[Debian-med-packaging] Bug#925731: libbpp-core: ftbfs with GCC-9

[Matthias Klose]

Package: src:libbpp-core
Version: 2.4.1-3
Severity: normal
Tags: sid bullseye
User: debian-gcc at lists.debian.org
Usertags: ftbfs-gcc-9

Please keep this issue open in the bug tracker for the package it
was filed for.  If a fix in another package is required, please
file a bug for the other package (or clone), and add a block in this
package. Please keep the issue open until the package can be built in
a follow-up test rebuild.

The package fails to build in a test rebuild on at least amd64 with
gcc-9/g++-9, but succeeds to build with gcc-8/g++-8. The
severity of this report will be raised before the bullseye release,
so nothing has to be done for the buster release.

The full build log can be found at:
http://people.debian.org/~doko/logs/gcc9-20190321/libbpp-core_2.4.1-3_unstable_gcc9.log
The last lines of the build log are at the end of this report.

To build with GCC 9, either set CC=gcc-9 CXX=g++-9 explicitly,
or install the gcc, g++, gfortran, ... packages from experimental.

  apt-get -t=experimental install g++ 

Common build failures are new warnings resulting in build failures with
-Werror turned on, or new/dropped symbols in Debian symbols files.
For other C/C++ related build failures see the porting guide at
http://gcc.gnu.org/gcc-9/porting_to.html

GCC 9 also passes the linker option --as-needed by default; typical
build issues are passing libraries before object files to the linker,
or underlinking of convenience libraries built from the same source.

[...]
+ _ZN3bpp30LowMemoryRescaledHmmLikelihoodC1ERKS0_ at Base 2.4.1-3
  _ZN3bpp30LowMemoryRescaledHmmLikelihoodC2EPNS_16HmmStateAlphabetEPNS_19HmmTransitionMatrixEPNS_24HmmEmissionProbabilitiesERKNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEm at Base 2.4.1
  _ZN3bpp30LowMemoryRescaledHmmLikelihoodD0Ev at Base 2.4.1
  _ZN3bpp30LowMemoryRescaledHmmLikelihoodD1Ev at Base 2.4.1
@@ -1348,7 +1358,7 @@
  _ZN3bpp9TextTools7toUpperERKNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEE at Base 2.4.1
  _ZN3bpp9TextTools8endsWithERKNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEES8_ at Base 2.4.1
  _ZN3bpp9TextTools8toDoubleERKNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEcc at Base 2.4.1
- _ZN3bpp9TextTools8toStringINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEEES7_T_ at Base 2.4.1
+#MISSING: 2.4.1-3# _ZN3bpp9TextTools8toStringINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEEES7_T_ at Base 2.4.1
  _ZN3bpp9TextTools8toStringIcEENSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEET_ at Base 2.4.1
  _ZN3bpp9TextTools8toStringIdEENSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEET_ at Base 2.4.1
  _ZN3bpp9TextTools8toStringIiEENSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEET_ at Base 2.4.1
@@ -1999,8 +2009,8 @@
  _ZNKSt5ctypeIcE8do_widenEc at Base 2.4.1
  _ZNKSt8_Rb_treeINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESt4pairIKS5_PN3bpp8FunctionEESt10_Select1stISB_ESt4lessIS5_ESaISB_EE4findERS7_ at Base 2.4.1
  _ZNKSt8_Rb_treeINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESt4pairIKS5_S5_ESt10_Select1stIS8_ESt4lessIS5_ESaIS8_EE4findERS7_ at Base 2.4.1
- _ZNKSt8_Rb_treeISt10shared_ptrIN3bpp8OperatorEESt4pairIKS3_jESt10_Select1stIS6_ESt4lessIS3_ESaIS6_EE4findERS5_ at Base 2.4.1
- _ZNKSt8_Rb_treeISt10shared_ptrIsESt4pairIKS1_jESt10_Select1stIS4_ESt4lessIS1_ESaIS4_EE4findERS3_ at Base 2.4.1
+#MISSING: 2.4.1-3# _ZNKSt8_Rb_treeISt10shared_ptrIN3bpp8OperatorEESt4pairIKS3_jESt10_Select1stIS6_ESt4lessIS3_ESaIS6_EE4findERS5_ at Base 2.4.1
+#MISSING: 2.4.1-3# _ZNKSt8_Rb_treeISt10shared_ptrIsESt4pairIKS1_jESt10_Select1stIS4_ESt4lessIS1_ESaIS4_EE4findERS3_ at Base 2.4.1
  _ZNKSt8_Rb_treeIdSt4pairIKddESt10_Select1stIS2_EN3bpp28AbstractDiscreteDistribution5OrderESaIS2_EE4findERS1_ at Base 2.4.1
  _ZNSt10shared_ptrIN3bpp12OutputStreamEED1Ev at Base 2.4.1
  _ZNSt10shared_ptrIN3bpp12OutputStreamEED2Ev at Base 2.4.1
@@ -2100,7 +2110,7 @@
  _ZNSt3mapIKN3bpp8RGBColorENSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESt4lessIS2_ESaISt4pairIS2_S8_EEEixERS2_ at Base 2.4.1
  _ZNSt3mapINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEN3bpp8RGBColorESt4lessIS5_ESaISt4pairIKS5_S7_EEEixEOS5_ at Base 2.4.1
  _ZNSt3mapINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEES5_St4lessIS5_ESaISt4pairIKS5_S5_EEEixEOS5_ at Base 2.4.1
- _ZNSt3mapISt10shared_ptrIN3bpp8OperatorEEjSt4lessIS3_ESaISt4pairIKS3_jEEEixERS7_ at Base 2.4.1
+#MISSING: 2.4.1-3# _ZNSt3mapISt10shared_ptrIN3bpp8OperatorEEjSt4lessIS3_ESaISt4pairIKS3_jEEEixERS7_ at Base 2.4.1
  _ZNSt3mapISt10shared_ptrIsEjSt4lessIS1_ESaISt4pairIKS1_jEEEixERS5_ at Base 2.4.1
  _ZNSt5dequeINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESaIS5_EE12emplace_backIJS5_EEEvDpOT_ at Base 2.4.1
  _ZNSt5dequeINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESaIS5_EE8_M_eraseESt15_Deque_iteratorIS5_RS5_PS5_E at Base 2.4.1
@@ -2127,7 +2137,7 @@
  _ZNSt6vectorINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESaIS5_EE17_M_realloc_insertIJN9__gnu_cxx17__normal_iteratorIPKcS5_EESD_EEEvNSA_IPS5_S7_EEDpOT_ at Base 2.4.1
  _ZNSt6vectorINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESaIS5_EE17_M_realloc_insertIJRKS5_EEEvN9__gnu_cxx17__normal_iteratorIPS5_S7_EEDpOT_ at Base 2.4.1
  _ZNSt6vectorINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESaIS5_EE17_M_realloc_insertIJS5_EEEvN9__gnu_cxx17__normal_iteratorIPS5_S7_EEDpOT_ at Base 2.4.1
- _ZNSt6vectorINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESaIS5_EE7reserveEm at Base 2.4.1
+#MISSING: 2.4.1-3# _ZNSt6vectorINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESaIS5_EE7reserveEm at Base 2.4.1
  _ZNSt6vectorINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESaIS5_EE8_M_eraseEN9__gnu_cxx17__normal_iteratorIPS5_S7_EE at Base 2.4.1
  _ZNSt6vectorINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESaIS5_EED1Ev at Base 2.4.1
  _ZNSt6vectorINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESaIS5_EED2Ev at Base 2.4.1
@@ -2164,8 +2174,8 @@
  _ZNSt6vectorISt10shared_ptrIN3bpp8OperatorEESaIS3_EED2Ev at Base 2.4.1
  _ZNSt6vectorISt10shared_ptrIN3bpp9ParameterEESaIS3_EE12emplace_backIJS3_EEEvDpOT_ at Base 2.4.1
  _ZNSt6vectorISt10shared_ptrIN3bpp9ParameterEESaIS3_EE17_M_default_appendEm at Base 2.4.1
- _ZNSt6vectorISt10shared_ptrIN3bpp9ParameterEESaIS3_EE17_M_realloc_insertIJRKS3_EEEvN9__gnu_cxx17__normal_iteratorIPS3_S5_EEDpOT_ at Base 2.4.1
- _ZNSt6vectorISt10shared_ptrIN3bpp9ParameterEESaIS3_EE17_M_realloc_insertIJS3_EEEvN9__gnu_cxx17__normal_iteratorIPS3_S5_EEDpOT_ at Base 2.4.1
+#MISSING: 2.4.1-3# _ZNSt6vectorISt10shared_ptrIN3bpp9ParameterEESaIS3_EE17_M_realloc_insertIJRKS3_EEEvN9__gnu_cxx17__normal_iteratorIPS3_S5_EEDpOT_ at Base 2.4.1
+#MISSING: 2.4.1-3# _ZNSt6vectorISt10shared_ptrIN3bpp9ParameterEESaIS3_EE17_M_realloc_insertIJS3_EEEvN9__gnu_cxx17__normal_iteratorIPS3_S5_EEDpOT_ at Base 2.4.1
  _ZNSt6vectorISt10shared_ptrIN3bpp9ParameterEESaIS3_EE8_M_eraseEN9__gnu_cxx17__normal_iteratorIPS3_S5_EE at Base 2.4.1
  _ZNSt6vectorISt10shared_ptrIN3bpp9ParameterEESaIS3_EED1Ev at Base 2.4.1
  _ZNSt6vectorISt10shared_ptrIN3bpp9ParameterEESaIS3_EED2Ev at Base 2.4.1
@@ -2231,11 +2241,11 @@
  _ZNSt8_Rb_treeIPN3bpp13GraphObserverES2_St9_IdentityIS2_ESt4lessIS2_ESaIS2_EEaSERKS8_ at Base 2.4.1
  _ZNSt8_Rb_treeISt10shared_ptrIN3bpp8OperatorEESt4pairIKS3_jESt10_Select1stIS6_ESt4lessIS3_ESaIS6_EE24_M_get_insert_unique_posERS5_ at Base 2.4.1
  _ZNSt8_Rb_treeISt10shared_ptrIN3bpp8OperatorEESt4pairIKS3_jESt10_Select1stIS6_ESt4lessIS3_ESaIS6_EE29_M_get_insert_hint_unique_posESt23_Rb_tree_const_iteratorIS6_ERS5_ at Base 2.4.1
- _ZNSt8_Rb_treeISt10shared_ptrIN3bpp8OperatorEESt4pairIKS3_jESt10_Select1stIS6_ESt4lessIS3_ESaIS6_EE4findERS5_ at Base 2.4.1
+#MISSING: 2.4.1-3# _ZNSt8_Rb_treeISt10shared_ptrIN3bpp8OperatorEESt4pairIKS3_jESt10_Select1stIS6_ESt4lessIS3_ESaIS6_EE4findERS5_ at Base 2.4.1
  _ZNSt8_Rb_treeISt10shared_ptrIN3bpp8OperatorEESt4pairIKS3_jESt10_Select1stIS6_ESt4lessIS3_ESaIS6_EE8_M_eraseEPSt13_Rb_tree_nodeIS6_E at Base 2.4.1
  _ZNSt8_Rb_treeISt10shared_ptrIsESt4pairIKS1_jESt10_Select1stIS4_ESt4lessIS1_ESaIS4_EE24_M_get_insert_unique_posERS3_ at Base 2.4.1
  _ZNSt8_Rb_treeISt10shared_ptrIsESt4pairIKS1_jESt10_Select1stIS4_ESt4lessIS1_ESaIS4_EE29_M_get_insert_hint_unique_posESt23_Rb_tree_const_iteratorIS4_ERS3_ at Base 2.4.1
- _ZNSt8_Rb_treeISt10shared_ptrIsESt4pairIKS1_jESt10_Select1stIS4_ESt4lessIS1_ESaIS4_EE4findERS3_ at Base 2.4.1
+#MISSING: 2.4.1-3# _ZNSt8_Rb_treeISt10shared_ptrIsESt4pairIKS1_jESt10_Select1stIS4_ESt4lessIS1_ESaIS4_EE4findERS3_ at Base 2.4.1
  _ZNSt8_Rb_treeISt10shared_ptrIsESt4pairIKS1_jESt10_Select1stIS4_ESt4lessIS1_ESaIS4_EE8_M_eraseEPSt13_Rb_tree_nodeIS4_E at Base 2.4.1
  _ZNSt8_Rb_treeISt4pairIjjES1_St9_IdentityIS1_ESt4lessIS1_ESaIS1_EE16_M_insert_uniqueIS1_EES0_ISt17_Rb_tree_iteratorIS1_EbEOT_ at Base 2.4.1
  _ZNSt8_Rb_treeISt4pairIjjES1_St9_IdentityIS1_ESt4lessIS1_ESaIS1_EE4findERKS1_ at Base 2.4.1
dh_makeshlibs: failing due to earlier errors
make: *** [debian/rules:10: binary-arch] Error 2
dpkg-buildpackage: error: fakeroot debian/rules binary-arch subprocess returned exit status 2