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usr/share/doc/bali-phy/examples/5S-rRNA/25-probcons-RNA.fasta science/bali-phy
usr/share/doc/bali-phy/examples/5S-rRNA/25-t-coffee.dnd science/bali-phy
usr/share/doc/bali-phy/examples/5S-rRNA/25-t-coffee.fasta science/bali-phy
usr/share/doc/bali-phy/examples/5S-rRNA/25-tcoffee.dnd  science/bali-phy
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usr/share/doc/bali-phy/examples/5S-rRNA/25.fasta        science/bali-phy
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usr/share/doc/bali-phy/examples/5S-rRNA/48-probcons-RNA.fasta science/bali-phy
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usr/share/doc/bali-phy/examples/Duplications/hisA-hisF/hisA.fasta science/bali-phy
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usr/share/doc/bali-phy/examples/Duplications/hisA-hisF/hisF.fasta science/bali-phy
usr/share/doc/bali-phy/examples/Duplications/trp-tyr/trp-muscle.fasta science/bali-phy
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usr/lib/bali-phy/Alignment.so                           science/bali-phy
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usr/lib/bali-phy/LikelihoodSEV.so                       science/bali-phy
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usr/lib/bali-phy/haskell/MCMC/Moves/Integer.hs          science/bali-phy
usr/lib/bali-phy/haskell/MCMC/Moves/MH.hs               science/bali-phy
usr/lib/bali-phy/haskell/MCMC/Moves/Real.hs             science/bali-phy
usr/lib/bali-phy/haskell/MCMC/Moves/Tree.hs             science/bali-phy
usr/lib/bali-phy/haskell/MCMC/Types.hs                  science/bali-phy
usr/lib/bali-phy/haskell/Markov.hs                      science/bali-phy
usr/lib/bali-phy/haskell/Numeric/Log.hs                 science/bali-phy
usr/lib/bali-phy/haskell/Numeric/LogDouble.hs           science/bali-phy
usr/lib/bali-phy/haskell/Numeric/Natural.hs             science/bali-phy
usr/lib/bali-phy/haskell/Numeric/Prob.hs                science/bali-phy
usr/lib/bali-phy/haskell/Parameters.hs                  science/bali-phy
usr/lib/bali-phy/haskell/Parse.hs                       science/bali-phy
usr/lib/bali-phy/haskell/PopGen.hs                      science/bali-phy
usr/lib/bali-phy/haskell/PopGen/Deploid.hs              science/bali-phy
usr/lib/bali-phy/haskell/Prelude.hs                     science/bali-phy
usr/lib/bali-phy/haskell/Probability.hs                 science/bali-phy
usr/lib/bali-phy/haskell/Probability/Dist.hs            science/bali-phy
usr/lib/bali-phy/haskell/Probability/Distribution/Bernoulli.hs science/bali-phy
usr/lib/bali-phy/haskell/Probability/Distribution/Beta.hs science/bali-phy
usr/lib/bali-phy/haskell/Probability/Distribution/Binomial.hs science/bali-phy
usr/lib/bali-phy/haskell/Probability/Distribution/Categorical.hs science/bali-phy
usr/lib/bali-phy/haskell/Probability/Distribution/Cauchy.hs science/bali-phy
usr/lib/bali-phy/haskell/Probability/Distribution/Changepoints.hs science/bali-phy
usr/lib/bali-phy/haskell/Probability/Distribution/Dirichlet.hs science/bali-phy
usr/lib/bali-phy/haskell/Probability/Distribution/DirichletProcess.hs science/bali-phy
usr/lib/bali-phy/haskell/Probability/Distribution/Discrete.hs science/bali-phy
usr/lib/bali-phy/haskell/Probability/Distribution/Exponential.hs science/bali-phy
usr/lib/bali-phy/haskell/Probability/Distribution/Gamma.hs science/bali-phy
usr/lib/bali-phy/haskell/Probability/Distribution/Geometric.hs science/bali-phy
usr/lib/bali-phy/haskell/Probability/Distribution/Independent.hs science/bali-phy
usr/lib/bali-phy/haskell/Probability/Distribution/Laplace.hs science/bali-phy
usr/lib/bali-phy/haskell/Probability/Distribution/List.hs science/bali-phy
usr/lib/bali-phy/haskell/Probability/Distribution/Markov.hs science/bali-phy
usr/lib/bali-phy/haskell/Probability/Distribution/Mixture.hs science/bali-phy
usr/lib/bali-phy/haskell/Probability/Distribution/Multinomial.hs science/bali-phy
usr/lib/bali-phy/haskell/Probability/Distribution/NegativeBinomial.hs science/bali-phy
usr/lib/bali-phy/haskell/Probability/Distribution/Normal.hs science/bali-phy
usr/lib/bali-phy/haskell/Probability/Distribution/PairwiseAlignment.hs science/bali-phy
usr/lib/bali-phy/haskell/Probability/Distribution/PhyloAlignment.hs science/bali-phy
usr/lib/bali-phy/haskell/Probability/Distribution/PhyloCTMC.hs science/bali-phy
usr/lib/bali-phy/haskell/Probability/Distribution/PhyloCTMC/FixedA.hs science/bali-phy
usr/lib/bali-phy/haskell/Probability/Distribution/PhyloCTMC/PhyloCTMC.hs science/bali-phy
usr/lib/bali-phy/haskell/Probability/Distribution/PhyloCTMC/Properties.hs science/bali-phy
usr/lib/bali-phy/haskell/Probability/Distribution/PhyloCTMC/VariableA.hs science/bali-phy
usr/lib/bali-phy/haskell/Probability/Distribution/Poisson.hs science/bali-phy
usr/lib/bali-phy/haskell/Probability/Distribution/RecDist.hs science/bali-phy
usr/lib/bali-phy/haskell/Probability/Distribution/Shifted.hs science/bali-phy
usr/lib/bali-phy/haskell/Probability/Distribution/Transform.hs science/bali-phy
usr/lib/bali-phy/haskell/Probability/Distribution/Tree.hs science/bali-phy
usr/lib/bali-phy/haskell/Probability/Distribution/Tree/BirthDeath.hs science/bali-phy
usr/lib/bali-phy/haskell/Probability/Distribution/Tree/BirthDeath2.hs science/bali-phy
usr/lib/bali-phy/haskell/Probability/Distribution/Tree/Coalescent.hs science/bali-phy
usr/lib/bali-phy/haskell/Probability/Distribution/Tree/Modifiable.hs science/bali-phy
usr/lib/bali-phy/haskell/Probability/Distribution/Tree/Moves.hs science/bali-phy
usr/lib/bali-phy/haskell/Probability/Distribution/Tree/UniformTimeTree.hs science/bali-phy
usr/lib/bali-phy/haskell/Probability/Distribution/Tree/UniformTopology.hs science/bali-phy
usr/lib/bali-phy/haskell/Probability/Distribution/Tree/Util.hs science/bali-phy
usr/lib/bali-phy/haskell/Probability/Distribution/Tree/Yule.hs science/bali-phy
usr/lib/bali-phy/haskell/Probability/Distribution/Tuple.hs science/bali-phy
usr/lib/bali-phy/haskell/Probability/Distribution/Uniform.hs science/bali-phy
usr/lib/bali-phy/haskell/Probability/Distribution/UniqueDist.hs science/bali-phy
usr/lib/bali-phy/haskell/Probability/Logger.hs          science/bali-phy
usr/lib/bali-phy/haskell/Probability/Random.hs          science/bali-phy
usr/lib/bali-phy/haskell/Range.hs                       science/bali-phy
usr/lib/bali-phy/haskell/SMC.hs                         science/bali-phy
usr/lib/bali-phy/haskell/SModel.hs                      science/bali-phy
usr/lib/bali-phy/haskell/SModel/ASRV.hs                 science/bali-phy
usr/lib/bali-phy/haskell/SModel/BranchModel.hs          science/bali-phy
usr/lib/bali-phy/haskell/SModel/BranchSiteMixture.hs    science/bali-phy
usr/lib/bali-phy/haskell/SModel/Codons.hs               science/bali-phy
usr/lib/bali-phy/haskell/SModel/Doublets.hs             science/bali-phy
usr/lib/bali-phy/haskell/SModel/Empirical.hs            science/bali-phy
usr/lib/bali-phy/haskell/SModel/Frequency.hs            science/bali-phy
usr/lib/bali-phy/haskell/SModel/Likelihood/CLV.hs       science/bali-phy
usr/lib/bali-phy/haskell/SModel/Likelihood/FixedA.hs    science/bali-phy
usr/lib/bali-phy/haskell/SModel/Likelihood/VariableA.hs science/bali-phy
usr/lib/bali-phy/haskell/SModel/Markov.hs               science/bali-phy
usr/lib/bali-phy/haskell/SModel/MarkovModulated.hs      science/bali-phy
usr/lib/bali-phy/haskell/SModel/MixtureModel.hs         science/bali-phy
usr/lib/bali-phy/haskell/SModel/MixtureModels.hs        science/bali-phy
usr/lib/bali-phy/haskell/SModel/MultiFrequency.hs       science/bali-phy
usr/lib/bali-phy/haskell/SModel/MutSel.hs               science/bali-phy
usr/lib/bali-phy/haskell/SModel/NonReversibleMarkov.hs  science/bali-phy
usr/lib/bali-phy/haskell/SModel/Nucleotides.hs          science/bali-phy
usr/lib/bali-phy/haskell/SModel/Parsimony.hs            science/bali-phy
usr/lib/bali-phy/haskell/SModel/PosSelection.hs         science/bali-phy
usr/lib/bali-phy/haskell/SModel/RNAEdit.hs              science/bali-phy
usr/lib/bali-phy/haskell/SModel/Rate.hs                 science/bali-phy
usr/lib/bali-phy/haskell/SModel/ReversibleMarkov.hs     science/bali-phy
usr/lib/bali-phy/haskell/SModel/Simple.hs               science/bali-phy
usr/lib/bali-phy/haskell/System/Directory.hs            science/bali-phy
usr/lib/bali-phy/haskell/System/Environment.hs          science/bali-phy
usr/lib/bali-phy/haskell/System/FilePath.hs             science/bali-phy
usr/lib/bali-phy/haskell/System/IO.hs                   science/bali-phy
usr/lib/bali-phy/haskell/Text/Read.hs                   science/bali-phy
usr/lib/bali-phy/haskell/Text/Show.hs                   science/bali-phy
usr/lib/bali-phy/haskell/Tree.hs                        science/bali-phy
usr/lib/bali-phy/haskell/Tree/Newick.hs                 science/bali-phy
usr/lib/bali-phy/help/alphabets.txt                     science/bali-phy
usr/lib/bali-phy/help/alphabets/Codons.txt              science/bali-phy
usr/lib/bali-phy/help/alphabets/Doublets.txt            science/bali-phy
usr/lib/bali-phy/help/alphabets/Triplets.txt            science/bali-phy
usr/lib/bali-phy/help/alphabets/genetic-code.txt        science/bali-phy
usr/lib/bali-phy/help/commands/Rao-Blackwellize.txt     science/bali-phy
usr/lib/bali-phy/help/commands/align.txt                science/bali-phy
usr/lib/bali-phy/help/commands/alphabet.txt             science/bali-phy
usr/lib/bali-phy/help/commands/config.txt               science/bali-phy
usr/lib/bali-phy/help/commands/disable.txt              science/bali-phy
usr/lib/bali-phy/help/commands/enable.txt               science/bali-phy
usr/lib/bali-phy/help/commands/fix.txt                  science/bali-phy
usr/lib/bali-phy/help/commands/imodel.txt               science/bali-phy
usr/lib/bali-phy/help/commands/iterations.txt           science/bali-phy
usr/lib/bali-phy/help/commands/link.txt                 science/bali-phy
usr/lib/bali-phy/help/commands/model.txt                science/bali-phy
usr/lib/bali-phy/help/commands/name.txt                 science/bali-phy
usr/lib/bali-phy/help/commands/package-path.txt         science/bali-phy
usr/lib/bali-phy/help/commands/pre-burnin.txt           science/bali-phy
usr/lib/bali-phy/help/commands/print.txt                science/bali-phy
usr/lib/bali-phy/help/commands/scale.txt                science/bali-phy
usr/lib/bali-phy/help/commands/seed.txt                 science/bali-phy
usr/lib/bali-phy/help/commands/set.txt                  science/bali-phy
usr/lib/bali-phy/help/commands/smodel.txt               science/bali-phy
usr/lib/bali-phy/help/commands/subsample.txt            science/bali-phy
usr/lib/bali-phy/help/commands/test.txt                 science/bali-phy
usr/lib/bali-phy/help/commands/tree.txt                 science/bali-phy
usr/lib/bali-phy/help/commands/unalign.txt              science/bali-phy
usr/lib/bali-phy/help/commands/verbose.txt              science/bali-phy
usr/lib/bali-phy/help/commands/version.txt              science/bali-phy
usr/lib/bali-phy/help/parameters.txt                    science/bali-phy
usr/lib/bali-phy/help/parameters/priors.txt             science/bali-phy
usr/lib/bali-phy/libexec/compare-runs.R                 science/bali-phy
usr/lib/bali-phy/libexec/compare-runs2.R                science/bali-phy
usr/lib/bali-phy/libexec/tree-plot-3D.R                 science/bali-phy
usr/lib/bali-phy/libexec/tree-plot.R                    science/bali-phy
.
437163a
usr/lib/arm-linux-gnueabihf/pkgconfig/libhttrack.pc     libdevel/libhttrack-dev
.
435911a
usr/lib/arm-linux-gnueabihf/pkgconfig/csdp.pc           libdevel/libsdp-dev
.
330875,330876c
usr/lib/arm-linux-gnueabihf/libzim.so.9                 libs/libzim9a
usr/lib/arm-linux-gnueabihf/libzim.so.9.7.0             libs/libzim9a
.
326715,326716d
321536c
usr/lib/arm-linux-gnueabihf/libmozjs-140.so.140.14.0    libs/libmozjs-140-0
.
317512c
usr/lib/arm-linux-gnueabihf/libhttrack.so.3.0.15        libs/libhttrack3
.
317300,317301d
312384c
usr/lib/arm-linux-gnueabihf/libconfuse.so.2.2.0         libs/libconfuse2
.
311912c
usr/lib/arm-linux-gnueabihf/libcfitsio.so.10.4.7.0      libs/libcfitsio10t64
.
241597,241599d
35195d
34725a
usr/bin/trees-bootstrap                                 science/bali-phy
usr/bin/trees-consensus                                 science/bali-phy
usr/bin/trees-distances                                 science/bali-phy
usr/bin/trees-to-SRQ                                    science/bali-phy
.
34723a
usr/bin/tree-tool                                       science/bali-phy
.
34720a
usr/bin/tree-mean-lengths                               science/bali-phy
.
33483a
usr/bin/summarize-ancestors                             science/bali-phy
.
33323a
usr/bin/statreport                                      science/bali-phy
usr/bin/stats-select                                    science/bali-phy
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33228d
28967a
usr/bin/pickout                                         science/bali-phy
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25843a
usr/bin/model_P                                         science/bali-phy
.
24881a
usr/bin/mctree-mean-lengths                             science/bali-phy
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24850a
usr/bin/mcon-tool                                       science/bali-phy
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17814a
usr/bin/fossil                                          vcs/fossil
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17121d
17046a
usr/bin/extract-ancestors                               science/bali-phy
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16101a
usr/bin/draw-tree                                       science/bali-phy
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15117a
usr/bin/cut-range                                       science/bali-phy
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15018a
usr/bin/csdp-rand_graph                                 science/coinor-csdp
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13061a
usr/bin/bp-analyze                                      science/bali-phy
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12570a
usr/bin/bali-phy                                        science/bali-phy
usr/bin/bali-phy-pkg                                    science/bali-phy
usr/bin/bali-subsample                                  science/bali-phy
.
11866a
usr/bin/arduino-language-server                         electronics/arduino-language-server
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11444a
usr/bin/alignments-diff                                 science/bali-phy
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11442a
usr/bin/alignment-cat                                   science/bali-phy
usr/bin/alignment-chop-internal                         science/bali-phy
usr/bin/alignment-consensus                             science/bali-phy
usr/bin/alignment-distances                             science/bali-phy
usr/bin/alignment-draw                                  science/bali-phy
usr/bin/alignment-find                                  science/bali-phy
usr/bin/alignment-gild                                  science/bali-phy
usr/bin/alignment-indices                               science/bali-phy
usr/bin/alignment-info                                  science/bali-phy
usr/bin/alignment-max                                   science/bali-phy
usr/bin/alignment-thin                                  science/bali-phy
usr/bin/alignment-translate                             science/bali-phy
.
