bin/README.txt
bin/clustalw2
bin/fakealigner
bin/faketree
bin/fasttree
bin/hmmalign
bin/hmmbuild
bin/hmmeralign
bin/hmmerbuild
bin/mafft
bin/mafftdir
bin/muscle
bin/opal.jar
bin/padaligner
bin/pasta/CHANGELOG.md
bin/pasta/PASTA.egg-info/PKG-INFO
bin/pasta/PASTA.egg-info/SOURCES.txt
bin/pasta/PASTA.egg-info/dependency_links.txt
bin/pasta/PASTA.egg-info/requires.txt
bin/pasta/PASTA.egg-info/top_level.txt
bin/pasta/PASTA.egg-info/zip-safe
bin/pasta/README.md
bin/pasta/__pycache__/ez_setup.cpython-37.pyc
bin/pasta/bin/.gitignore
bin/pasta/bin/clustalw2
bin/pasta/bin/fakealigner
bin/pasta/bin/faketree
bin/pasta/bin/fasttree
bin/pasta/bin/hmmalign
bin/pasta/bin/hmmbuild
bin/pasta/bin/hmmeralign
bin/pasta/bin/mafft
bin/pasta/bin/mafftdir/bin/mafft
bin/pasta/bin/mafftdir/libexec/addsingle
bin/pasta/bin/mafftdir/libexec/contrafoldwrap
bin/pasta/bin/mafftdir/libexec/countlen
bin/pasta/bin/mafftdir/libexec/disttbfast
bin/pasta/bin/mafftdir/libexec/dndblast
bin/pasta/bin/mafftdir/libexec/dndfast7
bin/pasta/bin/mafftdir/libexec/dndpre
bin/pasta/bin/mafftdir/libexec/dvtditr
bin/pasta/bin/mafftdir/libexec/f2cl
bin/pasta/bin/mafftdir/libexec/getlag
bin/pasta/bin/mafftdir/libexec/mafft-distance
bin/pasta/bin/mafftdir/libexec/mafft-homologs.1
bin/pasta/bin/mafftdir/libexec/mafft-profile
bin/pasta/bin/mafftdir/libexec/mafft.1
bin/pasta/bin/mafftdir/libexec/mafftash_premafft.pl
bin/pasta/bin/mafftdir/libexec/makedirectionlist
bin/pasta/bin/mafftdir/libexec/mccaskillwrap
bin/pasta/bin/mafftdir/libexec/multi2hat3s
bin/pasta/bin/mafftdir/libexec/pair2hat3s
bin/pasta/bin/mafftdir/libexec/pairash
bin/pasta/bin/mafftdir/libexec/pairlocalalign
bin/pasta/bin/mafftdir/libexec/regtable2seq
bin/pasta/bin/mafftdir/libexec/replaceu
bin/pasta/bin/mafftdir/libexec/restoreu
bin/pasta/bin/mafftdir/libexec/score
bin/pasta/bin/mafftdir/libexec/seq2regtable
bin/pasta/bin/mafftdir/libexec/setcore
bin/pasta/bin/mafftdir/libexec/setdirection
bin/pasta/bin/mafftdir/libexec/sextet5
bin/pasta/bin/mafftdir/libexec/splittbfast
bin/pasta/bin/mafftdir/libexec/tbfast
bin/pasta/bin/mafftdir/libexec/version
bin/pasta/bin/muscle
bin/pasta/bin/opal.jar
bin/pasta/bin/padaligner
bin/pasta/bin/prank
bin/pasta/bin/randtree
bin/pasta/bin/raxml
bin/pasta/bin/raxmlp
bin/pasta/build/lib/pasta/__init__.py
bin/pasta/build/lib/pasta/alignment.py
bin/pasta/build/lib/pasta/configure.py
bin/pasta/build/lib/pasta/errors.py
bin/pasta/build/lib/pasta/filemgr.py
bin/pasta/build/lib/pasta/mainpasta.py
bin/pasta/build/lib/pasta/pastaalignerjob.py
bin/pasta/build/lib/pasta/pastajob.py
bin/pasta/build/lib/pasta/scheduler.py
bin/pasta/build/lib/pasta/settings.py
bin/pasta/build/lib/pasta/test/__init__.py
bin/pasta/build/lib/pasta/test/support/__init__.py
bin/pasta/build/lib/pasta/test/support/sate_test_case.py
bin/pasta/build/lib/pasta/test/test_aligners.py
bin/pasta/build/lib/pasta/test/test_alignment.py
bin/pasta/build/lib/pasta/test/test_decomp.py
bin/pasta/build/lib/pasta/test/test_init.py
bin/pasta/build/lib/pasta/test/test_main.py
bin/pasta/build/lib/pasta/test/test_merger.py
bin/pasta/build/lib/pasta/test/test_phylogenetic_tree.py
bin/pasta/build/lib/pasta/test/test_raxml.py
bin/pasta/build/lib/pasta/test/test_read.py
bin/pasta/build/lib/pasta/test/test_run_sate.py
bin/pasta/build/lib/pasta/test/test_sateproducts.py
bin/pasta/build/lib/pasta/test/test_tempfs.py
bin/pasta/build/lib/pasta/test/test_treeholder.py
bin/pasta/build/lib/pasta/tools.py
bin/pasta/build/lib/pasta/tree.py
bin/pasta/build/lib/pasta/treeholder.py
bin/pasta/build/lib/pasta/usersettingclasses.py
bin/pasta/build/lib/pasta/utility.py
bin/pasta/build/scripts-3.7/run_pasta.py
bin/pasta/build/scripts-3.7/run_pasta_gui.py
bin/pasta/build/scripts-3.7/run_seqtools.py
bin/pasta/conda_build.sh
bin/pasta/data/.gitignore
bin/pasta/data/16S.E.ALL.referene.fasta
bin/pasta/data/16S.E.ALL.unaligned.fasta
bin/pasta/data/BBA0067-half.input.fasta
bin/pasta/data/BBA0067-half.startingtree.tre
bin/pasta/data/BBA0067.input.fasta.tree
bin/pasta/data/BBA0067.startingtree.tre
bin/pasta/data/anolis.fasta
bin/pasta/data/anolis.tre
bin/pasta/data/figwasps/M1504.fasta
bin/pasta/data/figwasps/M1504.nex.txt
bin/pasta/data/figwasps/M1505.fasta
bin/pasta/data/figwasps/M1505.nex.txt
bin/pasta/data/figwasps/config.txt
bin/pasta/data/figwasps/starting.tre
bin/pasta/data/file-origins.txt
bin/pasta/data/hummingbirds/AK1.fasta
bin/pasta/data/hummingbirds/M3354.nexorg.txt
bin/pasta/data/hummingbirds/bfib.fasta
bin/pasta/data/hummingbirds/config.txt
bin/pasta/data/hummingbirds/nd2.fasta
bin/pasta/data/hummingbirds/nd4.fasta
bin/pasta/data/hummingbirds/starting.tre
bin/pasta/data/large.fasta
bin/pasta/data/large.tree
bin/pasta/data/pythonidae.fasta
bin/pasta/data/small.fasta
bin/pasta/data/small.tree
bin/pasta/ez_setup.py
bin/pasta/make-app.sh
bin/pasta/pasta-doc/pasta-tutorial.md
bin/pasta/pasta.ico
bin/pasta/pasta.png
bin/pasta/pasta/__init__.py
bin/pasta/pasta/__pycache__/__init__.cpython-37.pyc
bin/pasta/pasta/alignment.py
bin/pasta/pasta/configure.py
bin/pasta/pasta/errors.py
bin/pasta/pasta/filemgr.py
bin/pasta/pasta/mainpasta.py
bin/pasta/pasta/pastaalignerjob.py
bin/pasta/pasta/pastajob.py
bin/pasta/pasta/scheduler.py
bin/pasta/pasta/settings.py
bin/pasta/pasta/test/__init__.py
bin/pasta/pasta/test/data/1000T.fasta
bin/pasta/pasta/test/data/1000T.tree
bin/pasta/pasta/test/data/100T.fasta
bin/pasta/pasta/test/data/100T.tree
bin/pasta/pasta/test/data/ambigmissing.fasta
bin/pasta/pasta/test/data/anolis.fasta
bin/pasta/pasta/test/data/bad_names.fasta
bin/pasta/pasta/test/data/bad_names.tree
bin/pasta/pasta/test/data/caenophidia_mos.ambiguities.fasta
bin/pasta/pasta/test/data/caenophidia_mos.fasta
bin/pasta/pasta/test/data/caenophidia_mos.tre
bin/pasta/pasta/test/data/caenophidia_mos_bogus.fasta
bin/pasta/pasta/test/data/clustalw2.anolis.fasta
bin/pasta/pasta/test/data/clustalw2.anolis.fasta.1
bin/pasta/pasta/test/data/clustalw2.anolis.fasta.2
bin/pasta/pasta/test/data/delmissing.fasta
bin/pasta/pasta/test/data/diffDecomp.nex
bin/pasta/pasta/test/data/large.fasta
bin/pasta/pasta/test/data/large.tree
bin/pasta/pasta/test/data/mafft.anolis.fasta
bin/pasta/pasta/test/data/merger1.fasta
bin/pasta/pasta/test/data/merger2.fasta
bin/pasta/pasta/test/data/merger_result.fasta
bin/pasta/pasta/test/data/missing.fasta
bin/pasta/pasta/test/data/opal.anolis.fasta
bin/pasta/pasta/test/data/opal.anolis.fasta.1
bin/pasta/pasta/test/data/pythonidae.fasta
bin/pasta/pasta/test/data/pythonidae.truncated.fasta
bin/pasta/pasta/test/data/small.ambiguities.fasta
bin/pasta/pasta/test/data/small.fasta
bin/pasta/pasta/test/data/small.fasta.partial.raw
bin/pasta/pasta/test/data/small.fasta.phy
bin/pasta/pasta/test/data/small.fasta.raw
bin/pasta/pasta/test/data/small.tree
bin/pasta/pasta/test/data/small1.fasta
bin/pasta/pasta/test/data/small2.fasta
bin/pasta/pasta/test/data/smallrna.fasta
bin/pasta/pasta/test/data/smallunaligned.fasta
bin/pasta/pasta/test/data/terrarana.fasta
bin/pasta/pasta/test/data/terrarana.truncated.fasta
bin/pasta/pasta/test/data/testmulti/1.fasta
bin/pasta/pasta/test/data/testmulti/2.fasta
bin/pasta/pasta/test/data/testmulti/caenophidia/caenophidia_mos.fasta
bin/pasta/pasta/test/data/testmulti/caenophidia/caenophidia_mos2.fasta
bin/pasta/pasta/test/data/testmulti/figwasps/M1504.fasta
bin/pasta/pasta/test/data/testmulti/figwasps/M1504.nex.txt
bin/pasta/pasta/test/data/testmulti/figwasps/M1505.fasta
bin/pasta/pasta/test/data/testmulti/figwasps/M1505.nex.txt
bin/pasta/pasta/test/data/testmulti/figwasps/starting.tre
bin/pasta/pasta/test/data/testmulti/hummingbirds/AK1.fasta
bin/pasta/pasta/test/data/testmulti/hummingbirds/M3354.nexorg.txt
bin/pasta/pasta/test/data/testmulti/hummingbirds/bfib.fasta
bin/pasta/pasta/test/data/testmulti/hummingbirds/nd2.fasta
bin/pasta/pasta/test/data/testmulti/hummingbirds/nd4.fasta
bin/pasta/pasta/test/data/testmulti/hummingbirds/starting.tre
bin/pasta/pasta/test/data/testmulti/mixed/tinydna.fasta
bin/pasta/pasta/test/data/testmulti/mixed/tinyrna.fasta
bin/pasta/pasta/test/data/testmulti/tinyrna/tinyrna1.fasta
bin/pasta/pasta/test/data/testmulti/tinyrna/tinyrna2.fasta
bin/pasta/pasta/test/data/tiny.fasta
bin/pasta/pasta/test/data/tiny.lowercase.fasta
bin/pasta/pasta/test/data/tiny_name_mismatch.tre
bin/pasta/pasta/test/data/tinyrna.fasta
bin/pasta/pasta/test/support/__init__.py
bin/pasta/pasta/test/support/sate_test_case.py
bin/pasta/pasta/test/test_aligners.py
bin/pasta/pasta/test/test_alignment.py
bin/pasta/pasta/test/test_decomp.py
bin/pasta/pasta/test/test_init.py
bin/pasta/pasta/test/test_main.py
bin/pasta/pasta/test/test_merger.py
bin/pasta/pasta/test/test_phylogenetic_tree.py
bin/pasta/pasta/test/test_raxml.py
bin/pasta/pasta/test/test_read.py
bin/pasta/pasta/test/test_run_sate.py
bin/pasta/pasta/test/test_sateproducts.py
bin/pasta/pasta/test/test_tempfs.py
bin/pasta/pasta/test/test_treeholder.py
bin/pasta/pasta/tools.py
bin/pasta/pasta/tree.py
bin/pasta/pasta/treeholder.py
bin/pasta/pasta/usersettingclasses.py
bin/pasta/pasta/utility.py
bin/pasta/resources/scripts/hmmeralign
bin/pasta/run_pasta.py
bin/pasta/run_pasta_gui.py
bin/pasta/run_seqtools.py
bin/pasta/sate-doc/AUTHORS.txt
bin/pasta/sate-doc/CHANGES.txt
bin/pasta/sate-doc/FAQ.txt
bin/pasta/sate-doc/LICENSE.txt
bin/pasta/sate-doc/README.txt
bin/pasta/sate-doc/THANKS.txt
bin/pasta/setup.py
bin/prank
bin/randtree
bin/raxml
bin/raxmlp
bin/run_pasta.py
bin/run_pasta_gui.py
bin/run_seqtools.py
bin/sate-tools-mac/README.txt
bin/sate-tools-mac/clustalw2
bin/sate-tools-mac/fakealigner
bin/sate-tools-mac/faketree
bin/sate-tools-mac/fasttree
bin/sate-tools-mac/hmmalign
bin/sate-tools-mac/hmmbuild
bin/sate-tools-mac/hmmeralign
bin/sate-tools-mac/hmmerbuild
bin/sate-tools-mac/mafft
bin/sate-tools-mac/mafftdir/bin/mafft
bin/sate-tools-mac/mafftdir/libexec/addsingle
bin/sate-tools-mac/mafftdir/libexec/contrafoldwrap
bin/sate-tools-mac/mafftdir/libexec/countlen
bin/sate-tools-mac/mafftdir/libexec/disttbfast
bin/sate-tools-mac/mafftdir/libexec/dndblast
bin/sate-tools-mac/mafftdir/libexec/dndfast7
bin/sate-tools-mac/mafftdir/libexec/dndpre
bin/sate-tools-mac/mafftdir/libexec/dvtditr
bin/sate-tools-mac/mafftdir/libexec/f2cl
bin/sate-tools-mac/mafftdir/libexec/getlag
bin/sate-tools-mac/mafftdir/libexec/mafft-distance
bin/sate-tools-mac/mafftdir/libexec/mafft-homologs.1
bin/sate-tools-mac/mafftdir/libexec/mafft-profile
bin/sate-tools-mac/mafftdir/libexec/mafft.1
bin/sate-tools-mac/mafftdir/libexec/mafftash_premafft.pl
bin/sate-tools-mac/mafftdir/libexec/makedirectionlist
bin/sate-tools-mac/mafftdir/libexec/mccaskillwrap
bin/sate-tools-mac/mafftdir/libexec/multi2hat3s
bin/sate-tools-mac/mafftdir/libexec/pair2hat3s
bin/sate-tools-mac/mafftdir/libexec/pairash
bin/sate-tools-mac/mafftdir/libexec/pairlocalalign
bin/sate-tools-mac/mafftdir/libexec/regtable2seq
bin/sate-tools-mac/mafftdir/libexec/replaceu
bin/sate-tools-mac/mafftdir/libexec/restoreu
bin/sate-tools-mac/mafftdir/libexec/score
bin/sate-tools-mac/mafftdir/libexec/seq2regtable
bin/sate-tools-mac/mafftdir/libexec/setcore
bin/sate-tools-mac/mafftdir/libexec/setdirection
bin/sate-tools-mac/mafftdir/libexec/sextet5
bin/sate-tools-mac/mafftdir/libexec/splittbfast
bin/sate-tools-mac/mafftdir/libexec/tbfast
bin/sate-tools-mac/mafftdir/libexec/version
bin/sate-tools-mac/muscle
bin/sate-tools-mac/opal.jar
bin/sate-tools-mac/padaligner
bin/sate-tools-mac/prank
bin/sate-tools-mac/randtree
bin/sate-tools-mac/raxml
bin/sate-tools-mac/raxmlp
lib/python3.7/site-packages/PASTA-1.7.8-py3.7.egg-info/PKG-INFO
lib/python3.7/site-packages/PASTA-1.7.8-py3.7.egg-info/SOURCES.txt
lib/python3.7/site-packages/PASTA-1.7.8-py3.7.egg-info/dependency_links.txt
lib/python3.7/site-packages/PASTA-1.7.8-py3.7.egg-info/requires.txt
lib/python3.7/site-packages/PASTA-1.7.8-py3.7.egg-info/top_level.txt
lib/python3.7/site-packages/PASTA-1.7.8-py3.7.egg-info/zip-safe
lib/python3.7/site-packages/pasta/__init__.py
lib/python3.7/site-packages/pasta/__pycache__/__init__.cpython-37.pyc
lib/python3.7/site-packages/pasta/__pycache__/alignment.cpython-37.pyc
lib/python3.7/site-packages/pasta/__pycache__/configure.cpython-37.pyc
lib/python3.7/site-packages/pasta/__pycache__/errors.cpython-37.pyc
lib/python3.7/site-packages/pasta/__pycache__/filemgr.cpython-37.pyc
lib/python3.7/site-packages/pasta/__pycache__/mainpasta.cpython-37.pyc
lib/python3.7/site-packages/pasta/__pycache__/pastaalignerjob.cpython-37.pyc
lib/python3.7/site-packages/pasta/__pycache__/pastajob.cpython-37.pyc
lib/python3.7/site-packages/pasta/__pycache__/scheduler.cpython-37.pyc
lib/python3.7/site-packages/pasta/__pycache__/settings.cpython-37.pyc
lib/python3.7/site-packages/pasta/__pycache__/tools.cpython-37.pyc
lib/python3.7/site-packages/pasta/__pycache__/tree.cpython-37.pyc
lib/python3.7/site-packages/pasta/__pycache__/treeholder.cpython-37.pyc
lib/python3.7/site-packages/pasta/__pycache__/usersettingclasses.cpython-37.pyc
lib/python3.7/site-packages/pasta/__pycache__/utility.cpython-37.pyc
lib/python3.7/site-packages/pasta/alignment.py
lib/python3.7/site-packages/pasta/configure.py
lib/python3.7/site-packages/pasta/errors.py
lib/python3.7/site-packages/pasta/filemgr.py
lib/python3.7/site-packages/pasta/mainpasta.py
lib/python3.7/site-packages/pasta/pastaalignerjob.py
lib/python3.7/site-packages/pasta/pastajob.py
lib/python3.7/site-packages/pasta/scheduler.py
lib/python3.7/site-packages/pasta/settings.py
lib/python3.7/site-packages/pasta/test/__init__.py
lib/python3.7/site-packages/pasta/test/__pycache__/__init__.cpython-37.pyc
lib/python3.7/site-packages/pasta/test/__pycache__/test_aligners.cpython-37.pyc
lib/python3.7/site-packages/pasta/test/__pycache__/test_alignment.cpython-37.pyc
lib/python3.7/site-packages/pasta/test/__pycache__/test_decomp.cpython-37.pyc
lib/python3.7/site-packages/pasta/test/__pycache__/test_init.cpython-37.pyc
lib/python3.7/site-packages/pasta/test/__pycache__/test_main.cpython-37.pyc
lib/python3.7/site-packages/pasta/test/__pycache__/test_merger.cpython-37.pyc
lib/python3.7/site-packages/pasta/test/__pycache__/test_phylogenetic_tree.cpython-37.pyc
lib/python3.7/site-packages/pasta/test/__pycache__/test_raxml.cpython-37.pyc
lib/python3.7/site-packages/pasta/test/__pycache__/test_run_sate.cpython-37.pyc
lib/python3.7/site-packages/pasta/test/__pycache__/test_sateproducts.cpython-37.pyc
lib/python3.7/site-packages/pasta/test/__pycache__/test_tempfs.cpython-37.pyc
lib/python3.7/site-packages/pasta/test/__pycache__/test_treeholder.cpython-37.pyc
lib/python3.7/site-packages/pasta/test/support/__init__.py
lib/python3.7/site-packages/pasta/test/support/__pycache__/__init__.cpython-37.pyc
lib/python3.7/site-packages/pasta/test/support/sate_test_case.py
lib/python3.7/site-packages/pasta/test/test_aligners.py
lib/python3.7/site-packages/pasta/test/test_alignment.py
lib/python3.7/site-packages/pasta/test/test_decomp.py
lib/python3.7/site-packages/pasta/test/test_init.py
lib/python3.7/site-packages/pasta/test/test_main.py
lib/python3.7/site-packages/pasta/test/test_merger.py
lib/python3.7/site-packages/pasta/test/test_phylogenetic_tree.py
lib/python3.7/site-packages/pasta/test/test_raxml.py
lib/python3.7/site-packages/pasta/test/test_read.py
lib/python3.7/site-packages/pasta/test/test_run_sate.py
lib/python3.7/site-packages/pasta/test/test_sateproducts.py
lib/python3.7/site-packages/pasta/test/test_tempfs.py
lib/python3.7/site-packages/pasta/test/test_treeholder.py
lib/python3.7/site-packages/pasta/tools.py
lib/python3.7/site-packages/pasta/tree.py
lib/python3.7/site-packages/pasta/treeholder.py
lib/python3.7/site-packages/pasta/usersettingclasses.py
lib/python3.7/site-packages/pasta/utility.py
pasta-build/0712214.tar.gz
pasta-build/pasta/CHANGELOG.md
pasta-build/pasta/PASTA.egg-info/PKG-INFO
pasta-build/pasta/PASTA.egg-info/SOURCES.txt
pasta-build/pasta/PASTA.egg-info/dependency_links.txt
pasta-build/pasta/PASTA.egg-info/requires.txt
pasta-build/pasta/PASTA.egg-info/top_level.txt
pasta-build/pasta/PASTA.egg-info/zip-safe
pasta-build/pasta/README.md
pasta-build/pasta/__pycache__/ez_setup.cpython-37.pyc
pasta-build/pasta/__pycache__/run_pasta.cpython-37.pyc
pasta-build/pasta/__pycache__/run_pasta_gui.cpython-37.pyc
pasta-build/pasta/__pycache__/run_seqtools.cpython-37.pyc
pasta-build/pasta/__pycache__/setup.cpython-37.pyc
pasta-build/pasta/bin/.gitignore
pasta-build/pasta/bin/clustalw2
pasta-build/pasta/bin/fakealigner
pasta-build/pasta/bin/faketree
pasta-build/pasta/bin/fasttree
pasta-build/pasta/bin/hmmalign
pasta-build/pasta/bin/hmmbuild
pasta-build/pasta/bin/hmmeralign
pasta-build/pasta/bin/mafft
pasta-build/pasta/bin/mafftdir/bin/mafft
pasta-build/pasta/bin/mafftdir/libexec/addsingle
pasta-build/pasta/bin/mafftdir/libexec/contrafoldwrap
pasta-build/pasta/bin/mafftdir/libexec/countlen
pasta-build/pasta/bin/mafftdir/libexec/disttbfast
pasta-build/pasta/bin/mafftdir/libexec/dndblast
pasta-build/pasta/bin/mafftdir/libexec/dndfast7
pasta-build/pasta/bin/mafftdir/libexec/dndpre
pasta-build/pasta/bin/mafftdir/libexec/dvtditr
pasta-build/pasta/bin/mafftdir/libexec/f2cl
pasta-build/pasta/bin/mafftdir/libexec/getlag
pasta-build/pasta/bin/mafftdir/libexec/mafft-distance
pasta-build/pasta/bin/mafftdir/libexec/mafft-homologs.1
pasta-build/pasta/bin/mafftdir/libexec/mafft-profile
pasta-build/pasta/bin/mafftdir/libexec/mafft.1
pasta-build/pasta/bin/mafftdir/libexec/mafftash_premafft.pl
pasta-build/pasta/bin/mafftdir/libexec/makedirectionlist
pasta-build/pasta/bin/mafftdir/libexec/mccaskillwrap
pasta-build/pasta/bin/mafftdir/libexec/multi2hat3s
pasta-build/pasta/bin/mafftdir/libexec/pair2hat3s
pasta-build/pasta/bin/mafftdir/libexec/pairash
pasta-build/pasta/bin/mafftdir/libexec/pairlocalalign
pasta-build/pasta/bin/mafftdir/libexec/regtable2seq
pasta-build/pasta/bin/mafftdir/libexec/replaceu
pasta-build/pasta/bin/mafftdir/libexec/restoreu
pasta-build/pasta/bin/mafftdir/libexec/score
pasta-build/pasta/bin/mafftdir/libexec/seq2regtable
pasta-build/pasta/bin/mafftdir/libexec/setcore
pasta-build/pasta/bin/mafftdir/libexec/setdirection
pasta-build/pasta/bin/mafftdir/libexec/sextet5
pasta-build/pasta/bin/mafftdir/libexec/splittbfast
pasta-build/pasta/bin/mafftdir/libexec/tbfast
pasta-build/pasta/bin/mafftdir/libexec/version
pasta-build/pasta/bin/muscle
pasta-build/pasta/bin/opal.jar
pasta-build/pasta/bin/padaligner
pasta-build/pasta/bin/prank
pasta-build/pasta/bin/randtree
pasta-build/pasta/bin/raxml
pasta-build/pasta/bin/raxmlp
pasta-build/pasta/build/lib/pasta/__init__.py
pasta-build/pasta/build/lib/pasta/__pycache__/__init__.cpython-37.pyc
pasta-build/pasta/build/lib/pasta/__pycache__/alignment.cpython-37.pyc
pasta-build/pasta/build/lib/pasta/__pycache__/configure.cpython-37.pyc
pasta-build/pasta/build/lib/pasta/__pycache__/errors.cpython-37.pyc
pasta-build/pasta/build/lib/pasta/__pycache__/filemgr.cpython-37.pyc
pasta-build/pasta/build/lib/pasta/__pycache__/mainpasta.cpython-37.pyc
pasta-build/pasta/build/lib/pasta/__pycache__/pastaalignerjob.cpython-37.pyc
pasta-build/pasta/build/lib/pasta/__pycache__/pastajob.cpython-37.pyc
pasta-build/pasta/build/lib/pasta/__pycache__/scheduler.cpython-37.pyc
pasta-build/pasta/build/lib/pasta/__pycache__/settings.cpython-37.pyc
pasta-build/pasta/build/lib/pasta/__pycache__/tools.cpython-37.pyc
pasta-build/pasta/build/lib/pasta/__pycache__/tree.cpython-37.pyc
pasta-build/pasta/build/lib/pasta/__pycache__/treeholder.cpython-37.pyc
pasta-build/pasta/build/lib/pasta/__pycache__/usersettingclasses.cpython-37.pyc
pasta-build/pasta/build/lib/pasta/__pycache__/utility.cpython-37.pyc
pasta-build/pasta/build/lib/pasta/alignment.py
pasta-build/pasta/build/lib/pasta/configure.py
pasta-build/pasta/build/lib/pasta/errors.py
pasta-build/pasta/build/lib/pasta/filemgr.py
pasta-build/pasta/build/lib/pasta/mainpasta.py
pasta-build/pasta/build/lib/pasta/pastaalignerjob.py
pasta-build/pasta/build/lib/pasta/pastajob.py
pasta-build/pasta/build/lib/pasta/scheduler.py
pasta-build/pasta/build/lib/pasta/settings.py
pasta-build/pasta/build/lib/pasta/test/__init__.py
pasta-build/pasta/build/lib/pasta/test/__pycache__/__init__.cpython-37.pyc
pasta-build/pasta/build/lib/pasta/test/__pycache__/test_aligners.cpython-37.pyc
pasta-build/pasta/build/lib/pasta/test/__pycache__/test_alignment.cpython-37.pyc
pasta-build/pasta/build/lib/pasta/test/__pycache__/test_decomp.cpython-37.pyc
pasta-build/pasta/build/lib/pasta/test/__pycache__/test_init.cpython-37.pyc
pasta-build/pasta/build/lib/pasta/test/__pycache__/test_main.cpython-37.pyc
pasta-build/pasta/build/lib/pasta/test/__pycache__/test_merger.cpython-37.pyc
pasta-build/pasta/build/lib/pasta/test/__pycache__/test_phylogenetic_tree.cpython-37.pyc
pasta-build/pasta/build/lib/pasta/test/__pycache__/test_raxml.cpython-37.pyc
pasta-build/pasta/build/lib/pasta/test/__pycache__/test_run_sate.cpython-37.pyc
pasta-build/pasta/build/lib/pasta/test/__pycache__/test_sateproducts.cpython-37.pyc
pasta-build/pasta/build/lib/pasta/test/__pycache__/test_tempfs.cpython-37.pyc
pasta-build/pasta/build/lib/pasta/test/__pycache__/test_treeholder.cpython-37.pyc
pasta-build/pasta/build/lib/pasta/test/support/__init__.py
pasta-build/pasta/build/lib/pasta/test/support/__pycache__/__init__.cpython-37.pyc
pasta-build/pasta/build/lib/pasta/test/support/sate_test_case.py
pasta-build/pasta/build/lib/pasta/test/test_aligners.py
pasta-build/pasta/build/lib/pasta/test/test_alignment.py
pasta-build/pasta/build/lib/pasta/test/test_decomp.py
pasta-build/pasta/build/lib/pasta/test/test_init.py
pasta-build/pasta/build/lib/pasta/test/test_main.py
pasta-build/pasta/build/lib/pasta/test/test_merger.py
pasta-build/pasta/build/lib/pasta/test/test_phylogenetic_tree.py
pasta-build/pasta/build/lib/pasta/test/test_raxml.py
pasta-build/pasta/build/lib/pasta/test/test_read.py
pasta-build/pasta/build/lib/pasta/test/test_run_sate.py
pasta-build/pasta/build/lib/pasta/test/test_sateproducts.py
pasta-build/pasta/build/lib/pasta/test/test_tempfs.py
pasta-build/pasta/build/lib/pasta/test/test_treeholder.py
pasta-build/pasta/build/lib/pasta/tools.py
pasta-build/pasta/build/lib/pasta/tree.py
pasta-build/pasta/build/lib/pasta/treeholder.py
pasta-build/pasta/build/lib/pasta/usersettingclasses.py
pasta-build/pasta/build/lib/pasta/utility.py
pasta-build/pasta/build/scripts-3.7/__pycache__/run_pasta.cpython-37.pyc
pasta-build/pasta/build/scripts-3.7/__pycache__/run_pasta_gui.cpython-37.pyc
pasta-build/pasta/build/scripts-3.7/__pycache__/run_seqtools.cpython-37.pyc
pasta-build/pasta/build/scripts-3.7/run_pasta.py
pasta-build/pasta/build/scripts-3.7/run_pasta_gui.py
pasta-build/pasta/build/scripts-3.7/run_seqtools.py
pasta-build/pasta/conda_build.sh
pasta-build/pasta/data/.gitignore
pasta-build/pasta/data/16S.E.ALL.referene.fasta
pasta-build/pasta/data/16S.E.ALL.unaligned.fasta
pasta-build/pasta/data/BBA0067-half.input.fasta
pasta-build/pasta/data/BBA0067-half.startingtree.tre
pasta-build/pasta/data/BBA0067.input.fasta.tree
pasta-build/pasta/data/BBA0067.startingtree.tre
pasta-build/pasta/data/anolis.fasta
pasta-build/pasta/data/anolis.tre
pasta-build/pasta/data/figwasps/M1504.fasta
pasta-build/pasta/data/figwasps/M1504.nex.txt
pasta-build/pasta/data/figwasps/M1505.fasta
pasta-build/pasta/data/figwasps/M1505.nex.txt
pasta-build/pasta/data/figwasps/config.txt
pasta-build/pasta/data/figwasps/starting.tre
pasta-build/pasta/data/file-origins.txt
pasta-build/pasta/data/hummingbirds/AK1.fasta
pasta-build/pasta/data/hummingbirds/M3354.nexorg.txt
pasta-build/pasta/data/hummingbirds/bfib.fasta
pasta-build/pasta/data/hummingbirds/config.txt
pasta-build/pasta/data/hummingbirds/nd2.fasta
pasta-build/pasta/data/hummingbirds/nd4.fasta
pasta-build/pasta/data/hummingbirds/starting.tre
pasta-build/pasta/data/large.fasta
pasta-build/pasta/data/large.tree
pasta-build/pasta/data/pythonidae.fasta
pasta-build/pasta/data/small.fasta
pasta-build/pasta/data/small.tree
pasta-build/pasta/ez_setup.py
pasta-build/pasta/make-app.sh
pasta-build/pasta/pasta-doc/pasta-tutorial.md
pasta-build/pasta/pasta.ico
pasta-build/pasta/pasta.png
pasta-build/pasta/pasta/__init__.py
pasta-build/pasta/pasta/__pycache__/__init__.cpython-37.pyc
pasta-build/pasta/pasta/__pycache__/alignment.cpython-37.pyc
pasta-build/pasta/pasta/__pycache__/configure.cpython-37.pyc
pasta-build/pasta/pasta/__pycache__/errors.cpython-37.pyc
pasta-build/pasta/pasta/__pycache__/filemgr.cpython-37.pyc
pasta-build/pasta/pasta/__pycache__/mainpasta.cpython-37.pyc
pasta-build/pasta/pasta/__pycache__/pastaalignerjob.cpython-37.pyc
pasta-build/pasta/pasta/__pycache__/pastajob.cpython-37.pyc
pasta-build/pasta/pasta/__pycache__/scheduler.cpython-37.pyc
pasta-build/pasta/pasta/__pycache__/settings.cpython-37.pyc
pasta-build/pasta/pasta/__pycache__/tools.cpython-37.pyc
pasta-build/pasta/pasta/__pycache__/tree.cpython-37.pyc
pasta-build/pasta/pasta/__pycache__/treeholder.cpython-37.pyc
pasta-build/pasta/pasta/__pycache__/usersettingclasses.cpython-37.pyc
pasta-build/pasta/pasta/__pycache__/utility.cpython-37.pyc
pasta-build/pasta/pasta/alignment.py
pasta-build/pasta/pasta/configure.py
pasta-build/pasta/pasta/errors.py
pasta-build/pasta/pasta/filemgr.py
pasta-build/pasta/pasta/mainpasta.py
pasta-build/pasta/pasta/pastaalignerjob.py
pasta-build/pasta/pasta/pastajob.py
pasta-build/pasta/pasta/scheduler.py
pasta-build/pasta/pasta/settings.py
pasta-build/pasta/pasta/test/__init__.py
pasta-build/pasta/pasta/test/__pycache__/__init__.cpython-37.pyc
pasta-build/pasta/pasta/test/__pycache__/test_aligners.cpython-37.pyc
pasta-build/pasta/pasta/test/__pycache__/test_alignment.cpython-37.pyc
pasta-build/pasta/pasta/test/__pycache__/test_decomp.cpython-37.pyc
pasta-build/pasta/pasta/test/__pycache__/test_init.cpython-37.pyc
pasta-build/pasta/pasta/test/__pycache__/test_main.cpython-37.pyc
pasta-build/pasta/pasta/test/__pycache__/test_merger.cpython-37.pyc
pasta-build/pasta/pasta/test/__pycache__/test_phylogenetic_tree.cpython-37.pyc
pasta-build/pasta/pasta/test/__pycache__/test_raxml.cpython-37.pyc
pasta-build/pasta/pasta/test/__pycache__/test_run_sate.cpython-37.pyc
pasta-build/pasta/pasta/test/__pycache__/test_sateproducts.cpython-37.pyc
pasta-build/pasta/pasta/test/__pycache__/test_tempfs.cpython-37.pyc
pasta-build/pasta/pasta/test/__pycache__/test_treeholder.cpython-37.pyc
pasta-build/pasta/pasta/test/data/1000T.fasta
pasta-build/pasta/pasta/test/data/1000T.tree
pasta-build/pasta/pasta/test/data/100T.fasta
pasta-build/pasta/pasta/test/data/100T.tree
pasta-build/pasta/pasta/test/data/ambigmissing.fasta
pasta-build/pasta/pasta/test/data/anolis.fasta
pasta-build/pasta/pasta/test/data/bad_names.fasta
pasta-build/pasta/pasta/test/data/bad_names.tree
pasta-build/pasta/pasta/test/data/caenophidia_mos.ambiguities.fasta
pasta-build/pasta/pasta/test/data/caenophidia_mos.fasta
pasta-build/pasta/pasta/test/data/caenophidia_mos.tre
pasta-build/pasta/pasta/test/data/caenophidia_mos_bogus.fasta
pasta-build/pasta/pasta/test/data/clustalw2.anolis.fasta
pasta-build/pasta/pasta/test/data/clustalw2.anolis.fasta.1
pasta-build/pasta/pasta/test/data/clustalw2.anolis.fasta.2
pasta-build/pasta/pasta/test/data/delmissing.fasta
pasta-build/pasta/pasta/test/data/diffDecomp.nex
pasta-build/pasta/pasta/test/data/large.fasta
pasta-build/pasta/pasta/test/data/large.tree
pasta-build/pasta/pasta/test/data/mafft.anolis.fasta
pasta-build/pasta/pasta/test/data/merger1.fasta
pasta-build/pasta/pasta/test/data/merger2.fasta
pasta-build/pasta/pasta/test/data/merger_result.fasta
pasta-build/pasta/pasta/test/data/missing.fasta
pasta-build/pasta/pasta/test/data/opal.anolis.fasta
pasta-build/pasta/pasta/test/data/opal.anolis.fasta.1
pasta-build/pasta/pasta/test/data/pythonidae.fasta
pasta-build/pasta/pasta/test/data/pythonidae.truncated.fasta
pasta-build/pasta/pasta/test/data/small.ambiguities.fasta
pasta-build/pasta/pasta/test/data/small.fasta
pasta-build/pasta/pasta/test/data/small.fasta.partial.raw
pasta-build/pasta/pasta/test/data/small.fasta.phy
pasta-build/pasta/pasta/test/data/small.fasta.raw
pasta-build/pasta/pasta/test/data/small.tree
pasta-build/pasta/pasta/test/data/small1.fasta
pasta-build/pasta/pasta/test/data/small2.fasta
pasta-build/pasta/pasta/test/data/smallrna.fasta
pasta-build/pasta/pasta/test/data/smallunaligned.fasta
pasta-build/pasta/pasta/test/data/terrarana.fasta
pasta-build/pasta/pasta/test/data/terrarana.truncated.fasta
pasta-build/pasta/pasta/test/data/testmulti/1.fasta
pasta-build/pasta/pasta/test/data/testmulti/2.fasta
pasta-build/pasta/pasta/test/data/testmulti/caenophidia/caenophidia_mos.fasta
pasta-build/pasta/pasta/test/data/testmulti/caenophidia/caenophidia_mos2.fasta
pasta-build/pasta/pasta/test/data/testmulti/figwasps/M1504.fasta
pasta-build/pasta/pasta/test/data/testmulti/figwasps/M1504.nex.txt
pasta-build/pasta/pasta/test/data/testmulti/figwasps/M1505.fasta
pasta-build/pasta/pasta/test/data/testmulti/figwasps/M1505.nex.txt
pasta-build/pasta/pasta/test/data/testmulti/figwasps/starting.tre
pasta-build/pasta/pasta/test/data/testmulti/hummingbirds/AK1.fasta
pasta-build/pasta/pasta/test/data/testmulti/hummingbirds/M3354.nexorg.txt
pasta-build/pasta/pasta/test/data/testmulti/hummingbirds/bfib.fasta
pasta-build/pasta/pasta/test/data/testmulti/hummingbirds/nd2.fasta
pasta-build/pasta/pasta/test/data/testmulti/hummingbirds/nd4.fasta
pasta-build/pasta/pasta/test/data/testmulti/hummingbirds/starting.tre
pasta-build/pasta/pasta/test/data/testmulti/mixed/tinydna.fasta
pasta-build/pasta/pasta/test/data/testmulti/mixed/tinyrna.fasta
pasta-build/pasta/pasta/test/data/testmulti/tinyrna/tinyrna1.fasta
pasta-build/pasta/pasta/test/data/testmulti/tinyrna/tinyrna2.fasta
pasta-build/pasta/pasta/test/data/tiny.fasta
pasta-build/pasta/pasta/test/data/tiny.lowercase.fasta
pasta-build/pasta/pasta/test/data/tiny_name_mismatch.tre
pasta-build/pasta/pasta/test/data/tinyrna.fasta
pasta-build/pasta/pasta/test/support/__init__.py
pasta-build/pasta/pasta/test/support/__pycache__/__init__.cpython-37.pyc
pasta-build/pasta/pasta/test/support/sate_test_case.py
pasta-build/pasta/pasta/test/test_aligners.py
pasta-build/pasta/pasta/test/test_alignment.py
pasta-build/pasta/pasta/test/test_decomp.py
pasta-build/pasta/pasta/test/test_init.py
pasta-build/pasta/pasta/test/test_main.py
pasta-build/pasta/pasta/test/test_merger.py
pasta-build/pasta/pasta/test/test_phylogenetic_tree.py
pasta-build/pasta/pasta/test/test_raxml.py
pasta-build/pasta/pasta/test/test_read.py
pasta-build/pasta/pasta/test/test_run_sate.py
pasta-build/pasta/pasta/test/test_sateproducts.py
pasta-build/pasta/pasta/test/test_tempfs.py
pasta-build/pasta/pasta/test/test_treeholder.py
pasta-build/pasta/pasta/tools.py
pasta-build/pasta/pasta/tree.py
pasta-build/pasta/pasta/treeholder.py
pasta-build/pasta/pasta/usersettingclasses.py
pasta-build/pasta/pasta/utility.py
pasta-build/pasta/resources/scripts/hmmeralign
pasta-build/pasta/run_pasta.py
pasta-build/pasta/run_pasta_gui.py
pasta-build/pasta/run_seqtools.py
pasta-build/pasta/sate-doc/AUTHORS.txt
pasta-build/pasta/sate-doc/CHANGES.txt
pasta-build/pasta/sate-doc/FAQ.txt
pasta-build/pasta/sate-doc/LICENSE.txt
pasta-build/pasta/sate-doc/README.txt
pasta-build/pasta/sate-doc/THANKS.txt
pasta-build/pasta/setup.py
pasta-build/sate-tools-mac/.gitignore
pasta-build/sate-tools-mac/README.txt
pasta-build/sate-tools-mac/clustalw2
pasta-build/sate-tools-mac/fakealigner
pasta-build/sate-tools-mac/faketree
pasta-build/sate-tools-mac/fasttree
pasta-build/sate-tools-mac/hmmalign
pasta-build/sate-tools-mac/hmmbuild
pasta-build/sate-tools-mac/mafft
pasta-build/sate-tools-mac/mafftdir/bin/mafft
pasta-build/sate-tools-mac/mafftdir/libexec/addsingle
pasta-build/sate-tools-mac/mafftdir/libexec/contrafoldwrap
pasta-build/sate-tools-mac/mafftdir/libexec/countlen
pasta-build/sate-tools-mac/mafftdir/libexec/disttbfast
pasta-build/sate-tools-mac/mafftdir/libexec/dndblast
pasta-build/sate-tools-mac/mafftdir/libexec/dndfast7
pasta-build/sate-tools-mac/mafftdir/libexec/dndpre
pasta-build/sate-tools-mac/mafftdir/libexec/dvtditr
pasta-build/sate-tools-mac/mafftdir/libexec/f2cl
pasta-build/sate-tools-mac/mafftdir/libexec/getlag
pasta-build/sate-tools-mac/mafftdir/libexec/mafft-distance
pasta-build/sate-tools-mac/mafftdir/libexec/mafft-homologs.1
pasta-build/sate-tools-mac/mafftdir/libexec/mafft-profile
pasta-build/sate-tools-mac/mafftdir/libexec/mafft.1
pasta-build/sate-tools-mac/mafftdir/libexec/mafftash_premafft.pl
pasta-build/sate-tools-mac/mafftdir/libexec/makedirectionlist
pasta-build/sate-tools-mac/mafftdir/libexec/mccaskillwrap
pasta-build/sate-tools-mac/mafftdir/libexec/multi2hat3s
pasta-build/sate-tools-mac/mafftdir/libexec/pair2hat3s
pasta-build/sate-tools-mac/mafftdir/libexec/pairash
pasta-build/sate-tools-mac/mafftdir/libexec/pairlocalalign
pasta-build/sate-tools-mac/mafftdir/libexec/regtable2seq
pasta-build/sate-tools-mac/mafftdir/libexec/replaceu
pasta-build/sate-tools-mac/mafftdir/libexec/restoreu
pasta-build/sate-tools-mac/mafftdir/libexec/score
pasta-build/sate-tools-mac/mafftdir/libexec/seq2regtable
pasta-build/sate-tools-mac/mafftdir/libexec/setcore
pasta-build/sate-tools-mac/mafftdir/libexec/setdirection
pasta-build/sate-tools-mac/mafftdir/libexec/sextet5
pasta-build/sate-tools-mac/mafftdir/libexec/splittbfast
pasta-build/sate-tools-mac/mafftdir/libexec/tbfast
pasta-build/sate-tools-mac/mafftdir/libexec/version
pasta-build/sate-tools-mac/muscle
pasta-build/sate-tools-mac/opal.jar
pasta-build/sate-tools-mac/padaligner
pasta-build/sate-tools-mac/prank
pasta-build/sate-tools-mac/randtree
pasta-build/sate-tools-mac/raxml
pasta-build/sate-tools-mac/raxmlp
