debian/changelog

+libbpp-seq (2.4.1-3) unstable; urgency=medium
+
+  * Rebuild for new version of gcc to fix symbols
+    Closes: #923954
+  * Standards-Version: 4.3.0
+
+ -- Andreas Tille <tille@debian.org>  Thu, 07 Mar 2019 18:56:16 +0100
+
 libbpp-seq (2.4.1-2) unstable; urgency=medium
 
   [ Jelmer Vernooij ]

debian/control

@@ -8,7 +8,7 @@ Build-Depends: debhelper (>= 11~),
                cmake,
                d-shlibs (>= 0.80),
                libbpp-core-dev (>= 2.4.1)
-Standards-Version: 4.2.1
+Standards-Version: 4.3.0
 Vcs-Browser: https://salsa.debian.org/med-team/libbpp-seq
 Vcs-Git: https://salsa.debian.org/med-team/libbpp-seq.git
 Homepage: http://biopp.univ-montp2.fr/wiki/index.php/Main_Page

debian/libbpp-seq12.symbols

@@ -328,7 +328,6 @@ libbpp-seq.so.12 libbpp-seq12 #MINVER#
  _ZN3bpp16AbstractAlphabet8getStateERKNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEE@Base 2.4.1
  _ZN3bpp16AbstractAlphabet8getStateEi@Base 2.4.1
  _ZN3bpp16AbstractAlphabet8setStateEmPNS_13AlphabetStateE@Base 2.4.1
- _ZN3bpp16AbstractAlphabetC2ERKS0_@Base 2.4.1
  _ZN3bpp16AbstractAlphabetD2Ev@Base 2.4.1
  _ZN3bpp16AbstractCoreSite11setPositionEi@Base 2.4.1
  _ZN3bpp16ApplicationTools12getParameterIjEET_RKNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEERKSt3mapIS8_S8_St4lessIS8_ESaISt4pairIS9_S8_EEES2_SA_bi@Base 2.4.1
@@ -1710,13 +1709,13 @@ libbpp-seq.so.12 libbpp-seq12 #MINVER#
  _ZNKSt5ctypeIcE8do_widenEc@Base 2.4.1
  _ZNKSt8_Rb_treeINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESt4pairIKS5_S5_ESt10_Select1stIS8_ESt4lessIS5_ESaIS8_EE4findERS7_@Base 2.4.1
  _ZNKSt8_Rb_treeINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESt4pairIKS5_mESt10_Select1stIS8_ESt4lessIS5_ESaIS8_EE4findERS7_@Base 2.4.1
+ _ZNSt11_Deque_baseINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESaIS5_EED1Ev@Base 2.4.1
+ _ZNSt11_Deque_baseINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESaIS5_EED2Ev@Base 2.4.1
  _ZNSt11_Deque_baseIiSaIiEE17_M_initialize_mapEm@Base 2.4.1
  _ZNSt11_Deque_baseIiSaIiEED1Ev@Base 2.4.1
  _ZNSt11_Deque_baseIiSaIiEED2Ev@Base 2.4.1
  _ZNSt13_Bvector_baseISaIbEE13_M_deallocateEv@Base 2.4.1
  _ZNSt3mapINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEES5_St4lessIS5_ESaISt4pairIKS5_S5_EEEixEOS5_@Base 2.4.1
- _ZNSt3mapINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEES5_St4lessIS5_ESaISt4pairIKS5_S5_EEEixERS9_@Base 2.4.1
- _ZNSt3mapINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESt6vectorImSaImEESt4lessIS5_ESaISt4pairIKS5_S8_EEEixERSC_@Base 2.4.1
  _ZNSt3mapIiiSt4lessIiESaISt4pairIKiiEEEixEOi@Base 2.4.1
  _ZNSt5dequeINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESaIS5_EED1Ev@Base 2.4.1
  _ZNSt5dequeINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESaIS5_EED2Ev@Base 2.4.1
@@ -1813,7 +1812,6 @@ libbpp-seq.so.12 libbpp-seq12 #MINVER#
  _ZNSt8_Rb_treeINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESt4pairIKS5_PN3bpp8SequenceEESt10_Select1stISB_ESt4lessIS5_ESaISB_EE11equal_rangeERS7_@Base 2.4.1
  _ZNSt8_Rb_treeINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESt4pairIKS5_PN3bpp8SequenceEESt10_Select1stISB_ESt4lessIS5_ESaISB_EE12_M_erase_auxESt23_Rb_tree_const_iteratorISB_E@Base 2.4.1
  _ZNSt8_Rb_treeINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESt4pairIKS5_PN3bpp8SequenceEESt10_Select1stISB_ESt4lessIS5_ESaISB_EE14_M_insert_nodeEPSt18_Rb_tree_node_baseSJ_PSt13_Rb_tree_nodeISB_E@Base 2.4.1
- (optional)_ZNSt8_Rb_treeINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESt4pairIKS5_PN3bpp8SequenceEESt10_Select1stISB_ESt4lessIS5_ESaISB_EE16_M_insert_uniqueIS6_IS5_SA_EEES6_ISt17_Rb_tree_iteratorISB_EbEOT_@Base 2.4.1
  (optional)_ZNSt8_Rb_treeINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESt4pairIKS5_PN3bpp8SequenceEESt10_Select1stISB_ESt4lessIS5_ESaISB_EE17_M_emplace_uniqueIJS6_IS5_SA_EEEES6_ISt17_Rb_tree_iteratorISB_EbEDpOT_@Base 2.4.1
  _ZNSt8_Rb_treeINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESt4pairIKS5_PN3bpp8SequenceEESt10_Select1stISB_ESt4lessIS5_ESaISB_EE22_M_emplace_hint_uniqueIJRKSt21piecewise_construct_tSt5tupleIJRS7_EESM_IJEEEEESt17_Rb_tree_iteratorISB_ESt23_Rb_tree_const_iteratorISB_EDpOT_@Base 2.4.1
  _ZNSt8_Rb_treeINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESt4pairIKS5_PN3bpp8SequenceEESt10_Select1stISB_ESt4lessIS5_ESaISB_EE24_M_get_insert_unique_posERS7_@Base 2.4.1
@@ -1851,6 +1849,7 @@ libbpp-seq.so.12 libbpp-seq12 #MINVER#
  _ZNSt8_Rb_treeIcSt4pairIKcdESt10_Select1stIS2_ESt4lessIcESaIS2_EE24_M_get_insert_unique_posERS1_@Base 2.4.1
  _ZNSt8_Rb_treeIcSt4pairIKcdESt10_Select1stIS2_ESt4lessIcESaIS2_EE29_M_get_insert_hint_unique_posESt23_Rb_tree_const_iteratorIS2_ERS1_@Base 2.4.1
  _ZNSt8_Rb_treeIcSt4pairIKcdESt10_Select1stIS2_ESt4lessIcESaIS2_EE8_M_eraseEPSt13_Rb_tree_nodeIS2_E@Base 2.4.1
+ _ZNSt8_Rb_treeIdSt4pairIKdmESt10_Select1stIS2_ESt4lessIdESaIS2_EE22_M_emplace_hint_uniqueIJRKSt21piecewise_construct_tSt5tupleIJRS1_EESD_IJEEEEESt17_Rb_tree_iteratorIS2_ESt23_Rb_tree_const_iteratorIS2_EDpOT_@Base 2.4.1
  _ZNSt8_Rb_treeIdSt4pairIKdmESt10_Select1stIS2_ESt4lessIdESaIS2_EE24_M_get_insert_unique_posERS1_@Base 2.4.1
  _ZNSt8_Rb_treeIdSt4pairIKdmESt10_Select1stIS2_ESt4lessIdESaIS2_EE29_M_get_insert_hint_unique_posESt23_Rb_tree_const_iteratorIS2_ERS1_@Base 2.4.1
  _ZNSt8_Rb_treeIdSt4pairIKdmESt10_Select1stIS2_ESt4lessIdESaIS2_EE7_M_copyINS8_11_Alloc_nodeEEEPSt13_Rb_tree_nodeIS2_EPKSC_PSt18_Rb_tree_node_baseRT_@Base 2.4.1
@@ -1873,6 +1872,7 @@ libbpp-seq.so.12 libbpp-seq12 #MINVER#
  _ZNSt8_Rb_treeIiSt4pairIKiiESt10_Select1stIS2_ESt4lessIiESaIS2_EE7_M_copyINS8_11_Alloc_nodeEEEPSt13_Rb_tree_nodeIS2_EPKSC_PSt18_Rb_tree_node_baseRT_@Base 2.4.1
  _ZNSt8_Rb_treeIiSt4pairIKiiESt10_Select1stIS2_ESt4lessIiESaIS2_EE8_M_eraseEPSt13_Rb_tree_nodeIS2_E@Base 2.4.1
  _ZNSt8_Rb_treeIiSt4pairIKimESt10_Select1stIS2_ESt4lessIiESaIS2_EE14_M_insert_nodeEPSt18_Rb_tree_node_baseSA_PSt13_Rb_tree_nodeIS2_E@Base 2.4.1
+ _ZNSt8_Rb_treeIiSt4pairIKimESt10_Select1stIS2_ESt4lessIiESaIS2_EE22_M_emplace_hint_uniqueIJRKSt21piecewise_construct_tSt5tupleIJOiEESD_IJEEEEESt17_Rb_tree_iteratorIS2_ESt23_Rb_tree_const_iteratorIS2_EDpOT_@Base 2.4.1
  _ZNSt8_Rb_treeIiSt4pairIKimESt10_Select1stIS2_ESt4lessIiESaIS2_EE22_M_emplace_hint_uniqueIJRKSt21piecewise_construct_tSt5tupleIJRS1_EESD_IJEEEEESt17_Rb_tree_iteratorIS2_ESt23_Rb_tree_const_iteratorIS2_EDpOT_@Base 2.4.1
  _ZNSt8_Rb_treeIiSt4pairIKimESt10_Select1stIS2_ESt4lessIiESaIS2_EE24_M_get_insert_unique_posERS1_@Base 2.4.1
  _ZNSt8_Rb_treeIiSt4pairIKimESt10_Select1stIS2_ESt4lessIiESaIS2_EE29_M_get_insert_hint_unique_posESt23_Rb_tree_const_iteratorIS2_ERS1_@Base 2.4.1
@@ -1884,10 +1884,10 @@ libbpp-seq.so.12 libbpp-seq12 #MINVER#
  _ZNSt8_Rb_treeImSt4pairIKmPN3bpp13SiteContainerEESt10_Select1stIS5_ESt4lessImESaIS5_EE29_M_get_insert_hint_unique_posESt23_Rb_tree_const_iteratorIS5_ERS1_@Base 2.4.1
  _ZNSt8_Rb_treeImSt4pairIKmPN3bpp13SiteContainerEESt10_Select1stIS5_ESt4lessImESaIS5_EE8_M_eraseEPSt13_Rb_tree_nodeIS5_E@Base 2.4.1
  _ZNSt8_Rb_treeImSt4pairIKmmESt10_Select1stIS2_ESt4lessImESaIS2_EE14_M_insert_nodeEPSt18_Rb_tree_node_baseSA_PSt13_Rb_tree_nodeIS2_E@Base 2.4.1
+ _ZNSt8_Rb_treeImSt4pairIKmmESt10_Select1stIS2_ESt4lessImESaIS2_EE22_M_emplace_hint_uniqueIJRKSt21piecewise_construct_tSt5tupleIJOmEESD_IJEEEEESt17_Rb_tree_iteratorIS2_ESt23_Rb_tree_const_iteratorIS2_EDpOT_@Base 2.4.1
  _ZNSt8_Rb_treeImSt4pairIKmmESt10_Select1stIS2_ESt4lessImESaIS2_EE24_M_get_insert_unique_posERS1_@Base 2.4.1
  _ZNSt8_Rb_treeImSt4pairIKmmESt10_Select1stIS2_ESt4lessImESaIS2_EE29_M_get_insert_hint_unique_posESt23_Rb_tree_const_iteratorIS2_ERS1_@Base 2.4.1
  _ZNSt8_Rb_treeImSt4pairIKmmESt10_Select1stIS2_ESt4lessImESaIS2_EE8_M_eraseEPSt13_Rb_tree_nodeIS2_E@Base 2.4.1
- _ZSt11__remove_ifIN9__gnu_cxx17__normal_iteratorIPiSt6vectorIiSaIiEEEENS0_5__ops16_Iter_equals_valIKiEEET_SB_SB_T0_@Base 2.4.1
  _ZSt13__adjust_heapIN9__gnu_cxx17__normal_iteratorIPPN3bpp5RangeImEESt6vectorIS5_SaIS5_EEEElS5_NS0_5__ops15_Iter_comp_iterINS2_10rangeComp_ImEEEEEvT_T0_SH_T1_T2_@Base 2.4.1
  _ZSt16__insertion_sortIN9__gnu_cxx17__normal_iteratorIPPN3bpp5RangeImEESt6vectorIS5_SaIS5_EEEENS0_5__ops15_Iter_comp_iterINS2_10rangeComp_ImEEEEEvT_SG_T0_@Base 2.4.1
  _ZSt16__introsort_loopIN9__gnu_cxx17__normal_iteratorIPPN3bpp5RangeImEESt6vectorIS5_SaIS5_EEEElNS0_5__ops15_Iter_comp_iterINS2_10rangeComp_ImEEEEEvT_SG_T0_T1_@Base 2.4.1
@@ -2460,7 +2460,6 @@ libbpp-seq.so.12 libbpp-seq12 #MINVER#
  _ZTVN3bpp7ClustalE@Base 2.4.1
  _ZTVN3bpp7GenBankE@Base 2.4.1
  _ZTVN3bpp8BLOSUM50E@Base 2.4.1
- _ZTVN3bpp8ClonableE@Base 2.4.1
  _ZTVN3bpp8DNAToRNAE@Base 2.4.1
  _ZTVN3bpp8PhredPhdE@Base 2.4.1
  _ZTVN3bpp9PhredPolyE@Base 2.4.1