sun, 06 Jan 2019 17:30:24 +0100
 
 libbpp-seq-omics (2.4.1-1) unstable; urgency=medium
 

debian/control

@@ -8,7 +8,7 @@ Build-Depends: debhelper (>= 11~),
                cmake,
                d-shlibs (>= 0.82),
                libbpp-seq-dev (>= 2.4.1)
-Standards-Version: 4.2.0
+Standards-Version: 4.3.0
 Vcs-Browser: https://salsa.debian.org/med-team/libbpp-seq-omics
 Vcs-Git: https://salsa.debian.org/med-team/libbpp-seq-omics.git
 Homepage: http://biopp.univ-montp2.fr/wiki/index.php/Main_Page

debian/copyright

@@ -373,7 +373,7 @@ License: CeCILL
  terms and conditions of such technical assistance, and/or such
  maintenance, shall be set forth in a separate instrument. Only the
  Licensor offering said maintenance and/or technical assistance services
- shall incur liability therefor.
+ shall incur liability therefore.
  .
  7.2 Similarly, any Licensor is entitled to offer to its licensees, under
  its sole responsibility, a warranty, that shall only be binding upon

debian/libbpp-seq-omics3.symbols → debian/libbpp-seq-omics3.symbols.amd64

@@ -39,7 +39,6 @@ libbpp-seq-omics.so.3 libbpp-seq-omics3 #MINVER#
  _ZN3bpp12EdSymbolList7shuffleEv@Base 2.4.1
  _ZN3bpp12EdSymbolListixEm@Base 2.4.1
  _ZN3bpp12SequenceMaskC1ERKSt6vectorIbSaIbEEb@Base 2.4.1
- _ZN3bpp12SequenceMaskD0Ev@Base 2.4.1
  _ZN3bpp13AlphabetStateD0Ev@Base 2.4.1
  _ZN3bpp13AlphabetStateD1Ev@Base 2.4.1
  _ZN3bpp13BasicSequenceD0Ev@Base 2.4.1
@@ -346,10 +345,6 @@ libbpp-seq-omics.so.3 libbpp-seq-omics3 #MINVER#
  _ZNK3bpp12EdSymbolList4sizeEv@Base 2.4.1
  _ZNK3bpp12EdSymbolList5cloneEv@Base 2.4.1
  _ZNK3bpp12EdSymbolListixEm@Base 2.4.1
- _ZNK3bpp12SequenceMask11isRemovableEv@Base 2.4.1
- _ZNK3bpp12SequenceMask11isValidWithERKNS_22SequenceWithAnnotationEb@Base 2.4.1
- _ZNK3bpp12SequenceMask7getTypeB5cxx11Ev@Base 2.4.1
- _ZNK3bpp12SequenceMask8isSharedEv@Base 2.4.1
  _ZNK3bpp13AlphabetState5cloneEv@Base 2.4.1
  _ZNK3bpp13CodonAlphabet23getUnknownCharacterCodeEv@Base 2.4.1
  _ZNK3bpp14LetterAlphabet16isCharInAlphabetERKNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEE@Base 2.4.1
@@ -991,9 +986,7 @@ libbpp-seq-omics.so.3 libbpp-seq-omics3 #MINVER#
  _ZThn8_N3bpp22SequenceWithAnnotation10setContentERKSt6vectorINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESaIS7_EE@Base 2.4.1
  _ZThn8_N3bpp22SequenceWithAnnotation10setContentERKSt6vectorIiSaIiEE@Base 2.4.1
  _ZTv0_n112_NK3bpp23VectorSequenceContainer20getNumberOfSequencesEv@Base 2.4.1
- _ZTv0_n144_NK3bpp12SequenceMask7getTypeB5cxx11Ev@Base 2.4.1
  _ZTv0_n144_NK3bpp15SequenceQuality7getTypeB5cxx11Ev@Base 2.4.1
- _ZTv0_n152_NK3bpp12SequenceMask11isValidWithERKNS_22SequenceWithAnnotationEb@Base 2.4.1
  _ZTv0_n152_NK3bpp15SequenceQuality11isValidWithERKNS_22SequenceWithAnnotationEb@Base 2.4.1
  _ZTv0_n168_NK3bpp12EdSymbolListixEm@Base 2.4.1
  _ZTv0_n168_NK3bpp15BasicSymbolListixEm@Base 2.4.1
@@ -1003,7 +996,6 @@ libbpp-seq-omics.so.3 libbpp-seq-omics3 #MINVER#
  _ZTv0_n24_N3bpp10BppIntegerD1Ev@Base 2.4.1
  _ZTv0_n24_N3bpp11MafSequenceD0Ev@Base 2.4.1
  _ZTv0_n24_N3bpp11MafSequenceD1Ev@Base 2.4.1
- _ZTv0_n24_N3bpp12SequenceMaskD0Ev@Base 2.4.1
  _ZTv0_n24_N3bpp13AlphabetStateD0Ev@Base 2.4.1
  _ZTv0_n24_N3bpp13AlphabetStateD1Ev@Base 2.4.1
  _ZTv0_n24_N3bpp13BasicSequenceD0Ev@Base 2.4.1
@@ -1142,7 +1134,6 @@ libbpp-seq-omics.so.3 libbpp-seq-omics3 #MINVER#
  _ZTv0_n48_N3bpp25SimpleMafStatisticsResult8setValueERKNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEi@Base 2.4.1
  _ZTv0_n48_N3bpp36CsvStatisticsOutputIterationListener14iterationStopsEv@Base 2.4.1
  _ZTv0_n48_NK3bpp12EdSymbolList11getAlphabetEv@Base 2.4.1
- _ZTv0_n48_NK3bpp12SequenceMask11isRemovableEv@Base 2.4.1
  _ZTv0_n48_NK3bpp15SequenceQuality11isRemovableEv@Base 2.4.1
  _ZTv0_n48_NK3bpp21AbstractMafStatistics9getResultEv@Base 2.4.1
  _ZTv0_n48_NK3bpp22SequenceWithAnnotation7getNameB5cxx11Ev@Base 2.4.1
@@ -1162,7 +1153,6 @@ libbpp-seq-omics.so.3 libbpp-seq-omics3 #MINVER#
  _ZTv0_n56_N3bpp34SiteFrequencySpectrumMafStatistics7computeERKNS_8MafBlockE@Base 2.4.1
  _ZTv0_n56_N3bpp37FourSpeciesPatternCountsMafStatistics7computeERKNS_8MafBlockE@Base 2.4.1
  _ZTv0_n56_NK3bpp12EdSymbolList4sizeEv@Base 2.4.1
- _ZTv0_n56_NK3bpp12SequenceMask8isSharedEv@Base 2.4.1
  _ZTv0_n56_NK3bpp15BasicSymbolList4sizeEv@Base 2.4.1
  _ZTv0_n56_NK3bpp15SequenceQuality8isSharedEv@Base 2.4.1
  _ZTv0_n64_N3bpp16GffFeatureReader21getFeaturesOfSequenceERKNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEERNS_18SequenceFeatureSetE@Base 2.4.1

debian/rules

@@ -9,23 +9,6 @@ CMAKE_EXTRA_FLAGS += -DBUILD_TESTING=OFF
 %:
 	dh $@
 
-override_dh_makeshlibs:
-ifeq ($(DEB_BUILD_ARCH),amd64)
-	echo "Architecture amd64 is the only one where a symbols file is provided"
-else
-	echo "Symbols file for architecture $(DEB_BUILD_ARCH) is not provided"
-	mkdir -p debian/hidesymbols
-	mv debian/*.symbols debian/hidesymbols
-endif
-	dh_makeshlibs
-ifeq ($(DEB_BUILD_ARCH),amd64)
-	echo "dh_makeshlibs for architecture amd64 including symbols done"
-else
-	# restore original debian/ dir to enable building twice in a row
-	mv debian/hidesymbols/*.symbols debian
-	rmdir debian/hidesymbols
-endif
-
 override_dh_install:
 	dh_install
 	d-shlibmove --commit \