Galaxy |

Changeset 0:c7e73acfa3eb (2018-02-19)

Next changeset 1:ef46a404db96 (2019-12-06)

Commit message:
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/fasttree commit e47dfac91821500d0fcfc43750d036662c7c43ca

added:
fasttree.xml
test-data/COG583.sim.p
test-data/COG583.sim.trim.tree
test-data/aligned.fasta
test-data/log.txt
test-data/tree.nhx

diff -r 000000000000 -r c7e73acfa3eb fasttree.xml
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/fasttree.xml Mon Feb 19 11:36:31 2018 -0500

[

b'@@ -0,0 +1,254 @@\n+<?xml version="1.0"?>\n+<tool id="fasttree" name="FASTTREE" version="@VERSION@">\n+ <description>adjust short reads</description>\n+ <macros>\n+ <token name="@VERSION@">2.1.10</token>\n+ </macros>\n+ <requirements>\n+ <requirement type="package" version="@VERSION@">FastTree</requirement>\n+ </requirements>\n+ <version_command>FastTree</version_command>\n+ <command detect_errors="aggressive">\n+<![CDATA[\n+FastTree\n+\n+$model_selector.format\n+$model_selector.model\n+-nopr\n+#if $input_selector.select_format == \'fasta\':\n+ $input_selector.quote\n+#else if $input_selector.select_format == \'phylip\':\n+ -n $input_selector.num\n+#end if\n+#set $inform = $input_selector.intree_selector.intree_format\n+#if $inform == \'one\':\n+ -intree1 \'$input_selector.intree_selector.start_tree\'\n+ #else if $inform == \'many\':\n+ -intree \'$input_selector.intree_selector.start_tree\'\n+ #end if\n+ #if $advanced_selector.maximize == \'max\':\n+ #if $advanced_selector.cat_selector.conrate == \'no\':\n+ -cat $advanced_selector.cat_selector.ratecat\n+ #else if $advanced_selector.cat_selector.conrate == \'yes\':\n+ -nocat\n+ #end if\n+ $advanced_selector.gamma\n+ $advanced_selector.nosupport\n+ $advanced_selector.mllen\n+ $advanced_selector.likelihood\n+ $advanced_selector.fastest\n+ $advanced_selector.pseudo\n+#end if\n+\n+< \'$input\' > \'$output\'\n+\n+#if $save_logfile:\n+ 2> \'$log\'\n+#end if\n+\n+]]>\n+ </command>\n+ <inputs>\n+ <conditional name="input_selector">\n+ <param name="select_format" type="select" label="Aligned sequences file (FASTA or Phylip format)">\n+ <option value="fasta" selected="true">fasta</option>\n+ <option value="phylip">phylip</option>\n+ </param>\n+ <when value="fasta">\n+ <param format="fasta" name="input" type="data" multiple="false" label="FASTA file"/>\n+ <param name="quote" argument="-quote" type="boolean" truevalue="-quote" falsevalue="" checked="false" label="Allow spaces and other restricted characters (but not \') in sequence and quote names in the output tree." help="This tool is only available for fasta input only; FastTree will not be able to read these trees back in." />\n+ <conditional name="intree_selector">\n+ <param name="intree_format" type="select" label="Set starting tree(s)">\n+ <option value="none" selected="true">No starting trees</option>\n+ <option value="one">Use starting tree</option>\n+ </param>\n+ <when value="none">\n+ </when>\n+ <when value="one">\n+ <param format="nhx" name="start_tree" type="data" label="Newick file" />\n+ </when>\n+ </conditional>\n+ </when>\n+ <when value="phylip">\n+ <param format="phylip" name="input" type="data" label="PHYLIP file" />\n+ <param name="num" type="integer" value="1" optional="true" label="Number of multiple alignments" />\n+ <conditional name="intree_selector">\n+ <param name="intree_format" type="select" label="Set starting tree(s)">\n+ <option value="none" selected="true">No starting trees</option>\n+ <option value="one">One tree for multiple alignments</option>\n+ <option value="many">Multiple trees for multiple alignments</option>\n+ </param>\n+ <when value="none">\n+ </when>\n+ <when value="one">\n+ <param format="nhx" name="start_tree" type="data" multiple="false" label="Newick file" />\n+ </when>\n+ <when value="many">\n+ <param format="nhx" name="start_tree" type="data" label="Newick file" multiple="false" help="Th'..b'+ <outputs>\n+ <data name="output" format="nhx" label="${tool.name} on ${on_string}:tree.nhx" />\n+ <data name="log" format="txt" label="${tool.name} on ${on_string}:log_FastTree_run.txt">\n+ <filter>save_logfile</filter>\n+ </data>\n+ </outputs>\n+ <tests>\n+ <test>\n+ <param name="select_format" value="fasta" />\n+ <param name="model" value="" />\n+ <param name="input" value="aligned.fasta" />\n+ <param name="format" value="-nt" />\n+ <param name="save_logfile" value="true" />\n+ <output name="output" file="tree.nhx" ftype="nhx" lines_diff="2" />\n+ <output name="log" file="log.txt" ftype="txt" compare="contains" />\n+ </test>\n+ </tests>\n+ <help>\n+<![CDATA[\n+\n+===========\n+Description\n+===========\n+\n+.. class:: infomark\n+\n+FastTree_ infers approximately-maximum-likelihood phylogenetic trees from alignments of nucleotide or protein sequences. FastTree can handle alignments with up to a million of sequences in a reasonable amount of time and memory. For large alignments, FastTree is 100-1,000 times faster than PhyML 3.0 or RAxML 7. FastTree is open-source software.\n+\n+.. _FastTree: http://meta.microbesonline.org/fasttree\n+\n+-----\n+\n+-----\n+Input\n+-----\n+\n+A) Aligned sequences file in FASTA format (e.g. the alignment from the \'PyNAST\' tool) or PHYLIP format.\n+B) Newick file to set the starting tree(s) (optional)\n+\n+----------\n+Parameters\n+----------\n+\n+Nucleotide or protein alignment\n+ To specify the type of sequence alignment (nucleotide or protein) you are providing.\n+\n+Nucleotide evolution model\n+ Specify GTR+CAT (Generalized Time Reversable Model) or Jukes-Cantor + CAT.\n+\n+Protein evolution model\n+ Specify JTT (Jones-Taylor-Thornton 1992 model) + CAT, WAG (Whelan-And-Goldman 2001 model) + CAT, or LG (Le-Gascuel 2008 model) + CAT.\n+\n+Allow spaces and other restricted characters (but not \') in sequence and quote names in the output tree. (fasta only)\n+ FastTree will not be able to read these trees back in. (-quote)\n+\n+Number of multiple alignments (phylip only)\n+ (-n)\n+\n+-------------------\n+Advanced Parameters\n+-------------------\n+\n+Number of rates of sites\n+ Defaults to 20. Specify whether you wish to choose constant rates. (-cat/-nocat)\n+\n+Use Gamma20\n+ After optimizing the tree under the CAT approximation, rescale the lengths to optimize the Gamma20 likelihood. (-gamma)\n+\n+Eliminates the support value computation. Support value computation is not recommended for wide alignments.\n+ (-nosupport)\n+\n+Turn off maximum-likelihood.\n+ (-noml)\n+\n+Speed up the neighbor joining phase and reduce memory usage\n+ Recommended for >50,000 sequences. (-fastest)\n+\n+Use pseudocounts\n+ Recommended if you have many fragmentary sequences. (-pseudo)\n+\n+Optimize branch lengths without ML NNIs.\n+ (-mllen)\n+\n+------\n+Output\n+------\n+\n+This tool produces two output files, one of which is optional (the log file).\n+\n+(A) The phylogenetic tree in Newick_ format (nhx).\n+\n+(B) *(optional)* The log file, containing information of the FastTree run to build the phylogenetic tree.\n+\n+.. class:: infomark\n+\n+ The placement of the root is not biologically meaningful. The local support values are given as names for the internal nodes, and range from 0 to 1, not from 0 to 100 or 0 to 1,000. If all sequences are unique, then the tree will be fully resolved (the root will have three children and other internal nodes will have two children). If there are multiple sequences that are identical to each other, then there will be a multifurcation. Also, there are no support values for the parent nodes of redundant sequences.\n+\n+.. _Newick: http://en.wikipedia.org/wiki/Newick_format\n+\n+-----\n+\n+\n+=========\n+Resources\n+=========\n+\n+FastTree_v2.1.10_\n+\n+.. _FastTree_v2.1.10: http://meta.microbesonline.org/fasttree/#Install\n+]]>\n+ </help>\n+ <citations>\n+ <citation type="doi">10.1371/journal.pone.0009490</citation>\n+ </citations>\n+</tool>\n'

diff -r 000000000000 -r c7e73acfa3eb test-data/COG583.sim.p
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/COG583.sim.p Mon Feb 19 11:36:31 2018 -0500

b'@@ -0,0 +1,30007 @@\n+ 5000 296\n+N1864 LGLKRLKGLV AVADEGPFTR AEALVGLEAT AVLRKLNGLE QEGVLVLFKR\n+N3186 -----QALFL AVAGEGIFTR VAEVAGAADN ALQRWMKRKE EQLDARLWDR\n+N4906 LHLSDLTNYF WLAEDGALTR VAEFLFVAET AVFRSKLKKE VNLACRIL-K\n+N2282 LGLTKVLGFQ FLKAESMLVR VAEYLGEGNT AVFKSMKRKE LSLGCRL-RR\n+N2299 ----EVDGFV WIATYKFLTR VSELLGLADT QVFDLMTRKE KNLGTRLFKR\n+N4963 LRLAKLKGFA WLSNDSLLTR IASDVGVADT AIFKVQKRKQ KPLGKRPLMR\n+N437 -ALAQLTNYA WLANLGFLTR DALLLGGADT AVFKIIKSKE KSLGKREVKR\n+N292 TKLAQVHNYG LLENRGFLTR IAEFLGGADT AVFKIMISKE MNPGTMLKKR\n+N4203 TKLAQVHNVS LLTDRGFLTR VADFLGGADT AVFTIVDKKE MNQGSMLAKW\n+N1499 SKLAQVHNVS LLTDRGFLTR VADFLGGADV AVFTVMNKKE MNQGSMLAKW\n+N1505 SKLAQVHNVS LLTDRGFLTR VADFLGGADV AVFTVMKKKE MNQGSMLAKW\n+N4145 LKLAVLKNFS WLAAVSVLTR AVALYGAQDA AVFCTQDRKE SNLFTHVNKR\n+N708 LALGDLKGFV WLAKKSHLTR AAAFFNIGET AVFSTMKRQE RGVGSRLFSR\n+N3840 LLLGDLEAFF WLAKVGYVTR AATFIDEAET AVFSTMKRQE RNVGSRLFSR\n+N113 LLLGDLEAYP WLAKVDYVTR AATFIDEAET AVFSTKKRQE RNVGSRLFSR\n+N4796 LLLAQLNGFG WLANVSFLTR AAEFFNVAET AVFSTMQVQE RNVASRRFSR\n+N4067 VLLASLKGFG WLANHGFLTR NACFFNVAET AVFNAMKRQE RNVGARLFSR\n+N4701 LLLAILKGFL WLVDSVTLTR VPPWYSLNDS AVFHTMKRRN LQLGRRLFKR\n+N3795 LKLAELKGFI WVAKKDALTR LPCLFGLANT AVFKELKRKE TSLGTRLFRR\n+N4327 LKLAELRGFI WVAKVDSLTR IPCLFGLADT AVFKDLVRKE SSLGTCLYRR\n+N591 LKLAELKGFI WVAKVDSLTR IPCLFGLADT AVFKDLIRKE ASLGTCLYRR\n+N3383 LKLAELKGFI WVAKVDSLTR IPCLFGLADT AVFKDLIRKE ASLETCLYRR\n+N1355 LKLADMRGFI WAANINTLTR IAPNFGLADT AVFKNLKRKE SSLETRLFRR\n+N172 LKLADMRGFI WAANINTLTR IAPVFGLADT AVFKDLKRKE SSLETRLFRR\n+N777 ---------- -FAAASHLTH VTPPYGISDS PVYSNMKRKE RNLGTQLYQR\n+N508 LRMSEVKGFG WRADTGKLTR VGAYYGVADT AVFKKKERQE EQLGTKLFER\n+N4547 ----DVQDFV WLANAGSLTR LAQSYGLAGT AVFRTTNKKD SDLGTRLFKS\n+N5 LTLAELPGFI WFANTGLLTR IAAPFAMSET AVFKTMKRKE KNLGNHTVDK\n+N4297 MQLSELKGLA WLASTGTLTR MAAKFGIADT AAFLTMHRNE KNLGSRTLRR\n+N2285 -KLAQLLGFV WLGNESFLDR VAEFYGIGDT AVFKTMERKE KKLGERLYAR\n+N169 LKLAELRAFC RLAGEGFLNR ISAIWGVTDT AVFKTMKRKE TSLPPRLFKR\n+N2806 ----AQSGFD WLADATYLTQ VAESISVADK AIYKKMRRKE KGLTSRCFKR\n+N1420 LKLSPLKGFG WNVSPRFLTQ VNLPIGKTDT AVYHTLTKKE KGALSRLATR\n+N3884 ----SLEGYG WLENARFLTQ VGEPIGPADT AVYKNMKRKE KGLLSRLSKR\n+N3226 LKLAGLQGYN WLAIEGMLNP VGEFLGLADS VAYKAMKPAE KGLAVRLYNR\n+N1664 VKLAPLKGFA FLANEGFLTR VAEFLGLADT AAYREMKRAE KGLA-RLFKH\n+N976 LHLMPVRAFG GHAKPLKLTR EAQFLGFAAT AIFKEAKIKE TGLNARL-LR\n+N2350 ----HLKGFG GMISDGFLTR VAEYFGGADH AVFKALKRKE TGLGARLYDR\n+N2935 LDMSELKGFV NVADVEFLTR VAQYLGLAGT AVVLKMKRKA QNLGSRLFNR\n+N4993 LNLKELKGFV CLAEVGFLAR VGQVVGLADT DVFKNVKRHE QLLGCQFFNR\n+N322 LRLSELKGFL GLDNGRFLTR VAIHGGLADT AVFKKLRRKE ENLGCRLFDR\n+N558 -GLVELKGFA GLTGESFLTR VAEFLGLANS AVFKKMARKE QNLGCRLFDR\n+N2674 LGLSELGGFC GLTDEPSLTR VAEYLGLANT AVFKNMKRKE QNKGCRLFER\n+N1460 LGLSELKGFC SLTDESFLTR VAEFLGLANT AVFKKMKRKE QGKGCRLFER\n+N1192 LGLSELKGFC VLKDGSFLTR ITDFLGMANT AVFNKMKRKE QNKGCRLLDR\n+N4762 LGLSELKGFC GLKDGSFLTR VADFLGMANT AVFKKMQRKE QNKGCRLLER\n+N1211 GGLNPLDGFA TFQSDAYLTR VAEPLGLSDT ETFKKLRRKG QKLNCRLYGR\n+N725 ---------- ---------- ---------- ---------- ----------\n+N2412 LSLSQLHGFA TLPEGSLLTR VAEPLGLGET ATFKKLKRKE LKMGCRLFAR\n+N2267 LDLSPVRGNI GVSNEGYLTR VAEDIALADT GVFEKPRRLE HKLSCRLWIR\n+N3643 VILDELKGFC PLSDEGYLTR LGEELGLADT AVFDKMKRKE QKLGSKLFSR\n+N3420 LSLDELKGFC PLSEEAYLTR VAEELGLADT AVFDKMTRKE QKLGSKLITR\n+N4862 LSLEELKGFC PLSEEAYLTR VLEELGLADT AVFDKMTRKE QKLQSKLITR\n+N2934 LSLDELKGFC PLSEEAYLTR VLEELGLADT AVFDKMTRKE QKLGSKLITR\n+N162 -----YTGFL PVATANRFTR ASAVPGLAQT ASDKGLARLE DELGVRTFER\n+N3242 ---KEATSFV VVGVPLLFTR SGERLGLANY AVKSQLGRLE SSLGLRAFGR\n+N672 ---NHIASMV DVKSEGAFNC ASVDIGLGEN ETTRQLDYLE SALGSHLFDR\n+N4436 --LKNLRAFK FVAAQKEFTR QNGTLSVAQA AVGKERKRLP EELATRPIER\n+N334 ---RHLTGFH PVPTNHGFTS SVEPIGLAPN AVSRQMKRGD LQLTVPRFQR\n+N982 ---'..b'--------- ---------- ------\n+ QLIVIPSPEP INAQRAVLSY SRVHKLDHAV CDFIIFLRER LQAVVA\n+ HLIVIPVPEP TAAQRSVLSY ARVHKLDPAL CDFIQFLRER LQAVVA\n+ -LLILPGPTP VETRALYLAY PRRRTNNSAR CTFTDFLRED LAALLA\n+ RL-VLPLPSQ ADARGLYLIK PRKRRLSDST CTFIDFLRDD LADLLA\n+ RLPVTSLKSL GEARSVYLVY GRQRTLSPAV TTFPDFLRE- ------\n+ RFDVLPLPQT EPGRPLYLIY PRIRPLSPAV CIYIDFLREQ LA----\n+ KLNVLPLPQP EPERNLYIIY PRSIRLAHAS CVFLDFLRED LATLVA\n+ KLTIMPLPEP L-STPLCLIY PREKKLSTAM CALIHFLRE- ------\n+ RPPVLPFLEP CPQRPLYLVY PRRRRLASAI KLYIEFLRDE LAALH-\n+ NVPAVQLNDP SPERPPYLIY PRARRLANNM IAFIEFARED LAA---\n+ NVPAVQLNDP SPEAPPYLIY PRARGLAANM IPFIEFAREE LA----\n+ ALPVYPT--- GPARPLYVVY SRLPKLSPAV CALIDFLSEN LAAL--\n+ ALVTLP---T AHVKRLYITY RRAPWLAKAM CAVIEFLREN LAAFAP\n+ ALGILPVPEP ---NGLYVVY SKLPRLSAAF CTPISFLRED LAALGP\n+ ALVIQPT--- SPAQPLYSVY GRLPQLSAAV CTKVDFLREE L-----\n+ ALVILPS--- NPPPPLYVAY SRLLRLSSAV CTRIKFPK-- ------\n+ -TNVLPLPHS PAAAQFYAVG PKNHPLEPAI SDSFRFLSEG LAALIG\n+ KLLV----EP LPARQLYLVY PQLRKVSAAV CTFSDFLRDN ------\n+ RLIVLP---P SLARPLYSVY PRDRRLQAYV CILIDFLRDE LAALA-\n+ RLIVL---EP SEAKPVYEVY PRNRRLTSAS CTVID----- ------\n+ -LGVPPH-DT DVAKHLYLVF ARPQQLSAAV VYGINFLKEE LAA---\n+ RVEVL---EF DVSKPLYLVY ARARRT-PAV CYLISFLRQD LAS---\n+ -LEVMPLATQ APTGPLYLVY PRSRQLGPDV CTSIRFIREV LTALAS\n+ KRTVLPLPAL PR-QRLYLVY PRFRNLSPAA VRGINFLRE- ------\n+ KLELLPL-AH DRARPLYLAY PRRRRLSSAS CIFIDFLRET LASLTA\n+ RLPLLPL-AP DKAITLYLVY PRGRRLSGTV CEFIDFLRES LAALTA\n+ RLYVEPAP-- SMSASIYLVY PKKKGLLDAL CPMVEFIR-- ------\n+ RLIVAPVPNH -IATGLYKIY PRRKDFMEAV CVLINFLKDS LAE---\n+ RVMVGP-PNQ PVATSLYKIY PRKKALMEAV CALINFLRDS LANTGA\n+ RVMVGP-PNQ PVATSLYKIY PRKKALMEAV CALINFLR-- ------\n+ RLPVSP-PNQ PVATPIYKIY PRKKALMEAV CGLVNFLR-- ------\n+ RLIVGP-PNQ PVATPIYQRY PRKKALMEAV CGLVNFLRDS LANNGT\n+ RLIVGPVPNQ -VATPIYKIL PRKKALMEAV CGLVNFLRDS LANNG-\n+ RLIVVPGPSP PAPS-IYMVY WRAKGLSEAT RSL------- ------\n+ RLKIVPVPSS PMPAPVYLVY EHRESLSQAV CALISFLR-- ------\n+ KVIISP-PSP PMPSPVYYVF QHKQSLGAAI CALIKFMR-- ------\n+ KLIIVPTPSL PMPSPVYLVY ENRQSLGEAV CALIKFLR-- ------\n+ RLIIVPVPSP PMPSPVYMLY EHNKTLKEAV CKLINFLRSA LADLTA\n+ RLQITPVASP PMPSAVYLLY EHQKSTSEAV CALINFLRNS LAD---\n+ LTGIPP---C PPAQQLYLAF SHHRKLRLAV KAFLTFLKQ- ------\n+ RLLIMPKPER HAP--QYGSY PRRR-LTSAI RVFAKFLKDP LSALNA\n+ RK-VADMPEV SLPRPLYGSY AWDRHLSPAV RSFVQFLREV ------\n+ RLT---ICAN RPEKPLYIPY ERKTRQRPAK RALVEFLRE- ------\n+ KVLVL---DM PVPRCFYLTF PMTKTLIPAV RALVQFLWEE LAA---\n+ AVAVLA---N PTPRHLYTVL ARRRKLSSAG RSYLGFLKEN LATG--\n+ REVVLALPET PQ-QPLYLVL AKHRNLSPAS RAYLDFLKDA LAA---\n+ RGMVMA---K PAPRPLYLVL ARARELSPAL HAFLDFLKEA LAAGCA\n+ HVAVMALPES -EVRPLYLVY GKRRDLCAAG RAFLAFLKAG LAEGCA\n+ RVVVLAL-EG PEPRPLYLVY ARPRSMTPPL RAFLAFLNEA LAA---\n+ TSVVL---AE PPPRPLYLVY PR--TLSGAV RDLRQFLPEA LAVLS-\n+ RLVVLSVPED ---RPLYLTY PRPKTASPAV KAYKEFLREA L-----\n+ RLKILSV-EE PTPRALYIVY PRS------- ---------- ------\n+ KLAVL---EA PPPKGLYTIY PRAKKLSPAV RPVIDFLREA LAA---\n+ AV--LSEPEK PAPRPLYVVY PRAKRLAMAL RSFIEFLREC VAE---\n+ AVD--SEADT ATPRPLYLVY PRAKRLSLAL KAFIGFLRD- ------\n+ AVE--SETDP VQPRPLYLVY PRAKRLSLAL KAFIDFLRDC LPE---\n+ ILGGHVEPKK PPPRNLYLVL NKKKSLGPAT AATIVIFREE LATRTA\n+ QLPVLSVQDC ARPKALY--- ---------- ---------- ------\n+ ELNVAS---C ARPKPLYLIS P--------- ---------- ------\n+ QLSVLS---C AREKPLYLIS P--------- ---------- ------\n+ -LVILSFAQT -TARPLCLVY ARQRRLATAV RALVAFLRQA LAALRA\n+ RLLLLS---P PQPAFLYLIY PQNRTLEPAY RAFIYFLRE- ------\n+ RLVLLS---P AGVPFIYLIY PQHRRLAPAF KAFIAFLR-- ------\n+\n'

diff -r 000000000000 -r c7e73acfa3eb test-data/COG583.sim.trim.tree
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/COG583.sim.trim.tree Mon Feb 19 11:36:31 2018 -0500

b'@@ -0,0 +1,1 @@\n+((((N4050:0.39010,((N2242:0.18038,N4747:0.19476)0.575:0.01522,(N3968:0.16791,(N3980:0.18948,N3981:0.14852)0.864:0.04066)0.849:0.02764)1.000:0.10165)0.529:0.01438,(N1096:0.39562,(N2224:0.26020,((N999:0.00400,N1401:0.02175)1.000:0.11085,(N1753:0.07425,(N1776:0.05745,N4720:0.04191)0.971:0.02116)0.865:0.01992)1.000:0.11661)1.000:0.15569)0.708:0.02579)1.000:0.50840,((N2168:1.07875,(N3162:0.05970,N3398:0.12435)1.000:0.67018)0.792:0.12703,(N2204:0.85097,(((((N1677:0.53481,(N73:0.55359,N1892:0.51695)0.803:0.06091)1.000:0.18885,((N4398:0.44556,N4584:0.50148)1.000:0.18814,(N969:0.44316,(N1083:0.40513,(N2677:0.06238,N2794:0.05812)1.000:0.35261)0.886:0.06412)0.755:0.04747)0.940:0.05799)0.763:0.02784,((N4034:0.45832,N4272:0.47537)1.000:0.15767,((N233:0.30991,N2040:0.26505)1.000:0.27443,((N2881:0.59567,N3389:0.65316)0.718:0.05175,(N4631:0.50162,(N2416:0.43714,(N80:0.34024,(N1621:0.27318,N2424:0.36263)0.963:0.13032)0.761:0.04654)0.597:0.02830)1.000:0.17600)0.504:0.01715)0.748:0.04476)0.559:0.01177)0.945:0.04202,((N1840:0.08667,N2855:0.06739)1.000:0.60070,(N3495:0.55331,(N2731:0.47169,N3836:0.81789)0.835:0.09429)0.765:0.05571)0.482:0.00999)0.617:0.02441,((N4099:0.59700,N1908:0.78601)0.484:0.07010,(N2853:0.35781,N3297:0.31193)1.000:0.22390)0.765:0.04002)0.589:0.02413)0.567:0.02762)0.457:0.01102)0.847:0.03726,(((N1636:0.62702,(N539:0.23647,N2854:0.22588)1.000:0.45432)0.972:0.10999,((N608:0.80225,(N3939:0.09358,(N987:0.04868,N873:0.13261)0.656:0.03093)1.000:0.46835)0.929:0.08433,((N1039:0.43921,(N1390:0.16867,N4121:0.21901)1.000:0.18943)1.000:0.36343,((N3804:0.53474,N4548:0.41119)0.978:0.07990,((N1263:0.36386,N3705:0.44791)0.941:0.06832,(N3602:0.58399,((N183:0.27821,N2124:0.23909)0.835:0.03662,(N4333:0.32010,(N1219:0.24958,N4289:0.32726)0.929:0.05689)0.634:0.02579)1.000:0.33258)0.621:0.03310)0.953:0.07816)0.687:0.02720)0.672:0.03067)0.540:0.01753)0.717:0.02202,(((N1488:0.85702,N2076:0.63531)0.643:0.09416,N1597:0.79422)0.671:0.05591,N340:0.73091)0.760:0.06214)0.924:0.03522,((((((((N989:0.11383,(N2629:0.25909,N3552:0.12302)0.849:0.04229)1.000:0.15176,(N942:0.17585,(N71:0.20512,(N4846:0.22218,((N570:0.02757,N3688:0.06282)1.000:0.05889,(N1332:0.04422,((N710:0.06344,N1229:0.02781)0.841:0.02310,N4703:0.03922)0.908:0.01585)1.000:0.04387)0.707:0.01454)0.700:0.03318)0.888:0.03817)1.000:0.12229)0.846:0.06062,(N218:0.75295,(N4008:0.71003,(N3923:0.44787,N4111:0.47722)0.827:0.08801)0.534:0.04248)1.000:0.38749)1.000:0.30828,((((N2664:0.81438,(N3007:0.50844,N3142:0.50273)0.964:0.12073)0.855:0.05853,((N4416:0.76888,(N150:0.56890,N721:0.44770)0.688:0.06598)0.647:0.03101,((N4633:0.39512,(N3838:0.22558,N3846:0.37367)0.884:0.06593)1.000:0.27568,((N4528:-0.11122,(N754:0.06946,N2914:0.23695)0.926:0.11738)1.000:0.58571,(N1825:0.18088,N3327:0.26760)1.000:0.62989)0.896:0.11397)0.784:0.04587)0.834:0.03691)0.876:0.04173,(N3802:0.88161,N4900:0.66260)0.657:0.04624)0.582:0.01313,(((N1062:0.34218,(N48:0.30296,N4635:0.22430)0.962:0.08090)1.000:0.41606,(N2131:0.75181,(N308:0.65727,N1066:0.63645)0.826:0.08830)0.647:0.03995)0.812:0.04890,(((((N1394:0.56959,N4687:0.58951)0.851:0.06575,((N3343:0.22192,(N470:0.04924,(N998:0.03896,N3588:0.03818)0.996:0.05813)1.000:0.13072)1.000:0.36831,(N3752:0.67093,(N389:0.38550,(N2311:0.11896,(N1780:0.10819,N4898:0.08302)0.803:0.03271)1.000:0.17693)1.000:0.18971)0.409:0.01394)1.000:0.23381)0.667:0.02322,((N870:0.43795,N3508:0.31182)1.000:0.27842,(N502:0.57603,N1565:0.58058)0.588:0.03416)0.692:0.02274)0.829:0.03020,(((N165:0.44281,(N306:0.38868,N4311:0.26399)0.996:0.13922)1.000:0.14575,((N1800:0.55983,N3692:0.71103)0.786:0.08235,(N4739:0.73174,N4861:0.81856)0.733:0.05418)0.611:0.03592)0.438:0.00609,(((N2603:-0.01387,N3121:0.04137)1.000:0.18986,(N4341:0.17970,N3034:0.33156)0.599:0.02953)1.000:0.36626,(N1821:0.58991,(N2383:0.27153,(N343:0.00730,N804:0.01291)0.999:0.29075)1.000:0.27250)0.936:0.09409)0.674:0.03268)0.724:0.02186)0.858:0.01536,((N1760:0.71257,N4939:0.53397)0.868:0.05924,(((((N1016:0.77484,(N2201:0.56438,(N2429:0.09352,('..b':0.03083,(N3816:0.37449,(N2238:0.29719,(N2480:0.06220,N3750:0.05962)1.000:0.31341)1.000:0.16940)1.000:0.15237)1.000:0.16446,(N1691:0.53145,((N1246:0.13304,N2135:0.15169)1.000:0.33160,(((N452:0.28608,N885:0.30035)0.816:0.04167,((N2710:0.01915,(N3856:0.08122,N3832:0.02331)0.495:0.00465)1.000:0.19375,N640:0.31344)0.613:0.01274)0.913:0.03669,((((((N4319:0.07250,(N2713:0.04515,N2970:0.01984)0.606:0.00609)0.948:0.02561,(N631:0.06796,N947:0.04911)0.572:0.00793)1.000:0.10257,((N1295:0.15728,(N1577:0.01847,N2766:0.01879)1.000:0.12368)1.000:0.10371,N3711:0.39711)0.905:0.03457)0.947:0.04061,(N3982:0.21810,(N1244:0.16367,N1773:0.21247)0.524:0.01137)0.998:0.05059)0.999:0.07534,(N4948:0.30417,(N494:0.28363,N1611:0.31194)0.929:0.04777)0.981:0.05407)0.762:0.02454,(N624:0.34262,N4471:0.35323)0.972:0.05412)0.985:0.04680)0.951:0.05370)0.809:0.03456)0.999:0.08475)0.579:0.01051)0.580:0.00736)0.737:0.01380,(((N1649:0.63514,(N2541:0.50534,N4015:0.62200)0.722:0.06480)0.564:0.02029,(N4331:0.77432,(((N2133:0.32213,N3726:0.32056)1.000:0.21307,(N3822:0.30991,N4132:0.33341)1.000:0.14270)0.991:0.12639,(N2663:0.48252,(N1004:0.49021,N2644:0.39168)0.666:0.05440)0.996:0.11372)0.992:0.12862)0.577:0.02412)0.917:0.05047,(N3810:0.72191,((N702:0.62517,N3319:0.68242)0.976:0.13667,(N3956:0.54635,(N335:-0.00804,N4640:0.05563)1.000:0.61229)0.992:0.15477)0.427:0.01288)0.612:0.04105)0.906:0.02931)0.644:0.01410)0.693:0.02138,(N3272:0.74589,((N4267:0.64327,(((N1877:0.23113,N4662:0.29399)1.000:0.39835,(N3439:0.40343,((N2325:0.02456,N4582:0.01510)1.000:0.46272,(N95:0.27692,N3031:0.47824)0.993:0.11113)0.888:0.05894)0.758:0.03750)0.834:0.04561,((((N1722:0.61372,(N1202:0.15239,N1634:0.19398)1.000:0.32898)0.593:0.03061,(N1251:0.54470,(N4807:0.21749,N4895:0.12852)0.894:0.06620)1.000:0.34809)0.753:0.02827,((N994:0.01930,N1511:0.05259)1.000:0.49868,(N3885:0.31249,(N4002:0.26866,N4864:0.15981)1.000:0.37624)1.000:0.16112)0.684:0.03298)0.821:0.02768,(N4374:0.69992,(N1304:0.56203,(N557:0.25557,N3990:0.24591)1.000:0.18843)0.913:0.10475)0.457:0.01128)0.933:0.04775)0.894:0.04419)0.522:0.02126,(((((((((N266:0.35001,N2723:0.35595)0.967:0.07509,N4671:0.51196)0.502:0.01205,(N2105:0.37849,((N3245:0.08843,(N89:0.06571,N1201:0.04010)0.993:0.04674)0.999:0.10097,(N4163:0.11758,(N2521:0.00536,N2965:-0.00013)0.852:0.11659)0.996:0.09141)1.000:0.17036)0.449:0.00754)0.786:0.03494,(N2611:0.48560,N4946:0.36321)0.573:0.04431)0.999:0.12489,N4765:0.78683)0.908:0.04457,(((N985:0.46820,(N805:0.06870,N1690:0.10073)1.000:0.30955)0.991:0.09180,(N3541:0.35298,N4096:0.51417)0.826:0.04281)0.910:0.03650,(((N2017:0.53171,(N4004:0.54936,N4206:0.55054)0.647:0.03216)0.428:0.00708,(N4312:0.44305,(N1846:0.07742,N4330:0.09077)1.000:0.37486)0.946:0.06482)0.725:0.02708,(N3799:0.61727,((N3864:0.05432,N4337:0.04702)1.000:0.36755,(N1824:0.45288,N3608:0.42891)0.962:0.08571)0.689:0.04676)0.707:0.02749)0.785:0.02663)0.508:0.00861)0.713:0.02223,(N2568:0.60924,(N3402:0.25547,(N1197:0.30422,N4391:0.17786)0.974:0.10205)1.000:0.29548)0.991:0.08951)0.805:0.02253,((N2387:0.70501,(((N467:0.62337,(((N3561:0.27653,N4288:0.50609)1.000:0.17956,(N103:0.42371,(N825:0.55525,N1109:0.38687)1.000:0.21410)0.506:0.01915)0.999:0.12291,((N764:0.41367,N3853:0.23866)1.000:0.41951,(N2414:0.34396,N3775:0.27523)1.000:0.27943)0.693:0.04005)0.819:0.04309)0.732:0.04757,(N1763:0.49112,N2651:0.58099)0.994:0.13402)0.609:0.02197,(N369:0.70644,(N2779:0.02223,N3234:0.00295)1.000:0.68579)0.541:0.02897)0.612:0.02854)0.487:0.01229,(N3629:0.78834,(N1850:0.45602,(N1370:0.54429,N2726:0.49109)0.984:0.10792)0.695:0.07476)0.765:0.03535)0.561:0.00997)0.435:0.00540,(N1684:0.71348,((((N3016:0.06860,(N2178:0.00523,N3489:0.06506)0.996:0.08310)1.000:0.28300,(N2456:0.30096,(N3178:0.48288,N3349:0.20824)0.613:0.03627)0.998:0.09282)0.555:0.01812,(N2442:0.24323,N4345:0.19167)1.000:0.08772)0.518:0.01247,(N193:0.08317,(N4535:0.06573,N4843:0.05500)0.895:0.02928)1.000:0.26129)1.000:0.29348)0.732:0.04874)0.895:0.04265)1.000:0.15123)0.597:0.03289)0.876:0.02559)0.864:0.01720)0.580:0.01264);\n'

diff -r 000000000000 -r c7e73acfa3eb test-data/aligned.fasta
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/aligned.fasta Mon Feb 19 11:36:31 2018 -0500

b'@@ -0,0 +1,1066 @@\n+>248442;size=4; 15..1500\n+---------------------------------------------------------------------------------------------------------------------------------GCTC-AG-AT-TGAA-C-GC--TGG-C--G-GC-A-GG--C----C-T--AACACA-T-GC-A-AGT-CGA-G-CGC----------------G-A------------------------------AA-T-CT----------------------------------------------------CCTTC---------------------------------------------------------------------------------GGGA-GT--------------------GA--G--TA--G--AG-C-GG-C-GG-A--C-------------GGG-TGAGT-A--AC-GC-G-T-A-GG---A-A--T-CT-A--C-C-CAG--TG-G------------------------------------------------------------------T-GG----GGG-AC-AA-CCT-------------------------G-G-G-----------------------GAA-A---CCC-AGG-CTAA-TA---CC-G--C-AT-A----------C--------------------G-------------------------------------CC------------------------------------------------------------------------------------------------------------------------CT-AC-G--------------------------------------------------------------------------------------------------------------------------------------G-G-G---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GAAA--G-C-G-GG-----G--GC-T--C-----------------------------------------------------------------------------------------------------------------TCTTCGGA----------------------------------------------------------------------------------------------------------------------G-A--CC-TC--G---C-G--------------C----C-A---T-TG-G---AT---G-A-----G-CCT-GCG--T-TGG--A------TT--A--G-CT-A----G---TTGG-T-G-GG-G-T----AAA-GG-C-C-T-ACCA--A-GG-C-G--A-CG-A------------TCC-A-T------AG-CT-G-G-TCT-G-AG----A--GG-AC--G-AT-C-AG-CCAC-A-CTGGG--A-C-TG-A-GA-C-AC-G-G-CCCAGA-CTCC-TAC-G--G-G-A-G-GC-A-GC-A-G-TG---GG-G-A-ATA-TTGCG-C-AA-T-GG--GG-GA-A----A-C-CC-T-GA-CG-CA-GCCA-TGCC-G-CG-T---G-T-G--T--GA-A-G--A--A-G-G-CT-----CT-AG---------G-G-T-T-G-T--A---AA-G-CAC--------TT-TC-A-G--T-AGG----GA-G--A---AA-AAGC---TCAT-GT----T--T--AA-T---A----G-----AT-G-TGA-GTG-TT-GA-TG-TT-A-C-CT-A-CA-G---------AA-----------GAAGC-ACC-GG-C-TAA---C--T-CCGT--GCCA--G-C---A--GCCG---C-GG--TA-AT--AC---GG-AG-GGT-GCA-A-G-CG-TTAA-T-CGG-AA-TT-A--C-T--GGGC-GTA----AA-GCGC-GC--G-TA-G-G-C-G------------G--T-TT-G-T-T-AA----G-T-C-G---G-ATG-TG-A-AA-GC--CC-CGG-G--------------------------------------------------------------------CT-C-AA-------------------------------------------------------------------------CC-T-G-GG-AA-T----T-G-C-A-T-T--------C--GA-T-A-C-T-G-ATC--G-A-C---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------T-A-G-A-G-T-A-----C-GA--GA-G-A------------G-GG-A-GG-T----AG--AATT-CCA-C-GT--GT-A-GCG-GTGAAA-TG-CGT-AGAT-A-TG-T-GGA--GG-A-AT-A-CC-GG--T--G--GC-GAA-G--G-C---G----G--C-C-TCCTG------G-CT-CG-----------------------------------------------'..b'-------------------------------------T-TG--A-G-G-A-----T-GC--GA-G-A------------G-GA-A-AG-C----GG--AACT-CAT-A-GT--GT-A-GCG-GTGAAA-TG-CGT-TGAT-A-TT-A-TGG--GG-A-AC-A-CC-AA--A--T--GC-GAA-G--G-C---A----G--C-T-TTCTG------G-AG-CA---------------------------------------------------------------T-C-C-T--GA--CA-----CT-GA-AA--C-A-CGA--AA-G-C--------------G-TGGG-TAG-C-G-AACG--GG-ATTA-G-ATA-C-----CC-C-G-GTA-G-T----C-CA--C-G-CCC-T-AAA--CG-ATG-AT--CA-CT---------A-GC--T--A-T-TC-G-GA-G----------------------------------------------------------------------------------------TATC-GA-C--------------------------------------------------------------------------------------------------------------------------------------------------C-T-CC--A-A-G-T-GG-C------GT--A----GC-TAA--CG-C-G-T--T--AA-GT--G----A-TCC-GCC-T-G-GG-TAG-TA---CGG-----C-C--G-C-A-A-GGC-T--AAA-ACTC-AAA---------GGAA-TAG-ACGGG-G-A-CTTG----C-A--C-A-A-GCG-GA-G--G--AA-CA-T--GT-GGT-TC-AATT-C-G-ATG-GTAA-A-CGAA-A--A-A-CC-TT-A-CC-AGGGT-TG-G-AA-A-T--------------C-AGT-T-G-----------A-G-A--T-A-G--GC--A-GA---A-A--C-G-T--C-T-A-------------T-------------------------------------G--CC-----------------------------------------GCAAG-----G-------CA-ATT---A--GA---------------------------------------------------C-A-G-G-T-GCTG-CA-TGG-TC--GTC-GTC-A-GT-TC---G-TG-GC-T--TGA-GT-TGT-T-CC-C-TT-CA-GT-GGGGT-AA--------C-GAA-CGC-A-ACC-C-C-CG--TT--G-CCTG--G-T-A---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TAA---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------G-T--AT---------------C-A-G-G-C-GA-G--AC-T-G-CCC-AG-G------------------------------------T-T---AA-----------------------------------C-T-G-G--G-A-GG-A--AGG-T--GGGG-A-TGAC-GCC--AGAT-C---AGC-A-T-G-G-C-C---CTT--AT-A--CC-T-G-GG-CC-TA-CAC-ACGTG-T--TA--CAATG---G-CCGA-C-T--C-A-C-GC-G--------------------------------------------------------------------------------------------------AG-G-C-G-A--A-GAGG-A--A---------------------------------------A-CT-C-G-----------G--A-G-CA---A----------A--TCG--------T---AAAAAGTC-G-G-C-C-AAG-TTC--------GGA-T-TGAGG-GC--T-GCAA-C-TC-------------------------------------------------------------------------------------------------G-CCCTC-A-T-G-AA-G-CG-GGATT-CG-C-TA--G-TA-AT-C-G-C----AGA-TC-A-G-C-------AT--GCT-GC-G-GT-G-AAT-ACGT-T-CTCAAGTCT-TGTA----CTCACCG-CCC-GTC-----A---AC--TCA-AG-GG-A--G---CTG-G-GA-AT-ACC--C-GAA------G--T-CGC-C--C-------------------------------------------------------------------------TT---------------------------------------------------------------------------------------------------------------------------GG-GCG--CC-TAAG-G----T-AAG-CT-CAG------------------------TG--ACA-GGGA-GT-AAG-TCGTAACAA-GGTAA-CC----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------\n'

diff -r 000000000000 -r c7e73acfa3eb test-data/log.txt
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/log.txt Mon Feb 19 11:36:31 2018 -0500

@@ -0,0 +1,1 @@
+FastTree Version 2.1.10 Double precision (No SSE3)

diff -r 000000000000 -r c7e73acfa3eb test-data/tree.nhx
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/tree.nhx Mon Feb 19 11:36:31 2018 -0500

b'@@ -0,0 +1,1 @@\n+((((263657;size=1;:0.121150419,((348804;size=1;:0.125014346,(341895;size=1;:0.080643386,(269360;size=1;:0.067138988,269531;size=1;:0.086232564)0.751:0.013544252)0.994:0.033264549)0.944:0.017266792,(171277;size=1;:0.101786423,(15688;size=1;:0.119751842,160460;size=1;:0.094260380)0.995:0.046523687)0.996:0.036811411)0.639:0.015783869)0.986:0.023759680,(95342;size=1;:0.166091541,(((((91747;size=3;:0.009624887,((337987;size=1;:0.023256205,166245;size=1;:0.004994167)0.987:0.008529968,231184;size=1;:0.013630101)0.467:0.005071393)0.444:0.007686837,229881;size=1;:0.011345393)1.000:0.048581533,(356043;size=1;:0.065246120,267328;size=1;:0.065432428)0.837:0.022110103)0.000:0.011954471,(((248338;size=1;:0.014439617,141383;size=1;:0.018106666)1.000:0.028707479,((231850;size=1;:0.012853574,310372;size=1;:0.026514977)1.000:0.046489225,232752;size=1;:0.074154700)0.743:0.013004325)0.938:0.020824258,(307432;size=1;:0.020421771,(25212;size=1;:0.028690242,(256833;size=1;:0.016220199,354744;size=1;:0.012190923)1.000:0.021863349)0.792:0.014390529)1.000:0.163612717)0.944:0.020036210)1.000:0.064318852,(278744;size=1;:0.008322276,221107;size=1;:0.019505033)1.000:0.102072411)0.741:0.028962029)0.927:0.019260915)0.930:0.014216480,(((((191371;size=1;:0.010182713,173203;size=1;:0.018577252)0.269:0.008700668,(133741;size=1;:0.014577975,134559;size=1;:0.016970719)0.958:0.024949536)1.000:0.164186752,(224048;size=1;:0.129427652,(88595;size=1;:0.064571528,106662;size=1;:0.096932021)0.924:0.020638026)0.883:0.023940556)0.951:0.023925796,((277906;size=1;:0.107622871,((((263894;size=1;:0.030882747,140313;size=1;:0.019342479)0.000:0.004956024,(253662;size=1;:0.027748716,314015;size=1;:0.070401558)0.768:0.008426635)1.000:0.045350067,(262657;size=1;:0.019722637,136056;size=1;:0.037123632)0.509:0.005560106)0.996:0.027601875,((139517;size=1;:0.019102231,(62487;size=1;:0.009820332,253625;size=1;:0.023588964)0.535:0.004062512)0.893:0.005283978,277668;size=1;:0.011131976)0.983:0.019161972)0.988:0.029399849)1.000:0.077741961,(140658;size=1;:0.109915244,((235527;size=1;:0.132211538,(209483;size=1;:0.121844245,264676;size=1;:0.086732054)0.978:0.035197983)0.999:0.045955884,((262076;size=1;:0.068858904,339770;size=1;:0.091224662)1.000:0.074012019,((337142;size=1;:0.062411981,((((139749;size=1;:0.024372651,323599;size=1;:0.024949070)0.999:0.049987862,317507;size=1;:0.126188654)0.713:0.022087741,318573;size=1;:0.060420398)0.184:0.006352750,(333864;size=1;:0.073831888,349531;size=1;:0.092779445)1.000:0.046840426)0.770:0.015388394)0.982:0.027364079,((314149;size=1;:0.043489898,((340010;size=1;:0.013255692,329288;size=1;:0.017929763)0.999:0.027069589,(330125;size=1;:0.053315126,(167066;size=1;:0.029702498,311879;size=1;:0.031219814)0.373:0.012638523)0.484:0.008037104)0.829:0.021702899)1.000:0.098802118,(((254309;size=1;:0.106108043,((((((338270;size=1;:0.070489455,((154768;size=1;:0.028034318,(230495;size=1;:0.029387507,341790;size=1;:0.020609781)0.980:0.010246684)1.000:0.029755865,(256063;size=1;:0.037735503,(((314108;size=1;:0.030222702,241380;size=1;:0.025651369)0.569:0.005301753,(343781;size=1;:0.040158506,230711;size=1;:0.020215829)0.966:0.009822373)0.984:0.013716166,((233192;size=1;:0.022424854,(185866;size=1;:0.014729995,(254829;size=1;:0.006768383,234255;size=1;:0.021576482)0.993:0.013503444)0.999:0.018420681)0.998:0.024588958,227670;size=1;:0.023495641)0.573:0.013556378)0.999:0.022896489)0.100:0.007406295)0.980:0.012670871)0.550:0.004208258,((100807;size=1;:0.033987048,((252158;size=1;:0.015420341,108689;size=1;:0.044729243)0.006:0.004193001,212421;size=1;:0.031925866)0.898:0.007935307)0.561:0.007835687,324039;size=1;:0.030484621)0.999:0.014131238)0.831:0.004743942,(323610;size=1;:0.048261236,(348807;size=1;:0.051059674,362663;size=1;:0.077713697)0.301:0.008779354)0.961:0.013603006)0.977:0.013735463,(226145;size=1;:0.018107469,(345726;size=1;:0.016331464,(329380;size=1;:0.017609717,355611;size=1;:0.026065253)0.178:0.008301405)0.811:0.003584432)1.000:0.03345'..b'ze=1;:0.051246428,((117867;size=1;:0.026608166,(348109;size=1;:0.039857675,(18318;size=1;:0.007097059,53665;size=1;:0.041757288)0.181:0.006725497)0.894:0.004720861)0.997:0.013732097,(170644;size=1;:0.017343779,((5149;size=1;:0.017610102,261777;size=1;:0.017051280)0.419:0.006064261,331011;size=1;:0.028656808)0.571:0.003806936)0.937:0.006337339)0.904:0.006468554)0.375:0.009762478,170119;size=1;:0.038599709)0.884:0.005572474)0.619:0.010956269)0.458:0.007064120,(113477;size=1;:0.034890672,((144164;size=1;:0.035181659,172809;size=1;:0.052596352)0.931:0.010936086,(200150;size=1;:0.039889732,361062;size=1;:0.054177021)0.447:0.010641822)0.959:0.011642967)0.982:0.014197569)0.913:0.008071253)0.614:0.003653199,(32831;size=1;:0.029216686,(219844;size=1;:0.024286016,203098;size=1;:0.038409760)0.825:0.011188054)1.000:0.034356735)0.871:0.006881002)0.638:0.008920585,273957;size=1;:0.050996582)0.697:0.007133720)0.553:0.002782271)0.799:0.008986397,(118311;size=1;:0.052333722,(140567;size=1;:0.057935206,347767;size=1;:0.067698519)0.983:0.026051644)0.956:0.016787415)0.987:0.020304611,(((78316;size=1;:0.075946037,(135758;size=1;:0.077070248,((334981;size=1;:0.053660189,235247;size=1;:0.066160233)0.979:0.022220759,(((344056;size=1;:0.049905476,151653;size=1;:0.028665788)1.000:0.028857730,(337240;size=1;:0.051844709,(((68981;size=1;:0.009862498,354208;size=1;:0.011816990)0.900:0.007031896,(124774;size=1;:0.012791431,(244678;size=1;:0.033444804,4585;size=1;:0.012760307)0.382:0.005927155)1.000:0.020674035)0.982:0.014510917,(231300;size=1;:0.041853282,(331137;size=1;:0.016400079,263385;size=1;:0.019750765)1.000:0.023092924)0.993:0.017627846)0.991:0.022556991)0.550:0.012924018)0.584:0.008676392,(354142;size=1;:0.074025726,(244241;size=1;:0.057845309,(246870;size=1;:0.044815955,326714;size=1;:0.067508900)0.984:0.019184670)0.956:0.014822710)0.599:0.007311790)0.921:0.013092781)0.493:0.011130535)0.954:0.013799167)0.844:0.016980317,319483;size=1;:0.068393217)0.305:0.013259643,((345432;size=1;:0.070947527,(152713;size=1;:0.085034794,(268436;size=1;:0.058020707,(153717;size=1;:0.044974136,156145;size=1;:0.054618617)0.976:0.017844431)0.991:0.025048898)0.971:0.017176761)0.985:0.023522779,(253678;size=1;:0.101483897,(244485;size=1;:0.029764642,250742;size=1;:0.027447282)1.000:0.055685424)0.015:0.007790310)0.737:0.004412249)0.487:0.012702596)0.967:0.018334868,((301131;size=1;:0.049321735,(340040;size=1;:0.030290088,232182;size=1;:0.025466666)0.788:0.009811978)1.000:0.064546187,(((323311;size=1;:0.008166646,(245371;size=1;:0.031421292,(234638;size=1;:0.012250701,232909;size=1;:0.013784284)0.340:0.003646041)0.132:0.006958746)1.000:0.086747893,(138694;size=1;:0.057463340,(234763;size=1;:0.014893297,355413;size=1;:0.020552382)0.987:0.023258633)1.000:0.038422603)0.940:0.021427290,(((107155;size=1;:0.025919747,230073;size=1;:0.027145918)1.000:0.054652071,(231078;size=1;:0.027083279,349941;size=1;:0.027706850)1.000:0.058910915)0.996:0.031025967,((117231;size=1;:0.019136406,122769;size=1;:0.018077725)1.000:0.047826868,((355104;size=3;:0.033617031,(276028;size=1;:0.037968894,(345841;size=1;:0.032788733,231635;size=1;:0.014810453)0.838:0.005725733)0.998:0.018186278)0.994:0.017462167,(((310167;size=1;:0.006625067,(235221;size=1;:0.004972231,344462;size=1;:0.024374625)0.219:0.003941442)0.931:0.006126346,(120928;size=1;:0.004001785,311447;size=1;:0.045634109)0.980:0.009682335)1.000:0.020468152,(337558;size=1;:0.040351016,((356435;size=1;:0.014892593,(126633;size=3;:0.008923124,234154;size=1;:0.021154032)0.912:0.006875296)0.952:0.007490869,(68975;size=1;:0.022218017,(108819;size=1;:0.009970956,328361;size=1;:0.017439445)0.974:0.007435403)0.101:0.004470794)0.979:0.016410432)0.334:0.008654167)0.998:0.028575140)1.000:0.072876235)0.983:0.020243758)0.830:0.011285870)0.838:0.010309915)0.846:0.009061798)0.999:0.049277264,(353476;size=1;:0.124234816,319053;size=1;:0.061205455)1.000:0.078499975)0.167:0.017788693)0.992:0.028892918)0.554:0.008210958)0.953:0.017897981)0.280:0.007337455);\n'