| Previous changeset 3:077021c45b96 (2018-03-12) Next changeset 5:817031b8486d (2018-05-10) |
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Commit message:
planemo upload for repository https://github.com/TGAC/earlham-galaxytools/tree/master/tools/ete commit 41e40314a9b25a9f3c06a13422d367b68334f593 |
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modified:
ete_lineage_generator.py ete_lineage_generator.xml test-data/lineage-compress-lower.txt test-data/lineage-compress.txt test-data/lineage-full.txt test-data/lineage.txt test-data/taxdump.sqlite |
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| diff -r 077021c45b96 -r 87b6de3ef63e ete_lineage_generator.py --- a/ete_lineage_generator.py Mon Mar 12 12:51:48 2018 -0400 +++ b/ete_lineage_generator.py Thu Mar 22 13:25:38 2018 -0400 |
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| @@ -76,6 +76,7 @@ parser.error("-s option must be specified, Species list in text format one species in each line") if options.full and options.ranks: parser.error("-f and -r can not be used at the same time") + if options.ranks: for r in options.ranks: if r not in LONG_RANKS: @@ -105,6 +106,9 @@ for ilr in range(len(LONG_RANKS)): if RANKS[ir] in LONG_RANKS[ilr]: COMP_RANK_IDX[LONG_RANKS[ilr]] = ir +# write header +of.write("#species/taxid\t%s\n" % ("\t".join(RANKS))) +# get and write data with open(options.input_species_filename) as f: for line in f.readlines(): line = line.strip().replace('_', ' ') |
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| diff -r 077021c45b96 -r 87b6de3ef63e ete_lineage_generator.xml --- a/ete_lineage_generator.xml Mon Mar 12 12:51:48 2018 -0400 +++ b/ete_lineage_generator.xml Thu Mar 22 13:25:38 2018 -0400 |
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| @@ -12,7 +12,7 @@ #if $ranks.levels == "full" -f #elif $ranks.levels == "manual" - #for $rank in $ranks.manualranks: + #for $rank in str($ranks.manualranks).split(','): -r $rank #end for #end if @@ -31,7 +31,7 @@ <option value="manual">Manual</option> </param> <when value="manual"> - <param name="manualranks" type="select" multiple="true" label="Manual selection of ranks"> + <param name="manualranks" type="select" multiple="true" optional="false" label="Manual selection of ranks"> <option value="superkingdom">superkingdom</option> <option value="kingdom" selected="true">kingdom</option> <option value="subkingdom">subkingdom</option> @@ -88,7 +88,7 @@ <param name="speciesFile" ftype="txt" value="species.txt" /> <param name="database" ftype="sqlite" value="taxdump.sqlite" /> <param name="compress" value="" /> - <param name="levels" value="primary" /> + <param name="levels" value="full" /> <output name="outputFile" file="lineage.txt" /> </test> <test> @@ -110,7 +110,8 @@ <param name="speciesFile" ftype="txt" value="species.txt" /> <param name="database" ftype="sqlite" value="taxdump.sqlite" /> <param name="compress" value="" /> - <param name="levels" value="full" /> + <param name="levels" value="manual" /> + <param name="manualranks" value="kingdom,family" /> <output name="outputFile" file="lineage-full.txt" /> </test> </tests> |
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| diff -r 077021c45b96 -r 87b6de3ef63e test-data/lineage-compress-lower.txt --- a/test-data/lineage-compress-lower.txt Mon Mar 12 12:51:48 2018 -0400 +++ b/test-data/lineage-compress-lower.txt Thu Mar 22 13:25:38 2018 -0400 |
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| @@ -1,3 +1,4 @@ +#species/taxid kingdom phylum class order family genus species Latimeria chalumnae Eukaryota Chordata NA Coelacanthiformes Coelacanthidae Latimeria Latimeria chalumnae Xenopus tropicalis Eukaryota Chordata Amphibia Batrachia Pipoidea Xenopus Xenopus tropicalis Ornithorhynchus anatinus Eukaryota Chordata Mammalia Monotremata Ornithorhynchidae Ornithorhynchus Ornithorhynchus anatinus |
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| diff -r 077021c45b96 -r 87b6de3ef63e test-data/lineage-compress.txt --- a/test-data/lineage-compress.txt Mon Mar 12 12:51:48 2018 -0400 +++ b/test-data/lineage-compress.txt Thu Mar 22 13:25:38 2018 -0400 |
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| @@ -1,3 +1,4 @@ +#species/taxid kingdom phylum class order family genus species Latimeria chalumnae Eukaryota Chordata NA Coelacanthiformes Coelacanthidae Latimeria Latimeria chalumnae Xenopus tropicalis Eukaryota Chordata Amphibia Batrachia Pipoidea Xenopus Xenopus tropicalis Ornithorhynchus anatinus Eukaryota Chordata Mammalia Monotremata Ornithorhynchidae Ornithorhynchus Ornithorhynchus anatinus |
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| diff -r 077021c45b96 -r 87b6de3ef63e test-data/lineage-full.txt --- a/test-data/lineage-full.txt Mon Mar 12 12:51:48 2018 -0400 +++ b/test-data/lineage-full.txt Thu Mar 22 13:25:38 2018 -0400 |
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| b'@@ -1,62 +1,63 @@\n-Latimeria chalumnae\tEukaryota\tMetazoa\tNA\tNA\tChordata\tCraniata\tNA\tNA\tNA\tNA\tNA\tNA\tCoelacanthiformes\tNA\tNA\tNA\tNA\tCoelacanthidae\tNA\tNA\tNA\tLatimeria\tNA\tNA\tNA\tLatimeria chalumnae\tNA\tNA\tNA\n-Xenopus tropicalis\tEukaryota\tMetazoa\tNA\tNA\tChordata\tCraniata\tNA\tAmphibia\tNA\tNA\tNA\tBatrachia\tAnura\tNA\tNA\tNA\tPipoidea\tPipidae\tXenopodinae\tNA\tNA\tXenopus\tSilurana\tNA\tNA\tXenopus tropicalis\tNA\tNA\tNA\n-Ornithorhynchus anatinus\tEukaryota\tMetazoa\tNA\tNA\tChordata\tCraniata\tNA\tMammalia\tNA\tNA\tNA\tNA\tMonotremata\tNA\tNA\tNA\tNA\tOrnithorhynchidae\tNA\tNA\tNA\tOrnithorhynchus\tNA\tNA\tNA\tOrnithorhynchus anatinus\tNA\tNA\tNA\n-Macropus eugenii\tEukaryota\tMetazoa\tNA\tNA\tChordata\tCraniata\tNA\tMammalia\tNA\tNA\tNA\tNA\tDiprotodontia\tNA\tNA\tNA\tNA\tMacropodidae\tNA\tNA\tNA\tNotamacropus\tNA\tNA\tNA\tNotamacropus eugenii\tNA\tNA\tNA\n-Sarcophilus harrisii\tEukaryota\tMetazoa\tNA\tNA\tChordata\tCraniata\tNA\tMammalia\tNA\tNA\tNA\tNA\tDasyuromorphia\tNA\tNA\tNA\tNA\tDasyuridae\tNA\tNA\tNA\tSarcophilus\tNA\tNA\tNA\tSarcophilus harrisii\tNA\tNA\tNA\n-Monodelphis domestica\tEukaryota\tMetazoa\tNA\tNA\tChordata\tCraniata\tNA\tMammalia\tNA\tNA\tNA\tNA\tDidelphimorphia\tNA\tNA\tNA\tNA\tDidelphidae\tDidelphinae\tNA\tNA\tMonodelphis\tNA\tNA\tNA\tMonodelphis domestica\tNA\tNA\tNA\n-Echinops telfairi\tEukaryota\tMetazoa\tNA\tNA\tChordata\tCraniata\tNA\tMammalia\tNA\tNA\tNA\tAfrotheria\tNA\tNA\tNA\tNA\tNA\tTenrecidae\tTenrecinae\tNA\tNA\tEchinops\tNA\tNA\tNA\tEchinops telfairi\tNA\tNA\tNA\n-Procavia capensis\tEukaryota\tMetazoa\tNA\tNA\tChordata\tCraniata\tNA\tMammalia\tNA\tNA\tNA\tAfrotheria\tHyracoidea\tNA\tNA\tNA\tNA\tProcaviidae\tNA\tNA\tNA\tProcavia\tNA\tNA\tNA\tProcavia capensis\tNA\tNA\tNA\n-Loxodonta africana\tEukaryota\tMetazoa\tNA\tNA\tChordata\tCraniata\tNA\tMammalia\tNA\tNA\tNA\tAfrotheria\tProboscidea\tNA\tNA\tNA\tNA\tElephantidae\tNA\tNA\tNA\tLoxodonta\tNA\tNA\tNA\tLoxodonta africana\tNA\tNA\tNA\n-Dasypus novemcinctus\tEukaryota\tMetazoa\tNA\tNA\tChordata\tCraniata\tNA\tMammalia\tNA\tNA\tNA\tXenarthra\tCingulata\tNA\tNA\tNA\tNA\tDasypodidae\tNA\tNA\tNA\tDasypus\tNA\tNA\tNA\tDasypus novemcinctus\tNA\tNA\tNA\n-Choloepus hoffmanni\tEukaryota\tMetazoa\tNA\tNA\tChordata\tCraniata\tNA\tMammalia\tNA\tNA\tNA\tXenarthra\tPilosa\tFolivora\tNA\tNA\tNA\tMegalonychidae\tNA\tNA\tNA\tCholoepus\tNA\tNA\tNA\tCholoepus hoffmanni\tNA\tNA\tNA\n-Ochotona princeps\tEukaryota\tMetazoa\tNA\tNA\tChordata\tCraniata\tNA\tMammalia\tNA\tNA\tNA\tEuarchontoglires\tLagomorpha\tNA\tNA\tNA\tNA\tOchotonidae\tNA\tNA\tNA\tOchotona\tNA\tNA\tNA\tOchotona princeps\tNA\tNA\tNA\n-Oryctolagus cuniculus\tEukaryota\tMetazoa\tNA\tNA\tChordata\tCraniata\tNA\tMammalia\tNA\tNA\tNA\tEuarchontoglires\tLagomorpha\tNA\tNA\tNA\tNA\tLeporidae\tNA\tNA\tNA\tOryctolagus\tNA\tNA\tNA\tOryctolagus cuniculus\tNA\tNA\tNA\n-Cavia porcellus\tEukaryota\tMetazoa\tNA\tNA\tChordata\tCraniata\tNA\tMammalia\tNA\tNA\tNA\tEuarchontoglires\tRodentia\tHystricomorpha\tNA\tNA\tNA\tCaviidae\tNA\tNA\tNA\tCavia\tNA\tNA\tNA\tCavia porcellus\tNA\tNA\tNA\n-Ictidomys tridecemlineatus\tEukaryota\tMetazoa\tNA\tNA\tChordata\tCraniata\tNA\tMammalia\tNA\tNA\tNA\tEuarchontoglires\tRodentia\tSciuromorpha\tNA\tNA\tNA\tSciuridae\tXerinae\tMarmotini\tNA\tIctidomys\tNA\tNA\tNA\tIctidomys tridecemlineatus\tNA\tNA\tNA\n-Dipodomys ordii\tEukaryota\tMetazoa\tNA\tNA\tChordata\tCraniata\tNA\tMammalia\tNA\tNA\tNA\tEuarchontoglires\tRodentia\tCastorimorpha\tNA\tNA\tNA\tHeteromyidae\tDipodomyinae\tNA\tNA\tDipodomys\tNA\tNA\tNA\tDipodomys ordii\tNA\tNA\tNA\n-Rattus norvegicus\tEukaryota\tMetazoa\tNA\tNA\tChordata\tCraniata\tNA\tMammalia\tNA\tNA\tNA\tEuarchontoglires\tRodentia\tMyomorpha\tNA\tNA\tNA\tMuridae\tMurinae\tNA\tNA\tRattus\tNA\tNA\tNA\tRattus norvegicus\tNA\tNA\tNA\n-Mus musculus\tEukaryota\tMetazoa\tNA\tNA\tChordata\tCraniata\tNA\tMammalia\tNA\tNA\tNA\tEuarchontoglires\tRodentia\tMyomorpha\tNA\tNA\tNA\tMuridae\tMurinae\tNA\tNA\tMus\tMus\tNA\tNA\tMus musculus\tNA\tNA\tNA\n-Tupaia belangeri\tEukaryota\tMetazoa\tNA\tNA\tChordata\tCraniata\tNA\tMammalia\tNA\tNA\tNA\tEuarchontoglires\tScandentia\tNA\tNA\tNA\tNA\tTupaiidae\tNA\tNA\tNA\tTupaia\tNA\tNA\tNA\tTupaia belangeri\tNA\tNA\tNA\n-Otolemur garnettii\tEukaryota\tMetazoa\tNA\tNA\tChordata\tCraniata\tNA\tMammalia\tNA\tNA\tNA\tEuarchontoglires\tPrimates\tStrepsirrhini\tLorisiformes\tNA\tNA\tGalagidae\tNA\tNA\tNA\tOtolemur\tNA\tNA\tNA\tOtolemur garnettii\tNA\tNA\tNA\n-Microcebus murinus\tEukaryota\tMetazoa\tNA\tNA\tChordata\tCraniata\tNA\tMammalia\tNA\tNA\tNA\tEuarchontoglires\tPrimates\tStrepsirrhini\tLemuriformes\tNA\tNA\tC'..b'ormes\tGadoidei\tNA\tNA\tNA\tGadidae\tNA\tNA\tNA\tGadus\tNA\tNA\tNA\tGadus morhua\tNA\tNA\tNA\n-Oreochromis niloticus\tEukaryota\tMetazoa\tNA\tNA\tChordata\tCraniata\tActinopterygii\tActinopteri\tNeopterygii\tTeleostei\tNA\tCichlomorphae\tCichliformes\tNA\tNA\tNA\tNA\tCichlidae\tPseudocrenilabrinae\tOreochromini\tNA\tOreochromis\tNA\tNA\tNA\tOreochromis niloticus\tNA\tNA\tNA\n-Poecilia formosa\tEukaryota\tMetazoa\tNA\tNA\tChordata\tCraniata\tActinopterygii\tActinopteri\tNeopterygii\tTeleostei\tNA\tAtherinomorphae\tCyprinodontiformes\tCyprinodontoidei\tNA\tNA\tNA\tPoeciliidae\tPoeciliinae\tNA\tNA\tPoecilia\tNA\tNA\tNA\tPoecilia formosa\tNA\tNA\tNA\n-Xiphophorus maculatus\tEukaryota\tMetazoa\tNA\tNA\tChordata\tCraniata\tActinopterygii\tActinopteri\tNeopterygii\tTeleostei\tNA\tAtherinomorphae\tCyprinodontiformes\tCyprinodontoidei\tNA\tNA\tNA\tPoeciliidae\tPoeciliinae\tNA\tNA\tXiphophorus\tNA\tNA\tNA\tXiphophorus maculatus\tNA\tNA\tNA\n-Gasterosteus aculeatus\tEukaryota\tMetazoa\tNA\tNA\tChordata\tCraniata\tActinopterygii\tActinopteri\tNeopterygii\tTeleostei\tNA\tNA\tPerciformes\tCottioidei\tGasterosteales\tNA\tNA\tGasterosteidae\tNA\tNA\tNA\tGasterosteus\tNA\tNA\tNA\tGasterosteus aculeatus\tNA\tNA\tNA\n-Tetraodon nigroviridis\tEukaryota\tMetazoa\tNA\tNA\tChordata\tCraniata\tActinopterygii\tActinopteri\tNeopterygii\tTeleostei\tNA\tNA\tTetraodontiformes\tTetraodontoidei\tNA\tNA\tTetradontoidea\tTetraodontidae\tNA\tNA\tNA\tTetraodon\tNA\tNA\tNA\tTetraodon nigroviridis\tNA\tNA\tNA\n-Takifugu rubripes\tEukaryota\tMetazoa\tNA\tNA\tChordata\tCraniata\tActinopterygii\tActinopteri\tNeopterygii\tTeleostei\tNA\tNA\tTetraodontiformes\tTetraodontoidei\tNA\tNA\tTetradontoidea\tTetraodontidae\tNA\tNA\tNA\tTakifugu\tNA\tNA\tNA\tTakifugu rubripes\tNA\tNA\tNA\n+#species/taxid\tkingdom\tfamily\n+Latimeria chalumnae\tMetazoa\tCoelacanthidae\n+Xenopus tropicalis\tMetazoa\tPipidae\n+Ornithorhynchus anatinus\tMetazoa\tOrnithorhynchidae\n+Macropus eugenii\tMetazoa\tMacropodidae\n+Sarcophilus harrisii\tMetazoa\tDasyuridae\n+Monodelphis domestica\tMetazoa\tDidelphidae\n+Echinops telfairi\tMetazoa\tTenrecidae\n+Procavia capensis\tMetazoa\tProcaviidae\n+Loxodonta africana\tMetazoa\tElephantidae\n+Dasypus novemcinctus\tMetazoa\tDasypodidae\n+Choloepus hoffmanni\tMetazoa\tMegalonychidae\n+Ochotona princeps\tMetazoa\tOchotonidae\n+Oryctolagus cuniculus\tMetazoa\tLeporidae\n+Cavia porcellus\tMetazoa\tCaviidae\n+Ictidomys tridecemlineatus\tMetazoa\tSciuridae\n+Dipodomys ordii\tMetazoa\tHeteromyidae\n+Rattus norvegicus\tMetazoa\tMuridae\n+Mus musculus\tMetazoa\tMuridae\n+Tupaia belangeri\tMetazoa\tTupaiidae\n+Otolemur garnettii\tMetazoa\tGalagidae\n+Microcebus murinus\tMetazoa\tCheirogaleidae\n+Tarsius syrichta\tMetazoa\tTarsiidae\n+Callithrix jacchus\tMetazoa\tCebidae\n+Chlorocebus sabaeus\tMetazoa\tCercopithecidae\n+Papio anubis\tMetazoa\tCercopithecidae\n+Macaca mulatta\tMetazoa\tCercopithecidae\n+Nomascus leucogenys\tMetazoa\tHylobatidae\n+Pongo abelii\tMetazoa\tHominidae\n+Gorilla gorilla gorilla\tMetazoa\tHominidae\n+Pan troglodytes\tMetazoa\tHominidae\n+Homo sapiens\tMetazoa\tHominidae\n+Sorex araneus\tMetazoa\tSoricidae\n+Erinaceus europaeus\tMetazoa\tErinaceidae\n+Pteropus vampyrus\tMetazoa\tPteropodidae\n+Myotis lucifugus\tMetazoa\tVespertilionidae\n+Felis catus\tMetazoa\tFelidae\n+Canis lupus familiaris\tMetazoa\tCanidae\n+Mustela putorius furo\tMetazoa\tMustelidae\n+Ailuropoda melanoleuca\tMetazoa\tUrsidae\n+Equus caballus\tMetazoa\tEquidae\n+Vicugna pacos\tMetazoa\tCamelidae\n+Sus scrofa\tMetazoa\tSuidae\n+Tursiops truncatus\tMetazoa\tDelphinidae\n+Ovis aries\tMetazoa\tBovidae\n+Bos taurus\tMetazoa\tBovidae\n+Anolis carolinensis\tMetazoa\tDactyloidae\n+Pelodiscus sinensis\tMetazoa\tTrionychidae\n+Taeniopygia guttata\tMetazoa\tEstrildidae\n+Ficedula albicollis\tMetazoa\tMuscicapidae\n+Anas platyrhynchos\tMetazoa\tAnatidae\n+Meleagris gallopavo\tMetazoa\tPhasianidae\n+Gallus gallus\tMetazoa\tPhasianidae\n+Lepisosteus oculatus\tMetazoa\tLepisosteidae\n+Danio rerio\tMetazoa\tCyprinidae\n+Astyanax mexicanus\tMetazoa\tCharacidae\n+Gadus morhua\tMetazoa\tGadidae\n+Oreochromis niloticus\tMetazoa\tCichlidae\n+Poecilia formosa\tMetazoa\tPoeciliidae\n+Xiphophorus maculatus\tMetazoa\tPoeciliidae\n+Gasterosteus aculeatus\tMetazoa\tGasterosteidae\n+Tetraodon nigroviridis\tMetazoa\tTetraodontidae\n+Takifugu rubripes\tMetazoa\tTetraodontidae\n' |
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| diff -r 077021c45b96 -r 87b6de3ef63e test-data/lineage.txt --- a/test-data/lineage.txt Mon Mar 12 12:51:48 2018 -0400 +++ b/test-data/lineage.txt Thu Mar 22 13:25:38 2018 -0400 |
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| b'@@ -1,62 +1,63 @@\n-Latimeria chalumnae\tMetazoa\tChordata\tNA\tCoelacanthiformes\tCoelacanthidae\tLatimeria\tLatimeria chalumnae\n-Xenopus tropicalis\tMetazoa\tChordata\tAmphibia\tAnura\tPipidae\tXenopus\tXenopus tropicalis\n-Ornithorhynchus anatinus\tMetazoa\tChordata\tMammalia\tMonotremata\tOrnithorhynchidae\tOrnithorhynchus\tOrnithorhynchus anatinus\n-Macropus eugenii\tMetazoa\tChordata\tMammalia\tDiprotodontia\tMacropodidae\tNotamacropus\tNotamacropus eugenii\n-Sarcophilus harrisii\tMetazoa\tChordata\tMammalia\tDasyuromorphia\tDasyuridae\tSarcophilus\tSarcophilus harrisii\n-Monodelphis domestica\tMetazoa\tChordata\tMammalia\tDidelphimorphia\tDidelphidae\tMonodelphis\tMonodelphis domestica\n-Echinops telfairi\tMetazoa\tChordata\tMammalia\tNA\tTenrecidae\tEchinops\tEchinops telfairi\n-Procavia capensis\tMetazoa\tChordata\tMammalia\tHyracoidea\tProcaviidae\tProcavia\tProcavia capensis\n-Loxodonta africana\tMetazoa\tChordata\tMammalia\tProboscidea\tElephantidae\tLoxodonta\tLoxodonta africana\n-Dasypus novemcinctus\tMetazoa\tChordata\tMammalia\tCingulata\tDasypodidae\tDasypus\tDasypus novemcinctus\n-Choloepus hoffmanni\tMetazoa\tChordata\tMammalia\tPilosa\tMegalonychidae\tCholoepus\tCholoepus hoffmanni\n-Ochotona princeps\tMetazoa\tChordata\tMammalia\tLagomorpha\tOchotonidae\tOchotona\tOchotona princeps\n-Oryctolagus cuniculus\tMetazoa\tChordata\tMammalia\tLagomorpha\tLeporidae\tOryctolagus\tOryctolagus cuniculus\n-Cavia porcellus\tMetazoa\tChordata\tMammalia\tRodentia\tCaviidae\tCavia\tCavia porcellus\n-Ictidomys tridecemlineatus\tMetazoa\tChordata\tMammalia\tRodentia\tSciuridae\tIctidomys\tIctidomys tridecemlineatus\n-Dipodomys ordii\tMetazoa\tChordata\tMammalia\tRodentia\tHeteromyidae\tDipodomys\tDipodomys ordii\n-Rattus norvegicus\tMetazoa\tChordata\tMammalia\tRodentia\tMuridae\tRattus\tRattus norvegicus\n-Mus musculus\tMetazoa\tChordata\tMammalia\tRodentia\tMuridae\tMus\tMus musculus\n-Tupaia belangeri\tMetazoa\tChordata\tMammalia\tScandentia\tTupaiidae\tTupaia\tTupaia belangeri\n-Otolemur garnettii\tMetazoa\tChordata\tMammalia\tPrimates\tGalagidae\tOtolemur\tOtolemur garnettii\n-Microcebus murinus\tMetazoa\tChordata\tMammalia\tPrimates\tCheirogaleidae\tMicrocebus\tMicrocebus murinus\n-Tarsius syrichta\tMetazoa\tChordata\tMammalia\tPrimates\tTarsiidae\tCarlito\tCarlito syrichta\n-Callithrix jacchus\tMetazoa\tChordata\tMammalia\tPrimates\tCebidae\tCallithrix\tCallithrix jacchus\n-Chlorocebus sabaeus\tMetazoa\tChordata\tMammalia\tPrimates\tCercopithecidae\tChlorocebus\tChlorocebus sabaeus\n-Papio anubis\tMetazoa\tChordata\tMammalia\tPrimates\tCercopithecidae\tPapio\tPapio anubis\n-Macaca mulatta\tMetazoa\tChordata\tMammalia\tPrimates\tCercopithecidae\tMacaca\tMacaca mulatta\n-Nomascus leucogenys\tMetazoa\tChordata\tMammalia\tPrimates\tHylobatidae\tNomascus\tNomascus leucogenys\n-Pongo abelii\tMetazoa\tChordata\tMammalia\tPrimates\tHominidae\tPongo\tPongo abelii\n-Gorilla gorilla gorilla\tMetazoa\tChordata\tMammalia\tPrimates\tHominidae\tGorilla\tGorilla gorilla\n-Pan troglodytes\tMetazoa\tChordata\tMammalia\tPrimates\tHominidae\tPan\tPan troglodytes\n-Homo sapiens\tMetazoa\tChordata\tMammalia\tPrimates\tHominidae\tHomo\tHomo sapiens\n-Sorex araneus\tMetazoa\tChordata\tMammalia\tInsectivora\tSoricidae\tSorex\tSorex araneus\n-Erinaceus europaeus\tMetazoa\tChordata\tMammalia\tInsectivora\tErinaceidae\tErinaceus\tErinaceus europaeus\n-Pteropus vampyrus\tMetazoa\tChordata\tMammalia\tChiroptera\tPteropodidae\tPteropus\tPteropus vampyrus\n-Myotis lucifugus\tMetazoa\tChordata\tMammalia\tChiroptera\tVespertilionidae\tMyotis\tMyotis lucifugus\n-Felis catus\tMetazoa\tChordata\tMammalia\tCarnivora\tFelidae\tFelis\tFelis catus\n-Canis lupus familiaris\tMetazoa\tChordata\tMammalia\tCarnivora\tCanidae\tCanis\tCanis lupus\n-Mustela putorius furo\tMetazoa\tChordata\tMammalia\tCarnivora\tMustelidae\tMustela\tMustela putorius\n-Ailuropoda melanoleuca\tMetazoa\tChordata\tMammalia\tCarnivora\tUrsidae\tAiluropoda\tAiluropoda melanoleuca\n-Equus caballus\tMetazoa\tChordata\tMammalia\tPerissodactyla\tEquidae\tEquus\tEquus caballus\n-Vicugna pacos\tMetazoa\tChordata\tMammalia\tNA\tCamelidae\tVicugna\tVicugna pacos\n-Sus scrofa\tMetazoa\tChordata\tMammalia\tNA\tSuidae\tSus\tSus scrofa\n-Tursiops truncatus\tMetazoa\tChordata\tMammalia\tCetacea\tDelphinidae\tTursiops\tTursiops truncatus\n'..b'is aries\tEukaryota\tMetazoa\tNA\tNA\tChordata\tCraniata\tNA\tMammalia\tNA\tNA\tNA\tLaurasiatheria\tNA\tRuminantia\tPecora\tNA\tNA\tBovidae\tCaprinae\tNA\tNA\tOvis\tNA\tNA\tNA\tOvis aries\tNA\tNA\tNA\n+Bos taurus\tEukaryota\tMetazoa\tNA\tNA\tChordata\tCraniata\tNA\tMammalia\tNA\tNA\tNA\tLaurasiatheria\tNA\tRuminantia\tPecora\tNA\tNA\tBovidae\tBovinae\tNA\tNA\tBos\tNA\tNA\tNA\tBos taurus\tNA\tNA\tNA\n+Anolis carolinensis\tEukaryota\tMetazoa\tNA\tNA\tChordata\tCraniata\tNA\tNA\tNA\tNA\tNA\tLepidosauria\tSquamata\tIguania\tNA\tNA\tNA\tDactyloidae\tNA\tNA\tNA\tAnolis\tNA\tNA\tNA\tAnolis carolinensis\tNA\tNA\tNA\n+Pelodiscus sinensis\tEukaryota\tMetazoa\tNA\tNA\tChordata\tCraniata\tNA\tNA\tNA\tNA\tNA\tNA\tTestudines\tCryptodira\tNA\tNA\tNA\tTrionychidae\tNA\tNA\tNA\tPelodiscus\tNA\tNA\tNA\tPelodiscus sinensis\tNA\tNA\tNA\n+Taeniopygia guttata\tEukaryota\tMetazoa\tNA\tNA\tChordata\tCraniata\tNA\tAves\tNA\tNA\tNA\tNeognathae\tPasseriformes\tNA\tNA\tNA\tPasseroidea\tEstrildidae\tEstrildinae\tNA\tNA\tTaeniopygia\tNA\tNA\tNA\tTaeniopygia guttata\tNA\tNA\tNA\n+Ficedula albicollis\tEukaryota\tMetazoa\tNA\tNA\tChordata\tCraniata\tNA\tAves\tNA\tNA\tNA\tNeognathae\tPasseriformes\tNA\tNA\tNA\tNA\tMuscicapidae\tNA\tNA\tNA\tFicedula\tNA\tNA\tNA\tFicedula albicollis\tNA\tNA\tNA\n+Anas platyrhynchos\tEukaryota\tMetazoa\tNA\tNA\tChordata\tCraniata\tNA\tAves\tNA\tNA\tNA\tNeognathae\tAnseriformes\tNA\tNA\tNA\tNA\tAnatidae\tNA\tNA\tNA\tAnas\tNA\tNA\tNA\tAnas platyrhynchos\tNA\tNA\tNA\n+Meleagris gallopavo\tEukaryota\tMetazoa\tNA\tNA\tChordata\tCraniata\tNA\tAves\tNA\tNA\tNA\tNeognathae\tGalliformes\tNA\tNA\tNA\tNA\tPhasianidae\tMeleagridinae\tNA\tNA\tMeleagris\tNA\tNA\tNA\tMeleagris gallopavo\tNA\tNA\tNA\n+Gallus gallus\tEukaryota\tMetazoa\tNA\tNA\tChordata\tCraniata\tNA\tAves\tNA\tNA\tNA\tNeognathae\tGalliformes\tNA\tNA\tNA\tNA\tPhasianidae\tPhasianinae\tNA\tNA\tGallus\tNA\tNA\tNA\tGallus gallus\tNA\tNA\tNA\n+Lepisosteus oculatus\tEukaryota\tMetazoa\tNA\tNA\tChordata\tCraniata\tActinopterygii\tActinopteri\tNeopterygii\tHolostei\tNA\tNA\tSemionotiformes\tNA\tNA\tNA\tNA\tLepisosteidae\tNA\tNA\tNA\tLepisosteus\tNA\tNA\tNA\tLepisosteus oculatus\tNA\tNA\tNA\n+Danio rerio\tEukaryota\tMetazoa\tNA\tNA\tChordata\tCraniata\tActinopterygii\tActinopteri\tNeopterygii\tTeleostei\tNA\tCypriniphysae\tCypriniformes\tNA\tNA\tNA\tCyprinoidea\tCyprinidae\tNA\tNA\tNA\tDanio\tNA\tNA\tNA\tDanio rerio\tNA\tNA\tNA\n+Astyanax mexicanus\tEukaryota\tMetazoa\tNA\tNA\tChordata\tCraniata\tActinopterygii\tActinopteri\tNeopterygii\tTeleostei\tNA\tCharaciphysae\tCharaciformes\tCharacoidei\tNA\tNA\tNA\tCharacidae\tNA\tNA\tNA\tAstyanax\tNA\tNA\tNA\tAstyanax mexicanus\tNA\tNA\tNA\n+Gadus morhua\tEukaryota\tMetazoa\tNA\tNA\tChordata\tCraniata\tActinopterygii\tActinopteri\tNeopterygii\tTeleostei\tNA\tNA\tGadiformes\tGadoidei\tNA\tNA\tNA\tGadidae\tNA\tNA\tNA\tGadus\tNA\tNA\tNA\tGadus morhua\tNA\tNA\tNA\n+Oreochromis niloticus\tEukaryota\tMetazoa\tNA\tNA\tChordata\tCraniata\tActinopterygii\tActinopteri\tNeopterygii\tTeleostei\tNA\tCichlomorphae\tCichliformes\tNA\tNA\tNA\tNA\tCichlidae\tPseudocrenilabrinae\tOreochromini\tNA\tOreochromis\tNA\tNA\tNA\tOreochromis niloticus\tNA\tNA\tNA\n+Poecilia formosa\tEukaryota\tMetazoa\tNA\tNA\tChordata\tCraniata\tActinopterygii\tActinopteri\tNeopterygii\tTeleostei\tNA\tAtherinomorphae\tCyprinodontiformes\tCyprinodontoidei\tNA\tNA\tNA\tPoeciliidae\tPoeciliinae\tNA\tNA\tPoecilia\tNA\tNA\tNA\tPoecilia formosa\tNA\tNA\tNA\n+Xiphophorus maculatus\tEukaryota\tMetazoa\tNA\tNA\tChordata\tCraniata\tActinopterygii\tActinopteri\tNeopterygii\tTeleostei\tNA\tAtherinomorphae\tCyprinodontiformes\tCyprinodontoidei\tNA\tNA\tNA\tPoeciliidae\tPoeciliinae\tNA\tNA\tXiphophorus\tNA\tNA\tNA\tXiphophorus maculatus\tNA\tNA\tNA\n+Gasterosteus aculeatus\tEukaryota\tMetazoa\tNA\tNA\tChordata\tCraniata\tActinopterygii\tActinopteri\tNeopterygii\tTeleostei\tNA\tNA\tPerciformes\tCottioidei\tGasterosteales\tNA\tNA\tGasterosteidae\tNA\tNA\tNA\tGasterosteus\tNA\tNA\tNA\tGasterosteus aculeatus\tNA\tNA\tNA\n+Tetraodon nigroviridis\tEukaryota\tMetazoa\tNA\tNA\tChordata\tCraniata\tActinopterygii\tActinopteri\tNeopterygii\tTeleostei\tNA\tNA\tTetraodontiformes\tTetraodontoidei\tNA\tNA\tTetradontoidea\tTetraodontidae\tNA\tNA\tNA\tTetraodon\tNA\tNA\tNA\tTetraodon nigroviridis\tNA\tNA\tNA\n+Takifugu rubripes\tEukaryota\tMetazoa\tNA\tNA\tChordata\tCraniata\tActinopterygii\tActinopteri\tNeopterygii\tTeleostei\tNA\tNA\tTetraodontiformes\tTetraodontoidei\tNA\tNA\tTetradontoidea\tTetraodontidae\tNA\tNA\tNA\tTakifugu\tNA\tNA\tNA\tTakifugu rubripes\tNA\tNA\tNA\n' |
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