The following packages will be installed:
 locarna 
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locarna-1.9.2.3/
locarna-1.9.2.3/aclocal.m4
locarna-1.9.2.3/Makefile.am
locarna-1.9.2.3/Doc/
locarna-1.9.2.3/Doc/doxygen.cfg
locarna-1.9.2.3/Doc/man/
locarna-1.9.2.3/Doc/man/Makefile.am
locarna-1.9.2.3/Doc/man/dot2pp.1
locarna-1.9.2.3/Doc/man/aln-seqs.pl.1
locarna-1.9.2.3/Doc/man/locarnap-revisit-RNAz-hits.pl.1
locarna-1.9.2.3/Doc/man/ribosum2cc.1
locarna-1.9.2.3/Doc/man/pp2dot.1
locarna-1.9.2.3/Doc/man/locarnap-predict-and-plot.pl.1
locarna-1.9.2.3/Doc/man/gen-reliab-dot.pl.1
locarna-1.9.2.3/Doc/man/Makefile.in
locarna-1.9.2.3/Doc/man/plot-bmprobs.1
locarna-1.9.2.3/Doc/man/exparna_p.1
locarna-1.9.2.3/Doc/man/locarnate.1
locarna-1.9.2.3/Doc/man/mlocarna.1
locarna-1.9.2.3/Doc/man/locarnap-revcomp.pl.1
locarna-1.9.2.3/Doc/man/alnsel.pl.1
locarna-1.9.2.3/Doc/man/sparse.1
locarna-1.9.2.3/Doc/man/reliability-profile.pl.1
locarna-1.9.2.3/Doc/man/average-dot.pl.1
locarna-1.9.2.3/Doc/man/exploc_p.1
locarna-1.9.2.3/Doc/man/locarna_deviation.1
locarna-1.9.2.3/Doc/man/mlocarna_nnames.1
locarna-1.9.2.3/Doc/man/locarnap-realign-all.pl.1
locarna-1.9.2.3/Doc/man/locarna_p.1
locarna-1.9.2.3/Doc/man/locarna-motif-scan.1
locarna-1.9.2.3/Doc/man/locarna.1
locarna-1.9.2.3/Doc/man/locarna_rnafold_pp.1
locarna-1.9.2.3/Doc/man/aln2fa.pl.1
locarna-1.9.2.3/Doc/man/locarna-mea.pl.1
locarna-1.9.2.3/Doc/man/locarnap_fit.1
locarna-1.9.2.3/Doc/Makefile.am
locarna-1.9.2.3/Doc/Makefile.in
locarna-1.9.2.3/Doc/doxygen.am
locarna-1.9.2.3/config.h.in
locarna-1.9.2.3/NEWS
locarna-1.9.2.3/COPYING
locarna-1.9.2.3/config/
locarna-1.9.2.3/config/depcomp
locarna-1.9.2.3/config/test-driver
locarna-1.9.2.3/config/compile
locarna-1.9.2.3/config/missing
locarna-1.9.2.3/config/config.guess
locarna-1.9.2.3/config/ltmain.sh
locarna-1.9.2.3/config/config.sub
locarna-1.9.2.3/config/install-sh
locarna-1.9.2.3/m4/
locarna-1.9.2.3/m4/lt~obsolete.m4
locarna-1.9.2.3/m4/ax_pthread.m4
locarna-1.9.2.3/m4/ax_append_flag.m4
locarna-1.9.2.3/m4/ltsugar.m4
locarna-1.9.2.3/m4/doxygen.m4
locarna-1.9.2.3/m4/ltversion.m4
locarna-1.9.2.3/m4/libtool.m4
locarna-1.9.2.3/m4/ltoptions.m4
locarna-1.9.2.3/ChangeLog
locarna-1.9.2.3/Makefile.in
locarna-1.9.2.3/TODO
locarna-1.9.2.3/Data/
locarna-1.9.2.3/Data/Examples/
locarna-1.9.2.3/Data/Examples/SECIS_15_ref.aln
locarna-1.9.2.3/Data/Examples/example-wo-anchors.fa
locarna-1.9.2.3/Data/Examples/SECIS_15.fa
locarna-1.9.2.3/Data/Examples/haca.snoRNA_anchor.bed
locarna-1.9.2.3/Data/Examples/gcvT.fa
locarna-1.9.2.3/Data/Examples/archaea.fa
locarna-1.9.2.3/Data/Examples/human.fa
locarna-1.9.2.3/Data/Examples/archaea-wrong.fa
locarna-1.9.2.3/Data/Examples/ferritin.fa
locarna-1.9.2.3/Data/Examples/mouse.fa
locarna-1.9.2.3/Data/Examples/short-example.cfg
locarna-1.9.2.3/Data/Examples/hammerhead_3.fa
locarna-1.9.2.3/Data/Examples/example-w-constraints.fa
locarna-1.9.2.3/Data/Examples/example-realign.aln
locarna-1.9.2.3/Data/Examples/haca.snoRNA.fa
locarna-1.9.2.3/Data/Examples/example.fa
locarna-1.9.2.3/Data/Examples/archaea-aln.fa
locarna-1.9.2.3/Data/Examples/archaea.aln
locarna-1.9.2.3/Data/Examples/example-anchors.bed
locarna-1.9.2.3/Data/Examples/example.cfg
locarna-1.9.2.3/Data/Matrices/
locarna-1.9.2.3/Data/Matrices/RIBOSUM85_60
locarna-1.9.2.3/configure
locarna-1.9.2.3/configure.ac
locarna-1.9.2.3/README
locarna-1.9.2.3/Packaging/
locarna-1.9.2.3/Packaging/debian/
locarna-1.9.2.3/Packaging/debian/control.in
locarna-1.9.2.3/Packaging/rpm/
locarna-1.9.2.3/Packaging/rpm/locarna.spec.in
locarna-1.9.2.3/AUTHORS
locarna-1.9.2.3/INSTALL
locarna-1.9.2.3/lib/
locarna-1.9.2.3/lib/Makefile.am
locarna-1.9.2.3/lib/Makefile.in
locarna-1.9.2.3/lib/perl/
locarna-1.9.2.3/lib/perl/Makefile.am
locarna-1.9.2.3/lib/perl/MLocarna/
locarna-1.9.2.3/lib/perl/MLocarna/MatchProbs.pm
locarna-1.9.2.3/lib/perl/MLocarna/Aux.pm
locarna-1.9.2.3/lib/perl/MLocarna/Makefile.am
locarna-1.9.2.3/lib/perl/MLocarna/unthreaded.pm
locarna-1.9.2.3/lib/perl/MLocarna/Trees.pm
locarna-1.9.2.3/lib/perl/MLocarna/Makefile.in
locarna-1.9.2.3/lib/perl/MLocarna/threaded.pm
locarna-1.9.2.3/lib/perl/MLocarna/PairwiseAligners.pm
locarna-1.9.2.3/lib/perl/MLocarna/SparseMatrix.pm
locarna-1.9.2.3/lib/perl/MLocarna.pm
locarna-1.9.2.3/lib/perl/Makefile.in
locarna-1.9.2.3/lib/LocARNA.pc.in
locarna-1.9.2.3/src/
locarna-1.9.2.3/src/Makefile.am
locarna-1.9.2.3/src/sparse.cc
locarna-1.9.2.3/src/exparna_p.cc
locarna-1.9.2.3/src/package_constants.hh.in
locarna-1.9.2.3/src/locarna_p.cc
locarna-1.9.2.3/src/ribosum2cc.cc
locarna-1.9.2.3/src/Makefile.in
locarna-1.9.2.3/src/locarna.cc
locarna-1.9.2.3/src/deviation.cc
locarna-1.9.2.3/src/LocARNA/
locarna-1.9.2.3/src/LocARNA/ribosum.hh
locarna-1.9.2.3/src/LocARNA/sparsification_mapper.cc
locarna-1.9.2.3/src/LocARNA/matrix.hh
locarna-1.9.2.3/src/LocARNA/ext_rna_data.hh
locarna-1.9.2.3/src/LocARNA/alignment.hh
locarna-1.9.2.3/src/LocARNA/rna_data.cc
locarna-1.9.2.3/src/LocARNA/global_stopwatch.hh
locarna-1.9.2.3/src/LocARNA/type_wrapper.hh
locarna-1.9.2.3/src/LocARNA/sequence_annotation.cc
locarna-1.9.2.3/src/LocARNA/options.cc
locarna-1.9.2.3/src/LocARNA/sparse_vector.hh
locarna-1.9.2.3/src/LocARNA/multiple_alignment.cc
locarna-1.9.2.3/src/LocARNA/alphabet.hh
locarna-1.9.2.3/src/LocARNA/rna_data_impl.hh
locarna-1.9.2.3/src/LocARNA/infty_int.hh
locarna-1.9.2.3/src/LocARNA/ribosum85_60.icc
locarna-1.9.2.3/src/LocARNA/rna_structure.hh
locarna-1.9.2.3/src/LocARNA/ribofit_will2014.icc
locarna-1.9.2.3/src/LocARNA/anchor_constraints.cc
locarna-1.9.2.3/src/LocARNA/alphabet.icc
locarna-1.9.2.3/src/LocARNA/aux.hh
locarna-1.9.2.3/src/LocARNA/basepairs.cc
locarna-1.9.2.3/src/LocARNA/sequence.cc
locarna-1.9.2.3/src/LocARNA/sparse_matrix.hh
locarna-1.9.2.3/src/LocARNA/mcc_matrices.cc
locarna-1.9.2.3/src/LocARNA/pfold_params.hh
locarna-1.9.2.3/src/LocARNA/string1.hh
locarna-1.9.2.3/src/LocARNA/sequence.hh
locarna-1.9.2.3/src/LocARNA/match_probs.hh
locarna-1.9.2.3/src/LocARNA/plusvector.hh
locarna-1.9.2.3/src/LocARNA/rna_structure.cc
locarna-1.9.2.3/src/LocARNA/stral_score.hh
locarna-1.9.2.3/src/LocARNA/matrices.hh
locarna-1.9.2.3/src/LocARNA/params.hh
locarna-1.9.2.3/src/LocARNA/scoring.cc
locarna-1.9.2.3/src/LocARNA/stopwatch.cc
locarna-1.9.2.3/src/LocARNA/aligner.hh
locarna-1.9.2.3/src/LocARNA/ribofit_will2014.ihh
locarna-1.9.2.3/src/LocARNA/fitonoff.hh
locarna-1.9.2.3/src/LocARNA/ribosum.cc
locarna-1.9.2.3/src/LocARNA/basepairs.hh
locarna-1.9.2.3/src/LocARNA/arc_matches.hh
locarna-1.9.2.3/src/LocARNA/exact_matcher.hh
locarna-1.9.2.3/src/LocARNA/base_pair_filter.hh
locarna-1.9.2.3/src/LocARNA/pfold_params.cc
locarna-1.9.2.3/src/LocARNA/ext_rna_data_impl.hh
locarna-1.9.2.3/src/LocARNA/options.hh
locarna-1.9.2.3/src/LocARNA/aux.cc
locarna-1.9.2.3/src/LocARNA/aligner_n.cc
locarna-1.9.2.3/src/LocARNA/trace_controller.cc
locarna-1.9.2.3/src/LocARNA/aligner_restriction.hh
locarna-1.9.2.3/src/LocARNA/trace_controller.hh
locarna-1.9.2.3/src/LocARNA/aligner_p.hh
locarna-1.9.2.3/src/LocARNA/arc_matches.cc
locarna-1.9.2.3/src/LocARNA/params.cc
locarna-1.9.2.3/src/LocARNA/ribofit.hh
locarna-1.9.2.3/src/LocARNA/ribofit.cc
locarna-1.9.2.3/src/LocARNA/alignment.cc
locarna-1.9.2.3/src/LocARNA/exact_matcher.cc
locarna-1.9.2.3/src/LocARNA/rna_ensemble_impl.hh
locarna-1.9.2.3/src/LocARNA/discrete_distribution.hh
locarna-1.9.2.3/src/LocARNA/mcc_matrices.hh
locarna-1.9.2.3/src/LocARNA/confusion_matrix.hh
locarna-1.9.2.3/src/LocARNA/match_probs.cc
locarna-1.9.2.3/src/LocARNA/infty_int.cc
locarna-1.9.2.3/src/LocARNA/scoring.hh
locarna-1.9.2.3/src/LocARNA/aligner_n.hh
locarna-1.9.2.3/src/LocARNA/scoring_fwd.hh
locarna-1.9.2.3/src/LocARNA/aligner.cc
locarna-1.9.2.3/src/LocARNA/main_helper.icc
locarna-1.9.2.3/src/LocARNA/global_stopwatch.cc
locarna-1.9.2.3/src/LocARNA/sparsification_mapper.hh
locarna-1.9.2.3/src/LocARNA/stopwatch.hh
locarna-1.9.2.3/src/LocARNA/stral_score.cc
locarna-1.9.2.3/src/LocARNA/tuples.hh
locarna-1.9.2.3/src/LocARNA/aligner_impl.hh
locarna-1.9.2.3/src/LocARNA/rna_data.hh
locarna-1.9.2.3/src/LocARNA/sequence_annotation.hh
locarna-1.9.2.3/src/LocARNA/rna_ensemble.cc
locarna-1.9.2.3/src/LocARNA/anchor_constraints.hh
locarna-1.9.2.3/src/LocARNA/fitonoff.cc
locarna-1.9.2.3/src/LocARNA/alignment_impl.hh
locarna-1.9.2.3/src/LocARNA/confusion_matrix.cc
locarna-1.9.2.3/src/LocARNA/rna_ensemble.hh
locarna-1.9.2.3/src/LocARNA/multiple_alignment.hh
locarna-1.9.2.3/src/LocARNA/aligner_p.cc
locarna-1.9.2.3/src/fit.cc
locarna-1.9.2.3/src/Tests/
locarna-1.9.2.3/src/Tests/mlocarna-haca-constraints.testresult
locarna-1.9.2.3/src/Tests/mlocarna-threads.testresult
locarna-1.9.2.3/src/Tests/locarnate.testresult
locarna-1.9.2.3/src/Tests/rna_data.cc
locarna-1.9.2.3/src/Tests/Makefile.am
locarna-1.9.2.3/src/Tests/exparna_p.testresult
locarna-1.9.2.3/src/Tests/locarna-local.testresult
locarna-1.9.2.3/src/Tests/multiple_alignment.cc
locarna-1.9.2.3/src/Tests/test_locarna_lib.cc
locarna-1.9.2.3/src/Tests/locarna-normalized.testresult
locarna-1.9.2.3/src/Tests/anchor_constraints.cc
locarna-1.9.2.3/src/Tests/Makefile.in
locarna-1.9.2.3/src/Tests/mlocarna-bed-anchors.testresult
locarna-1.9.2.3/src/Tests/rna_structure.cc
locarna-1.9.2.3/src/Tests/mlocarna-probabilistic.testresult
locarna-1.9.2.3/src/Tests/catch.hpp
locarna-1.9.2.3/src/Tests/test_programs
locarna-1.9.2.3/src/Tests/mlocarna-realign.testresult
locarna-1.9.2.3/src/Tests/trace_controller.cc
locarna-1.9.2.3/src/Tests/matrices.cc
locarna-1.9.2.3/src/Tests/rna_ensemble.cc
locarna-1.9.2.3/src/Tests/mlocarna-archaea-alifold.testresult
locarna-1.9.2.3/src/Tests/mlocarna-sparse.testresult
locarna-1.9.2.3/src/Tests/ext_rna_data.cc
locarna-1.9.2.3/src/locarna_rnafold_pp.cc
locarna-1.9.2.3/src/Utils/
locarna-1.9.2.3/src/Utils/plot-bmprobs
locarna-1.9.2.3/src/Utils/gen-reliab-dot.pl
locarna-1.9.2.3/src/Utils/locarna-motif-scan
locarna-1.9.2.3/src/Utils/Makefile.am
locarna-1.9.2.3/src/Utils/average-dot.pl
locarna-1.9.2.3/src/Utils/locarnap-predict-and-plot.pl
locarna-1.9.2.3/src/Utils/mlocarna
locarna-1.9.2.3/src/Utils/reliability-profile.pl
locarna-1.9.2.3/src/Utils/pp2dot
locarna-1.9.2.3/src/Utils/Makefile.in
locarna-1.9.2.3/src/Utils/mlocarna_nnames
locarna-1.9.2.3/src/Utils/locarna-mea.pl
locarna-1.9.2.3/src/Utils/exploc_p
locarna-1.9.2.3/src/Utils/RNAz.pm
locarna-1.9.2.3/src/Utils/locarnap-revisit-RNAz-hits.pl
locarna-1.9.2.3/src/Utils/locarnate
locarna-1.9.2.3/src/Utils/locarnap-revcomp.pl
locarna-1.9.2.3/src/Utils/aln-seqs.pl
locarna-1.9.2.3/src/Utils/LocARNA_RNAz.pm
locarna-1.9.2.3/src/Utils/locarnap-realign-all.pl
locarna-1.9.2.3/src/Utils/dot2pp
locarna-1.9.2.3/src/Utils/aln2fa.pl
locarna-1.9.2.3/src/Utils/alnsel.pl
checking build system type... i586-slackware-linux-gnu
checking host system type... i586-slackware-linux-gnu
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checking whether the C compiler works... yes
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checking for objdir... .libs
checking if gcc supports -fno-rtti -fno-exceptions... no
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checking if gcc PIC flag -fPIC -DPIC works... yes
checking if gcc static flag -static works... yes
checking if gcc supports -c -o file.o... yes
checking if gcc supports -c -o file.o... (cached) yes
checking whether the gcc linker (/usr/bin/ld) supports shared libraries... yes
checking whether -lc should be explicitly linked in... no
checking dynamic linker characteristics... GNU/Linux ld.so
checking how to hardcode library paths into programs... immediate
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checking whether make supports nested variables... yes
checking dependency style of gcc... gcc3
checking for g++... g++
checking whether we are using the GNU C++ compiler... yes
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checking how to run the C++ preprocessor... g++ -E
checking for ld used by g++... /usr/bin/ld
checking if the linker (/usr/bin/ld) is GNU ld... yes
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checking if g++ supports -c -o file.o... yes
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checking dynamic linker characteristics... (cached) GNU/Linux ld.so
checking how to hardcode library paths into programs... immediate
checking dependency style of g++... gcc3
checking how to run the C++ preprocessor... g++ -E
checking for gcc... (cached) gcc
checking whether we are using the GNU C compiler... (cached) yes
checking whether gcc accepts -g... (cached) yes
checking for gcc option to accept ISO C89... (cached) none needed
checking whether gcc understands -c and -o together... (cached) yes
checking how to run the C preprocessor... gcc -E
checking for perl... perl
checking for pod2man... pod2man
checking for doxygen... /usr/bin/doxygen
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checking for dot... /usr/bin/dot
checking for strdup... yes
checking for pkg-config... true
checking for pkg-config... /usr/bin/pkg-config
checking pkg-config is at least version 0.9.0... yes
checking for VRNA... yes
checking for vrna_C11_features in -lRNA... yes
configure: VRNA_LIBS=-fno-lto -Wl,-fno-lto -lRNA -fopenmp -lgsl -lgslcblas -lpthread -lmpfr -lgmp -lstdc++; VRNA_CFLAGS=-pthread -I/usr/include/ViennaRNA
checking for ANSI C header files... (cached) yes
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checking whether pthreads work without any flags... yes
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checking if more special flags are required for pthreads... no
checking for PTHREAD_PRIO_INHERIT... yes
configure: pthread: , 
checking whether to link statically... no
checking whether to link binaries dynamically to libLocARNA... no
checking whether to support large partition function... no
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checking that generated files are newer than configure... done
configure: creating ./config.status
config.status: creating Makefile
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config.status: creating LocARNA-1.6.pc
config.status: creating src/package_constants.hh
config.status: creating Packaging/debian/control
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config.status: creating src/config.h
config.status: executing libtool commands
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Making all in src
make[1]: Entering directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/src'
depbase=`echo ribosum2cc.o | sed 's|[^/]*$|.deps/&|;s|\.o$||'`;\
g++ -DHAVE_CONFIG_H -I.   -pthread -I/usr/include/ViennaRNA   -O2 -march=i586 -mtune=i686 -MT ribosum2cc.o -MD -MP -MF $depbase.Tpo -c -o ribosum2cc.o ribosum2cc.cc &&\
mv -f $depbase.Tpo $depbase.Po
depbase=`echo LocARNA/aux.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\
/bin/sh ../libtool  --tag=CXX   --mode=compile g++ -DHAVE_CONFIG_H -I.   -pthread -I/usr/include/ViennaRNA   -O2 -march=i586 -mtune=i686 -MT LocARNA/aux.lo -MD -MP -MF $depbase.Tpo -c -o LocARNA/aux.lo LocARNA/aux.cc &&\
mv -f $depbase.Tpo $depbase.Plo
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -pthread -I/usr/include/ViennaRNA -O2 -march=i586 -mtune=i686 -MT LocARNA/aux.lo -MD -MP -MF LocARNA/.deps/aux.Tpo -c LocARNA/aux.cc  -fPIC -DPIC -o LocARNA/.libs/aux.o
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -pthread -I/usr/include/ViennaRNA -O2 -march=i586 -mtune=i686 -MT LocARNA/aux.lo -MD -MP -MF LocARNA/.deps/aux.Tpo -c LocARNA/aux.cc -o LocARNA/aux.o >/dev/null 2>&1
depbase=`echo LocARNA/sequence.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\
/bin/sh ../libtool  --tag=CXX   --mode=compile g++ -DHAVE_CONFIG_H -I.   -pthread -I/usr/include/ViennaRNA   -O2 -march=i586 -mtune=i686 -MT LocARNA/sequence.lo -MD -MP -MF $depbase.Tpo -c -o LocARNA/sequence.lo LocARNA/sequence.cc &&\
mv -f $depbase.Tpo $depbase.Plo
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -pthread -I/usr/include/ViennaRNA -O2 -march=i586 -mtune=i686 -MT LocARNA/sequence.lo -MD -MP -MF LocARNA/.deps/sequence.Tpo -c LocARNA/sequence.cc  -fPIC -DPIC -o LocARNA/.libs/sequence.o
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -pthread -I/usr/include/ViennaRNA -O2 -march=i586 -mtune=i686 -MT LocARNA/sequence.lo -MD -MP -MF LocARNA/.deps/sequence.Tpo -c LocARNA/sequence.cc -o LocARNA/sequence.o >/dev/null 2>&1
depbase=`echo LocARNA/stopwatch.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\
/bin/sh ../libtool  --tag=CXX   --mode=compile g++ -DHAVE_CONFIG_H -I.   -pthread -I/usr/include/ViennaRNA   -O2 -march=i586 -mtune=i686 -MT LocARNA/stopwatch.lo -MD -MP -MF $depbase.Tpo -c -o LocARNA/stopwatch.lo LocARNA/stopwatch.cc &&\
mv -f $depbase.Tpo $depbase.Plo
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -pthread -I/usr/include/ViennaRNA -O2 -march=i586 -mtune=i686 -MT LocARNA/stopwatch.lo -MD -MP -MF LocARNA/.deps/stopwatch.Tpo -c LocARNA/stopwatch.cc  -fPIC -DPIC -o LocARNA/.libs/stopwatch.o
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -pthread -I/usr/include/ViennaRNA -O2 -march=i586 -mtune=i686 -MT LocARNA/stopwatch.lo -MD -MP -MF LocARNA/.deps/stopwatch.Tpo -c LocARNA/stopwatch.cc -o LocARNA/stopwatch.o >/dev/null 2>&1
depbase=`echo LocARNA/options.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\
/bin/sh ../libtool  --tag=CXX   --mode=compile g++ -DHAVE_CONFIG_H -I.   -pthread -I/usr/include/ViennaRNA   -O2 -march=i586 -mtune=i686 -MT LocARNA/options.lo -MD -MP -MF $depbase.Tpo -c -o LocARNA/options.lo LocARNA/options.cc &&\
mv -f $depbase.Tpo $depbase.Plo
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -pthread -I/usr/include/ViennaRNA -O2 -march=i586 -mtune=i686 -MT LocARNA/options.lo -MD -MP -MF LocARNA/.deps/options.Tpo -c LocARNA/options.cc  -fPIC -DPIC -o LocARNA/.libs/options.o
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -pthread -I/usr/include/ViennaRNA -O2 -march=i586 -mtune=i686 -MT LocARNA/options.lo -MD -MP -MF LocARNA/.deps/options.Tpo -c LocARNA/options.cc -o LocARNA/options.o >/dev/null 2>&1
depbase=`echo LocARNA/basepairs.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\
/bin/sh ../libtool  --tag=CXX   --mode=compile g++ -DHAVE_CONFIG_H -I.   -pthread -I/usr/include/ViennaRNA   -O2 -march=i586 -mtune=i686 -MT LocARNA/basepairs.lo -MD -MP -MF $depbase.Tpo -c -o LocARNA/basepairs.lo LocARNA/basepairs.cc &&\
mv -f $depbase.Tpo $depbase.Plo
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -pthread -I/usr/include/ViennaRNA -O2 -march=i586 -mtune=i686 -MT LocARNA/basepairs.lo -MD -MP -MF LocARNA/.deps/basepairs.Tpo -c LocARNA/basepairs.cc  -fPIC -DPIC -o LocARNA/.libs/basepairs.o
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -pthread -I/usr/include/ViennaRNA -O2 -march=i586 -mtune=i686 -MT LocARNA/basepairs.lo -MD -MP -MF LocARNA/.deps/basepairs.Tpo -c LocARNA/basepairs.cc -o LocARNA/basepairs.o >/dev/null 2>&1
depbase=`echo LocARNA/alignment.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\
/bin/sh ../libtool  --tag=CXX   --mode=compile g++ -DHAVE_CONFIG_H -I.   -pthread -I/usr/include/ViennaRNA   -O2 -march=i586 -mtune=i686 -MT LocARNA/alignment.lo -MD -MP -MF $depbase.Tpo -c -o LocARNA/alignment.lo LocARNA/alignment.cc &&\
mv -f $depbase.Tpo $depbase.Plo
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -pthread -I/usr/include/ViennaRNA -O2 -march=i586 -mtune=i686 -MT LocARNA/alignment.lo -MD -MP -MF LocARNA/.deps/alignment.Tpo -c LocARNA/alignment.cc  -fPIC -DPIC -o LocARNA/.libs/alignment.o
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -pthread -I/usr/include/ViennaRNA -O2 -march=i586 -mtune=i686 -MT LocARNA/alignment.lo -MD -MP -MF LocARNA/.deps/alignment.Tpo -c LocARNA/alignment.cc -o LocARNA/alignment.o >/dev/null 2>&1
depbase=`echo LocARNA/rna_ensemble.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\
/bin/sh ../libtool  --tag=CXX   --mode=compile g++ -DHAVE_CONFIG_H -I.   -pthread -I/usr/include/ViennaRNA   -O2 -march=i586 -mtune=i686 -MT LocARNA/rna_ensemble.lo -MD -MP -MF $depbase.Tpo -c -o LocARNA/rna_ensemble.lo LocARNA/rna_ensemble.cc &&\
mv -f $depbase.Tpo $depbase.Plo
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -pthread -I/usr/include/ViennaRNA -O2 -march=i586 -mtune=i686 -MT LocARNA/rna_ensemble.lo -MD -MP -MF LocARNA/.deps/rna_ensemble.Tpo -c LocARNA/rna_ensemble.cc  -fPIC -DPIC -o LocARNA/.libs/rna_ensemble.o
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -pthread -I/usr/include/ViennaRNA -O2 -march=i586 -mtune=i686 -MT LocARNA/rna_ensemble.lo -MD -MP -MF LocARNA/.deps/rna_ensemble.Tpo -c LocARNA/rna_ensemble.cc -o LocARNA/rna_ensemble.o >/dev/null 2>&1
depbase=`echo LocARNA/rna_data.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\
/bin/sh ../libtool  --tag=CXX   --mode=compile g++ -DHAVE_CONFIG_H -I.   -pthread -I/usr/include/ViennaRNA   -O2 -march=i586 -mtune=i686 -MT LocARNA/rna_data.lo -MD -MP -MF $depbase.Tpo -c -o LocARNA/rna_data.lo LocARNA/rna_data.cc &&\
mv -f $depbase.Tpo $depbase.Plo
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -pthread -I/usr/include/ViennaRNA -O2 -march=i586 -mtune=i686 -MT LocARNA/rna_data.lo -MD -MP -MF LocARNA/.deps/rna_data.Tpo -c LocARNA/rna_data.cc  -fPIC -DPIC -o LocARNA/.libs/rna_data.o
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -pthread -I/usr/include/ViennaRNA -O2 -march=i586 -mtune=i686 -MT LocARNA/rna_data.lo -MD -MP -MF LocARNA/.deps/rna_data.Tpo -c LocARNA/rna_data.cc -o LocARNA/rna_data.o >/dev/null 2>&1
depbase=`echo LocARNA/pfold_params.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\
/bin/sh ../libtool  --tag=CXX   --mode=compile g++ -DHAVE_CONFIG_H -I.   -pthread -I/usr/include/ViennaRNA   -O2 -march=i586 -mtune=i686 -MT LocARNA/pfold_params.lo -MD -MP -MF $depbase.Tpo -c -o LocARNA/pfold_params.lo LocARNA/pfold_params.cc &&\
mv -f $depbase.Tpo $depbase.Plo
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -pthread -I/usr/include/ViennaRNA -O2 -march=i586 -mtune=i686 -MT LocARNA/pfold_params.lo -MD -MP -MF LocARNA/.deps/pfold_params.Tpo -c LocARNA/pfold_params.cc  -fPIC -DPIC -o LocARNA/.libs/pfold_params.o
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -pthread -I/usr/include/ViennaRNA -O2 -march=i586 -mtune=i686 -MT LocARNA/pfold_params.lo -MD -MP -MF LocARNA/.deps/pfold_params.Tpo -c LocARNA/pfold_params.cc -o LocARNA/pfold_params.o >/dev/null 2>&1
depbase=`echo LocARNA/scoring.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\
/bin/sh ../libtool  --tag=CXX   --mode=compile g++ -DHAVE_CONFIG_H -I.   -pthread -I/usr/include/ViennaRNA   -O2 -march=i586 -mtune=i686 -MT LocARNA/scoring.lo -MD -MP -MF $depbase.Tpo -c -o LocARNA/scoring.lo LocARNA/scoring.cc &&\
mv -f $depbase.Tpo $depbase.Plo
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -pthread -I/usr/include/ViennaRNA -O2 -march=i586 -mtune=i686 -MT LocARNA/scoring.lo -MD -MP -MF LocARNA/.deps/scoring.Tpo -c LocARNA/scoring.cc  -fPIC -DPIC -o LocARNA/.libs/scoring.o
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -pthread -I/usr/include/ViennaRNA -O2 -march=i586 -mtune=i686 -MT LocARNA/scoring.lo -MD -MP -MF LocARNA/.deps/scoring.Tpo -c LocARNA/scoring.cc -o LocARNA/scoring.o >/dev/null 2>&1
depbase=`echo LocARNA/infty_int.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\
/bin/sh ../libtool  --tag=CXX   --mode=compile g++ -DHAVE_CONFIG_H -I.   -pthread -I/usr/include/ViennaRNA   -O2 -march=i586 -mtune=i686 -MT LocARNA/infty_int.lo -MD -MP -MF $depbase.Tpo -c -o LocARNA/infty_int.lo LocARNA/infty_int.cc &&\
mv -f $depbase.Tpo $depbase.Plo
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -pthread -I/usr/include/ViennaRNA -O2 -march=i586 -mtune=i686 -MT LocARNA/infty_int.lo -MD -MP -MF LocARNA/.deps/infty_int.Tpo -c LocARNA/infty_int.cc  -fPIC -DPIC -o LocARNA/.libs/infty_int.o
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -pthread -I/usr/include/ViennaRNA -O2 -march=i586 -mtune=i686 -MT LocARNA/infty_int.lo -MD -MP -MF LocARNA/.deps/infty_int.Tpo -c LocARNA/infty_int.cc -o LocARNA/infty_int.o >/dev/null 2>&1
depbase=`echo LocARNA/match_probs.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\
/bin/sh ../libtool  --tag=CXX   --mode=compile g++ -DHAVE_CONFIG_H -I.   -pthread -I/usr/include/ViennaRNA   -O2 -march=i586 -mtune=i686 -MT LocARNA/match_probs.lo -MD -MP -MF $depbase.Tpo -c -o LocARNA/match_probs.lo LocARNA/match_probs.cc &&\
mv -f $depbase.Tpo $depbase.Plo
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -pthread -I/usr/include/ViennaRNA -O2 -march=i586 -mtune=i686 -MT LocARNA/match_probs.lo -MD -MP -MF LocARNA/.deps/match_probs.Tpo -c LocARNA/match_probs.cc  -fPIC -DPIC -o LocARNA/.libs/match_probs.o
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -pthread -I/usr/include/ViennaRNA -O2 -march=i586 -mtune=i686 -MT LocARNA/match_probs.lo -MD -MP -MF LocARNA/.deps/match_probs.Tpo -c LocARNA/match_probs.cc -o LocARNA/match_probs.o >/dev/null 2>&1
depbase=`echo LocARNA/ribosum.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\
/bin/sh ../libtool  --tag=CXX   --mode=compile g++ -DHAVE_CONFIG_H -I.   -pthread -I/usr/include/ViennaRNA   -O2 -march=i586 -mtune=i686 -MT LocARNA/ribosum.lo -MD -MP -MF $depbase.Tpo -c -o LocARNA/ribosum.lo LocARNA/ribosum.cc &&\
mv -f $depbase.Tpo $depbase.Plo
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -pthread -I/usr/include/ViennaRNA -O2 -march=i586 -mtune=i686 -MT LocARNA/ribosum.lo -MD -MP -MF LocARNA/.deps/ribosum.Tpo -c LocARNA/ribosum.cc  -fPIC -DPIC -o LocARNA/.libs/ribosum.o
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -pthread -I/usr/include/ViennaRNA -O2 -march=i586 -mtune=i686 -MT LocARNA/ribosum.lo -MD -MP -MF LocARNA/.deps/ribosum.Tpo -c LocARNA/ribosum.cc -o LocARNA/ribosum.o >/dev/null 2>&1
depbase=`echo LocARNA/ribofit.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\
/bin/sh ../libtool  --tag=CXX   --mode=compile g++ -DHAVE_CONFIG_H -I.   -pthread -I/usr/include/ViennaRNA   -O2 -march=i586 -mtune=i686 -MT LocARNA/ribofit.lo -MD -MP -MF $depbase.Tpo -c -o LocARNA/ribofit.lo LocARNA/ribofit.cc &&\
mv -f $depbase.Tpo $depbase.Plo
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -pthread -I/usr/include/ViennaRNA -O2 -march=i586 -mtune=i686 -MT LocARNA/ribofit.lo -MD -MP -MF LocARNA/.deps/ribofit.Tpo -c LocARNA/ribofit.cc  -fPIC -DPIC -o LocARNA/.libs/ribofit.o
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -pthread -I/usr/include/ViennaRNA -O2 -march=i586 -mtune=i686 -MT LocARNA/ribofit.lo -MD -MP -MF LocARNA/.deps/ribofit.Tpo -c LocARNA/ribofit.cc -o LocARNA/ribofit.o >/dev/null 2>&1
depbase=`echo LocARNA/sequence_annotation.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\
/bin/sh ../libtool  --tag=CXX   --mode=compile g++ -DHAVE_CONFIG_H -I.   -pthread -I/usr/include/ViennaRNA   -O2 -march=i586 -mtune=i686 -MT LocARNA/sequence_annotation.lo -MD -MP -MF $depbase.Tpo -c -o LocARNA/sequence_annotation.lo LocARNA/sequence_annotation.cc &&\
mv -f $depbase.Tpo $depbase.Plo
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -pthread -I/usr/include/ViennaRNA -O2 -march=i586 -mtune=i686 -MT LocARNA/sequence_annotation.lo -MD -MP -MF LocARNA/.deps/sequence_annotation.Tpo -c LocARNA/sequence_annotation.cc  -fPIC -DPIC -o LocARNA/.libs/sequence_annotation.o
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -pthread -I/usr/include/ViennaRNA -O2 -march=i586 -mtune=i686 -MT LocARNA/sequence_annotation.lo -MD -MP -MF LocARNA/.deps/sequence_annotation.Tpo -c LocARNA/sequence_annotation.cc -o LocARNA/sequence_annotation.o >/dev/null 2>&1
depbase=`echo LocARNA/anchor_constraints.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\
/bin/sh ../libtool  --tag=CXX   --mode=compile g++ -DHAVE_CONFIG_H -I.   -pthread -I/usr/include/ViennaRNA   -O2 -march=i586 -mtune=i686 -MT LocARNA/anchor_constraints.lo -MD -MP -MF $depbase.Tpo -c -o LocARNA/anchor_constraints.lo LocARNA/anchor_constraints.cc &&\
mv -f $depbase.Tpo $depbase.Plo
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -pthread -I/usr/include/ViennaRNA -O2 -march=i586 -mtune=i686 -MT LocARNA/anchor_constraints.lo -MD -MP -MF LocARNA/.deps/anchor_constraints.Tpo -c LocARNA/anchor_constraints.cc  -fPIC -DPIC -o LocARNA/.libs/anchor_constraints.o
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -pthread -I/usr/include/ViennaRNA -O2 -march=i586 -mtune=i686 -MT LocARNA/anchor_constraints.lo -MD -MP -MF LocARNA/.deps/anchor_constraints.Tpo -c LocARNA/anchor_constraints.cc -o LocARNA/anchor_constraints.o >/dev/null 2>&1
depbase=`echo LocARNA/arc_matches.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\
/bin/sh ../libtool  --tag=CXX   --mode=compile g++ -DHAVE_CONFIG_H -I.   -pthread -I/usr/include/ViennaRNA   -O2 -march=i586 -mtune=i686 -MT LocARNA/arc_matches.lo -MD -MP -MF $depbase.Tpo -c -o LocARNA/arc_matches.lo LocARNA/arc_matches.cc &&\
mv -f $depbase.Tpo $depbase.Plo
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -pthread -I/usr/include/ViennaRNA -O2 -march=i586 -mtune=i686 -MT LocARNA/arc_matches.lo -MD -MP -MF LocARNA/.deps/arc_matches.Tpo -c LocARNA/arc_matches.cc  -fPIC -DPIC -o LocARNA/.libs/arc_matches.o
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -pthread -I/usr/include/ViennaRNA -O2 -march=i586 -mtune=i686 -MT LocARNA/arc_matches.lo -MD -MP -MF LocARNA/.deps/arc_matches.Tpo -c LocARNA/arc_matches.cc -o LocARNA/arc_matches.o >/dev/null 2>&1
depbase=`echo LocARNA/aligner.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\
/bin/sh ../libtool  --tag=CXX   --mode=compile g++ -DHAVE_CONFIG_H -I.   -pthread -I/usr/include/ViennaRNA   -O2 -march=i586 -mtune=i686 -MT LocARNA/aligner.lo -MD -MP -MF $depbase.Tpo -c -o LocARNA/aligner.lo LocARNA/aligner.cc &&\
mv -f $depbase.Tpo $depbase.Plo
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -pthread -I/usr/include/ViennaRNA -O2 -march=i586 -mtune=i686 -MT LocARNA/aligner.lo -MD -MP -MF LocARNA/.deps/aligner.Tpo -c LocARNA/aligner.cc  -fPIC -DPIC -o LocARNA/.libs/aligner.o
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -pthread -I/usr/include/ViennaRNA -O2 -march=i586 -mtune=i686 -MT LocARNA/aligner.lo -MD -MP -MF LocARNA/.deps/aligner.Tpo -c LocARNA/aligner.cc -o LocARNA/aligner.o >/dev/null 2>&1
depbase=`echo LocARNA/stral_score.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\
/bin/sh ../libtool  --tag=CXX   --mode=compile g++ -DHAVE_CONFIG_H -I.   -pthread -I/usr/include/ViennaRNA   -O2 -march=i586 -mtune=i686 -MT LocARNA/stral_score.lo -MD -MP -MF $depbase.Tpo -c -o LocARNA/stral_score.lo LocARNA/stral_score.cc &&\
mv -f $depbase.Tpo $depbase.Plo
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -pthread -I/usr/include/ViennaRNA -O2 -march=i586 -mtune=i686 -MT LocARNA/stral_score.lo -MD -MP -MF LocARNA/.deps/stral_score.Tpo -c LocARNA/stral_score.cc  -fPIC -DPIC -o LocARNA/.libs/stral_score.o
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -pthread -I/usr/include/ViennaRNA -O2 -march=i586 -mtune=i686 -MT LocARNA/stral_score.lo -MD -MP -MF LocARNA/.deps/stral_score.Tpo -c LocARNA/stral_score.cc -o LocARNA/stral_score.o >/dev/null 2>&1
depbase=`echo LocARNA/aligner_p.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\
/bin/sh ../libtool  --tag=CXX   --mode=compile g++ -DHAVE_CONFIG_H -I.   -pthread -I/usr/include/ViennaRNA   -O2 -march=i586 -mtune=i686 -MT LocARNA/aligner_p.lo -MD -MP -MF $depbase.Tpo -c -o LocARNA/aligner_p.lo LocARNA/aligner_p.cc &&\
mv -f $depbase.Tpo $depbase.Plo
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -pthread -I/usr/include/ViennaRNA -O2 -march=i586 -mtune=i686 -MT LocARNA/aligner_p.lo -MD -MP -MF LocARNA/.deps/aligner_p.Tpo -c LocARNA/aligner_p.cc  -fPIC -DPIC -o LocARNA/.libs/aligner_p.o
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -pthread -I/usr/include/ViennaRNA -O2 -march=i586 -mtune=i686 -MT LocARNA/aligner_p.lo -MD -MP -MF LocARNA/.deps/aligner_p.Tpo -c LocARNA/aligner_p.cc -o LocARNA/aligner_p.o >/dev/null 2>&1
depbase=`echo LocARNA/trace_controller.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\
/bin/sh ../libtool  --tag=CXX   --mode=compile g++ -DHAVE_CONFIG_H -I.   -pthread -I/usr/include/ViennaRNA   -O2 -march=i586 -mtune=i686 -MT LocARNA/trace_controller.lo -MD -MP -MF $depbase.Tpo -c -o LocARNA/trace_controller.lo LocARNA/trace_controller.cc &&\
mv -f $depbase.Tpo $depbase.Plo
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -pthread -I/usr/include/ViennaRNA -O2 -march=i586 -mtune=i686 -MT LocARNA/trace_controller.lo -MD -MP -MF LocARNA/.deps/trace_controller.Tpo -c LocARNA/trace_controller.cc  -fPIC -DPIC -o LocARNA/.libs/trace_controller.o
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -pthread -I/usr/include/ViennaRNA -O2 -march=i586 -mtune=i686 -MT LocARNA/trace_controller.lo -MD -MP -MF LocARNA/.deps/trace_controller.Tpo -c LocARNA/trace_controller.cc -o LocARNA/trace_controller.o >/dev/null 2>&1
depbase=`echo LocARNA/multiple_alignment.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\
/bin/sh ../libtool  --tag=CXX   --mode=compile g++ -DHAVE_CONFIG_H -I.   -pthread -I/usr/include/ViennaRNA   -O2 -march=i586 -mtune=i686 -MT LocARNA/multiple_alignment.lo -MD -MP -MF $depbase.Tpo -c -o LocARNA/multiple_alignment.lo LocARNA/multiple_alignment.cc &&\
mv -f $depbase.Tpo $depbase.Plo
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -pthread -I/usr/include/ViennaRNA -O2 -march=i586 -mtune=i686 -MT LocARNA/multiple_alignment.lo -MD -MP -MF LocARNA/.deps/multiple_alignment.Tpo -c LocARNA/multiple_alignment.cc  -fPIC -DPIC -o LocARNA/.libs/multiple_alignment.o
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -pthread -I/usr/include/ViennaRNA -O2 -march=i586 -mtune=i686 -MT LocARNA/multiple_alignment.lo -MD -MP -MF LocARNA/.deps/multiple_alignment.Tpo -c LocARNA/multiple_alignment.cc -o LocARNA/multiple_alignment.o >/dev/null 2>&1
depbase=`echo LocARNA/rna_structure.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\
/bin/sh ../libtool  --tag=CXX   --mode=compile g++ -DHAVE_CONFIG_H -I.   -pthread -I/usr/include/ViennaRNA   -O2 -march=i586 -mtune=i686 -MT LocARNA/rna_structure.lo -MD -MP -MF $depbase.Tpo -c -o LocARNA/rna_structure.lo LocARNA/rna_structure.cc &&\
mv -f $depbase.Tpo $depbase.Plo
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -pthread -I/usr/include/ViennaRNA -O2 -march=i586 -mtune=i686 -MT LocARNA/rna_structure.lo -MD -MP -MF LocARNA/.deps/rna_structure.Tpo -c LocARNA/rna_structure.cc  -fPIC -DPIC -o LocARNA/.libs/rna_structure.o
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -pthread -I/usr/include/ViennaRNA -O2 -march=i586 -mtune=i686 -MT LocARNA/rna_structure.lo -MD -MP -MF LocARNA/.deps/rna_structure.Tpo -c LocARNA/rna_structure.cc -o LocARNA/rna_structure.o >/dev/null 2>&1
depbase=`echo LocARNA/confusion_matrix.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\
/bin/sh ../libtool  --tag=CXX   --mode=compile g++ -DHAVE_CONFIG_H -I.   -pthread -I/usr/include/ViennaRNA   -O2 -march=i586 -mtune=i686 -MT LocARNA/confusion_matrix.lo -MD -MP -MF $depbase.Tpo -c -o LocARNA/confusion_matrix.lo LocARNA/confusion_matrix.cc &&\
mv -f $depbase.Tpo $depbase.Plo
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -pthread -I/usr/include/ViennaRNA -O2 -march=i586 -mtune=i686 -MT LocARNA/confusion_matrix.lo -MD -MP -MF LocARNA/.deps/confusion_matrix.Tpo -c LocARNA/confusion_matrix.cc  -fPIC -DPIC -o LocARNA/.libs/confusion_matrix.o
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -pthread -I/usr/include/ViennaRNA -O2 -march=i586 -mtune=i686 -MT LocARNA/confusion_matrix.lo -MD -MP -MF LocARNA/.deps/confusion_matrix.Tpo -c LocARNA/confusion_matrix.cc -o LocARNA/confusion_matrix.o >/dev/null 2>&1
depbase=`echo LocARNA/global_stopwatch.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\
/bin/sh ../libtool  --tag=CXX   --mode=compile g++ -DHAVE_CONFIG_H -I.   -pthread -I/usr/include/ViennaRNA   -O2 -march=i586 -mtune=i686 -MT LocARNA/global_stopwatch.lo -MD -MP -MF $depbase.Tpo -c -o LocARNA/global_stopwatch.lo LocARNA/global_stopwatch.cc &&\
mv -f $depbase.Tpo $depbase.Plo
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -pthread -I/usr/include/ViennaRNA -O2 -march=i586 -mtune=i686 -MT LocARNA/global_stopwatch.lo -MD -MP -MF LocARNA/.deps/global_stopwatch.Tpo -c LocARNA/global_stopwatch.cc  -fPIC -DPIC -o LocARNA/.libs/global_stopwatch.o
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -pthread -I/usr/include/ViennaRNA -O2 -march=i586 -mtune=i686 -MT LocARNA/global_stopwatch.lo -MD -MP -MF LocARNA/.deps/global_stopwatch.Tpo -c LocARNA/global_stopwatch.cc -o LocARNA/global_stopwatch.o >/dev/null 2>&1
depbase=`echo LocARNA/mcc_matrices.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\
/bin/sh ../libtool  --tag=CXX   --mode=compile g++ -DHAVE_CONFIG_H -I.   -pthread -I/usr/include/ViennaRNA   -O2 -march=i586 -mtune=i686 -MT LocARNA/mcc_matrices.lo -MD -MP -MF $depbase.Tpo -c -o LocARNA/mcc_matrices.lo LocARNA/mcc_matrices.cc &&\
mv -f $depbase.Tpo $depbase.Plo
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -pthread -I/usr/include/ViennaRNA -O2 -march=i586 -mtune=i686 -MT LocARNA/mcc_matrices.lo -MD -MP -MF LocARNA/.deps/mcc_matrices.Tpo -c LocARNA/mcc_matrices.cc  -fPIC -DPIC -o LocARNA/.libs/mcc_matrices.o
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -pthread -I/usr/include/ViennaRNA -O2 -march=i586 -mtune=i686 -MT LocARNA/mcc_matrices.lo -MD -MP -MF LocARNA/.deps/mcc_matrices.Tpo -c LocARNA/mcc_matrices.cc -o LocARNA/mcc_matrices.o >/dev/null 2>&1
depbase=`echo LocARNA/aligner_n.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\
/bin/sh ../libtool  --tag=CXX   --mode=compile g++ -DHAVE_CONFIG_H -I.   -pthread -I/usr/include/ViennaRNA   -O2 -march=i586 -mtune=i686 -MT LocARNA/aligner_n.lo -MD -MP -MF $depbase.Tpo -c -o LocARNA/aligner_n.lo LocARNA/aligner_n.cc &&\
mv -f $depbase.Tpo $depbase.Plo
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -pthread -I/usr/include/ViennaRNA -O2 -march=i586 -mtune=i686 -MT LocARNA/aligner_n.lo -MD -MP -MF LocARNA/.deps/aligner_n.Tpo -c LocARNA/aligner_n.cc  -fPIC -DPIC -o LocARNA/.libs/aligner_n.o
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -pthread -I/usr/include/ViennaRNA -O2 -march=i586 -mtune=i686 -MT LocARNA/aligner_n.lo -MD -MP -MF LocARNA/.deps/aligner_n.Tpo -c LocARNA/aligner_n.cc -o LocARNA/aligner_n.o >/dev/null 2>&1
depbase=`echo LocARNA/sparsification_mapper.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\
/bin/sh ../libtool  --tag=CXX   --mode=compile g++ -DHAVE_CONFIG_H -I.   -pthread -I/usr/include/ViennaRNA   -O2 -march=i586 -mtune=i686 -MT LocARNA/sparsification_mapper.lo -MD -MP -MF $depbase.Tpo -c -o LocARNA/sparsification_mapper.lo LocARNA/sparsification_mapper.cc &&\
mv -f $depbase.Tpo $depbase.Plo
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -pthread -I/usr/include/ViennaRNA -O2 -march=i586 -mtune=i686 -MT LocARNA/sparsification_mapper.lo -MD -MP -MF LocARNA/.deps/sparsification_mapper.Tpo -c LocARNA/sparsification_mapper.cc  -fPIC -DPIC -o LocARNA/.libs/sparsification_mapper.o
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -pthread -I/usr/include/ViennaRNA -O2 -march=i586 -mtune=i686 -MT LocARNA/sparsification_mapper.lo -MD -MP -MF LocARNA/.deps/sparsification_mapper.Tpo -c LocARNA/sparsification_mapper.cc -o LocARNA/sparsification_mapper.o >/dev/null 2>&1
depbase=`echo LocARNA/exact_matcher.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\
/bin/sh ../libtool  --tag=CXX   --mode=compile g++ -DHAVE_CONFIG_H -I.   -pthread -I/usr/include/ViennaRNA   -O2 -march=i586 -mtune=i686 -MT LocARNA/exact_matcher.lo -MD -MP -MF $depbase.Tpo -c -o LocARNA/exact_matcher.lo LocARNA/exact_matcher.cc &&\
mv -f $depbase.Tpo $depbase.Plo
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -pthread -I/usr/include/ViennaRNA -O2 -march=i586 -mtune=i686 -MT LocARNA/exact_matcher.lo -MD -MP -MF LocARNA/.deps/exact_matcher.Tpo -c LocARNA/exact_matcher.cc  -fPIC -DPIC -o LocARNA/.libs/exact_matcher.o
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -pthread -I/usr/include/ViennaRNA -O2 -march=i586 -mtune=i686 -MT LocARNA/exact_matcher.lo -MD -MP -MF LocARNA/.deps/exact_matcher.Tpo -c LocARNA/exact_matcher.cc -o LocARNA/exact_matcher.o >/dev/null 2>&1
depbase=`echo LocARNA/params.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\
/bin/sh ../libtool  --tag=CXX   --mode=compile g++ -DHAVE_CONFIG_H -I.   -pthread -I/usr/include/ViennaRNA   -O2 -march=i586 -mtune=i686 -MT LocARNA/params.lo -MD -MP -MF $depbase.Tpo -c -o LocARNA/params.lo LocARNA/params.cc &&\
mv -f $depbase.Tpo $depbase.Plo
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -pthread -I/usr/include/ViennaRNA -O2 -march=i586 -mtune=i686 -MT LocARNA/params.lo -MD -MP -MF LocARNA/.deps/params.Tpo -c LocARNA/params.cc  -fPIC -DPIC -o LocARNA/.libs/params.o
libtool: compile:  g++ -DHAVE_CONFIG_H -I. -pthread -I/usr/include/ViennaRNA -O2 -march=i586 -mtune=i686 -MT LocARNA/params.lo -MD -MP -MF LocARNA/.deps/params.Tpo -c LocARNA/params.cc -o LocARNA/params.o >/dev/null 2>&1
/bin/sh ../libtool  --tag=CXX   --mode=link g++  -O2 -march=i586 -mtune=i686 -version-info 2:0:0  -o libLocARNA-1.6.la -rpath /usr/lib LocARNA/aux.lo LocARNA/sequence.lo LocARNA/stopwatch.lo LocARNA/options.lo LocARNA/basepairs.lo LocARNA/alignment.lo LocARNA/rna_ensemble.lo LocARNA/rna_data.lo LocARNA/pfold_params.lo LocARNA/scoring.lo LocARNA/infty_int.lo LocARNA/match_probs.lo LocARNA/ribosum.lo LocARNA/ribofit.lo LocARNA/sequence_annotation.lo LocARNA/anchor_constraints.lo LocARNA/arc_matches.lo LocARNA/aligner.lo LocARNA/stral_score.lo LocARNA/aligner_p.lo LocARNA/trace_controller.lo LocARNA/multiple_alignment.lo LocARNA/rna_structure.lo LocARNA/confusion_matrix.lo LocARNA/global_stopwatch.lo LocARNA/mcc_matrices.lo LocARNA/aligner_n.lo LocARNA/sparsification_mapper.lo LocARNA/exact_matcher.lo LocARNA/params.lo  -fno-lto -Wl,-fno-lto -lRNA -fopenmp -lgsl -lgslcblas -lpthread -lmpfr -lgmp -lstdc++ 
libtool: link: g++  -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/i586-slackware-linux/11.2.0/../../../crti.o /usr/lib/gcc/i586-slackware-linux/11.2.0/crtbeginS.o  LocARNA/.libs/aux.o LocARNA/.libs/sequence.o LocARNA/.libs/stopwatch.o LocARNA/.libs/options.o LocARNA/.libs/basepairs.o LocARNA/.libs/alignment.o LocARNA/.libs/rna_ensemble.o LocARNA/.libs/rna_data.o LocARNA/.libs/pfold_params.o LocARNA/.libs/scoring.o LocARNA/.libs/infty_int.o LocARNA/.libs/match_probs.o LocARNA/.libs/ribosum.o LocARNA/.libs/ribofit.o LocARNA/.libs/sequence_annotation.o LocARNA/.libs/anchor_constraints.o LocARNA/.libs/arc_matches.o LocARNA/.libs/aligner.o LocARNA/.libs/stral_score.o LocARNA/.libs/aligner_p.o LocARNA/.libs/trace_controller.o LocARNA/.libs/multiple_alignment.o LocARNA/.libs/rna_structure.o LocARNA/.libs/confusion_matrix.o LocARNA/.libs/global_stopwatch.o LocARNA/.libs/mcc_matrices.o LocARNA/.libs/aligner_n.o LocARNA/.libs/sparsification_mapper.o LocARNA/.libs/exact_matcher.o LocARNA/.libs/params.o   -lRNA -lgsl -lgslcblas -lpthread -lmpfr -lgmp -L/usr/lib/gcc/i586-slackware-linux/11.2.0 -L/usr/lib/gcc/i586-slackware-linux/11.2.0/../../../../i586-slackware-linux/lib -L/usr/lib/gcc/i586-slackware-linux/11.2.0/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/i586-slackware-linux/11.2.0/crtendS.o /usr/lib/gcc/i586-slackware-linux/11.2.0/../../../crtn.o  -O2 -march=i586 -mtune=i686 -Wl,-fno-lto -fopenmp   -fopenmp -Wl,-soname -Wl,libLocARNA-1.6.so.2 -o .libs/libLocARNA-1.6.so.2.0.0
libtool: link: (cd ".libs" && rm -f "libLocARNA-1.6.so.2" && ln -s "libLocARNA-1.6.so.2.0.0" "libLocARNA-1.6.so.2")
libtool: link: (cd ".libs" && rm -f "libLocARNA-1.6.so" && ln -s "libLocARNA-1.6.so.2.0.0" "libLocARNA-1.6.so")
libtool: link: ar cru .libs/libLocARNA-1.6.a  LocARNA/aux.o LocARNA/sequence.o LocARNA/stopwatch.o LocARNA/options.o LocARNA/basepairs.o LocARNA/alignment.o LocARNA/rna_ensemble.o LocARNA/rna_data.o LocARNA/pfold_params.o LocARNA/scoring.o LocARNA/infty_int.o LocARNA/match_probs.o LocARNA/ribosum.o LocARNA/ribofit.o LocARNA/sequence_annotation.o LocARNA/anchor_constraints.o LocARNA/arc_matches.o LocARNA/aligner.o LocARNA/stral_score.o LocARNA/aligner_p.o LocARNA/trace_controller.o LocARNA/multiple_alignment.o LocARNA/rna_structure.o LocARNA/confusion_matrix.o LocARNA/global_stopwatch.o LocARNA/mcc_matrices.o LocARNA/aligner_n.o LocARNA/sparsification_mapper.o LocARNA/exact_matcher.o LocARNA/params.o
libtool: link: ranlib .libs/libLocARNA-1.6.a
libtool: link: ( cd ".libs" && rm -f "libLocARNA-1.6.la" && ln -s "../libLocARNA-1.6.la" "libLocARNA-1.6.la" )
/bin/sh ../libtool  --tag=CXX   --mode=link g++  -O2 -march=i586 -mtune=i686 -static  -o ribosum2cc ribosum2cc.o libLocARNA-1.6.la -fno-lto -Wl,-fno-lto -lRNA -fopenmp -lgsl -lgslcblas -lpthread -lmpfr -lgmp -lstdc++ 
libtool: link: g++ -O2 -march=i586 -mtune=i686 -o ribosum2cc ribosum2cc.o -fno-lto -Wl,-fno-lto -fopenmp  ./.libs/libLocARNA-1.6.a -lRNA -lgsl -lgslcblas -lpthread -lmpfr -lgmp -lstdc++ -fopenmp
./ribosum2cc Ribosum85_60 "../Data/Matrices/RIBOSUM85_60" LocARNA/ribosum85_60.icc
make  all-recursive
make[2]: Entering directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/src'
Making all in Utils
make[3]: Entering directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/src/Utils'
make[3]: Nothing to be done for 'all'.
make[3]: Leaving directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/src/Utils'
Making all in .
make[3]: Entering directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/src'
depbase=`echo locarna.o | sed 's|[^/]*$|.deps/&|;s|\.o$||'`;\
g++ -DHAVE_CONFIG_H -I.   -pthread -I/usr/include/ViennaRNA   -O2 -march=i586 -mtune=i686 -MT locarna.o -MD -MP -MF $depbase.Tpo -c -o locarna.o locarna.cc &&\
mv -f $depbase.Tpo $depbase.Po
/bin/sh ../libtool  --tag=CXX   --mode=link g++  -O2 -march=i586 -mtune=i686 -static  -o locarna.bin locarna.o libLocARNA-1.6.la -fno-lto -Wl,-fno-lto -lRNA -fopenmp -lgsl -lgslcblas -lpthread -lmpfr -lgmp -lstdc++ 
libtool: link: g++ -O2 -march=i586 -mtune=i686 -o locarna.bin locarna.o -fno-lto -Wl,-fno-lto -fopenmp  ./.libs/libLocARNA-1.6.a -lRNA -lgsl -lgslcblas -lpthread -lmpfr -lgmp -lstdc++ -fopenmp
depbase=`echo locarna_p.o | sed 's|[^/]*$|.deps/&|;s|\.o$||'`;\
g++ -DHAVE_CONFIG_H -I.   -pthread -I/usr/include/ViennaRNA   -O2 -march=i586 -mtune=i686 -MT locarna_p.o -MD -MP -MF $depbase.Tpo -c -o locarna_p.o locarna_p.cc &&\
mv -f $depbase.Tpo $depbase.Po
/bin/sh ../libtool  --tag=CXX   --mode=link g++  -O2 -march=i586 -mtune=i686 -static  -o locarna_p locarna_p.o libLocARNA-1.6.la -fno-lto -Wl,-fno-lto -lRNA -fopenmp -lgsl -lgslcblas -lpthread -lmpfr -lgmp -lstdc++ 
libtool: link: g++ -O2 -march=i586 -mtune=i686 -o locarna_p locarna_p.o -fno-lto -Wl,-fno-lto -fopenmp  ./.libs/libLocARNA-1.6.a -lRNA -lgsl -lgslcblas -lpthread -lmpfr -lgmp -lstdc++ -fopenmp
depbase=`echo fit.o | sed 's|[^/]*$|.deps/&|;s|\.o$||'`;\
g++ -DHAVE_CONFIG_H -I.   -pthread -I/usr/include/ViennaRNA   -O2 -march=i586 -mtune=i686 -MT fit.o -MD -MP -MF $depbase.Tpo -c -o fit.o fit.cc &&\
mv -f $depbase.Tpo $depbase.Po
depbase=`echo LocARNA/fitonoff.o | sed 's|[^/]*$|.deps/&|;s|\.o$||'`;\
g++ -DHAVE_CONFIG_H -I.   -pthread -I/usr/include/ViennaRNA   -O2 -march=i586 -mtune=i686 -MT LocARNA/fitonoff.o -MD -MP -MF $depbase.Tpo -c -o LocARNA/fitonoff.o LocARNA/fitonoff.cc &&\
mv -f $depbase.Tpo $depbase.Po
/bin/sh ../libtool  --tag=CXX   --mode=link g++  -O2 -march=i586 -mtune=i686 -static  -o locarnap_fit fit.o LocARNA/fitonoff.o libLocARNA-1.6.la -fno-lto -Wl,-fno-lto -lRNA -fopenmp -lgsl -lgslcblas -lpthread -lmpfr -lgmp -lstdc++ 
libtool: link: g++ -O2 -march=i586 -mtune=i686 -o locarnap_fit fit.o LocARNA/fitonoff.o -fno-lto -Wl,-fno-lto -fopenmp  ./.libs/libLocARNA-1.6.a -lRNA -lgsl -lgslcblas -lpthread -lmpfr -lgmp -lstdc++ -fopenmp
depbase=`echo deviation.o | sed 's|[^/]*$|.deps/&|;s|\.o$||'`;\
g++ -DHAVE_CONFIG_H -I.   -pthread -I/usr/include/ViennaRNA   -O2 -march=i586 -mtune=i686 -MT deviation.o -MD -MP -MF $depbase.Tpo -c -o deviation.o deviation.cc &&\
mv -f $depbase.Tpo $depbase.Po
/bin/sh ../libtool  --tag=CXX   --mode=link g++  -O2 -march=i586 -mtune=i686 -static  -o locarna_deviation deviation.o libLocARNA-1.6.la -fno-lto -Wl,-fno-lto -lRNA -fopenmp -lgsl -lgslcblas -lpthread -lmpfr -lgmp -lstdc++ 
libtool: link: g++ -O2 -march=i586 -mtune=i686 -o locarna_deviation deviation.o -fno-lto -Wl,-fno-lto -fopenmp  ./.libs/libLocARNA-1.6.a -lRNA -lgsl -lgslcblas -lpthread -lmpfr -lgmp -lstdc++ -fopenmp
depbase=`echo locarna_rnafold_pp.o | sed 's|[^/]*$|.deps/&|;s|\.o$||'`;\
g++ -DHAVE_CONFIG_H -I.   -pthread -I/usr/include/ViennaRNA   -O2 -march=i586 -mtune=i686 -MT locarna_rnafold_pp.o -MD -MP -MF $depbase.Tpo -c -o locarna_rnafold_pp.o locarna_rnafold_pp.cc &&\
mv -f $depbase.Tpo $depbase.Po
/bin/sh ../libtool  --tag=CXX   --mode=link g++  -O2 -march=i586 -mtune=i686 -static  -o locarna_rnafold_pp locarna_rnafold_pp.o libLocARNA-1.6.la -fno-lto -Wl,-fno-lto -lRNA -fopenmp -lgsl -lgslcblas -lpthread -lmpfr -lgmp -lstdc++ 
libtool: link: g++ -O2 -march=i586 -mtune=i686 -o locarna_rnafold_pp locarna_rnafold_pp.o -fno-lto -Wl,-fno-lto -fopenmp  ./.libs/libLocARNA-1.6.a -lRNA -lgsl -lgslcblas -lpthread -lmpfr -lgmp -lstdc++ -fopenmp
depbase=`echo exparna_p.o | sed 's|[^/]*$|.deps/&|;s|\.o$||'`;\
g++ -DHAVE_CONFIG_H -I.   -pthread -I/usr/include/ViennaRNA   -O2 -march=i586 -mtune=i686 -MT exparna_p.o -MD -MP -MF $depbase.Tpo -c -o exparna_p.o exparna_p.cc &&\
mv -f $depbase.Tpo $depbase.Po
/bin/sh ../libtool  --tag=CXX   --mode=link g++  -O2 -march=i586 -mtune=i686 -static  -o exparna_p exparna_p.o libLocARNA-1.6.la -fno-lto -Wl,-fno-lto -lRNA -fopenmp -lgsl -lgslcblas -lpthread -lmpfr -lgmp -lstdc++ 
libtool: link: g++ -O2 -march=i586 -mtune=i686 -o exparna_p exparna_p.o -fno-lto -Wl,-fno-lto -fopenmp  ./.libs/libLocARNA-1.6.a -lRNA -lgsl -lgslcblas -lpthread -lmpfr -lgmp -lstdc++ -fopenmp
depbase=`echo sparse.o | sed 's|[^/]*$|.deps/&|;s|\.o$||'`;\
g++ -DHAVE_CONFIG_H -I.   -pthread -I/usr/include/ViennaRNA   -O2 -march=i586 -mtune=i686 -MT sparse.o -MD -MP -MF $depbase.Tpo -c -o sparse.o sparse.cc &&\
mv -f $depbase.Tpo $depbase.Po
/bin/sh ../libtool  --tag=CXX   --mode=link g++  -O2 -march=i586 -mtune=i686 -static  -o sparse sparse.o libLocARNA-1.6.la -fno-lto -Wl,-fno-lto -lRNA -fopenmp -lgsl -lgslcblas -lpthread -lmpfr -lgmp -lstdc++ 
libtool: link: g++ -O2 -march=i586 -mtune=i686 -o sparse sparse.o -fno-lto -Wl,-fno-lto -fopenmp  ./.libs/libLocARNA-1.6.a -lRNA -lgsl -lgslcblas -lpthread -lmpfr -lgmp -lstdc++ -fopenmp
make[3]: Leaving directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/src'
Making all in Tests
make[3]: Entering directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/src/Tests'
cp ../../Data/Examples/archaea.aln archaea.aln
cp ../../Data/Examples/archaea-aln.fa archaea-aln.fa
cp ../../Data/Examples/archaea-wrong.fa archaea-wrong.fa
make  all-am
make[4]: Entering directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/src/Tests'
make[4]: Nothing to be done for 'all-am'.
make[4]: Leaving directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/src/Tests'
make[3]: Leaving directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/src/Tests'
make[2]: Leaving directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/src'
make[1]: Leaving directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/src'
Making all in lib
make[1]: Entering directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/lib'
Making all in perl
make[2]: Entering directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/lib/perl'
Making all in MLocarna
make[3]: Entering directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/lib/perl/MLocarna'
make[3]: Nothing to be done for 'all'.
make[3]: Leaving directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/lib/perl/MLocarna'
make[3]: Entering directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/lib/perl'
make[3]: Nothing to be done for 'all-am'.
make[3]: Leaving directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/lib/perl'
make[2]: Leaving directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/lib/perl'
make[2]: Entering directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/lib'
make[2]: Nothing to be done for 'all-am'.
make[2]: Leaving directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/lib'
make[1]: Leaving directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/lib'
Making all in Doc
make[1]: Entering directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/Doc'
Making all in man
make[2]: Entering directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/Doc/man'
make[2]: Nothing to be done for 'all'.
make[2]: Leaving directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/Doc/man'
make[2]: Entering directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/Doc'
make[2]: Nothing to be done for 'all-am'.
make[2]: Leaving directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/Doc'
make[1]: Leaving directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/Doc'
make[1]: Entering directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3'
make[1]: Nothing to be done for 'all-am'.
make[1]: Leaving directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3'
Making install in src
make[1]: Entering directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/src'
make  install-recursive
make[2]: Entering directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/src'
Making install in Utils
make[3]: Entering directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/src/Utils'
make[4]: Entering directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/src/Utils'
 /usr/bin/mkdir -p '/usr/src/slapt-src/academic/locarna/package-locarna/usr/bin'
 /usr/bin/ginstall -c mlocarna locarnate locarna-motif-scan plot-bmprobs gen-reliab-dot.pl reliability-profile.pl aln2fa.pl alnsel.pl locarnap-realign-all.pl locarnap-revisit-RNAz-hits.pl locarnap-predict-and-plot.pl locarnap-revcomp.pl RNAz.pm LocARNA_RNAz.pm dot2pp pp2dot mlocarna_nnames locarna-mea.pl average-dot.pl aln-seqs.pl exploc_p '/usr/src/slapt-src/academic/locarna/package-locarna/usr/bin'
make[4]: Nothing to be done for 'install-data-am'.
make[4]: Leaving directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/src/Utils'
make[3]: Leaving directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/src/Utils'
Making install in .
make[3]: Entering directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/src'
make[4]: Entering directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/src'
 /usr/bin/mkdir -p '/usr/src/slapt-src/academic/locarna/package-locarna/usr/lib'
 /bin/sh ../libtool   --mode=install /usr/bin/ginstall -c   libLocARNA-1.6.la '/usr/src/slapt-src/academic/locarna/package-locarna/usr/lib'
libtool: install: /usr/bin/ginstall -c .libs/libLocARNA-1.6.so.2.0.0 /usr/src/slapt-src/academic/locarna/package-locarna/usr/lib/libLocARNA-1.6.so.2.0.0
libtool: install: (cd /usr/src/slapt-src/academic/locarna/package-locarna/usr/lib && { ln -s -f libLocARNA-1.6.so.2.0.0 libLocARNA-1.6.so.2 || { rm -f libLocARNA-1.6.so.2 && ln -s libLocARNA-1.6.so.2.0.0 libLocARNA-1.6.so.2; }; })
libtool: install: (cd /usr/src/slapt-src/academic/locarna/package-locarna/usr/lib && { ln -s -f libLocARNA-1.6.so.2.0.0 libLocARNA-1.6.so || { rm -f libLocARNA-1.6.so && ln -s libLocARNA-1.6.so.2.0.0 libLocARNA-1.6.so; }; })
libtool: install: /usr/bin/ginstall -c .libs/libLocARNA-1.6.lai /usr/src/slapt-src/academic/locarna/package-locarna/usr/lib/libLocARNA-1.6.la
libtool: install: /usr/bin/ginstall -c .libs/libLocARNA-1.6.a /usr/src/slapt-src/academic/locarna/package-locarna/usr/lib/libLocARNA-1.6.a
libtool: install: chmod 644 /usr/src/slapt-src/academic/locarna/package-locarna/usr/lib/libLocARNA-1.6.a
libtool: install: ranlib /usr/src/slapt-src/academic/locarna/package-locarna/usr/lib/libLocARNA-1.6.a
libtool: install: warning: remember to run `libtool --finish /usr/lib'
 /usr/bin/mkdir -p '/usr/src/slapt-src/academic/locarna/package-locarna/usr/bin'
  /bin/sh ../libtool   --mode=install /usr/bin/ginstall -c locarna.bin '/usr/src/slapt-src/academic/locarna/package-locarna/usr/bin/./locarna'
libtool: install: /usr/bin/ginstall -c locarna.bin /usr/src/slapt-src/academic/locarna/package-locarna/usr/bin/./locarna
  /bin/sh ../libtool   --mode=install /usr/bin/ginstall -c locarna_p locarnap_fit locarna_deviation locarna_rnafold_pp exparna_p sparse ribosum2cc '/usr/src/slapt-src/academic/locarna/package-locarna/usr/bin'
libtool: install: /usr/bin/ginstall -c locarna_p /usr/src/slapt-src/academic/locarna/package-locarna/usr/bin/locarna_p
libtool: install: /usr/bin/ginstall -c locarnap_fit /usr/src/slapt-src/academic/locarna/package-locarna/usr/bin/locarnap_fit
libtool: install: /usr/bin/ginstall -c locarna_deviation /usr/src/slapt-src/academic/locarna/package-locarna/usr/bin/locarna_deviation
libtool: install: /usr/bin/ginstall -c locarna_rnafold_pp /usr/src/slapt-src/academic/locarna/package-locarna/usr/bin/locarna_rnafold_pp
libtool: install: /usr/bin/ginstall -c exparna_p /usr/src/slapt-src/academic/locarna/package-locarna/usr/bin/exparna_p
libtool: install: /usr/bin/ginstall -c sparse /usr/src/slapt-src/academic/locarna/package-locarna/usr/bin/sparse
libtool: install: /usr/bin/ginstall -c ribosum2cc /usr/src/slapt-src/academic/locarna/package-locarna/usr/bin/ribosum2cc
 /usr/bin/mkdir -p '/usr/src/slapt-src/academic/locarna/package-locarna/usr/include/LocARNA-1.6'
 /usr/bin/mkdir -p '/usr/src/slapt-src/academic/locarna/package-locarna/usr/include/LocARNA-1.6/LocARNA'
 /usr/bin/ginstall -c -m 644  LocARNA/aux.hh LocARNA/plusvector.hh LocARNA/stopwatch.hh LocARNA/options.hh LocARNA/matrix.hh LocARNA/matrices.hh LocARNA/sparse_matrix.hh LocARNA/sparse_vector.hh LocARNA/sequence.hh LocARNA/basepairs.hh LocARNA/alignment.hh LocARNA/alignment_impl.hh LocARNA/rna_ensemble.hh LocARNA/rna_ensemble_impl.hh LocARNA/rna_data.hh LocARNA/ext_rna_data.hh LocARNA/rna_data_impl.hh LocARNA/ext_rna_data_impl.hh LocARNA/params.hh LocARNA/pfold_params.hh LocARNA/scoring.hh LocARNA/scoring_fwd.hh LocARNA/infty_int.hh LocARNA/match_probs.hh LocARNA/alphabet.hh LocARNA/alphabet.icc LocARNA/ribosum.hh LocARNA/ribofit.hh LocARNA/ribofit_will2014.ihh LocARNA/ribofit_will2014.icc LocARNA/sequence_annotation.hh LocARNA/anchor_constraints.hh LocARNA/arc_matches.hh LocARNA/aligner_restriction.hh LocARNA/aligner.hh LocARNA/aligner_impl.hh LocARNA/aligner_p.hh LocARNA/stral_score.hh LocARNA/trace_controller.hh LocARNA/multiple_alignment.hh '/usr/src/slapt-src/academic/locarna/package-locarna/usr/include/LocARNA-1.6/LocARNA'
 /usr/bin/mkdir -p '/usr/src/slapt-src/academic/locarna/package-locarna/usr/include/LocARNA-1.6/LocARNA'
 /usr/bin/ginstall -c -m 644  LocARNA/rna_structure.hh LocARNA/confusion_matrix.hh LocARNA/base_pair_filter.hh LocARNA/discrete_distribution.hh LocARNA/string1.hh LocARNA/type_wrapper.hh LocARNA/global_stopwatch.hh LocARNA/tuples.hh LocARNA/mcc_matrices.hh LocARNA/aligner_n.hh LocARNA/sparsification_mapper.hh LocARNA/exact_matcher.hh LocARNA/main_helper.icc LocARNA/ribosum85_60.icc '/usr/src/slapt-src/academic/locarna/package-locarna/usr/include/LocARNA-1.6/LocARNA'
 /usr/bin/mkdir -p '/usr/src/slapt-src/academic/locarna/package-locarna/usr/lib/pkgconfig'
 /usr/bin/ginstall -c -m 644 ../LocARNA-1.6.pc '/usr/src/slapt-src/academic/locarna/package-locarna/usr/lib/pkgconfig'
make[4]: Leaving directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/src'
make[3]: Leaving directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/src'
Making install in Tests
make[3]: Entering directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/src/Tests'
make  install-am
make[4]: Entering directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/src/Tests'
make[5]: Entering directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/src/Tests'
make[5]: Nothing to be done for 'install-exec-am'.
make[5]: Nothing to be done for 'install-data-am'.
make[5]: Leaving directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/src/Tests'
make[4]: Leaving directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/src/Tests'
make[3]: Leaving directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/src/Tests'
make[2]: Leaving directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/src'
make[1]: Leaving directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/src'
Making install in lib
make[1]: Entering directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/lib'
Making install in perl
make[2]: Entering directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/lib/perl'
Making install in MLocarna
make[3]: Entering directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/lib/perl/MLocarna'
make[4]: Entering directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/lib/perl/MLocarna'
make[4]: Nothing to be done for 'install-exec-am'.
 /usr/bin/mkdir -p '/usr/src/slapt-src/academic/locarna/package-locarna/usr/lib/perl/MLocarna'
 /usr/bin/ginstall -c SparseMatrix.pm Trees.pm MatchProbs.pm Aux.pm threaded.pm unthreaded.pm PairwiseAligners.pm '/usr/src/slapt-src/academic/locarna/package-locarna/usr/lib/perl/MLocarna'
make[4]: Leaving directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/lib/perl/MLocarna'
make[3]: Leaving directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/lib/perl/MLocarna'
make[3]: Entering directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/lib/perl'
make[4]: Entering directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/lib/perl'
make[4]: Nothing to be done for 'install-exec-am'.
 /usr/bin/mkdir -p '/usr/src/slapt-src/academic/locarna/package-locarna/usr/lib/perl'
 /usr/bin/ginstall -c MLocarna.pm '/usr/src/slapt-src/academic/locarna/package-locarna/usr/lib/perl'
make[4]: Leaving directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/lib/perl'
make[3]: Leaving directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/lib/perl'
make[2]: Leaving directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/lib/perl'
make[2]: Entering directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/lib'
make[3]: Entering directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/lib'
make[3]: Nothing to be done for 'install-exec-am'.
make[3]: Nothing to be done for 'install-data-am'.
make[3]: Leaving directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/lib'
make[2]: Leaving directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/lib'
make[1]: Leaving directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/lib'
Making install in Doc
make[1]: Entering directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/Doc'
Making install in man
make[2]: Entering directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/Doc/man'
make[3]: Entering directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/Doc/man'
make[3]: Nothing to be done for 'install-exec-am'.
 /usr/bin/mkdir -p '/usr/src/slapt-src/academic/locarna/package-locarna/usr/man/man1'
 /usr/bin/ginstall -c -m 644 exparna_p.1 locarna_deviation.1 locarna_p.1 locarnap_fit.1 locarna_rnafold_pp.1 ribosum2cc.1 sparse.1 locarna.1 aln2fa.pl.1 alnsel.pl.1 aln-seqs.pl.1 average-dot.pl.1 dot2pp.1 exploc_p.1 gen-reliab-dot.pl.1 locarna-mea.pl.1 locarna-motif-scan.1 locarnap-predict-and-plot.pl.1 locarnap-realign-all.pl.1 locarnap-revcomp.pl.1 locarnap-revisit-RNAz-hits.pl.1 locarnate.1 mlocarna.1 mlocarna_nnames.1 plot-bmprobs.1 pp2dot.1 reliability-profile.pl.1 '/usr/src/slapt-src/academic/locarna/package-locarna/usr/man/man1'
make[3]: Leaving directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/Doc/man'
make[2]: Leaving directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/Doc/man'
make[2]: Entering directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/Doc'
make[3]: Entering directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/Doc'
make[3]: Nothing to be done for 'install-exec-am'.
make[3]: Nothing to be done for 'install-data-am'.
make[3]: Leaving directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/Doc'
make[2]: Leaving directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/Doc'
make[1]: Leaving directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3/Doc'
make[1]: Entering directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3'
make[2]: Entering directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3'
make[2]: Nothing to be done for 'install-exec-am'.
 /usr/bin/mkdir -p '/usr/src/slapt-src/academic/locarna/package-locarna/usr/share/locarna/Matrices'
 /usr/bin/ginstall -c -m 644 Data/Matrices/RIBOSUM85_60 '/usr/src/slapt-src/academic/locarna/package-locarna/usr/share/locarna/Matrices'
make[2]: Leaving directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3'
make[1]: Leaving directory '/usr/src/slapt-src/academic/locarna/locarna-1.9.2.3'

Slackware package maker, version 3.14159265.

Searching for symbolic links:
usr/lib/libLocARNA-1.6.so	libLocARNA-1.6.so.2.0.0
usr/lib/libLocARNA-1.6.so.2	libLocARNA-1.6.so.2.0.0

Making symbolic link creation script:
( cd usr/lib ; rm -rf libLocARNA-1.6.so )
( cd usr/lib ; ln -sf libLocARNA-1.6.so.2.0.0 libLocARNA-1.6.so )
( cd usr/lib ; rm -rf libLocARNA-1.6.so.2 )
( cd usr/lib ; ln -sf libLocARNA-1.6.so.2.0.0 libLocARNA-1.6.so.2 )

It is recommended that you make these lines your new installation script.

Would you like to make this stuff the install script for this package
and remove the symbolic links ([y]es, [n]o)? y


Removing symbolic links:
removed './usr/lib/libLocARNA-1.6.so.2'
removed './usr/lib/libLocARNA-1.6.so'

Creating your new ./install/doinst.sh...

This next step is optional - you can set the directories in your package
to some sane permissions. If any of the directories in your package have
special permissions, then DO NOT reset them here!

Would you like to reset all directory permissions to 755 (drwxr-xr-x) and
directory ownerships to root.root ([y]es, [n]o)? n

Creating Slackware package:  /usr/src/slapt-src/academic/locarna/locarna-1.9.2.3-i586-2salix15.0.txz

./
install/
install/doinst.sh
install/slack-desc
usr/
usr/bin/
usr/bin/LocARNA_RNAz.pm
usr/bin/RNAz.pm
usr/bin/aln-seqs.pl
usr/bin/aln2fa.pl
usr/bin/alnsel.pl
usr/bin/average-dot.pl
usr/bin/dot2pp
usr/bin/exparna_p
usr/bin/exploc_p
usr/bin/gen-reliab-dot.pl
usr/bin/locarna
usr/bin/locarna-mea.pl
usr/bin/locarna-motif-scan
usr/bin/locarna_deviation
usr/bin/locarna_p
usr/bin/locarna_rnafold_pp
usr/bin/locarnap-predict-and-plot.pl
usr/bin/locarnap-realign-all.pl
usr/bin/locarnap-revcomp.pl
usr/bin/locarnap-revisit-RNAz-hits.pl
usr/bin/locarnap_fit
usr/bin/locarnate
usr/bin/mlocarna
usr/bin/mlocarna_nnames
usr/bin/plot-bmprobs
usr/bin/pp2dot
usr/bin/reliability-profile.pl
usr/bin/ribosum2cc
usr/bin/sparse
usr/doc/
usr/doc/locarna-1.9.2.3/
usr/doc/locarna-1.9.2.3/AUTHORS
usr/doc/locarna-1.9.2.3/COPYING
usr/doc/locarna-1.9.2.3/ChangeLog
usr/doc/locarna-1.9.2.3/INSTALL
usr/doc/locarna-1.9.2.3/README
usr/doc/locarna-1.9.2.3/locarna.SlackBuild
usr/include/
usr/include/LocARNA-1.6/
usr/include/LocARNA-1.6/LocARNA/
usr/include/LocARNA-1.6/LocARNA/aligner.hh
usr/include/LocARNA-1.6/LocARNA/aligner_impl.hh
usr/include/LocARNA-1.6/LocARNA/aligner_n.hh
usr/include/LocARNA-1.6/LocARNA/aligner_p.hh
usr/include/LocARNA-1.6/LocARNA/aligner_restriction.hh
usr/include/LocARNA-1.6/LocARNA/alignment.hh
usr/include/LocARNA-1.6/LocARNA/alignment_impl.hh
usr/include/LocARNA-1.6/LocARNA/alphabet.hh
usr/include/LocARNA-1.6/LocARNA/alphabet.icc
usr/include/LocARNA-1.6/LocARNA/anchor_constraints.hh
usr/include/LocARNA-1.6/LocARNA/arc_matches.hh
usr/include/LocARNA-1.6/LocARNA/aux.hh
usr/include/LocARNA-1.6/LocARNA/base_pair_filter.hh
usr/include/LocARNA-1.6/LocARNA/basepairs.hh
usr/include/LocARNA-1.6/LocARNA/confusion_matrix.hh
usr/include/LocARNA-1.6/LocARNA/discrete_distribution.hh
usr/include/LocARNA-1.6/LocARNA/exact_matcher.hh
usr/include/LocARNA-1.6/LocARNA/ext_rna_data.hh
usr/include/LocARNA-1.6/LocARNA/ext_rna_data_impl.hh
usr/include/LocARNA-1.6/LocARNA/global_stopwatch.hh
usr/include/LocARNA-1.6/LocARNA/infty_int.hh
usr/include/LocARNA-1.6/LocARNA/main_helper.icc
usr/include/LocARNA-1.6/LocARNA/match_probs.hh
usr/include/LocARNA-1.6/LocARNA/matrices.hh
usr/include/LocARNA-1.6/LocARNA/matrix.hh
usr/include/LocARNA-1.6/LocARNA/mcc_matrices.hh
usr/include/LocARNA-1.6/LocARNA/multiple_alignment.hh
usr/include/LocARNA-1.6/LocARNA/options.hh
usr/include/LocARNA-1.6/LocARNA/params.hh
usr/include/LocARNA-1.6/LocARNA/pfold_params.hh
usr/include/LocARNA-1.6/LocARNA/plusvector.hh
usr/include/LocARNA-1.6/LocARNA/ribofit.hh
usr/include/LocARNA-1.6/LocARNA/ribofit_will2014.icc
usr/include/LocARNA-1.6/LocARNA/ribofit_will2014.ihh
usr/include/LocARNA-1.6/LocARNA/ribosum.hh
usr/include/LocARNA-1.6/LocARNA/ribosum85_60.icc
usr/include/LocARNA-1.6/LocARNA/rna_data.hh
usr/include/LocARNA-1.6/LocARNA/rna_data_impl.hh
usr/include/LocARNA-1.6/LocARNA/rna_ensemble.hh
usr/include/LocARNA-1.6/LocARNA/rna_ensemble_impl.hh
usr/include/LocARNA-1.6/LocARNA/rna_structure.hh
usr/include/LocARNA-1.6/LocARNA/scoring.hh
usr/include/LocARNA-1.6/LocARNA/scoring_fwd.hh
usr/include/LocARNA-1.6/LocARNA/sequence.hh
usr/include/LocARNA-1.6/LocARNA/sequence_annotation.hh
usr/include/LocARNA-1.6/LocARNA/sparse_matrix.hh
usr/include/LocARNA-1.6/LocARNA/sparse_vector.hh
usr/include/LocARNA-1.6/LocARNA/sparsification_mapper.hh
usr/include/LocARNA-1.6/LocARNA/stopwatch.hh
usr/include/LocARNA-1.6/LocARNA/stral_score.hh
usr/include/LocARNA-1.6/LocARNA/string1.hh
usr/include/LocARNA-1.6/LocARNA/trace_controller.hh
usr/include/LocARNA-1.6/LocARNA/tuples.hh
usr/include/LocARNA-1.6/LocARNA/type_wrapper.hh
usr/lib/
usr/lib/libLocARNA-1.6.a
usr/lib/libLocARNA-1.6.so.2.0.0
usr/lib/perl5/
usr/lib/perl5/vendor_perl/
usr/lib/perl5/vendor_perl/MLocarna/
usr/lib/perl5/vendor_perl/MLocarna.pm
usr/lib/perl5/vendor_perl/MLocarna/Aux.pm
usr/lib/perl5/vendor_perl/MLocarna/MatchProbs.pm
usr/lib/perl5/vendor_perl/MLocarna/PairwiseAligners.pm
usr/lib/perl5/vendor_perl/MLocarna/SparseMatrix.pm
usr/lib/perl5/vendor_perl/MLocarna/Trees.pm
usr/lib/perl5/vendor_perl/MLocarna/threaded.pm
usr/lib/perl5/vendor_perl/MLocarna/unthreaded.pm
usr/lib/pkgconfig/
usr/lib/pkgconfig/LocARNA-1.6.pc
usr/man/
usr/man/man1/
usr/man/man1/aln-seqs.pl.1.gz
usr/man/man1/aln2fa.pl.1.gz
usr/man/man1/alnsel.pl.1.gz
usr/man/man1/average-dot.pl.1.gz
usr/man/man1/dot2pp.1.gz
usr/man/man1/exparna_p.1.gz
usr/man/man1/exploc_p.1.gz
usr/man/man1/gen-reliab-dot.pl.1.gz
usr/man/man1/locarna-mea.pl.1.gz
usr/man/man1/locarna-motif-scan.1.gz
usr/man/man1/locarna.1.gz
usr/man/man1/locarna_deviation.1.gz
usr/man/man1/locarna_p.1.gz
usr/man/man1/locarna_rnafold_pp.1.gz
usr/man/man1/locarnap-predict-and-plot.pl.1.gz
usr/man/man1/locarnap-realign-all.pl.1.gz
usr/man/man1/locarnap-revcomp.pl.1.gz
usr/man/man1/locarnap-revisit-RNAz-hits.pl.1.gz
usr/man/man1/locarnap_fit.1.gz
usr/man/man1/locarnate.1.gz
usr/man/man1/mlocarna.1.gz
usr/man/man1/mlocarna_nnames.1.gz
usr/man/man1/plot-bmprobs.1.gz
usr/man/man1/pp2dot.1.gz
usr/man/man1/reliability-profile.pl.1.gz
usr/man/man1/ribosum2cc.1.gz
usr/man/man1/sparse.1.gz
usr/share/
usr/share/locarna/
usr/share/locarna/Matrices/
usr/share/locarna/Matrices/RIBOSUM85_60

Slackware package /usr/src/slapt-src/academic/locarna/locarna-1.9.2.3-i586-2salix15.0.txz created.

Installing package locarna-1.9.2.3-i586-2salix15.0...
| locarna (Local RNA alignment on structural basis)
| 
| LocARNA is a collection of alignment tools for the structural 
| analysis of RNA. Given a set of RNA sequences, LocARNA simultaneously 
| aligns and predicts common structures for your RNAs. In this way, 
| LocARNA performs Sankoff-like alignment and is in particular suited 
| for analyzing sets of related RNAs without known common structure.
| 
| Home:https://www.bioinf.uni-freiburg.de/Software/LocARNA/
| 
| 
| 
|