Issue with make and boost

[CDRism]

I've seen similar issues posted but nothing exact, so forgive me if this is redundant. I am having an issue running make augustus. I've followed the INSTALL.md instructions for Boost but I get the same error repeatedly (appended to the end of this). I have added LIBS = -lboost_iostreams -lboost_serialization -lgsl -lgslcblas -llpsolve55 -lcolamd -ldl -lmysqlclient -lmysqlpp -lsqlite3 to my common.mk file as well, and in the /src Makefile have added LDLIBS += $(LIBS) to the top (under CXX ?= g++) for the serialization issue. However, this has not solved anything. I am pasting where my libraries are pointing here and the error at the end.

INCLUDE_PATH_ZLIB := -I/usr/include
LIBRARY_PATH_ZLIB := -L/usr/lib/x86_64-linux-gnu -Wl,-rpath,/usr/lib/x86_64-linux-gnu
INCLUDE_PATH_BOOST := -I/usr/include/boost
LIBRARY_PATH_BOOST := -L/usr/lib/x86_64-linux-gnu -Wl,-rpath,/usr/lib/x86_64-linux-gnu
INCLUDE_PATH_LPSOLVE := -I/usr/include/lpsolve
LIBRARY_PATH_LPSOLVE := -L/usr/lib/lp_solve/ -Wl,-rpath,/usr/lib/lp_solve/
INCLUDE_PATH_SUITESPARSE := -I/usr/include/suitesparse/
LIBRARY_PATH_SUITESPARSE := -L/usr/lib/x86_64-linux-gnu -Wl,-rpath,/usr/lib/x86_64-linux-gnu
INCLUDE_PATH_GSL := -I/usr/include
LIBRARY_PATH_GSL := -L/usr/lib/x86_64-linux-gnu -Wl,-rpath,/usr/lib/x86_64-linux-gnu
INCLUDE_PATH_MYSQL := -I/usr/include -I/usr/include/mysql # the path to mysql++ may have to be adjusted
LIBRARY_PATH_MYSQL := -L/usr/lib -L/usr/lib/ -Wl,-rpath,/usr/lib -Wl,-rpath,/usr/lib/
INCLUDE_PATH_SQLITE := -I/usr/include
LIBRARY_PATH_SQLITE := -L/usr/lib/x86_64-linux-gnu -Wl,-rpath,/usr/lib/x86_64-linux-gnu
INCLUDE_PATH_BAMTOOLS := -I/usr/include/bamtools
LIBRARY_PATH_BAMTOOLS := -L/usr/lib/x86_64-linux-gnu -Wl,-rpath,/usr/lib/x86_64-linux-gnu
INCLUDE_PATH_HTSLIB := -I/usr/include/htslib
LIBRARY_PATH_HTSLIB := -L/usr/lib/x86_64-linux-gnu -Wl,-rpath,/usr/lib/x86_64-linux-gnu
INCLUDE_PATH_SEQLIB := -I /usr/include/SeqLib -I/usr/include/htslib -I/usr/include/jsoncpp
LIBRARY_PATH_SEQLIB := -L/usr/lib/x86_64-linux-gnu -Wl,-rpath,/usr/lib/x86_64-linux-gnu

LIBS = -lboost_iostreams -lboost_serialization -lgsl -lgslcblas -llpsolve55 -lcolamd -ldl -lmysqlclient -lmysqlpp -lsqlite3

make augustus
mkdir -p bin
cd src && make
make[1]: Entering directory '/home/crobinson/Augustus/src'
g++ -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -I../include -I/usr/include/lpsolve -I/usr/include/mysql -c -o genbank.o genbank.cc
g++ -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -I../include -I/usr/include/lpsolve -I/usr/include/mysql -c -o properties.o properties.cc
g++ -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -I../include -I/usr/include/lpsolve -I/usr/include/mysql -c -o pp_profile.o pp_profile.cc
g++ -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -I../include -I/usr/include/lpsolve -I/usr/include/mysql -c -o pp_hitseq.o pp_hitseq.cc
g++ -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -I../include -I/usr/include/lpsolve -I/usr/include/mysql -c -o pp_scoring.o pp_scoring.cc
g++ -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -I../include -I/usr/include/lpsolve -I/usr/include/mysql -c -o statemodel.o statemodel.cc
g++ -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -I../include -I/usr/include/lpsolve -I/usr/include/mysql -c -o namgene.o namgene.cc
g++ -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -I../include -I/usr/include/lpsolve -I/usr/include/mysql -c -o types.o types.cc
g++ -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -I../include -I/usr/include/lpsolve -I/usr/include/mysql -c -o gene.o gene.cc
g++ -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -I../include -I/usr/include/lpsolve -I/usr/include/mysql -c -o evaluation.o evaluation.cc
g++ -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -I../include -I/usr/include/lpsolve -I/usr/include/mysql -c -o motif.o motif.cc
g++ -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -I../include -I/usr/include/lpsolve -I/usr/include/mysql -c -o geneticcode.o geneticcode.cc
g++ -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -I../include -I/usr/include/lpsolve -I/usr/include/mysql -c -o hints.o hints.cc
g++ -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -I../include -I/usr/include/lpsolve -I/usr/include/mysql -c -o extrinsicinfo.o extrinsicinfo.cc
g++ -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -I../include -I/usr/include/lpsolve -I/usr/include/mysql -c -o projectio.o projectio.cc
g++ -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -I../include -I/usr/include/lpsolve -I/usr/include/mysql -c -o intronmodel.o intronmodel.cc
g++ -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -I../include -I/usr/include/lpsolve -I/usr/include/mysql -c -o exonmodel.o exonmodel.cc
g++ -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -I../include -I/usr/include/lpsolve -I/usr/include/mysql -c -o igenicmodel.o igenicmodel.cc
g++ -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -I../include -I/usr/include/lpsolve -I/usr/include/mysql -c -o utrmodel.o utrmodel.cc
g++ -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -I../include -I/usr/include/lpsolve -I/usr/include/mysql -c -o merkmal.o merkmal.cc
g++ -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -I../include -I/usr/include/lpsolve -I/usr/include/mysql -c -o vitmatrix.o vitmatrix.cc
g++ -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -I../include -I/usr/include/lpsolve -I/usr/include/mysql -c -o lldouble.o lldouble.cc
g++ -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -I../include -I/usr/include/lpsolve -I/usr/include/mysql -c -o mea.o mea.cc
g++ -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -I../include -I/usr/include/lpsolve -I/usr/include/mysql -c -o graph.o graph.cc
g++ -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -I../include -I/usr/include/lpsolve -I/usr/include/mysql -c -o meaPath.o meaPath.cc
g++ -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -I../include -I/usr/include/lpsolve -I/usr/include/mysql -c -o exoncand.o exoncand.cc
g++ -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -I../include -I/usr/include/lpsolve -I/usr/include/mysql -c -o randseqaccess.o randseqaccess.cc
g++ -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -I../include -I/usr/include/lpsolve -I/usr/include/mysql -c -o fasta.o fasta.cc
g++ -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -I../include -I/usr/include/lpsolve -I/usr/include/mysql -c -o ncmodel.o ncmodel.cc
g++ -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -I../include -I/usr/include/lpsolve -I/usr/include/mysql -c -o parser/parse.o parser/parse.cc
g++ -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -I../include -I/usr/include/lpsolve -I/usr/include/mysql -c -o scanner/lex.o scanner/lex.cc
g++ -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -I../include -I/usr/include/lpsolve -I/usr/include/mysql -c -o genomicMSA.o genomicMSA.cc
g++ -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -I../include -I/usr/include/lpsolve -I/usr/include/mysql -c -o geneMSA.o geneMSA.cc
g++ -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -I../include -I/usr/include/lpsolve -I/usr/include/mysql -c -o contTimeMC.o contTimeMC.cc
g++ -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -I../include -I/usr/include/lpsolve -I/usr/include/mysql -c -o codonevo.o codonevo.cc
g++ -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -I../include -I/usr/include/lpsolve -I/usr/include/mysql -c -o codonevodiscr.o codonevodiscr.cc
g++ -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -I../include -I/usr/include/lpsolve -I/usr/include/mysql -c -o compgenepred.o compgenepred.cc
g++ -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -I../include -I/usr/include/lpsolve -I/usr/include/mysql -c -o phylotree.o phylotree.cc
g++ -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -I../include -I/usr/include/lpsolve -I/usr/include/mysql -c -o orthograph.o orthograph.cc
g++ -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -I../include -I/usr/include/lpsolve -I/usr/include/mysql -c -o orthoexon.o orthoexon.cc
g++ -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -I../include -I/usr/include/lpsolve -I/usr/include/mysql -c -o alignment.o alignment.cc
g++ -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -I../include -I/usr/include/lpsolve -I/usr/include/mysql -c -o speciesgraph.o speciesgraph.cc
g++ -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -I../include -I/usr/include/lpsolve -I/usr/include/mysql -c -o codonMSA.o codonMSA.cc
g++ -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -I../include -I/usr/include/lpsolve -I/usr/include/mysql -c -o train_logReg_param.o train_logReg_param.cc
g++ -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -I../include -I/usr/include/lpsolve -I/usr/include/mysql -c -o tokenizer.o tokenizer.cc
g++ -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -I../include -I/usr/include/lpsolve -I/usr/include/mysql -c -o sqliteDB.o sqliteDB.cc
g++ -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -I../include -I/usr/include/lpsolve -I/usr/include/mysql -c -o commontrain.o commontrain.cc
g++ -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -I../include -I/usr/include/lpsolve -I/usr/include/mysql -c -o igenictrain.o igenictrain.cc
g++ -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -I../include -I/usr/include/lpsolve -I/usr/include/mysql -c -o introntrain.o introntrain.cc
g++ -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -I../include -I/usr/include/lpsolve -I/usr/include/mysql -c -o exontrain.o exontrain.cc
g++ -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -I../include -I/usr/include/lpsolve -I/usr/include/mysql -c -o utrtrain.o utrtrain.cc
g++ -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -I../include -I/usr/include/lpsolve -I/usr/include/mysql -c -o dummy.o dummy.cc
g++ -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -I../include -I/usr/include/lpsolve -I/usr/include/mysql -o augustus augustus.cc genbank.o properties.o pp_profile.o pp_hitseq.o pp_scoring.o statemodel.o namgene.o types.o gene.o evaluation.o motif.o geneticcode.o hints.o extrinsicinfo.o projectio.o intronmodel.o exonmodel.o igenicmodel.o utrmodel.o merkmal.o vitmatrix.o lldouble.o mea.o graph.o meaPath.o exoncand.o randseqaccess.o fasta.o ncmodel.o parser/parse.o scanner/lex.o genomicMSA.o geneMSA.o contTimeMC.o codonevo.o codonevodiscr.o compgenepred.o phylotree.o orthograph.o orthoexon.o alignment.o speciesgraph.o codonMSA.o train_logReg_param.o tokenizer.o sqliteDB.o dummy.o -lboost_iostreams -lgsl -lgslcblas -llpsolve55 -lcolamd -ldl -lboost_serialization -lmysqlclient -lmysqlpp -lsqlite3
compgenepred.o: In function boost::archive::detail::common_iarchive<boost::archive::text_iarchive>::vload(boost::archive::class_name_type&)': compgenepred.cc:(.text._ZN5boost7archive6detail15common_iarchiveINS0_13text_iarchiveEE5vloadERNS0_15class_name_typeE[_ZN5boost7archive6detail15common_iarchiveINS0_13text_iarchiveEE5vloadERNS0_15class_name_typeE]+0x1): undefined reference to boost::archive::text_iarchive_implboost::archive::text_iarchive::load_override(boost::archive::class_name_type&)'
compgenepred.o: In function void boost::serialization::throw_exception<boost::archive::archive_exception>(boost::archive::archive_exception const&)': compgenepred.cc:(.text._ZN5boost13serialization15throw_exceptionINS_7archive17archive_exceptionEEEvRKT_[_ZN5boost13serialization15throw_exceptionINS_7archive17archive_exceptionEEEvRKT_]+0x1d): undefined reference to boost::archive::archive_exception::archive_exception(boost::archive::archive_exception const&)'
compgenepred.o: In function boost::serialization::singleton<boost::archive::detail::pointer_oserializer<boost::archive::text_oarchive, Alignment> >::get_instance()': compgenepred.cc:(.text._ZN5boost13serialization9singletonINS_7archive6detail19pointer_oserializerINS2_13text_oarchiveE9AlignmentEEE12get_instanceEv[_ZN5boost13serialization9singletonINS_7archive6detail19pointer_oserializerINS2_13text_oarchiveE9AlignmentEEE12get_instanceEv]+0x4c): undefined reference to boost::serialization::singleton_module::is_locked()'
compgenepred.o: In function boost::serialization::singleton<boost::archive::detail::pointer_oserializer<boost::archive::text_oarchive, GeneMSA> >::get_instance()': compgenepred.cc:(.text._ZN5boost13serialization9singletonINS_7archive6detail19pointer_oserializerINS2_13text_oarchiveE7GeneMSAEEE12get_instanceEv[_ZN5boost13serialization9singletonINS_7archive6detail19pointer_oserializerINS2_13text_oarchiveE7GeneMSAEEE12get_instanceEv]+0x4c): undefined reference to boost::serialization::singleton_module::is_locked()'
compgenepred.o: In function boost::serialization::singleton<boost::archive::detail::pointer_iserializer<boost::archive::text_iarchive, Alignment> >::get_instance()': compgenepred.cc:(.text._ZN5boost13serialization9singletonINS_7archive6detail19pointer_iserializerINS2_13text_iarchiveE9AlignmentEEE12get_instanceEv[_ZN5boost13serialization9singletonINS_7archive6detail19pointer_iserializerINS2_13text_iarchiveE9AlignmentEEE12get_instanceEv]+0x4c): undefined reference to boost::serialization::singleton_module::is_locked()'
compgenepred.o: In function boost::serialization::singleton<boost::archive::detail::pointer_iserializer<boost::archive::text_iarchive, GeneMSA> >::get_instance()': compgenepred.cc:(.text._ZN5boost13serialization9singletonINS_7archive6detail19pointer_iserializerINS2_13text_iarchiveE7GeneMSAEEE12get_instanceEv[_ZN5boost13serialization9singletonINS_7archive6detail19pointer_iserializerINS2_13text_iarchiveE7GeneMSAEEE12get_instanceEv]+0x4c): undefined reference to boost::serialization::singleton_module::is_locked()'
compgenepred.o: In function boost::archive::detail::iserializer<boost::archive::text_iarchive, GeneMSA>::load_object_data(boost::archive::detail::basic_iarchive&, void*, unsigned int) const': compgenepred.cc:(.text._ZNK5boost7archive6detail11iserializerINS0_13text_iarchiveE7GeneMSAE16load_object_dataERNS1_14basic_iarchiveEPvj[_ZNK5boost7archive6detail11iserializerINS0_13text_iarchiveE7GeneMSAE16load_object_dataERNS1_14basic_iarchiveEPvj]+0x120): undefined reference to boost::serialization::singleton_module::is_locked()'
compgenepred.o:compgenepred.cc:(.text._ZN5boost13serialization9singletonINS_7archive6detail19pointer_oserializerINS2_13text_oarchiveE12AlignmentRowEEE12get_instanceEv[_ZN5boost13serialization9singletonINS_7archive6detail19pointer_oserializerINS2_13text_oarchiveE12AlignmentRowEEE12get_instanceEv]+0x4c): more undefined references to `boost::serialization::singleton_module::is_locked()' follow
collect2: error: ld returned 1 exit status
Makefile:90: recipe for target 'augustus' failed
make[1]: *** [augustus] Error 1
make[1]: Leaving directory '/home/crobinson/Augustus/src'
Makefile:11: recipe for target 'augustus' failed
make: *** [augustus] Error 2

[MarioStanke]

The issue appears to be with boost libraries. I can't reproduce the problem as it compiles fine on my system.
It looks like you could work around the particular issue with boost::serialization by setting TESTING ?= false in the Makefile and then recompiling with make clean all. This is an option for developers and if not set, the library boost_serialization need not be linked against.

[tseemann]

Installing with conda works fine too:

% conda create -n augustus augustus

% conda activate augustus

% augustus --version
AUGUSTUS (3.5.0) is a gene prediction tool.
Sources and documentation at https://github.com/Gaius-Augustus/Augustus