479 lines
27 KiB
Text
479 lines
27 KiB
Text
bin/cattrees.py
|
|
bin/long_branch_symmdiff.py
|
|
bin/strict_consensus_merge.py
|
|
bin/sumlabels.py
|
|
bin/sumtrees.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/__init__.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/__init__.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/__init__.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/coalescent.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/coalescent.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/coalescent.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/continuous.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/continuous.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/continuous.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/dataio/__init__.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/dataio/__init__.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/dataio/__init__.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/dataio/beast.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/dataio/beast.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/dataio/beast.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/dataio/dataschema.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/dataio/dataschema.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/dataio/dataschema.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/dataio/fasta.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/dataio/fasta.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/dataio/fasta.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/dataio/ioclient.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/dataio/ioclient.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/dataio/ioclient.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/dataio/newick.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/dataio/newick.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/dataio/newick.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/dataio/nexml.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/dataio/nexml.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/dataio/nexml.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/dataio/nexusreader_ncl.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/dataio/nexusreader_ncl.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/dataio/nexusreader_ncl.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/dataio/nexusreader_py.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/dataio/nexusreader_py.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/dataio/nexusreader_py.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/dataio/nexustokenizer.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/dataio/nexustokenizer.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/dataio/nexustokenizer.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/dataio/nexustreeiter.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/dataio/nexustreeiter.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/dataio/nexustreeiter.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/dataio/nexuswriter.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/dataio/nexuswriter.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/dataio/nexuswriter.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/dataio/phylip.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/dataio/phylip.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/dataio/phylip.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/dataio/xmlparser.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/dataio/xmlparser.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/dataio/xmlparser.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/dataobject/__init__.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/dataobject/__init__.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/dataobject/__init__.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/dataobject/base.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/dataobject/base.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/dataobject/base.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/dataobject/char.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/dataobject/char.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/dataobject/char.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/dataobject/dataset.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/dataobject/dataset.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/dataobject/dataset.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/dataobject/taxon.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/dataobject/taxon.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/dataobject/taxon.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/dataobject/tree.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/dataobject/tree.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/dataobject/tree.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/interop/__init__.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/interop/__init__.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/interop/__init__.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/interop/ape.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/interop/ape.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/interop/ape.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/interop/biopython.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/interop/biopython.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/interop/biopython.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/interop/entrez.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/interop/entrez.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/interop/entrez.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/interop/ete.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/interop/ete.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/interop/ete.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/interop/gbif.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/interop/gbif.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/interop/gbif.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/interop/genbank.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/interop/genbank.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/interop/genbank.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/interop/muscle.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/interop/muscle.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/interop/muscle.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/interop/ncbi.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/interop/ncbi.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/interop/ncbi.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/interop/paup.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/interop/paup.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/interop/paup.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/interop/raxml.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/interop/raxml.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/interop/raxml.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/interop/seqgen.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/interop/seqgen.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/interop/seqgen.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/mathlib/__init__.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/mathlib/__init__.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/mathlib/__init__.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/mathlib/distance.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/mathlib/distance.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/mathlib/distance.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/mathlib/linearalg.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/mathlib/linearalg.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/mathlib/linearalg.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/mathlib/probability.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/mathlib/probability.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/mathlib/probability.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/mathlib/statistics.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/mathlib/statistics.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/mathlib/statistics.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/popgensim.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/popgensim.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/popgensim.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/popgenstat.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/popgenstat.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/popgenstat.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/reconcile.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/reconcile.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/reconcile.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/scm.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/scm.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/scm.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/seqmodel.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/seqmodel.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/seqmodel.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/seqsim.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/seqsim.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/seqsim.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/__init__.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/__init__.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/__init__.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/chars/COII_Apes.nex
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/chars/angiosperms.chars.nexus
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/chars/angiosperms.chars.txt
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/chars/apternodus.chars.hacked-for-tests.txt
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/chars/apternodus.chars.interleaved.nexus
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/chars/apternodus.chars.nexml
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/chars/apternodus.chars.nexus
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/chars/avian-ovomucoids.chars.nexus
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/chars/avian-ovomucoids.chars.txt
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/chars/bad_names.fasta
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/chars/caenophidia_mos.chars.fasta
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/chars/caenophidia_mos.chars.nexus
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/chars/caenophidia_mos.chars.txt
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/chars/codons.nexml
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/chars/crotaphytus_bicinctores.cytb.aligned.nexml
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/chars/crotaphytus_bicinctores.nd2.aligned.nexml
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/chars/interleaved-charsets-all.nex
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/chars/interleaved-charsets-c1.nex
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/chars/interleaved-charsets-c2.nex
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/chars/interleaved-charsets-c3.nex
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/chars/orti.nex
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/chars/primates.chars.csv
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/chars/primates.chars.interleaved.nexus
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/chars/primates.chars.nexus
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/chars/primates.chars.simple.interleaved.nexus
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/chars/primates.chars.simple.nexus
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/chars/primates.chars.subsets-1stpos.nexus
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/chars/primates.chars.subsets-2ndpos.nexus
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/chars/primates.chars.subsets-3rdpos.nexus
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/chars/primates.chars.subsets-all.nexus
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/chars/primates.chars.subsets-coding.nexus
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/chars/primates.chars.subsets-noncoding.nexus
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/chars/pythonidae.chars.beast.calibrated.xml
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/chars/pythonidae.chars.beast.uncalibrated.xml
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/chars/pythonidae.chars.fasta
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/chars/pythonidae.chars.interleaved.nexus
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/chars/pythonidae.chars.nexus
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/chars/pythonidae.chars.phylip
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/chars/pythonidae.chars.txt
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/chars/pythonidae_continuous.chars.nexml
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/chars/pythonidae_continuous.chars.nexus
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/chars/pythonidae_continuous.chars.txt
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/mixed/geospiza.nex
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/mixed/multitaxa_mesquite.nex
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/mixed/reference_single_taxonset_dataset.nex
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/trees/apternodus.tre
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/trees/bird_orders.nex
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/trees/deepcoal1.nex
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/trees/feb032009.splits.csv
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/trees/feb032009.trees.nexus
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/trees/incomplete_leaves_rooted.dendropy-pruned.nex
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/trees/incomplete_leaves_rooted.paup-pruned.nex
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/trees/incomplete_leaves_rooted.pre-pruned.nex
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/trees/incomplete_leaves_rooted.pruned_taxa.txt
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/trees/incomplete_leaves_rooted.retained_taxa.txt
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/trees/incomplete_leaves_unrooted.dendropy-pruned.nex
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/trees/incomplete_leaves_unrooted.paup-pruned.nex
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/trees/incomplete_leaves_unrooted.pre-pruned.nex
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/trees/incomplete_leaves_unrooted.pruned_taxa.txt
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/trees/incomplete_leaves_unrooted.retained_taxa.txt
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/trees/maj-rule-bug1.trees.nexus
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/trees/maj-rule-bug2.trees.nexus
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/trees/primates.beast.mcct.meanh.tre
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/trees/primates.beast.mcct.medianh.tre
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/trees/primates.beast.mcct.noedgelens.tree
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/trees/primates.beast.mcmc.trees
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/trees/primates.trees.nexus
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/trees/prune_rooted.dendropy-pruned.nex
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/trees/prune_rooted.paup-pruned.nex
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/trees/prune_rooted.pre-pruned.nex
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/trees/prune_rooted.pruned_taxa.txt
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/trees/prune_rooted.retained_taxa.txt
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/trees/prune_unrooted.dendropy-pruned.nex
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/trees/prune_unrooted.paup-pruned.nex
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/trees/prune_unrooted.pre-pruned.nex
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/trees/prune_unrooted.pruned_taxa.txt
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/trees/prune_unrooted.retained_taxa.txt
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/trees/pythonidae.annotated.bad.nexml
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/trees/pythonidae.annotated.nexml
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/trees/pythonidae.beast.mcmc.trees
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/trees/pythonidae.beast.summary.tre
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/trees/pythonidae.mb.con
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/trees/pythonidae.mb.run1.t
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/trees/pythonidae.mb.run2.t
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/trees/pythonidae.mb.run3.t
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/trees/pythonidae.mb.run4.t
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/trees/pythonidae.mlboots.newick.tre
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/trees/pythonidae.mlboots.nexus.tre
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/trees/pythonidae.mle.newick
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/trees/pythonidae.mle.nex
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/trees/pythonidae.random.bd0301.midpoint-rooted.tre
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/trees/pythonidae.random.bd0301.randomly-rooted.tre
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/trees/pythonidae.random.bd0301.tre
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/trees/pythonidae.reference-trees.newick
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/trees/pythonidae.reference-trees.nexus
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/trees/pythonidae.reference-trees.no-taxa-block.nexus
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/trees/pythonidae.reference-trees.no-taxa-no-translate-block.nexus
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/trees/rana.trees.nexus
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/data/trees/treebase_s373.xml
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/support/__init__.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/support/__init__.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/support/__init__.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/support/coverage_analysis.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/support/coverage_analysis.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/support/coverage_analysis.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/support/datagen.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/support/datagen.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/support/datagen.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/support/datatest.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/support/datatest.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/support/datatest.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/support/extendedtest.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/support/extendedtest.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/support/extendedtest.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/support/generate_pruned_trees.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/support/generate_pruned_trees.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/support/generate_pruned_trees.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/support/generate_reference_tree.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/support/generate_reference_tree.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/support/generate_reference_tree.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/support/nexmlvalidator.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/support/nexmlvalidator.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/support/nexmlvalidator.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/support/pathmap.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/support/pathmap.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/support/pathmap.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/support/runlevel.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/support/runlevel.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/support/runlevel.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/support/tree_parse_speed.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/support/tree_parse_speed.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/support/tree_parse_speed.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_annotations.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_annotations.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_annotations.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_ape.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_ape.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_ape.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_asciitree.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_asciitree.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_asciitree.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_biopython.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_biopython.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_biopython.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_coalescent.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_coalescent.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_coalescent.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_containers.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_containers.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_containers.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_continuous.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_continuous.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_continuous.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_datagen.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_datagen.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_datagen.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_dataio_beast.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_dataio_beast.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_dataio_beast.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_dataio_fasta.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_dataio_fasta.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_dataio_fasta.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_dataio_indexing.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_dataio_indexing.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_dataio_indexing.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_dataio_newick.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_dataio_newick.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_dataio_newick.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_dataio_nexml.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_dataio_nexml.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_dataio_nexml.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_dataio_nexus.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_dataio_nexus.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_dataio_nexus.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_dataio_nexustokenizer.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_dataio_nexustokenizer.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_dataio_nexustokenizer.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_dataio_phylip.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_dataio_phylip.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_dataio_phylip.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_dataio_tree_rooting.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_dataio_tree_rooting.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_dataio_tree_rooting.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_dataobject_char_array.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_dataobject_char_array.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_dataobject_char_array.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_dataobject_cloning.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_dataobject_cloning.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_dataobject_cloning.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_dataobject_dataset.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_dataobject_dataset.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_dataobject_dataset.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_dataobject_taxon.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_dataobject_taxon.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_dataobject_taxon.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_dataobject_tree.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_dataobject_tree.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_dataobject_tree.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_dataobject_tree_list.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_dataobject_tree_list.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_dataobject_tree_list.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_distance.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_distance.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_distance.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_ete.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_ete.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_ete.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_fitch.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_fitch.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_fitch.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_linearalg.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_linearalg.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_linearalg.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_nexmlvalidator.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_nexmlvalidator.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_nexmlvalidator.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_paup.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_paup.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_paup.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_popgensim.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_popgensim.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_popgensim.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_popgenstat.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_popgenstat.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_popgenstat.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_reconcile.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_reconcile.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_reconcile.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_scm.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_scm.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_scm.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_seqsim.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_seqsim.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_seqsim.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_split_counting.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_split_counting.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_split_counting.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_split_masking.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_split_masking.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_split_masking.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_splits_on_incomplete_leaf_sets.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_splits_on_incomplete_leaf_sets.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_splits_on_incomplete_leaf_sets.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_statistics.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_statistics.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_statistics.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_sumtrees.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_sumtrees.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_sumtrees.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_tree_calcs.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_tree_calcs.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_tree_calcs.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_tree_from_splits.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_tree_from_splits.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_tree_from_splits.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_tree_manips.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_tree_manips.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_tree_manips.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_tree_metrics.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_tree_metrics.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_tree_metrics.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_tree_sims.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_tree_sims.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_tree_sims.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_tree_structuring.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_tree_structuring.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_tree_structuring.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_tree_sums.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_tree_sums.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_tree_sums.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_tree_taxa.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_tree_taxa.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_tree_taxa.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_tree_traversal.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_tree_traversal.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/test/test_tree_traversal.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/treecalc.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/treecalc.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/treecalc.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/treemanip.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/treemanip.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/treemanip.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/treesim.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/treesim.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/treesim.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/treesplit.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/treesplit.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/treesplit.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/treesum.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/treesum.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/treesum.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/utility/ElementTree.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/utility/ElementTree.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/utility/ElementTree.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/utility/__init__.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/utility/__init__.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/utility/__init__.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/utility/bibtex.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/utility/bibtex.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/utility/bibtex.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/utility/cli.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/utility/cli.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/utility/cli.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/utility/containers.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/utility/containers.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/utility/containers.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/utility/debugging.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/utility/debugging.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/utility/debugging.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/utility/error.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/utility/error.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/utility/error.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/utility/fileutils.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/utility/fileutils.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/utility/fileutils.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/utility/iosys.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/utility/iosys.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/utility/iosys.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/utility/messaging.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/utility/messaging.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/utility/messaging.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/utility/session.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/utility/session.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/utility/session.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/utility/termutils.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/utility/termutils.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/utility/termutils.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/utility/textutils.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/utility/textutils.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/utility/textutils.pyo
|
|
%%PYTHON_SITELIBDIR%%/dendropy/utility/vcsinfo.py
|
|
%%PYTHON_SITELIBDIR%%/dendropy/utility/vcsinfo.pyc
|
|
%%PYTHON_SITELIBDIR%%/dendropy/utility/vcsinfo.pyo
|