#NEXUS [written Sun Jun 14 07:33:03 EDT 2015 by Mesquite version 3.03 (build 702) at NI8137.local/127.0.0.1] BEGIN TAXA; TITLE Taxa; DIMENSIONS NTAX=39; TAXLABELS Agelaius_phoeniceus Alectoris_chukar Carduelis_tristis Catharus_ustulatus Colinus_virginianus Columba_livia Corvus_brachyrhynchos Corvus_corax Coturnix_chinensis Dumetella_carolinensis Geothlypis_tolmiei 'Haemorhous mexicanus)' Junco_hyemalis Meleagris_gallopavo Melospiza_melodia Oreothlypis_celata Parabuteo_unicinctus Passer_domesticus Perisoreus_canadensis Petrochelidon_pyrrhonota Phasianus_colchicus Pica_Pica Pipilo_maculatus Poecile_atricapillus Pooecetes_gramineus Regulus_calendula 'Setophaga coronata *' Setophaga_petechia Sialia_mexicana Sitta_canadensis Sitta_pygmaea Spizella_passerina Sturnella_neglecta Sturnus_vulgaris Turdus_migratorius Vireo_cassinii Vireo_gilvus Vireo_olivaceus Zonotrichia_leucophrys ; END; BEGIN CHARACTERS; TITLE Character_Matrix; DIMENSIONS NCHAR=4; FORMAT DATATYPE = CONTINUOUS GAP = - MISSING = ?; CHARSTATELABELS 1 'Frequency (Hz)', 2 'mass (kg)', 3 log_frequency, 4 log_mass ; MATRIX Agelaius_phoeniceus 15.1 0.0763 1.178976947 -1.117475462 Alectoris_chukar 16.1 0.4915 1.206825876 -0.308476478 Carduelis_tristis 20.2 0.0128 1.305351369 -1.89279003 Catharus_ustulatus 16.4 0.03 1.214843848 -1.522878745 Colinus_virginianus 19.9 0.1995 1.298853076 -0.7000571 Columba_livia 9.1 0.307 0.959041392 -0.512861625 Corvus_brachyrhynchos 6.6 0.376 0.819543936 -0.424812155 Corvus_corax 6.1 0.895 0.785329835 -0.048176965 Coturnix_chinensis 23.2 0.0436 1.365487985 -1.360513511 Dumetella_carolinensis 16.8 0.03 1.225309282 -1.522878745 Geothlypis_tolmiei 21.4 0.0104 1.330413773 -1.982966661 'Haemorhous mexicanus)' 26.4 0.0225 1.421603927 -1.647817482 Junco_hyemalis 22.3 0.0199 1.348304863 -1.701146924 Meleagris_gallopavo 7.6 4.78 0.880813592 0.679427897 Melospiza_melodia 21.2 0.0201 1.326335861 -1.696803943 Oreothlypis_celata 22.6 0.0087 1.354108439 -2.060480747 Parabuteo_unicinctus 5.8 0.92 0.763427994 -0.036212173 Passer_domesticus 25.3 0.0281 1.403120521 -1.55129368 Perisoreus_canadensis 11.5 0.073 1.06069784 -1.13667714 Petrochelidon_pyrrhonota 13.4 0.0202 1.127104798 -1.694648631 Phasianus_colchicus 11.0 0.783 1.041392685 -0.106238238 Pica_Pica 9.2 0.199 0.963787827 -0.701146924 Pipilo_maculatus 16.3 0.0354 1.212187604 -1.450996738 Poecile_atricapillus 23.7 0.011 1.374748346 -1.958607315 Pooecetes_gramineus 22.1 0.0233 1.344392274 -1.632644079 Regulus_calendula 21.9 0.0056 1.340444115 -2.251811973 'Setophaga coronata *' 18.0 0.0105 1.255272505 -1.978810701 Setophaga_petechia 21.7 0.0088 1.336459734 -2.055517328 Sialia_mexicana 16.8 0.0271 1.225309282 -1.567030709 Sitta_canadensis 22.2 0.0107 1.346352974 -1.970616222 Sitta_pygmaea 23.3 0.0104 1.367355921 -1.982966661 Spizella_passerina 22.3 0.0121 1.348304863 -1.91721463 Sturnella_neglecta 15.3 0.1 1.184691431 -1.0 Sturnus_vulgaris 15.0 0.0757 1.176091259 -1.12090412 Turdus_migratorius 13.7 0.0804 1.136720567 -1.094743951 Vireo_cassinii 23.0 0.0153 1.361727836 -1.815308569 Vireo_gilvus 22.3 0.0104 1.348304863 -1.982966661 Vireo_olivaceus 20.3 0.0167 1.307496038 -1.777283529 Zonotrichia_leucophrys 22.4 0.0276 1.350248018 -1.559090918 ; END; BEGIN ASSUMPTIONS; TYPESET * UNTITLED = Squared: 1 - 4; END; BEGIN MESQUITECHARMODELS; ProbModelSet * UNTITLED = Brownian_default: 1 - 4; END; Begin MESQUITE; MESQUITESCRIPTVERSION 2; TITLE AUTO; tell ProjectCoordinator; timeSaved 1434281583715; getEmployee #mesquite.minimal.ManageTaxa.ManageTaxa; tell It; setID 0 2056487262090168964; tell It; setDefaultOrder 26 36 18 14 35 33 2 3 34 12 28 19 25 38 23 29 32 17 0 8 37 1 22 7 21 16 30 31 13 10 9 24 27 11 15 5 4 6 20; attachments ; endTell; endTell; getEmployee #mesquite.charMatrices.ManageCharacters.ManageCharacters; tell It; setID 0 668303669738559694; mqVersion 303; checksumv 0 3 394113279 null numChars 4 numItems 1 min -2.251811973 max 26.4 sumSquares 13571.247294227238 NumFiles 1 NumMatrices 1; mqVersion; endTell; getWindow; tell It; suppress; setResourcesState false false 100; setPopoutState 400; setExplanationSize 0; setAnnotationSize 0; setFontIncAnnot 0; setFontIncExp 0; setSize 1280 688; setLocation 0 22; setFont SanSerif; setFontSize 10; getToolPalette; tell It; endTell; desuppress; endTell; getEmployee #mesquite.trees.BasicTreeWindowCoord.BasicTreeWindowCoord; tell It; makeTreeWindow #2056487262090168964 #mesquite.trees.BasicTreeWindowMaker.BasicTreeWindowMaker; tell It; suppressEPCResponse; setTreeSource #mesquite.trees.DefaultTrees.DefaultTrees; setAssignedID 922.1403149611633.770813506447227887; getTreeWindow; tell It; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 1180 616; setLocation 0 22; setFont SanSerif; setFontSize 10; getToolPalette; tell It; setTool mesquite.trees.BasicTreeWindowMaker.BasicTreeWindow.arrow; endTell; setActive; getTreeDrawCoordinator #mesquite.trees.BasicTreeDrawCoordinator.BasicTreeDrawCoordinator; tell It; suppress; setTreeDrawer #mesquite.trees.SquareTree.SquareTree; tell It; setNodeLocs #mesquite.trees.NodeLocsStandard.NodeLocsStandard; tell It; branchLengthsToggle on; toggleScale on; toggleBroadScale off; toggleCenter on; toggleEven on; setFixedTaxonDistance 0; endTell; setEdgeWidth 6; orientUp; setCornerMode Right_Angle 50; endTell; setBackground White; setBranchColor Black; showNodeNumbers on; showBranchColors on; labelBranchLengths off; centerBrLenLabels on; showBrLensUnspecified on; showBrLenLabelsOnTerminals on; setBrLenLabelColor 0 0 255; setNumBrLenDecimals 6; desuppress; getEmployee #mesquite.trees.BasicDrawTaxonNames.BasicDrawTaxonNames; tell It; setColor Black; toggleColorPartition on; toggleColorAssigned off; toggleShadePartition off; toggleShowFootnotes on; toggleNodeLabels on; toggleCenterNodeNames off; toggleShowNames on; namesAngle ?; endTell; endTell; setTreeNumber 1; setTree '((5:26.4,((2:15.9,9:15.9):2.9000000000000004,(14:14.6,21:14.6):4.200000000000001):7.599999999999998):71.19999999999999,(6:79.6,(17:78.4,(((36:15.6,(37:8.86,38:8.86):6.74):14.6,(19:20.7,(22:16.4,(7:7.22,8:7.22):9.18):4.300000000000001):9.5):36.599999999999994,((20:42.2,24:42.2):3.3999999999999986,((26:44.6,((30:10.9,31:10.9):27.9,(((4:16.4,35:16.4):3.200000000000003,29:19.6):8.5,(10:21.9,34:21.9):6.200000000000003):10.699999999999996):5.800000000000004):0.5,(18:29.3,((3:17,12:17):9,((16:9.42,(11:9.25,(27:5.25,28:5.25):4):0.16999999999999993):9.58,((1:12,33:12):0.09999999999999964,(32:9.97,(((25:6.84,15:6.84):1.1999999999999993,23:8.04):0.4200000000000017,(13:5.28,39:5.28):3.1800000000000006):1.5099999999999998):2.129999999999999):6.9):7):3.3000000000000007):15.8):0.5):21.199999999999996)Passerine:11.600000000000009):1.1999999999999886):18);'; setDrawingSizeMode 0; toggleLegendFloat on; scale 0; toggleTextOnTree off; showWindow; newWindowAssistant #mesquite.pdap.PDAPDiagnosticChart.PDAPDiagnosticChart; tell It; quiet; getCharacterSource #mesquite.charMatrices.CharSrcCoordObed.CharSrcCoordObed; tell It; setCharacterSource #mesquite.charMatrices.StoredCharacters.StoredCharacters; tell It; setDataSet #668303669738559694; endTell; endTell; toggleShowLegend on; toggleTreeLabels off; toggleDFQueryDone on; toggleVhQueryDone off; toggleIgnoreRootTritomies off; setDFReduction 0; setWidth1 0.95; setWidth2 0.9; setScreen 12; setX 1; setY 4; getWindow; tell It; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 1180 616; setLocation 0 22; setFont SanSerif; setFontSize 10; getToolPalette; tell It; endTell; showPage 1; getLegend; tell It; setBounds 0 0 199 121; setOffsetX 0; setOffsetY 0; endTell; endTell; toggleSpotNames on; showWindow; resume; getEmployee #mesquite.charts.Scattergram.Scattergram; tell It; markerSize 10; toggleJoin off; toggleShowDots on; movingWindowSize 1; sumByBlocks off; newAssistant #mesquite.pdap.ScatterRootCIPI.ScatterRootCIPI; tell It; getEmployee #mesquite.pdap.RootReconstructions.RootReconstructions; tell It; setwidth1 0.95; setwidth2 0.9; setDFReduction 0; endTell; endTell; endTell; getEmployee #mesquite.pdap.FelsContrWithChar.FelsContrWithChar; tell It; setItem 0; endTell; getEmployee #mesquite.pdap.ContrastResiduals.ContrastResiduals; tell It; getCharacterSource ; setCharacterA 1; setCharacterB 2; endTell; endTell; endTell; desuppressEPCResponse; getEmployee #mesquite.trees.ColorBranches.ColorBranches; tell It; setColor Red; removeColor off; endTell; getEmployee #mesquite.ornamental.BranchNotes.BranchNotes; tell It; setAlwaysOn off; endTell; getEmployee #mesquite.ornamental.ColorTreeByPartition.ColorTreeByPartition; tell It; colorByPartition off; endTell; getEmployee #mesquite.ornamental.DrawTreeAssocDoubles.DrawTreeAssocDoubles; tell It; setOn on; toggleShow consensusFrequency; setDigits 4; writeAsPercentage off; toggleCentred on; toggleHorizontal on; toggleWhiteEdges on; setFontSize 10; setOffset 0 0; endTell; getEmployee #mesquite.ornamental.DrawTreeAssocStrings.DrawTreeAssocStrings; tell It; setOn on; toggleCentred on; toggleHorizontal on; setFontSize 10; setOffset 0 0; endTell; getEmployee #mesquite.trees.TreeInfoValues.TreeInfoValues; tell It; panelOpen false; endTell; endTell; endTell; getEmployee #mesquite.charMatrices.BasicDataWindowCoord.BasicDataWindowCoord; tell It; showDataWindow #668303669738559694 #mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindowMaker; tell It; getWindow; tell It; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 1180 616; setLocation 0 22; setFont SanSerif; setFontSize 10; getToolPalette; tell It; setTool mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindow.arrow; endTell; setTool mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindow.arrow; colorCells #mesquite.charMatrices.NoColor.NoColor; colorRowNames #mesquite.charMatrices.TaxonGroupColor.TaxonGroupColor; colorColumnNames #mesquite.charMatrices.CharGroupColor.CharGroupColor; colorText #mesquite.charMatrices.NoColor.NoColor; setBackground White; toggleShowNames on; toggleShowTaxonNames on; toggleTight off; toggleThinRows off; toggleShowChanges on; toggleSeparateLines off; toggleShowStates on; toggleAutoWCharNames on; toggleAutoTaxonNames off; toggleShowDefaultCharNames off; toggleConstrainCW on; toggleBirdsEye off; toggleShowPaleGrid off; toggleShowPaleCellColors off; toggleShowPaleExcluded off; togglePaleInapplicable on; toggleShowBoldCellText off; toggleAllowAutosize on; toggleColorsPanel off; toggleLinkedScrolling on; toggleScrollLinkedTables off; endTell; showWindow; getWindow; tell It; forceAutosize; endTell; getEmployee #mesquite.charMatrices.ColorByState.ColorByState; tell It; setStateLimit 9; toggleUniformMaximum on; endTell; getEmployee #mesquite.charMatrices.ColorCells.ColorCells; tell It; setColor Red; removeColor off; endTell; getEmployee #mesquite.charMatrices.AnnotPanel.AnnotPanel; tell It; togglePanel off; endTell; getEmployee #mesquite.charMatrices.CharReferenceStrip.CharReferenceStrip; tell It; showStrip off; endTell; getEmployee #mesquite.charMatrices.SelSummaryStrip.SelSummaryStrip; tell It; showStrip off; endTell; getEmployee #mesquite.cont.ItemsEditorForInfoPanel.ItemsEditorForInfoPanel; tell It; panelOpen false; endTell; endTell; endTell; endTell; end;