[med-svn] [Git][med-team/libbpp-phyl][master] 5 commits: d/patches/unforce-cxxflags.patch: update to allow combination of upstream's...
Michael R. Crusoe (@crusoe)
gitlab at salsa.debian.org
Mon Mar 25 20:30:57 GMT 2024
Michael R. Crusoe pushed to branch master at Debian Med / libbpp-phyl
Commits:
44229eab by Michael R. Crusoe at 2024-03-25T18:54:49+01:00
d/patches/unforce-cxxflags.patch: update to allow combination of upstream's and dpkg-buildflags compile flags
- - - - -
775c1d5d by Michael R. Crusoe at 2024-03-25T18:54:49+01:00
d/source/lintian-overrides: silence false-positive from the t64 transition
- - - - -
cb7f4bb7 by Michael R. Crusoe at 2024-03-25T18:54:50+01:00
d/patches/spelling: new patch to fix typos.
- - - - -
9e30ae8c by Michael R. Crusoe at 2024-03-25T18:54:50+01:00
remove unused "-DBUILD_TESTING=OFF"
- - - - -
972f5713 by Michael R. Crusoe at 2024-03-25T18:54:50+01:00
routine-update: Ready to upload to unstable
- - - - -
8 changed files:
- debian/changelog
- debian/libbpp-phyl12t64.lintian-overrides
- debian/libbpp-phyl12t64.symbols.amd64
- debian/patches/series
- + debian/patches/spelling
- debian/patches/unforce-cxxflags.patch
- debian/rules
- + debian/source/lintian-overrides
Changes:
=====================================
debian/changelog
=====================================
@@ -1,3 +1,14 @@
+libbpp-phyl (2.4.1-10) unstable; urgency=medium
+
+ * Team upload.
+ * d/patches/unforce-cxxflags.patch: update to allow combination of
+ upstream's and dpkg-buildflags compile flags.
+ * d/source/lintian-overrides: silence false-positive from the t64
+ transition
+ * d/patches/spelling: new patch to fix typos.
+
+ -- Michael R. Crusoe <crusoe at debian.org> Mon, 25 Mar 2024 16:12:25 +0100
+
libbpp-phyl (2.4.1-9.1) unstable; urgency=medium
* Non-maintainer upload.
=====================================
debian/libbpp-phyl12t64.lintian-overrides
=====================================
@@ -1 +1,2 @@
libbpp-phyl12t64: package-name-doesnt-match-sonames libbpp-phyl12
+libbpp-phyl12t64: conflicts-with-version libbpp-phyl12 (<< 2.4.1-10)
=====================================
debian/libbpp-phyl12t64.symbols.amd64
=====================================
@@ -1,4 +1,5 @@
libbpp-phyl.so.12 libbpp-phyl12t64 #MINVER#
+* Build-Depends-Package: libbpp-phyl-dev
_ZN3bpp10BppBooleanD0Ev at Base 2.4.1
_ZN3bpp10BppBooleanD1Ev at Base 2.4.1
_ZN3bpp10EigenValueIdE4hqr2Ev at Base 2.4.1
@@ -275,13 +276,13 @@ libbpp-phyl.so.12 libbpp-phyl12t64 #MINVER#
_ZN3bpp12TreeTemplateINS_4NodeEEC1ERKNS_4TreeE at Base 2.4.1
_ZN3bpp12TreeTemplateINS_4NodeEED0Ev at Base 2.4.1
_ZN3bpp12TreeTemplateINS_4NodeEED1Ev at Base 2.4.1
+ _ZN3bpp12WordAlphabetD0Ev at Base 2.4.1-10~
_ZN3bpp12WrappedModelD2Ev at Base 2.4.1
_ZN3bpp13AbstractITreeD2Ev at Base 2.4.1
_ZN3bpp13AbstractOTreeD2Ev at Base 2.4.1
_ZN3bpp13AlphabetStateD0Ev at Base 2.4.1
_ZN3bpp13AlphabetStateD1Ev at Base 2.4.1
_ZN3bpp13AlphabetTools20alphabetInheritsFromINS_13CodonAlphabetEEEbPKNS_8AlphabetE at Base 2.4.1
- (optional)_ZN3bpp13AlphabetTools20alphabetInheritsFromINS_14BinaryAlphabetEEEbPKNS_8AlphabetE at Base 2.4.1
(optional)_ZN3bpp13AlphabetTools20alphabetInheritsFromINS_15NucleicAlphabetEEEbPKNS_8AlphabetE at Base 2.4.1
_ZN3bpp13AlphabetTools20alphabetInheritsFromINS_15ProteicAlphabetEEEbPKNS_8AlphabetE at Base 2.4.1
_ZN3bpp13BasicSequenceD0Ev at Base 2.4.1
@@ -641,6 +642,7 @@ libbpp-phyl.so.12 libbpp-phyl12t64 #MINVER#
_ZN3bpp17TreeTemplateTools8getNodesIKNS_4NodeEEEvRT_RSt6vectorIPS4_SaIS7_EE at Base 2.4.1
_ZN3bpp17TreeTemplateTools8getNodesINS_12NodeTemplateINS_12ClusterInfosEEEEEvRT_RSt6vectorIPS5_SaIS8_EE at Base 2.4.1
_ZN3bpp17TreeTemplateTools8getNodesINS_12NodeTemplateINS_19TreeDrawingNodeInfoEEEEEvRT_RSt6vectorIPS5_SaIS8_EE at Base 2.4.1
+ _ZN3bpp17TreeTemplateTools8getNodesINS_12NodeTemplateINS_7SimDataEEEEESt6vectorIPT_SaIS7_EERS6_ at Base 2.4.1-10~
_ZN3bpp17TreeTemplateTools8getNodesINS_12NodeTemplateINS_7SimDataEEEEEvRT_RSt6vectorIPS5_SaIS8_EE at Base 2.4.1
_ZN3bpp17TreeTemplateTools8getNodesINS_12NodeTemplateINS_9PGMAInfosEEEEEvRT_RSt6vectorIPS5_SaIS8_EE at Base 2.4.1
_ZN3bpp17TreeTemplateTools8getNodesINS_4NodeEEEvRT_RSt6vectorIPS3_SaIS6_EE at Base 2.4.1
@@ -1025,7 +1027,6 @@ libbpp-phyl.so.12 libbpp-phyl12t64 #MINVER#
_ZN3bpp22RASiteSimulationResultD0Ev at Base 2.4.1
_ZN3bpp22RASiteSimulationResultD1Ev at Base 2.4.1
_ZN3bpp22RASiteSimulationResultD2Ev at Base 2.4.1
- (optional)_ZN3bpp22SWSubstitutionRegisterC1EPKNS_22CodonSubstitutionModelE at Base 2.4.1
_ZN3bpp22SWSubstitutionRegisterD0Ev at Base 2.4.1
_ZN3bpp22SWSubstitutionRegisterD1Ev at Base 2.4.1
_ZN3bpp22StlOutputStreamWrapper5flushEv at Base 2.4.1
@@ -1064,7 +1065,6 @@ libbpp-phyl.so.12 libbpp-phyl12t64 #MINVER#
_ZN3bpp23DRTreeParsimonyLeafData7setNodeEPKNS_4NodeE at Base 2.4.1
_ZN3bpp23DRTreeParsimonyLeafDataD0Ev at Base 2.4.1
_ZN3bpp23DRTreeParsimonyLeafDataD1Ev at Base 2.4.1
- _ZN3bpp23DRTreeParsimonyNodeData19eraseNeighborArraysEv at Base 2.4.1
_ZN3bpp23DRTreeParsimonyNodeData7setNodeEPKNS_4NodeE at Base 2.4.1
_ZN3bpp23DRTreeParsimonyNodeDataD0Ev at Base 2.4.1
_ZN3bpp23DRTreeParsimonyNodeDataD1Ev at Base 2.4.1
@@ -1147,7 +1147,6 @@ libbpp-phyl.so.12 libbpp-phyl12t64 #MINVER#
_ZN3bpp24DRASDRTreeLikelihoodDataC1ERKS0_ at Base 2.4.1
_ZN3bpp24DRASDRTreeLikelihoodDataD0Ev at Base 2.4.1
_ZN3bpp24DRASDRTreeLikelihoodDataD1Ev at Base 2.4.1
- (optional)_ZN3bpp24DnDsSubstitutionRegisterC1EPKNS_22CodonSubstitutionModelEb at Base 2.4.1
_ZN3bpp24DnDsSubstitutionRegisterD0Ev at Base 2.4.1
_ZN3bpp24DnDsSubstitutionRegisterD1Ev at Base 2.4.1
_ZN3bpp24ElementNotFoundExceptionIiEC1ERKNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEPKSt6vectorIiSaIiEEPKi at Base 2.4.1
@@ -1361,7 +1360,6 @@ libbpp-phyl.so.12 libbpp-phyl12t64 #MINVER#
_ZN3bpp26AnonymousSubstitutionModelD0Ev at Base 2.4.1
_ZN3bpp26AnonymousSubstitutionModelD1Ev at Base 2.4.1
_ZN3bpp26BppORateDistributionFormat4readERKNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEb at Base 2.4.1
- (optional)_ZN3bpp26BppORateDistributionFormatC1Eb at Base 2.4.1
_ZN3bpp26BppORateDistributionFormatD0Ev at Base 2.4.1
_ZN3bpp26BppORateDistributionFormatD1Ev at Base 2.4.1
_ZN3bpp26CoreCodonSubstitutionModelD2Ev at Base 2.4.1
@@ -1643,7 +1641,6 @@ libbpp-phyl.so.12 libbpp-phyl12t64 #MINVER#
_ZN3bpp29CodonFromUniqueFrequenciesSetaSERKS0_ at Base 2.4.1
_ZN3bpp29FixedNucleotideFrequenciesSetD0Ev at Base 2.4.1
_ZN3bpp29FixedNucleotideFrequenciesSetD1Ev at Base 2.4.1
- (optional)_ZN3bpp29GammaDiscreteRateDistributionC1Emd at Base 2.4.1
_ZN3bpp29GammaDiscreteRateDistributionD0Ev at Base 2.4.1
_ZN3bpp29GammaDiscreteRateDistributionD1Ev at Base 2.4.1
_ZN3bpp29MarkovModulatedFrequenciesSet14setFrequenciesERKSt6vectorIdSaIdEE at Base 2.4.1
@@ -3155,6 +3152,7 @@ libbpp-phyl.so.12 libbpp-phyl12t64 #MINVER#
_ZNK3bpp17AbstractOptimizer23getDefaultStopConditionEv at Base 2.4.1
_ZNK3bpp17AbstractOptimizer35isMaximumNumberOfEvaluationsReachedEv at Base 2.4.1
_ZNK3bpp17AlphabetException11getAlphabetEv at Base 2.4.1
+ _ZNK3bpp17BrentOneDimension5cloneEv at Base 2.4.1-10~
_ZNK3bpp17CanonicalStateMap19getStateDescriptionB5cxx11Em at Base 2.4.1
_ZNK3bpp17CanonicalStateMap5cloneEv at Base 2.4.1
_ZNK3bpp17MvaFrequenciesSet11getAlphabetEv at Base 2.4.1
@@ -4400,8 +4398,6 @@ libbpp-phyl.so.12 libbpp-phyl12t64 #MINVER#
_ZNKSt5ctypeIcE8do_widenEc at Base 2.4.1
_ZNKSt8_Rb_treeINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESt4pairIKS5_PN3bpp20DiscreteDistributionEESt10_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
- _ZNSt10unique_ptrIKN3bpp12TreeTemplateINS0_4NodeEEESt14default_deleteIS4_EED1Ev at Base 2.4.1
- _ZNSt10unique_ptrIKN3bpp12TreeTemplateINS0_4NodeEEESt14default_deleteIS4_EED2Ev at Base 2.4.1
_ZNSt10unique_ptrIN3bpp10ConstraintESt14default_deleteIS1_EED1Ev at Base 2.4.1
_ZNSt10unique_ptrIN3bpp10ConstraintESt14default_deleteIS1_EED2Ev at Base 2.4.1
_ZNSt10unique_ptrIN3bpp12TreeTemplateINS0_12NodeTemplateINS0_19TreeDrawingNodeInfoEEEEESt14default_deleteIS5_EED1Ev at Base 2.4.1
@@ -4465,68 +4461,8 @@ libbpp-phyl.so.12 libbpp-phyl12t64 #MINVER#
_ZNSt12_Vector_baseIN3bpp9RowMatrixIdEESaIS2_EED2Ev at Base 2.4.1
_ZNSt12_Vector_baseINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESaIS5_EED1Ev at Base 2.4.1
_ZNSt12_Vector_baseINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESaIS5_EED2Ev at Base 2.4.1
- (optional)_ZNSt12_Vector_baseIPKN3bpp12NodeTemplateINS0_12ClusterInfosEEESaIS5_EED1Ev at Base 2.4.1
- (optional)_ZNSt12_Vector_baseIPKN3bpp12NodeTemplateINS0_12ClusterInfosEEESaIS5_EED2Ev at Base 2.4.1
- (optional)_ZNSt12_Vector_baseIPKN3bpp12NodeTemplateINS0_19TreeDrawingNodeInfoEEESaIS5_EED1Ev at Base 2.4.1
- (optional)_ZNSt12_Vector_baseIPKN3bpp12NodeTemplateINS0_19TreeDrawingNodeInfoEEESaIS5_EED2Ev at Base 2.4.1
- (optional)_ZNSt12_Vector_baseIPKN3bpp12NodeTemplateINS0_7SimDataEEESaIS5_EED1Ev at Base 2.4.1
- (optional)_ZNSt12_Vector_baseIPKN3bpp12NodeTemplateINS0_7SimDataEEESaIS5_EED2Ev at Base 2.4.1
- (optional)_ZNSt12_Vector_baseIPKN3bpp12NodeTemplateINS0_9PGMAInfosEEESaIS5_EED1Ev at Base 2.4.1
- (optional)_ZNSt12_Vector_baseIPKN3bpp12NodeTemplateINS0_9PGMAInfosEEESaIS5_EED2Ev at Base 2.4.1
- (optional)_ZNSt12_Vector_baseIPKN3bpp4NodeESaIS3_EED1Ev at Base 2.4.1
- (optional)_ZNSt12_Vector_baseIPKN3bpp4NodeESaIS3_EED2Ev at Base 2.4.1
- (optional)_ZNSt12_Vector_baseIPKN3bpp4SiteESaIS3_EED1Ev at Base 2.4.1
- (optional)_ZNSt12_Vector_baseIPKN3bpp4SiteESaIS3_EED2Ev at Base 2.4.1
- (optional)_ZNSt12_Vector_baseIPKN3bpp6MatrixIdEESaIS4_EED1Ev at Base 2.4.1
- (optional)_ZNSt12_Vector_baseIPKN3bpp6MatrixIdEESaIS4_EED2Ev at Base 2.4.1
- (optional)_ZNSt12_Vector_baseIPKN3bpp8SequenceESaIS3_EED1Ev at Base 2.4.1
- (optional)_ZNSt12_Vector_baseIPKN3bpp8SequenceESaIS3_EED2Ev at Base 2.4.1
- (optional)_ZNSt12_Vector_baseIPKSt6vectorIS0_IS0_IdSaIdEESaIS2_EESaIS4_EESaIS8_EED1Ev at Base 2.4.1
- (optional)_ZNSt12_Vector_baseIPKSt6vectorIS0_IS0_IdSaIdEESaIS2_EESaIS4_EESaIS8_EED2Ev at Base 2.4.1
- (optional)_ZNSt12_Vector_baseIPKSt6vectorISt6bitsetILm21EESaIS2_EESaIS6_EED1Ev at Base 2.4.1
- (optional)_ZNSt12_Vector_baseIPKSt6vectorISt6bitsetILm21EESaIS2_EESaIS6_EED2Ev at Base 2.4.1
- (optional)_ZNSt12_Vector_baseIPKSt6vectorIjSaIjEESaIS4_EED1Ev at Base 2.4.1
- (optional)_ZNSt12_Vector_baseIPKSt6vectorIjSaIjEESaIS4_EED2Ev at Base 2.4.1
- (optional)_ZNSt12_Vector_baseIPN3bpp12NodeTemplateINS0_12ClusterInfosEEESaIS4_EED1Ev at Base 2.4.1
- (optional)_ZNSt12_Vector_baseIPN3bpp12NodeTemplateINS0_12ClusterInfosEEESaIS4_EED2Ev at Base 2.4.1
- (optional)_ZNSt12_Vector_baseIPN3bpp12NodeTemplateINS0_19TreeDrawingNodeInfoEEESaIS4_EED1Ev at Base 2.4.1
- (optional)_ZNSt12_Vector_baseIPN3bpp12NodeTemplateINS0_19TreeDrawingNodeInfoEEESaIS4_EED2Ev at Base 2.4.1
- (optional)_ZNSt12_Vector_baseIPN3bpp12NodeTemplateINS0_7SimDataEEESaIS4_EED1Ev at Base 2.4.1
- (optional)_ZNSt12_Vector_baseIPN3bpp12NodeTemplateINS0_7SimDataEEESaIS4_EED2Ev at Base 2.4.1
- (optional)_ZNSt12_Vector_baseIPN3bpp12NodeTemplateINS0_9PGMAInfosEEESaIS4_EED1Ev at Base 2.4.1
- (optional)_ZNSt12_Vector_baseIPN3bpp12NodeTemplateINS0_9PGMAInfosEEESaIS4_EED2Ev at Base 2.4.1
- (optional)_ZNSt12_Vector_baseIPN3bpp14FrequenciesSetESaIS2_EED1Ev at Base 2.4.1
- (optional)_ZNSt12_Vector_baseIPN3bpp14FrequenciesSetESaIS2_EED2Ev at Base 2.4.1
- (optional)_ZNSt12_Vector_baseIPN3bpp15BipartitionListESaIS2_EED1Ev at Base 2.4.1
- (optional)_ZNSt12_Vector_baseIPN3bpp15BipartitionListESaIS2_EED2Ev at Base 2.4.1
- (optional)_ZNSt12_Vector_baseIPN3bpp15TransitionModelESaIS2_EED1Ev at Base 2.4.1
- (optional)_ZNSt12_Vector_baseIPN3bpp15TransitionModelESaIS2_EED2Ev at Base 2.4.1
- (optional)_ZNSt12_Vector_baseIPN3bpp17SubstitutionModelESaIS2_EED1Ev at Base 2.4.1
- (optional)_ZNSt12_Vector_baseIPN3bpp17SubstitutionModelESaIS2_EED2Ev at Base 2.4.1
- (optional)_ZNSt12_Vector_baseIPN3bpp20DiscreteDistributionESaIS2_EED1Ev at Base 2.4.1
- (optional)_ZNSt12_Vector_baseIPN3bpp20DiscreteDistributionESaIS2_EED2Ev at Base 2.4.1
- (optional)_ZNSt12_Vector_baseIPN3bpp20SubstitutionRegisterESaIS2_EED1Ev at Base 2.4.1
- (optional)_ZNSt12_Vector_baseIPN3bpp20SubstitutionRegisterESaIS2_EED2Ev at Base 2.4.1
- (optional)_ZNSt12_Vector_baseIPN3bpp25MixedSubstitutionModelSet9HyperNodeESaIS3_EED1Ev at Base 2.4.1
- (optional)_ZNSt12_Vector_baseIPN3bpp25MixedSubstitutionModelSet9HyperNodeESaIS3_EED2Ev at Base 2.4.1
- (optional)_ZNSt12_Vector_baseIPN3bpp26RHomogeneousTreeLikelihoodESaIS2_EED1Ev at Base 2.4.1
- (optional)_ZNSt12_Vector_baseIPN3bpp26RHomogeneousTreeLikelihoodESaIS2_EED2Ev at Base 2.4.1
- (optional)_ZNSt12_Vector_baseIPN3bpp27DRHomogeneousTreeLikelihoodESaIS2_EED1Ev at Base 2.4.1
- (optional)_ZNSt12_Vector_baseIPN3bpp27DRHomogeneousTreeLikelihoodESaIS2_EED2Ev at Base 2.4.1
- (optional)_ZNSt12_Vector_baseIPN3bpp34RNonHomogeneousMixedTreeLikelihoodESaIS2_EED1Ev at Base 2.4.1
- (optional)_ZNSt12_Vector_baseIPN3bpp34RNonHomogeneousMixedTreeLikelihoodESaIS2_EED2Ev at Base 2.4.1
- (optional)_ZNSt12_Vector_baseIPN3bpp4NodeESaIS2_EED1Ev at Base 2.4.1
- (optional)_ZNSt12_Vector_baseIPN3bpp4NodeESaIS2_EED2Ev at Base 2.4.1
- (optional)_ZNSt12_Vector_baseIPN3bpp4TreeESaIS2_EED1Ev at Base 2.4.1
- (optional)_ZNSt12_Vector_baseIPN3bpp4TreeESaIS2_EED2Ev at Base 2.4.1
- (optional)_ZNSt12_Vector_baseIPSt6vectorIdSaIdEESaIS3_EED1Ev at Base 2.4.1
- (optional)_ZNSt12_Vector_baseIPSt6vectorIdSaIdEESaIS3_EED2Ev at Base 2.4.1
- (optional)_ZNSt12_Vector_baseIPiSaIS0_EED1Ev at Base 2.4.1
- (optional)_ZNSt12_Vector_baseIPiSaIS0_EED2Ev at Base 2.4.1
_ZNSt12_Vector_baseISt3setImSt4lessImESaImEESaIS4_EED1Ev at Base 2.4.1
_ZNSt12_Vector_baseISt3setImSt4lessImESaImEESaIS4_EED2Ev at Base 2.4.1
- (optional)_ZNSt12_Vector_baseISt6bitsetILm21EESaIS1_EED1Ev at Base 2.4.1
- (optional)_ZNSt12_Vector_baseISt6bitsetILm21EESaIS1_EED2Ev at Base 2.4.1
_ZNSt12_Vector_baseISt6vectorIS0_IdSaIdEESaIS2_EESaIS4_EED1Ev at Base 2.4.1
_ZNSt12_Vector_baseISt6vectorIS0_IdSaIdEESaIS2_EESaIS4_EED2Ev at Base 2.4.1
_ZNSt12_Vector_baseISt6vectorIbSaIbEESaIS2_EED1Ev at Base 2.4.1
@@ -4535,12 +4471,6 @@ libbpp-phyl.so.12 libbpp-phyl12t64 #MINVER#
_ZNSt12_Vector_baseISt6vectorIdSaIdEESaIS2_EED2Ev at Base 2.4.1
_ZNSt12_Vector_baseIdSaIdEED1Ev at Base 2.4.1
_ZNSt12_Vector_baseIdSaIdEED2Ev at Base 2.4.1
- (optional)_ZNSt12_Vector_baseIiSaIiEED1Ev at Base 2.4.1
- (optional)_ZNSt12_Vector_baseIiSaIiEED2Ev at Base 2.4.1
- (optional)_ZNSt12_Vector_baseIjSaIjEED1Ev at Base 2.4.1
- (optional)_ZNSt12_Vector_baseIjSaIjEED2Ev at Base 2.4.1
- (optional)_ZNSt12_Vector_baseImSaImEED1Ev at Base 2.4.1
- (optional)_ZNSt12_Vector_baseImSaImEED2Ev at Base 2.4.1
_ZNSt13_Bvector_baseISaIbEE13_M_deallocateEv at Base 2.4.1
_ZNSt15_Sp_counted_ptrIPKN3bpp8StateMapELN9__gnu_cxx12_Lock_policyE2EE10_M_destroyEv at Base 2.4.1
_ZNSt15_Sp_counted_ptrIPKN3bpp8StateMapELN9__gnu_cxx12_Lock_policyE2EE10_M_disposeEv at Base 2.4.1
@@ -4583,13 +4513,13 @@ libbpp-phyl.so.12 libbpp-phyl12t64 #MINVER#
_ZNSt3mapIiN3bpp27DRASRTreeLikelihoodNodeDataESt4lessIiESaISt4pairIKiS1_EEEixERS5_ at Base 2.4.1
_ZNSt3mapIiN3bpp28DRASDRTreeLikelihoodLeafDataESt4lessIiESaISt4pairIKiS1_EEEixERS5_ at Base 2.4.1
_ZNSt3mapIiN3bpp28DRASDRTreeLikelihoodNodeDataESt4lessIiESaISt4pairIKiS1_EEEixERS5_ at Base 2.4.1
+ _ZNSt3mapIiS_IiSt6vectorImSaImEESt4lessIiESaISt4pairIKiS2_EEES4_SaIS5_IS6_S9_EEEixEOi at Base 2.4.1-10~
_ZNSt3mapIiSt6vectorIPN3bpp34RNonHomogeneousMixedTreeLikelihoodESaIS3_EESt4lessIiESaISt4pairIKiS5_EEEixERS9_ at Base 2.4.1
_ZNSt3mapIiSt6vectorIS0_IS0_IdSaIdEESaIS2_EESaIS4_EESt4lessIiESaISt4pairIKiS6_EEEixEOi at Base 2.4.1
_ZNSt3mapIiSt6vectorIS0_IS0_IdSaIdEESaIS2_EESaIS4_EESt4lessIiESaISt4pairIKiS6_EEEixERSA_ at Base 2.4.1
_ZNSt3mapIiSt6vectorIS0_IdSaIdEESaIS2_EESt4lessIiESaISt4pairIKiS4_EEEixERS8_ at Base 2.4.1
_ZNSt3mapIiSt6vectorISt6bitsetILm21EESaIS2_EESt4lessIiESaISt4pairIKiS4_EEEixERS8_ at Base 2.4.1
_ZNSt3mapIiSt6vectorIjSaIjEESt4lessIiESaISt4pairIKiS2_EEEixERS6_ at Base 2.4.1
- (optional)_ZNSt3mapIidSt4lessIiESaISt4pairIKidEEEixERS3_ at Base 2.4.1
_ZNSt3mapImPN3bpp4NodeESt4lessImESaISt4pairIKmS2_EEEixERS6_ at Base 2.4.1
(optional)_ZNSt3mapImSt6vectorIdSaIdEESt4lessImESaISt4pairIKmS2_EEEixERS6_ at Base 2.4.1
_ZNSt3mapImmSt4lessImESaISt4pairIKmmEEEixERS3_ at Base 2.4.1
@@ -4626,6 +4556,7 @@ libbpp-phyl.so.12 libbpp-phyl12t64 #MINVER#
_ZNSt6vectorIN3bpp9RowMatrixIdEESaIS2_EEC2ERKS4_ at Base 2.4.1
_ZNSt6vectorIN3bpp9RowMatrixIdEESaIS2_EED1Ev at Base 2.4.1
_ZNSt6vectorIN3bpp9RowMatrixIdEESaIS2_EED2Ev at Base 2.4.1
+ _ZNSt6vectorINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESaIS5_EE12emplace_backIJS5_EEEvDpOT_ at Base 2.4.1-10~
_ZNSt6vectorINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESaIS5_EE14_M_fill_assignEmRKS5_ at Base 2.4.1
_ZNSt6vectorINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESaIS5_EE17_M_default_appendEm 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
@@ -4649,6 +4580,7 @@ libbpp-phyl.so.12 libbpp-phyl12t64 #MINVER#
(optional)_ZNSt6vectorIPKN3bpp12NodeTemplateINS0_9PGMAInfosEEESaIS5_EED1Ev at Base 2.4.1
(optional)_ZNSt6vectorIPKN3bpp12NodeTemplateINS0_9PGMAInfosEEESaIS5_EED2Ev at Base 2.4.1
_ZNSt6vectorIPKN3bpp15TransitionModelESaIS3_EE17_M_realloc_insertIJS3_EEEvN9__gnu_cxx17__normal_iteratorIPS3_S5_EEDpOT_ at Base 2.4.1
+ _ZNSt6vectorIPKN3bpp4NodeESaIS3_EE12emplace_backIJS3_EEEvDpOT_ at Base 2.4.1-10~
_ZNSt6vectorIPKN3bpp4NodeESaIS3_EE17_M_realloc_insertIJRKS3_EEEvN9__gnu_cxx17__normal_iteratorIPS3_S5_EEDpOT_ at Base 2.4.1
_ZNSt6vectorIPKN3bpp4NodeESaIS3_EE17_M_realloc_insertIJS3_EEEvN9__gnu_cxx17__normal_iteratorIPS3_S5_EEDpOT_ at Base 2.4.1
(optional)_ZNSt6vectorIPKN3bpp4NodeESaIS3_EED1Ev at Base 2.4.1
@@ -4662,6 +4594,7 @@ libbpp-phyl.so.12 libbpp-phyl12t64 #MINVER#
_ZNSt6vectorIPKN3bpp8SequenceESaIS3_EE17_M_realloc_insertIJRKS3_EEEvN9__gnu_cxx17__normal_iteratorIPS3_S5_EEDpOT_ at Base 2.4.1
(optional)_ZNSt6vectorIPKN3bpp8SequenceESaIS3_EED1Ev at Base 2.4.1
(optional)_ZNSt6vectorIPKN3bpp8SequenceESaIS3_EED2Ev at Base 2.4.1
+ _ZNSt6vectorIPKS_IS_IS_IdSaIdEESaIS1_EESaIS3_EESaIS7_EE12emplace_backIJS7_EEEvDpOT_ at Base 2.4.1-10~
_ZNSt6vectorIPKS_IS_IS_IdSaIdEESaIS1_EESaIS3_EESaIS7_EE17_M_realloc_insertIJRKS7_EEEvN9__gnu_cxx17__normal_iteratorIPS7_S9_EEDpOT_ at Base 2.4.1
_ZNSt6vectorIPKS_IS_IS_IdSaIdEESaIS1_EESaIS3_EESaIS7_EE17_M_realloc_insertIJS7_EEEvN9__gnu_cxx17__normal_iteratorIPS7_S9_EEDpOT_ at Base 2.4.1
_ZNSt6vectorIPKS_IS_IS_IdSaIdEESaIS1_EESaIS3_EESaIS7_EEC1EmRKS8_ at Base 2.4.1
@@ -4689,6 +4622,7 @@ libbpp-phyl.so.12 libbpp-phyl12t64 #MINVER#
(optional)_ZNSt6vectorIPN3bpp12NodeTemplateINS0_9PGMAInfosEEESaIS4_EED1Ev at Base 2.4.1
(optional)_ZNSt6vectorIPN3bpp12NodeTemplateINS0_9PGMAInfosEEESaIS4_EED2Ev at Base 2.4.1
_ZNSt6vectorIPN3bpp13AlphabetStateESaIS2_EE17_M_realloc_insertIJS2_EEEvN9__gnu_cxx17__normal_iteratorIPS2_S4_EEDpOT_ at Base 2.4.1
+ _ZNSt6vectorIPN3bpp14FrequenciesSetESaIS2_EE12emplace_backIJS2_EEEvDpOT_ at Base 2.4.1-10~
_ZNSt6vectorIPN3bpp14FrequenciesSetESaIS2_EE17_M_default_appendEm at Base 2.4.1
_ZNSt6vectorIPN3bpp14FrequenciesSetESaIS2_EE17_M_realloc_insertIJRKS2_EEEvN9__gnu_cxx17__normal_iteratorIPS2_S4_EEDpOT_ at Base 2.4.1
_ZNSt6vectorIPN3bpp14FrequenciesSetESaIS2_EE17_M_realloc_insertIJS2_EEEvN9__gnu_cxx17__normal_iteratorIPS2_S4_EEDpOT_ at Base 2.4.1
@@ -4702,6 +4636,7 @@ libbpp-phyl.so.12 libbpp-phyl12t64 #MINVER#
(optional)_ZNSt6vectorIPN3bpp15TransitionModelESaIS2_EED1Ev at Base 2.4.1
(optional)_ZNSt6vectorIPN3bpp15TransitionModelESaIS2_EED2Ev at Base 2.4.1
_ZNSt6vectorIPN3bpp16TopologyListenerESaIS2_EE17_M_realloc_insertIJRKS2_EEEvN9__gnu_cxx17__normal_iteratorIPS2_S4_EEDpOT_ at Base 2.4.1
+ _ZNSt6vectorIPN3bpp17SubstitutionModelESaIS2_EE12emplace_backIJS2_EEEvDpOT_ at Base 2.4.1-10~
_ZNSt6vectorIPN3bpp17SubstitutionModelESaIS2_EE17_M_realloc_insertIJRKS2_EEEvN9__gnu_cxx17__normal_iteratorIPS2_S4_EEDpOT_ at Base 2.4.1
_ZNSt6vectorIPN3bpp17SubstitutionModelESaIS2_EE17_M_realloc_insertIJS2_EEEvN9__gnu_cxx17__normal_iteratorIPS2_S4_EEDpOT_ at Base 2.4.1
(optional)_ZNSt6vectorIPN3bpp17SubstitutionModelESaIS2_EED1Ev at Base 2.4.1
@@ -4718,6 +4653,7 @@ libbpp-phyl.so.12 libbpp-phyl12t64 #MINVER#
_ZNSt6vectorIPN3bpp25MixedSubstitutionModelSet9HyperNodeESaIS3_EE17_M_realloc_insertIJS3_EEEvN9__gnu_cxx17__normal_iteratorIPS3_S5_EEDpOT_ at Base 2.4.1
(optional)_ZNSt6vectorIPN3bpp25MixedSubstitutionModelSet9HyperNodeESaIS3_EED1Ev at Base 2.4.1
(optional)_ZNSt6vectorIPN3bpp25MixedSubstitutionModelSet9HyperNodeESaIS3_EED2Ev at Base 2.4.1
+ _ZNSt6vectorIPN3bpp26CoreCodonSubstitutionModelESaIS2_EE12emplace_backIJS2_EEEvDpOT_ at Base 2.4.1-10~
_ZNSt6vectorIPN3bpp26CoreCodonSubstitutionModelESaIS2_EE17_M_realloc_insertIJS2_EEEvN9__gnu_cxx17__normal_iteratorIPS2_S4_EEDpOT_ at Base 2.4.1
_ZNSt6vectorIPN3bpp26RHomogeneousTreeLikelihoodESaIS2_EE17_M_realloc_insertIJS2_EEEvN9__gnu_cxx17__normal_iteratorIPS2_S4_EEDpOT_ at Base 2.4.1
(optional)_ZNSt6vectorIPN3bpp26RHomogeneousTreeLikelihoodESaIS2_EED1Ev at Base 2.4.1
@@ -4729,6 +4665,7 @@ libbpp-phyl.so.12 libbpp-phyl12t64 #MINVER#
_ZNSt6vectorIPN3bpp34RNonHomogeneousMixedTreeLikelihoodESaIS2_EE17_M_realloc_insertIJS2_EEEvN9__gnu_cxx17__normal_iteratorIPS2_S4_EEDpOT_ at Base 2.4.1
(optional)_ZNSt6vectorIPN3bpp34RNonHomogeneousMixedTreeLikelihoodESaIS2_EED1Ev at Base 2.4.1
(optional)_ZNSt6vectorIPN3bpp34RNonHomogeneousMixedTreeLikelihoodESaIS2_EED2Ev at Base 2.4.1
+ _ZNSt6vectorIPN3bpp4NodeESaIS2_EE12emplace_backIJS2_EEEvDpOT_ at Base 2.4.1-10~
(optional)_ZNSt6vectorIPN3bpp4NodeESaIS2_EE17_M_default_appendEm at Base 2.4.1
_ZNSt6vectorIPN3bpp4NodeESaIS2_EE17_M_realloc_insertIJRKS2_EEEvN9__gnu_cxx17__normal_iteratorIPS2_S4_EEDpOT_ at Base 2.4.1
_ZNSt6vectorIPN3bpp4NodeESaIS2_EE17_M_realloc_insertIJS2_EEEvN9__gnu_cxx17__normal_iteratorIPS2_S4_EEDpOT_ at Base 2.4.1
@@ -4744,6 +4681,7 @@ libbpp-phyl.so.12 libbpp-phyl12t64 #MINVER#
_ZNSt6vectorIPS_IdSaIdEESaIS2_EE17_M_realloc_insertIJS2_EEEvN9__gnu_cxx17__normal_iteratorIPS2_S4_EEDpOT_ at Base 2.4.1
(optional)_ZNSt6vectorIPS_IdSaIdEESaIS2_EED1Ev at Base 2.4.1
(optional)_ZNSt6vectorIPS_IdSaIdEESaIS2_EED2Ev at Base 2.4.1
+ _ZNSt6vectorIPiSaIS0_EE12emplace_backIJS0_EEEvDpOT_ at Base 2.4.1-10~
_ZNSt6vectorIPiSaIS0_EE17_M_default_appendEm at Base 2.4.1
_ZNSt6vectorIPiSaIS0_EE17_M_realloc_insertIJRKS0_EEEvN9__gnu_cxx17__normal_iteratorIPS0_S2_EEDpOT_ at Base 2.4.1
(optional)_ZNSt6vectorIPiSaIS0_EED1Ev at Base 2.4.1
@@ -4804,7 +4742,9 @@ libbpp-phyl.so.12 libbpp-phyl12t64 #MINVER#
_ZNSt6vectorISt6bitsetILm21EESaIS1_EE17_M_default_appendEm at Base 2.4.1
(optional)_ZNSt6vectorISt6bitsetILm21EESaIS1_EED1Ev at Base 2.4.1
(optional)_ZNSt6vectorISt6bitsetILm21EESaIS1_EED2Ev at Base 2.4.1
+ _ZNSt6vectorIbSaIbEE13_M_insert_auxESt13_Bit_iteratorb at Base 2.4.1-10~
_ZNSt6vectorIbSaIbEE14_M_fill_insertESt13_Bit_iteratormb at Base 2.4.1
+ _ZNSt6vectorIdSaIdEE12emplace_backIJdEEEvDpOT_ at Base 2.4.1-10~
_ZNSt6vectorIdSaIdEE17_M_default_appendEm at Base 2.4.1
_ZNSt6vectorIdSaIdEE17_M_realloc_insertIJRKdEEEvN9__gnu_cxx17__normal_iteratorIPdS1_EEDpOT_ at Base 2.4.1
_ZNSt6vectorIdSaIdEE17_M_realloc_insertIJdEEEvN9__gnu_cxx17__normal_iteratorIPdS1_EEDpOT_ at Base 2.4.1
@@ -4822,7 +4762,6 @@ libbpp-phyl.so.12 libbpp-phyl12t64 #MINVER#
_ZNSt6vectorIiSaIiEE17_M_default_appendEm at Base 2.4.1
_ZNSt6vectorIiSaIiEE17_M_realloc_insertIJRKiEEEvN9__gnu_cxx17__normal_iteratorIPiS1_EEDpOT_ at Base 2.4.1
_ZNSt6vectorIiSaIiEE17_M_realloc_insertIJiEEEvN9__gnu_cxx17__normal_iteratorIPiS1_EEDpOT_ at Base 2.4.1
- (optional)_ZNSt6vectorIiSaIiEE8_M_eraseEN9__gnu_cxx17__normal_iteratorIPiS1_EE at Base 2.4.1
_ZNSt6vectorIiSaIiEE9push_backERKi at Base 2.4.1
_ZNSt6vectorIiSaIiEEC1ERKS1_ at Base 2.4.1
_ZNSt6vectorIiSaIiEEC1EmRKS0_ at Base 2.4.1
@@ -4832,10 +4771,9 @@ libbpp-phyl.so.12 libbpp-phyl12t64 #MINVER#
(optional)_ZNSt6vectorIiSaIiEED2Ev at Base 2.4.1
_ZNSt6vectorIjSaIjEE17_M_default_appendEm at Base 2.4.1
_ZNSt6vectorIjSaIjEE17_M_realloc_insertIJjEEEvN9__gnu_cxx17__normal_iteratorIPjS1_EEDpOT_ at Base 2.4.1
- (optional)_ZNSt6vectorIjSaIjEEC1ERKS1_ at Base 2.4.1
- (optional)_ZNSt6vectorIjSaIjEEC2ERKS1_ at Base 2.4.1
(optional)_ZNSt6vectorIjSaIjEED1Ev at Base 2.4.1
(optional)_ZNSt6vectorIjSaIjEED2Ev at Base 2.4.1
+ _ZNSt6vectorImSaImEE12emplace_backIJmEEEvDpOT_ at Base 2.4.1-10~
_ZNSt6vectorImSaImEE17_M_default_appendEm at Base 2.4.1
_ZNSt6vectorImSaImEE17_M_realloc_insertIJRKmEEEvN9__gnu_cxx17__normal_iteratorIPmS1_EEDpOT_ at Base 2.4.1
_ZNSt6vectorImSaImEE17_M_realloc_insertIJmEEEvN9__gnu_cxx17__normal_iteratorIPmS1_EEDpOT_ at Base 2.4.1
@@ -4844,8 +4782,6 @@ libbpp-phyl.so.12 libbpp-phyl12t64 #MINVER#
(optional)_ZNSt6vectorImSaImEED1Ev at Base 2.4.1
(optional)_ZNSt6vectorImSaImEED2Ev at Base 2.4.1
_ZNSt6vectorItSaItEE17_M_realloc_insertIJRKtEEEvN9__gnu_cxx17__normal_iteratorIPtS1_EEDpOT_ at Base 2.4.1
- _ZNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEC1IS3_EEPKcRKS3_ at Base 2.4.1
- _ZNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEC2IS3_EEPKcRKS3_ at Base 2.4.1
_ZNSt7__cxx1115basic_stringbufIcSt11char_traitsIcESaIcEED0Ev at Base 2.4.1
_ZNSt7__cxx1115basic_stringbufIcSt11char_traitsIcESaIcEED1Ev at Base 2.4.1
_ZNSt7__cxx1115basic_stringbufIcSt11char_traitsIcESaIcEED2Ev at Base 2.4.1
@@ -4872,86 +4808,11 @@ libbpp-phyl.so.12 libbpp-phyl12t64 #MINVER#
_ZNSt8_Rb_treeINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESt4pairIKS5_mESt10_Select1stIS8_ESt4lessIS5_ESaIS8_EE24_M_get_insert_unique_posERS7_ at Base 2.4.1
_ZNSt8_Rb_treeINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESt4pairIKS5_mESt10_Select1stIS8_ESt4lessIS5_ESaIS8_EE29_M_get_insert_hint_unique_posESt23_Rb_tree_const_iteratorIS8_ERS7_ at Base 2.4.1
_ZNSt8_Rb_treeINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESt4pairIKS5_mESt10_Select1stIS8_ESt4lessIS5_ESaIS8_EE4findERS7_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeIPKN3bpp4NodeESt4pairIKS3_St6vectorIS4_INSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEdESaISD_EEESt10_Select1stISG_ESt4lessIS3_ESaISG_EE24_M_get_insert_unique_posERS5_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeIPKN3bpp4NodeESt4pairIKS3_St6vectorIS4_INSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEdESaISD_EEESt10_Select1stISG_ESt4lessIS3_ESaISG_EE29_M_get_insert_hint_unique_posESt23_Rb_tree_const_iteratorISG_ERS5_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeIPKN3bpp4NodeESt4pairIKS3_dESt10_Select1stIS6_ESt4lessIS3_ESaIS6_EE22_M_emplace_hint_uniqueIJRKSt21piecewise_construct_tSt5tupleIJOS3_EESH_IJEEEEESt17_Rb_tree_iteratorIS6_ESt23_Rb_tree_const_iteratorIS6_EDpOT_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeIPKN3bpp4NodeESt4pairIKS3_dESt10_Select1stIS6_ESt4lessIS3_ESaIS6_EE24_M_get_insert_unique_posERS5_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeIPKN3bpp4NodeESt4pairIKS3_dESt10_Select1stIS6_ESt4lessIS3_ESaIS6_EE29_M_get_insert_hint_unique_posESt23_Rb_tree_const_iteratorIS6_ERS5_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeIPKN3bpp4NodeESt4pairIKS3_jESt10_Select1stIS6_ESt4lessIS3_ESaIS6_EE24_M_get_insert_unique_posERS5_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeIPKN3bpp4NodeESt4pairIKS3_jESt10_Select1stIS6_ESt4lessIS3_ESaIS6_EE29_M_get_insert_hint_unique_posESt23_Rb_tree_const_iteratorIS6_ERS5_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeIdSt4pairIKddESt10_Select1stIS2_ESt4lessIdESaIS2_EE24_M_get_insert_unique_posERS1_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeIdSt4pairIKddESt10_Select1stIS2_ESt4lessIdESaIS2_EE29_M_get_insert_hint_unique_posESt23_Rb_tree_const_iteratorIS2_ERS1_ at Base 2.4.1
_ZNSt8_Rb_treeIiSt4pairIKiN3bpp23DRTreeParsimonyLeafDataEESt10_Select1stIS4_ESt4lessIiESaIS4_EE20_Reuse_or_alloc_nodeclIRKS4_EEPSt13_Rb_tree_nodeIS4_EOT_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeIiSt4pairIKiN3bpp23DRTreeParsimonyLeafDataEESt10_Select1stIS4_ESt4lessIiESaIS4_EE24_M_get_insert_unique_posERS1_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeIiSt4pairIKiN3bpp23DRTreeParsimonyLeafDataEESt10_Select1stIS4_ESt4lessIiESaIS4_EE29_M_get_insert_hint_unique_posESt23_Rb_tree_const_iteratorIS4_ERS1_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeIiSt4pairIKiN3bpp23DRTreeParsimonyNodeDataEESt10_Select1stIS4_ESt4lessIiESaIS4_EE24_M_get_insert_unique_posERS1_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeIiSt4pairIKiN3bpp23DRTreeParsimonyNodeDataEESt10_Select1stIS4_ESt4lessIiESaIS4_EE29_M_get_insert_hint_unique_posESt23_Rb_tree_const_iteratorIS4_ERS1_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeIiSt4pairIKiN3bpp27DRASRTreeLikelihoodNodeDataEESt10_Select1stIS4_ESt4lessIiESaIS4_EE24_M_get_insert_unique_posERS1_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeIiSt4pairIKiN3bpp27DRASRTreeLikelihoodNodeDataEESt10_Select1stIS4_ESt4lessIiESaIS4_EE29_M_get_insert_hint_unique_posESt23_Rb_tree_const_iteratorIS4_ERS1_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeIiSt4pairIKiN3bpp28DRASDRTreeLikelihoodLeafDataEESt10_Select1stIS4_ESt4lessIiESaIS4_EE24_M_get_insert_unique_posERS1_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeIiSt4pairIKiN3bpp28DRASDRTreeLikelihoodLeafDataEESt10_Select1stIS4_ESt4lessIiESaIS4_EE29_M_get_insert_hint_unique_posESt23_Rb_tree_const_iteratorIS4_ERS1_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeIiSt4pairIKiN3bpp28DRASDRTreeLikelihoodNodeDataEESt10_Select1stIS4_ESt4lessIiESaIS4_EE24_M_get_insert_unique_posERS1_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeIiSt4pairIKiN3bpp28DRASDRTreeLikelihoodNodeDataEESt10_Select1stIS4_ESt4lessIiESaIS4_EE29_M_get_insert_hint_unique_posESt23_Rb_tree_const_iteratorIS4_ERS1_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeIiSt4pairIKiPKN3bpp4NodeEESt10_Select1stIS6_ESt4lessIiESaIS6_EE22_M_emplace_hint_uniqueIJRKSt21piecewise_construct_tSt5tupleIJOiEESH_IJEEEEESt17_Rb_tree_iteratorIS6_ESt23_Rb_tree_const_iteratorIS6_EDpOT_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeIiSt4pairIKiPKN3bpp4NodeEESt10_Select1stIS6_ESt4lessIiESaIS6_EE24_M_get_insert_unique_posERS1_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeIiSt4pairIKiPKN3bpp4NodeEESt10_Select1stIS6_ESt4lessIiESaIS6_EE29_M_get_insert_hint_unique_posESt23_Rb_tree_const_iteratorIS6_ERS1_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeIiSt4pairIKiPKN3bpp8ClonableEESt10_Select1stIS6_ESt4lessIiESaIS6_EE22_M_emplace_hint_uniqueIJRKSt21piecewise_construct_tSt5tupleIJOiEESH_IJEEEEESt17_Rb_tree_iteratorIS6_ESt23_Rb_tree_const_iteratorIS6_EDpOT_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeIiSt4pairIKiPKN3bpp8ClonableEESt10_Select1stIS6_ESt4lessIiESaIS6_EE24_M_get_insert_unique_posERS1_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeIiSt4pairIKiPKN3bpp8ClonableEESt10_Select1stIS6_ESt4lessIiESaIS6_EE29_M_get_insert_hint_unique_posESt23_Rb_tree_const_iteratorIS6_ERS1_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeIiSt4pairIKiPN3bpp8ClonableEESt10_Select1stIS5_ESt4lessIiESaIS5_EE22_M_emplace_hint_uniqueIJRKSt21piecewise_construct_tSt5tupleIJOiEESG_IJEEEEESt17_Rb_tree_iteratorIS5_ESt23_Rb_tree_const_iteratorIS5_EDpOT_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeIiSt4pairIKiPN3bpp8ClonableEESt10_Select1stIS5_ESt4lessIiESaIS5_EE24_M_get_insert_unique_posERS1_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeIiSt4pairIKiPN3bpp8ClonableEESt10_Select1stIS5_ESt4lessIiESaIS5_EE29_M_get_insert_hint_unique_posESt23_Rb_tree_const_iteratorIS5_ERS1_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeIiSt4pairIKiSt3mapIiSt6vectorImSaImEESt4lessIiESaIS0_IS1_S5_EEEESt10_Select1stISB_ES7_SaISB_EE24_M_get_insert_unique_posERS1_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeIiSt4pairIKiSt3mapIiSt6vectorImSaImEESt4lessIiESaIS0_IS1_S5_EEEESt10_Select1stISB_ES7_SaISB_EE29_M_get_insert_hint_unique_posESt23_Rb_tree_const_iteratorISB_ERS1_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeIiSt4pairIKiSt6vectorIPN3bpp34RNonHomogeneousMixedTreeLikelihoodESaIS5_EEESt10_Select1stIS8_ESt4lessIiESaIS8_EE24_M_get_insert_unique_posERS1_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeIiSt4pairIKiSt6vectorIPN3bpp34RNonHomogeneousMixedTreeLikelihoodESaIS5_EEESt10_Select1stIS8_ESt4lessIiESaIS8_EE29_M_get_insert_hint_unique_posESt23_Rb_tree_const_iteratorIS8_ERS1_ at Base 2.4.1
_ZNSt8_Rb_treeIiSt4pairIKiSt6vectorIS2_IS2_IdSaIdEESaIS4_EESaIS6_EEESt10_Select1stIS9_ESt4lessIiESaIS9_EE12_M_erase_auxESt23_Rb_tree_const_iteratorIS9_ESH_ at Base 2.4.1
_ZNSt8_Rb_treeIiSt4pairIKiSt6vectorIS2_IS2_IdSaIdEESaIS4_EESaIS6_EEESt10_Select1stIS9_ESt4lessIiESaIS9_EE20_Reuse_or_alloc_nodeclIRKS9_EEPSt13_Rb_tree_nodeIS9_EOT_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeIiSt4pairIKiSt6vectorIS2_IS2_IdSaIdEESaIS4_EESaIS6_EEESt10_Select1stIS9_ESt4lessIiESaIS9_EE24_M_get_insert_unique_posERS1_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeIiSt4pairIKiSt6vectorIS2_IS2_IdSaIdEESaIS4_EESaIS6_EEESt10_Select1stIS9_ESt4lessIiESaIS9_EE29_M_get_insert_hint_unique_posESt23_Rb_tree_const_iteratorIS9_ERS1_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeIiSt4pairIKiSt6vectorIS2_IdSaIdEESaIS4_EEESt10_Select1stIS7_ESt4lessIiESaIS7_EE24_M_get_insert_unique_posERS1_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeIiSt4pairIKiSt6vectorIS2_IdSaIdEESaIS4_EEESt10_Select1stIS7_ESt4lessIiESaIS7_EE29_M_get_insert_hint_unique_posESt23_Rb_tree_const_iteratorIS7_ERS1_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeIiSt4pairIKiSt6vectorISt6bitsetILm21EESaIS4_EEESt10_Select1stIS7_ESt4lessIiESaIS7_EE24_M_get_insert_unique_posERS1_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeIiSt4pairIKiSt6vectorISt6bitsetILm21EESaIS4_EEESt10_Select1stIS7_ESt4lessIiESaIS7_EE29_M_get_insert_hint_unique_posESt23_Rb_tree_const_iteratorIS7_ERS1_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeIiSt4pairIKiSt6vectorIdSaIdEEESt10_Select1stIS5_ESt4lessIiESaIS5_EE24_M_get_insert_unique_posERS1_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeIiSt4pairIKiSt6vectorIdSaIdEEESt10_Select1stIS5_ESt4lessIiESaIS5_EE29_M_get_insert_hint_unique_posESt23_Rb_tree_const_iteratorIS5_ERS1_ at Base 2.4.1
(optional)_ZNSt8_Rb_treeIiSt4pairIKiSt6vectorIiSaIiEEESt10_Select1stIS5_ESt4lessIiESaIS5_EE20_Reuse_or_alloc_nodeclIRKS5_EEPSt13_Rb_tree_nodeIS5_EOT_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeIiSt4pairIKiSt6vectorIiSaIiEEESt10_Select1stIS5_ESt4lessIiESaIS5_EE24_M_get_insert_unique_posERS1_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeIiSt4pairIKiSt6vectorIiSaIiEEESt10_Select1stIS5_ESt4lessIiESaIS5_EE29_M_get_insert_hint_unique_posESt23_Rb_tree_const_iteratorIS5_ERS1_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeIiSt4pairIKiSt6vectorIjSaIjEEESt10_Select1stIS5_ESt4lessIiESaIS5_EE24_M_get_insert_unique_posERS1_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeIiSt4pairIKiSt6vectorIjSaIjEEESt10_Select1stIS5_ESt4lessIiESaIS5_EE29_M_get_insert_hint_unique_posESt23_Rb_tree_const_iteratorIS5_ERS1_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeIiSt4pairIKiSt6vectorImSaImEEESt10_Select1stIS5_ESt4lessIiESaIS5_EE24_M_get_insert_unique_posERS1_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeIiSt4pairIKiSt6vectorImSaImEEESt10_Select1stIS5_ESt4lessIiESaIS5_EE29_M_get_insert_hint_unique_posESt23_Rb_tree_const_iteratorIS5_ERS1_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeIiSt4pairIKidESt10_Select1stIS2_ESt4lessIiESaIS2_EE22_M_emplace_hint_uniqueIJRKSt21piecewise_construct_tSt5tupleIJOiEESD_IJEEEEESt17_Rb_tree_iteratorIS2_ESt23_Rb_tree_const_iteratorIS2_EDpOT_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeIiSt4pairIKidESt10_Select1stIS2_ESt4lessIiESaIS2_EE22_M_emplace_hint_uniqueIJRKSt21piecewise_construct_tSt5tupleIJRS1_EESD_IJEEEEESt17_Rb_tree_iteratorIS2_ESt23_Rb_tree_const_iteratorIS2_EDpOT_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeIiSt4pairIKidESt10_Select1stIS2_ESt4lessIiESaIS2_EE24_M_get_insert_unique_posERS1_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeIiSt4pairIKidESt10_Select1stIS2_ESt4lessIiESaIS2_EE29_M_get_insert_hint_unique_posESt23_Rb_tree_const_iteratorIS2_ERS1_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeIiSt4pairIKiiESt10_Select1stIS2_ESt4lessIiESaIS2_EE22_M_emplace_hint_uniqueIJRKSt21piecewise_construct_tSt5tupleIJOiEESD_IJEEEEESt17_Rb_tree_iteratorIS2_ESt23_Rb_tree_const_iteratorIS2_EDpOT_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeIiSt4pairIKiiESt10_Select1stIS2_ESt4lessIiESaIS2_EE22_M_emplace_hint_uniqueIJRKSt21piecewise_construct_tSt5tupleIJRS1_EESD_IJEEEEESt17_Rb_tree_iteratorIS2_ESt23_Rb_tree_const_iteratorIS2_EDpOT_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeIiSt4pairIKiiESt10_Select1stIS2_ESt4lessIiESaIS2_EE24_M_get_insert_unique_posERS1_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeIiSt4pairIKiiESt10_Select1stIS2_ESt4lessIiESaIS2_EE29_M_get_insert_hint_unique_posESt23_Rb_tree_const_iteratorIS2_ERS1_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeIiSt4pairIKimESt10_Select1stIS2_ESt4lessIiESaIS2_EE22_M_emplace_hint_uniqueIJRKSt21piecewise_construct_tSt5tupleIJRS1_EESD_IJEEEEESt17_Rb_tree_iteratorIS2_ESt23_Rb_tree_const_iteratorIS2_EDpOT_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeIiSt4pairIKimESt10_Select1stIS2_ESt4lessIiESaIS2_EE24_M_get_insert_unique_posERS1_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeIiSt4pairIKimESt10_Select1stIS2_ESt4lessIiESaIS2_EE29_M_get_insert_hint_unique_posESt23_Rb_tree_const_iteratorIS2_ERS1_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeImSt4pairIKmNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEESt10_Select1stIS8_ESt4lessImESaIS8_EE24_M_get_insert_unique_posERS1_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeImSt4pairIKmNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEESt10_Select1stIS8_ESt4lessImESaIS8_EE29_M_get_insert_hint_unique_posESt23_Rb_tree_const_iteratorIS8_ERS1_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeImSt4pairIKmPN3bpp4NodeEESt10_Select1stIS5_ESt4lessImESaIS5_EE22_M_emplace_hint_uniqueIJRKSt21piecewise_construct_tSt5tupleIJRS1_EESG_IJEEEEESt17_Rb_tree_iteratorIS5_ESt23_Rb_tree_const_iteratorIS5_EDpOT_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeImSt4pairIKmPN3bpp4NodeEESt10_Select1stIS5_ESt4lessImESaIS5_EE24_M_get_insert_unique_posERS1_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeImSt4pairIKmPN3bpp4NodeEESt10_Select1stIS5_ESt4lessImESaIS5_EE29_M_get_insert_hint_unique_posESt23_Rb_tree_const_iteratorIS5_ERS1_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeImSt4pairIKmSt3mapImSt6vectorImSaImEESt4lessImESaIS0_IS1_S5_EEEESt10_Select1stISB_ES7_SaISB_EE24_M_get_insert_unique_posERS1_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeImSt4pairIKmSt3mapImSt6vectorImSaImEESt4lessImESaIS0_IS1_S5_EEEESt10_Select1stISB_ES7_SaISB_EE29_M_get_insert_hint_unique_posESt23_Rb_tree_const_iteratorISB_ERS1_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeImSt4pairIKmSt6vectorIdSaIdEEESt10_Select1stIS5_ESt4lessImESaIS5_EE24_M_get_insert_unique_posERS1_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeImSt4pairIKmSt6vectorIdSaIdEEESt10_Select1stIS5_ESt4lessImESaIS5_EE29_M_get_insert_hint_unique_posESt23_Rb_tree_const_iteratorIS5_ERS1_ at Base 2.4.1
(optional)_ZNSt8_Rb_treeImSt4pairIKmSt6vectorIiSaIiEEESt10_Select1stIS5_ESt4lessImESaIS5_EE20_Reuse_or_alloc_nodeclIRKS5_EEPSt13_Rb_tree_nodeIS5_EOT_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeImSt4pairIKmSt6vectorIiSaIiEEESt10_Select1stIS5_ESt4lessImESaIS5_EE24_M_get_insert_unique_posERS1_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeImSt4pairIKmSt6vectorIiSaIiEEESt10_Select1stIS5_ESt4lessImESaIS5_EE29_M_get_insert_hint_unique_posESt23_Rb_tree_const_iteratorIS5_ERS1_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeImSt4pairIKmSt6vectorImSaImEEESt10_Select1stIS5_ESt4lessImESaIS5_EE24_M_get_insert_unique_posERS1_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeImSt4pairIKmSt6vectorImSaImEEESt10_Select1stIS5_ESt4lessImESaIS5_EE29_M_get_insert_hint_unique_posESt23_Rb_tree_const_iteratorIS5_ERS1_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeImSt4pairIKmiESt10_Select1stIS2_ESt4lessImESaIS2_EE24_M_get_insert_unique_posERS1_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeImSt4pairIKmiESt10_Select1stIS2_ESt4lessImESaIS2_EE29_M_get_insert_hint_unique_posESt23_Rb_tree_const_iteratorIS2_ERS1_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeImSt4pairIKmmESt10_Select1stIS2_ESt4lessImESaIS2_EE22_M_emplace_hint_uniqueIJRKSt21piecewise_construct_tSt5tupleIJRS1_EESD_IJEEEEESt17_Rb_tree_iteratorIS2_ESt23_Rb_tree_const_iteratorIS2_EDpOT_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeImSt4pairIKmmESt10_Select1stIS2_ESt4lessImESaIS2_EE24_M_get_insert_unique_posERS1_ at Base 2.4.1
- (optional)_ZNSt8_Rb_treeImSt4pairIKmmESt10_Select1stIS2_ESt4lessImESaIS2_EE29_M_get_insert_hint_unique_posESt23_Rb_tree_const_iteratorIS2_ERS1_ at Base 2.4.1
_ZNSt8_Rb_treeImmSt9_IdentityImESt4lessImESaImEE16_M_insert_uniqueImEESt4pairISt17_Rb_tree_iteratorImEbEOT_ at Base 2.4.1
_ZSt10scientificRSt8ios_base at Base 2.4.1
_ZSt11__remove_ifIN9__gnu_cxx17__normal_iteratorIPcNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEEENS0_5__ops16_Iter_equals_valIKcEEET_SE_SE_T0_ at Base 2.4.1
@@ -4975,7 +4836,6 @@ libbpp-phyl.so.12 libbpp-phyl12t64 #MINVER#
_ZSt16__insertion_sortIN9__gnu_cxx17__normal_iteratorIP12StringAndIntSt6vectorIS2_SaIS2_EEEENS0_5__ops15_Iter_less_iterEEvT_SA_T0_ at Base 2.4.1
(optional)_ZSt18__do_uninit_fill_nIPN3bpp18UserAlphabetIndex1EmS1_ET_S3_T0_RKT1_ at Base 2.4.1
_ZSt18__do_uninit_fill_nIPNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEmS5_ET_S7_T0_RKT1_ at Base 2.4.1
- (optional)_ZSt19piecewise_construct at Base 2.4.1
_ZSt25__unguarded_linear_insertIN9__gnu_cxx17__normal_iteratorIP12StringAndIntSt6vectorIS2_SaIS2_EEEENS0_5__ops14_Val_less_iterEEvT_T0_ at Base 2.4.1
_ZSt4swapI12StringAndIntENSt9enable_ifIXsrSt6__and_IJSt6__not_ISt15__is_tuple_likeIT_EESt21is_move_constructibleIS5_ESt18is_move_assignableIS5_EEE5valueEvE4typeERS5_SF_ at Base 2.4.1
_ZSt5fixedRSt8ios_base at Base 2.4.1
@@ -4984,9 +4844,6 @@ libbpp-phyl.so.12 libbpp-phyl12t64 #MINVER#
_ZStmiRKSt15_Deque_iteratorINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEERS5_PS5_ESA_ at Base 2.4.1
_ZStplIcSt11char_traitsIcESaIcEENSt7__cxx1112basic_stringIT_T0_T1_EEOS8_S9_ at Base 2.4.1
_ZStplIcSt11char_traitsIcESaIcEENSt7__cxx1112basic_stringIT_T0_T1_EEPKS5_OS8_ at Base 2.4.1
- (optional)_ZStplIcSt11char_traitsIcESaIcEENSt7__cxx1112basic_stringIT_T0_T1_EEPKS5_RKS8_ at Base 2.4.1
- (optional)_ZStplIcSt11char_traitsIcESaIcEENSt7__cxx1112basic_stringIT_T0_T1_EERKS8_PKS5_ at Base 2.4.1
- (optional)_ZStplIcSt11char_traitsIcESaIcEENSt7__cxx1112basic_stringIT_T0_T1_EERKS8_SA_ at Base 2.4.1
_ZTIN3bpp10BppBooleanE at Base 2.4.1
_ZTIN3bpp10BppNumberIE at Base 2.4.1
_ZTIN3bpp10ConstraintE at Base 2.4.1
@@ -6618,6 +6475,7 @@ libbpp-phyl.so.12 libbpp-phyl12t64 #MINVER#
_ZTch0_v0_n248_NK3bpp4MG945cloneEv at Base 2.4.1
_ZTch0_v0_n248_NK3bpp4YN985cloneEv at Base 2.4.1
_ZTch0_v0_n280_NK3bpp13MetaOptimizer5cloneEv at Base 2.4.1
+ _ZTch0_v0_n280_NK3bpp17BrentOneDimension5cloneEv at Base 2.4.1-10~
_ZTch0_v0_n280_NK3bpp21PseudoNewtonOptimizer5cloneEv at Base 2.4.1
_ZTch0_v0_n40_N3bpp26RHomogeneousTreeLikelihood17getLikelihoodDataEv at Base 2.4.1
_ZTch0_v0_n40_N3bpp27DRHomogeneousTreeLikelihood17getLikelihoodDataEv at Base 2.4.1
@@ -6645,6 +6503,7 @@ libbpp-phyl.so.12 libbpp-phyl12t64 #MINVER#
_ZTch0_v0_n40_NK3bpp15StlOutputStream5cloneEv at Base 2.4.1
_ZTch0_v0_n40_NK3bpp16BranchLikelihood5cloneEv at Base 2.4.1
_ZTch0_v0_n40_NK3bpp16GCFrequenciesSet5cloneEv at Base 2.4.1
+ _ZTch0_v0_n40_NK3bpp17BrentOneDimension5cloneEv at Base 2.4.1-10~
_ZTch0_v0_n40_NK3bpp17CanonicalStateMap5cloneEv at Base 2.4.1
_ZTch0_v0_n40_NK3bpp17MvaFrequenciesSet5cloneEv at Base 2.4.1
_ZTch0_v0_n40_NK3bpp17OptimizationTools13ScaleFunction5cloneEv at Base 2.4.1
@@ -7269,6 +7128,7 @@ libbpp-phyl.so.12 libbpp-phyl12t64 #MINVER#
_ZTcv0_n32_v0_n248_NK3bpp4MG945cloneEv at Base 2.4.1
_ZTcv0_n32_v0_n248_NK3bpp4YN985cloneEv at Base 2.4.1
_ZTcv0_n32_v0_n280_NK3bpp13MetaOptimizer5cloneEv at Base 2.4.1
+ _ZTcv0_n32_v0_n280_NK3bpp17BrentOneDimension5cloneEv at Base 2.4.1-10~
_ZTcv0_n32_v0_n280_NK3bpp21PseudoNewtonOptimizer5cloneEv at Base 2.4.1
_ZTcv0_n32_v0_n40_NK3bpp10BppBoolean5cloneEv at Base 2.4.1
_ZTcv0_n32_v0_n40_NK3bpp11LG10_EX_EHO13EmbeddedModel5cloneEv at Base 2.4.1
@@ -7292,6 +7152,7 @@ libbpp-phyl.so.12 libbpp-phyl12t64 #MINVER#
_ZTcv0_n32_v0_n40_NK3bpp15StlOutputStream5cloneEv at Base 2.4.1
_ZTcv0_n32_v0_n40_NK3bpp16BranchLikelihood5cloneEv at Base 2.4.1
_ZTcv0_n32_v0_n40_NK3bpp16GCFrequenciesSet5cloneEv at Base 2.4.1
+ _ZTcv0_n32_v0_n40_NK3bpp17BrentOneDimension5cloneEv at Base 2.4.1-10~
_ZTcv0_n32_v0_n40_NK3bpp17CanonicalStateMap5cloneEv at Base 2.4.1
_ZTcv0_n32_v0_n40_NK3bpp17MvaFrequenciesSet5cloneEv at Base 2.4.1
_ZTcv0_n32_v0_n40_NK3bpp17OptimizationTools13ScaleFunction5cloneEv at Base 2.4.1
@@ -8179,6 +8040,7 @@ libbpp-phyl.so.12 libbpp-phyl12t64 #MINVER#
_ZTv0_n24_N3bpp12TreeTemplateINS_12NodeTemplateINS_9PGMAInfosEEEED1Ev at Base 2.4.1
_ZTv0_n24_N3bpp12TreeTemplateINS_4NodeEED0Ev at Base 2.4.1
_ZTv0_n24_N3bpp12TreeTemplateINS_4NodeEED1Ev at Base 2.4.1
+ _ZTv0_n24_N3bpp12WordAlphabetD0Ev at Base 2.4.1-10~
_ZTv0_n24_N3bpp13AlphabetStateD0Ev at Base 2.4.1
_ZTv0_n24_N3bpp13AlphabetStateD1Ev at Base 2.4.1
_ZTv0_n24_N3bpp13BasicSequenceD0Ev at Base 2.4.1
@@ -9496,6 +9358,5 @@ libbpp-phyl.so.12 libbpp-phyl12t64 #MINVER#
_ZTv0_n96_NK3bpp24DRASDRTreeLikelihoodData24getNumberOfDistinctSitesEv at Base 2.4.1
_ZTv0_n96_NK3bpp26TreeDrawingListenerAdapter12isAutonomousEv at Base 2.4.1
_ZTv0_n96_NK3bpp28NNIHomogeneousTreeLikelihood16getTopologyValueEv at Base 2.4.1
- (optional)_ZZNSt8__detail18__to_chars_10_implImEEvPcjT_E8__digits at Base 2.4.1
_Zlt12StringAndIntS_ at Base 2.4.1
_Zlt9IntAndIntS_ at Base 2.4.1
=====================================
debian/patches/series
=====================================
@@ -1,2 +1,3 @@
+spelling
unforce-cxxflags.patch
remove_test_likelihood_nh.patch
=====================================
debian/patches/spelling
=====================================
@@ -0,0 +1,165 @@
+From: Michael R. Crusoe <crusoe at debian.org>
+Subject: typo fixes
+Forwarded: https://github.com/BioPP/bpp-phyl/pull/54
+--- libbpp-phyl.orig/src/Bpp/Phyl/App/PhylogeneticsApplicationTools.cpp
++++ libbpp-phyl/src/Bpp/Phyl/App/PhylogeneticsApplicationTools.cpp
+@@ -172,7 +172,7 @@
+ {
+ modelDescription = ApplicationTools::getStringParameter("model", params, "CodonRate(model=JC69)", suffix, suffixIsOptional, warn);
+ if (!gCode)
+- throw Exception("PhylogeneticsApplicationTools::getSubstitutionModel(): a GeneticCode instance is required for instanciating a codon model.");
++ throw Exception("PhylogeneticsApplicationTools::getSubstitutionModel(): a GeneticCode instance is required for instantiating a codon model.");
+ bIO.setGeneticCode(gCode);
+ }
+ else if (AlphabetTools::isWordAlphabet(alphabet))
+@@ -201,7 +201,7 @@
+ {
+ modelDescription = ApplicationTools::getStringParameter("model", params, "CodonRate(model=JC69)", suffix, suffixIsOptional, warn);
+ if (!gCode)
+- throw Exception("PhylogeneticsApplicationTools::getSubstitutionModel(): a GeneticCode instance is required for instanciating a codon model.");
++ throw Exception("PhylogeneticsApplicationTools::getSubstitutionModel(): a GeneticCode instance is required for instantiating a codon model.");
+ bIO.setGeneticCode(gCode);
+ }
+ else if (AlphabetTools::isWordAlphabet(alphabet))
+@@ -354,7 +354,7 @@
+ if (AlphabetTools::isCodonAlphabet(alphabet))
+ {
+ if (!gCode)
+- throw Exception("PhylogeneticsApplicationTools::getFrequenciesSet(): a GeneticCode instance is required for instanciating a codon frequencies set.");
++ throw Exception("PhylogeneticsApplicationTools::getFrequenciesSet(): a GeneticCode instance is required for instantiating a codon frequencies set.");
+ bIO.setGeneticCode(gCode);
+ }
+ unique_ptr<FrequenciesSet> pFS(bIO.read(alphabet, freqDescription, data, true));
+@@ -453,7 +453,7 @@
+ if (AlphabetTools::isCodonAlphabet(alphabet))
+ {
+ if (!gCode)
+- throw Exception("PhylogeneticsApplicationTools::setSubstitutionModelSet(): a GeneticCode instance is required for instanciating a codon model.");
++ throw Exception("PhylogeneticsApplicationTools::setSubstitutionModelSet(): a GeneticCode instance is required for instantiating a codon model.");
+ bIO.setGeneticCode(gCode);
+ tmpDesc = ApplicationTools::getStringParameter("model1", params, "CodonRate(model=JC69)", suffix, suffixIsOptional, warn);
+ }
+--- libbpp-phyl.orig/src/Bpp/Phyl/Distance/DistanceEstimation.cpp
++++ libbpp-phyl/src/Bpp/Phyl/Distance/DistanceEstimation.cpp
+@@ -439,7 +439,7 @@
+ }
+ catch (SequenceNotFoundException& snfe)
+ {
+- throw SequenceNotFoundException("TwoTreeLikelihood::initTreelikelihoods. Leaf name in tree not found in site conainer: ", snfe.getSequenceId());
++ throw SequenceNotFoundException("TwoTreeLikelihood::initTreelikelihoods. Leaf name in tree not found in site container: ", snfe.getSequenceId());
+ }
+ }
+ }
+--- libbpp-phyl.orig/src/Bpp/Phyl/Io/BppOSubstitutionModelFormat.cpp
++++ libbpp-phyl/src/Bpp/Phyl/Io/BppOSubstitutionModelFormat.cpp
+@@ -385,7 +385,7 @@
+ if (TextTools::isEmpty(nestedModelDescription))
+ throw Exception("BppOSubstitutionModelFormat::read. Missing argument 'model' for model 'YpR_sym'.");
+ if (verbose_)
+- ApplicationTools::displayResult("Symetric YpR model", modelName);
++ ApplicationTools::displayResult("Symmetric YpR model", modelName);
+ BppOSubstitutionModelFormat nestedReader(NUCLEOTIDE, false, false, false, verbose_, warningLevel_);
+ unique_ptr<NucleotideSubstitutionModel> nestedModel(dynamic_cast<NucleotideSubstitutionModel*>(nestedReader.read(&prny->getLetterAlphabet(), nestedModelDescription, data, false)));
+ map<string, string> unparsedParameterValuesNested(nestedReader.getUnparsedArguments());
+--- libbpp-phyl.orig/src/Bpp/Phyl/Io/IoPairedSiteLikelihoods.cpp
++++ libbpp-phyl/src/Bpp/Phyl/Io/IoPairedSiteLikelihoods.cpp
+@@ -88,7 +88,7 @@
+ if (delim_pos == string::npos)
+ {
+ ostringstream msg;
+- msg << "IOTreepuzzlePairedSiteLikelihoods::read: Couldn't find delimiter. The beggining of the line was : "
++ msg << "IOTreepuzzlePairedSiteLikelihoods::read: Couldn't find delimiter. The beginning of the line was : "
+ << endl << line.substr(0, 100);
+ throw Exception(msg.str());
+ }
+--- libbpp-phyl.orig/src/Bpp/Phyl/Likelihood/AbstractHomogeneousTreeLikelihood.h
++++ libbpp-phyl/src/Bpp/Phyl/Likelihood/AbstractHomogeneousTreeLikelihood.h
+@@ -248,7 +248,7 @@
+ virtual void setMinimumBranchLength(double minimum)
+ {
+ if (minimum > maximumBrLen_)
+- throw Exception("AbstractHomogeneousTreeLikelihood::setMinimumBranchLength. Minimum branch length sould be lower than the maximum one: " + TextTools::toString(maximumBrLen_));
++ throw Exception("AbstractHomogeneousTreeLikelihood::setMinimumBranchLength. Minimum branch length should be lower than the maximum one: " + TextTools::toString(maximumBrLen_));
+ minimumBrLen_ = minimum;
+ if (brLenConstraint_.get()) brLenConstraint_.release();
+ brLenConstraint_.reset(new IntervalConstraint(minimumBrLen_, maximumBrLen_, true, true));
+@@ -258,7 +258,7 @@
+ virtual void setMaximumBranchLength(double maximum)
+ {
+ if (maximum < minimumBrLen_)
+- throw Exception("AbstractHomogeneousTreeLikelihood::setMaximumBranchLength. Maximum branch length sould be higher than the minimum one: " + TextTools::toString(minimumBrLen_));
++ throw Exception("AbstractHomogeneousTreeLikelihood::setMaximumBranchLength. Maximum branch length should be higher than the minimum one: " + TextTools::toString(minimumBrLen_));
+ maximumBrLen_ = maximum;
+ if (brLenConstraint_.get()) brLenConstraint_.release();
+ brLenConstraint_.reset(new IntervalConstraint(minimumBrLen_, maximumBrLen_, true, true));
+--- libbpp-phyl.orig/src/Bpp/Phyl/Likelihood/AbstractNonHomogeneousTreeLikelihood.h
++++ libbpp-phyl/src/Bpp/Phyl/Likelihood/AbstractNonHomogeneousTreeLikelihood.h
+@@ -257,7 +257,7 @@
+ virtual void setMinimumBranchLength(double minimum)
+ {
+ if (minimum > maximumBrLen_)
+- throw Exception("AbstractNonHomogeneousTreeLikelihood::setMinimumBranchLength. Minimum branch length sould be lower than the maximum one: " + TextTools::toString(maximumBrLen_));
++ throw Exception("AbstractNonHomogeneousTreeLikelihood::setMinimumBranchLength. Minimum branch length should be lower than the maximum one: " + TextTools::toString(maximumBrLen_));
+ minimumBrLen_ = minimum;
+ if (brLenConstraint_.get()) brLenConstraint_.release();
+ brLenConstraint_.reset(new IntervalConstraint(minimumBrLen_, maximumBrLen_, true, true));
+@@ -267,7 +267,7 @@
+ virtual void setMaximumBranchLength(double maximum)
+ {
+ if (maximum < minimumBrLen_)
+- throw Exception("AbstractNonHomogeneousTreeLikelihood::setMaximumBranchLength. Maximum branch length sould be higher than the minimum one: " + TextTools::toString(minimumBrLen_));
++ throw Exception("AbstractNonHomogeneousTreeLikelihood::setMaximumBranchLength. Maximum branch length should be higher than the minimum one: " + TextTools::toString(minimumBrLen_));
+ maximumBrLen_ = maximum;
+ if (brLenConstraint_.get()) brLenConstraint_.release();
+ brLenConstraint_.reset(new IntervalConstraint(minimumBrLen_, maximumBrLen_, true, true));
+--- libbpp-phyl.orig/src/Bpp/Phyl/Likelihood/DRASRTreeLikelihoodData.cpp
++++ libbpp-phyl/src/Bpp/Phyl/Likelihood/DRASRTreeLikelihoodData.cpp
+@@ -140,7 +140,7 @@
+ }
+ catch (SequenceNotFoundException& snfe)
+ {
+- throw SequenceNotFoundException("DRASRTreeLikelihoodData::initTreelikelihoods. Leaf name in tree not found in site conainer: ", (node->getName()));
++ throw SequenceNotFoundException("DRASRTreeLikelihoodData::initTreelikelihoods. Leaf name in tree not found in site container: ", (node->getName()));
+ }
+ for (size_t i = 0; i < nbDistinctSites_; i++)
+ {
+@@ -243,7 +243,7 @@
+ }
+ catch (SequenceNotFoundException& snfe)
+ {
+- throw SequenceNotFoundException("HomogeneousTreeLikelihood::initTreelikelihoodsWithPatterns. Leaf name in tree not found in site conainer: ", (node->getName()));
++ throw SequenceNotFoundException("HomogeneousTreeLikelihood::initTreelikelihoodsWithPatterns. Leaf name in tree not found in site container: ", (node->getName()));
+ }
+ for (size_t i = 0; i < nbSites; i++)
+ {
+--- libbpp-phyl.orig/src/Bpp/Phyl/Model/OneChangeRegisterTransitionModel.h
++++ libbpp-phyl/src/Bpp/Phyl/Model/OneChangeRegisterTransitionModel.h
+@@ -62,7 +62,7 @@
+ {
+ private:
+ /*
+- * The coordinates of the sustitutions or non-sustitutions that
++ * The coordinates of the substitutions or non-substitutions that
+ * are NOT considered (ie for which the changes generator equals
+ * the model one).
+ *
+--- libbpp-phyl.orig/src/Bpp/Phyl/Model/SubstitutionModelSet.h
++++ libbpp-phyl/src/Bpp/Phyl/Model/SubstitutionModelSet.h
+@@ -273,7 +273,7 @@
+ }
+ catch (std::bad_cast& bc)
+ {
+- throw Exception("SubstitutionModelSet::getSubstitutionModel : model is not a sustitution model " + getModel(i)->getName());
++ throw Exception("SubstitutionModelSet::getSubstitutionModel : model is not a substitution model " + getModel(i)->getName());
+ }
+ }
+
+@@ -286,7 +286,7 @@
+ }
+ catch (std::bad_cast& bc)
+ {
+- throw Exception("SubstitutionModelSet::getSubstitutionModel : model is not a sustitution model " + getModel(i)->getName());
++ throw Exception("SubstitutionModelSet::getSubstitutionModel : model is not a substitution model " + getModel(i)->getName());
+ }
+ }
+
=====================================
debian/patches/unforce-cxxflags.patch
=====================================
@@ -1,17 +1,16 @@
From: Gert Wollny <gw.fossdev at gmail.com>
Date: Wed, 29 Jun 2014 16:52:43 +0200
Subject: Do not override Debian CXX flags
-Comment: Upstream version 2.3.0 now has additional -std=c++11 which might
- be needed to be added explicitly
+Forwarded: https://github.com/BioPP/bpp-phyl/pull/53
---- a/CMakeLists.txt
-+++ b/CMakeLists.txt
-@@ -9,7 +9,7 @@ cmake_minimum_required (VERSION 2.8.11)
+--- libbpp-phyl.orig/CMakeLists.txt
++++ libbpp-phyl/CMakeLists.txt
+@@ -9,7 +9,7 @@
project (bpp-phyl CXX)
# Compile options
-set (CMAKE_CXX_FLAGS "-std=c++11 -Wall -Weffc++ -Wshadow -Wconversion")
-+#set (CMAKE_CXX_FLAGS "-std=c++11 -g")
++add_compile_options(-std=c++11 -Wall -Weffc++ -Wshadow -Wconversion)
IF(NOT CMAKE_BUILD_TYPE)
SET(CMAKE_BUILD_TYPE RelWithDebInfo CACHE STRING
=====================================
debian/rules
=====================================
@@ -4,8 +4,6 @@
export DEB_BUILD_MAINT_OPTIONS = hardening=+all
-CMAKE_EXTRA_FLAGS += -DBUILD_TESTING=OFF
-
%:
dh $@
=====================================
debian/source/lintian-overrides
=====================================
@@ -0,0 +1,2 @@
+# false-positive from the t64 transition
+libbpp-phyl source: version-substvar-for-external-package Conflicts ${source:Version} libbpp-phyl12t64 -> libbpp-phyl12 [debian/control:38]
View it on GitLab: https://salsa.debian.org/med-team/libbpp-phyl/-/compare/c1a9105ddf736f3422794643db67baaf0c43b57b...972f5713c74d6804ddeff9befd31039028982bff
--
View it on GitLab: https://salsa.debian.org/med-team/libbpp-phyl/-/compare/c1a9105ddf736f3422794643db67baaf0c43b57b...972f5713c74d6804ddeff9befd31039028982bff
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