Mercurial > repos > iuc > hyphy_relax

view test-data/sm19-in1.nhx @ 2:8e92afe83af9 draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit f14f2bae2b27dc04e574803c7d4442a64cfe43e4"
author iuc
date Fri, 14 Feb 2020 16:45:24 -0500
parents 551616a65f8f
children
line wrap: on
line source

#NEXUS
begin taxa;
	dimensions ntax=50;
	taxlabels
	C019-B2_10_1[&!color=#ff0000]
	C019-B2_13_1[&!color=#ff0000]
	C019-B2_16_1[&!color=#ff0000]
	C019-B2_17_3[&!color=#ff0000]
	C019-B2_18_1[&!color=#ff0000]
	C019-B2_1_2[&!color=#ff0000]
	C019-B2_24_1[&!color=#ff0000]
	C019-B2_28_1[&!color=#ff0000]
	C019-B2_29_1[&!color=#ff0000]
	C019-B2_31_1[&!color=#ff0000]
	C019-B2_32_1[&!color=#ff0000]
	C019-B2_34_1[&!color=#ff0000]
	C019-B2_35_1[&!color=#ff0000]
	C019-B2_42_2[&!color=#ff0000]
	C019-B2_43_2[&!color=#ff0000]
	C019-B2_45_1[&!color=#ff0000]
	C019-B2_46_2[&!color=#ff0000]
	C019-B2_47_3[&!color=#ff0000]
	C019-B2_4_1[&!color=#ff0000]
	C019-B2_52_1[&!color=#ff0000]
	C019-B2_53_1[&!color=#ff0000]
	C019-B2_54_1[&!color=#ff0000]
	C019-B2_5_1[&!color=#ff0000]
	C019-B2_6_3[&!color=#ff0000]
	C019-B2_9_1[&!color=#ff0000]
	C019-S2_10_1[&!color=#0000ff]
	C019-S2_11_1[&!color=#0000ff]
	C019-S2_12_2[&!color=#0000ff]
	C019-S2_13_1[&!color=#0000ff]
	C019-S2_14_1[&!color=#0000ff]
	C019-S2_15_4[&!color=#0000ff]
	C019-S2_16_1[&!color=#0000ff]
	C019-S2_17_1[&!color=#0000ff]
	C019-S2_18_2[&!color=#0000ff]
	C019-S2_19_1[&!color=#0000ff]
	C019-S2_1_1[&!color=#0000ff]
	C019-S2_20_2[&!color=#0000ff]
	C019-S2_21_1[&!color=#0000ff]
	C019-S2_22_1[&!color=#0000ff]
	C019-S2_23_2[&!color=#0000ff]
	C019-S2_24_1[&!color=#0000ff]
	C019-S2_25_2[&!color=#0000ff]
	C019-S2_2_1[&!color=#0000ff]
	C019-S2_3_1[&!color=#0000ff]
	C019-S2_4_1[&!color=#0000ff]
	C019-S2_5_1[&!color=#0000ff]
	C019-S2_6_1[&!color=#0000ff]
	C019-S2_7_1[&!color=#0000ff]
	C019-S2_8_1[&!color=#0000ff]
	C019-S2_9_1[&!color=#0000ff]
;
end;

begin trees;
	tree tree_1 = [&R] ((((((C019-B2_35_1:0.005858,C019-B2_52_1:0.001773):9.4E-4,((((((C019-B2_28_1:0.002896,C019-B2_29_1:9.09E-4):0.004372,C019-B2_31_1:0.003387):0.001252,C019-S2_9_1:0.001965):4.28E-4,C019-B2_34_1:0.003365):0.00173,C019-S2_2_1:0.011763):5.94E-4,((((C019-B2_4_1:0.002924,C019-B2_6_3:8.81E-4):0.001821,C019-B2_5_1:0.001994):0.006052,C019-S2_1_1:0.011533):0.002707,((C019-S2_4_1:0.006447,C019-S2_6_1:0.00696):0.001115,C019-S2_7_1:0.004624):0.003256):0.001452):0.002006):3.96E-4,((C019-S2_10_1:0.005429,C019-S2_12_2:3.52E-4):9.31E-4,C019-B2_42_2:9.87E-4):6.51E-4):5.28E-4,(C019-B2_53_1:0.002654,C019-B2_54_1:0.001151):0.002202):3.98E-4,((((((C019-B2_9_1:0.003599,C019-B2_10_1:0.002149):0.003701,C019-B2_1_2:0.011845):0.001658,C019-S2_3_1:0.009874):1.58E-4,C019-S2_5_1:0.009998):2.67E-4,(((C019-B2_17_3:0.0,C019-S2_22_1:0.0):6.76E-4,C019-B2_16_1:0.003129):2.62E-4,(((((C019-B2_18_1:0.0,C019-S2_25_2:0.0):3.0E-5,C019-S2_24_1:-3.0E-5):7.69E-4,C019-S2_23_2:0.003047):4.93E-4,(((((C019-B2_24_1:0.004304,C019-S2_19_1:-0.002103):0.00459,C019-S2_17_1:0.00129):0.002822,C019-S2_18_2:0.004477):8.52E-4,C019-S2_21_1:0.001446):8.3E-4,C019-S2_20_2:0.003028):0.002252):0.001275,C019-B2_13_1:0.006181):9.2E-4):0.003349):0.001411,C019-S2_13_1:-4.68E-4):0.001963):3.46E-4,(((C019-B2_45_1:8.37E-4,C019-S2_8_1:0.006794):0.001393,C019-S2_14_1:5.17E-4):3.77E-4,(((C019-B2_32_1:0.005635,C019-B2_43_2:0.001995):9.13E-4,C019-S2_11_1:0.002993):5.52E-4,(((C019-B2_46_2:0.0,C019-S2_15_4:0.0):0.001576,C019-S2_16_1:0.002229):0.001073,C019-B2_47_3:8.77E-4):8.62E-4):7.32E-4):3.46E-4);
end;

begin figtree;
	set appearance.backgroundColorAttribute="Default";
	set appearance.backgroundColour=#ffffff;
	set appearance.branchColorAttribute="User selection";
	set appearance.branchColorGradient=false;
	set appearance.branchLineWidth=1.0;
	set appearance.branchMinLineWidth=0.0;
	set appearance.branchWidthAttribute="Fixed";
	set appearance.foregroundColour=#000000;
	set appearance.hilightingGradient=false;
	set appearance.selectionColour=#2d3680;
	set branchLabels.colorAttribute="User selection";
	set branchLabels.displayAttribute="Branch times";
	set branchLabels.fontName="sansserif";
	set branchLabels.fontSize=8;
	set branchLabels.fontStyle=0;
	set branchLabels.isShown=false;
	set branchLabels.significantDigits=4;
	set layout.expansion=0;
	set layout.layoutType="RECTILINEAR";
	set layout.zoom=0;
	set legend.attribute=null;
	set legend.fontSize=10.0;
	set legend.isShown=false;
	set legend.significantDigits=4;
	set nodeBars.barWidth=4.0;
	set nodeBars.displayAttribute=null;
	set nodeBars.isShown=false;
	set nodeLabels.colorAttribute="User selection";
	set nodeLabels.displayAttribute="Node ages";
	set nodeLabels.fontName="sansserif";
	set nodeLabels.fontSize=8;
	set nodeLabels.fontStyle=0;
	set nodeLabels.isShown=false;
	set nodeLabels.significantDigits=4;
	set nodeShapeExternal.colourAttribute="User selection";
	set nodeShapeExternal.isShown=false;
	set nodeShapeExternal.minSize=10.0;
	set nodeShapeExternal.scaleType=Width;
	set nodeShapeExternal.shapeType=Circle;
	set nodeShapeExternal.size=4.0;
	set nodeShapeExternal.sizeAttribute="Fixed";
	set nodeShapeInternal.colourAttribute="User selection";
	set nodeShapeInternal.isShown=false;
	set nodeShapeInternal.minSize=10.0;
	set nodeShapeInternal.scaleType=Width;
	set nodeShapeInternal.shapeType=Circle;
	set nodeShapeInternal.size=4.0;
	set nodeShapeInternal.sizeAttribute="Fixed";
	set polarLayout.alignTipLabels=false;
	set polarLayout.angularRange=0;
	set polarLayout.rootAngle=0;
	set polarLayout.rootLength=100;
	set polarLayout.showRoot=true;
	set radialLayout.spread=0.0;
	set rectilinearLayout.alignTipLabels=false;
	set rectilinearLayout.curvature=0;
	set rectilinearLayout.rootLength=100;
	set scale.offsetAge=0.0;
	set scale.rootAge=1.0;
	set scale.scaleFactor=1.0;
	set scale.scaleRoot=false;
	set scaleAxis.automaticScale=true;
	set scaleAxis.fontSize=8.0;
	set scaleAxis.isShown=false;
	set scaleAxis.lineWidth=1.0;
	set scaleAxis.majorTicks=1.0;
	set scaleAxis.minorTicks=0.5;
	set scaleAxis.origin=0.0;
	set scaleAxis.reverseAxis=false;
	set scaleAxis.showGrid=true;
	set scaleBar.automaticScale=true;
	set scaleBar.fontSize=10.0;
	set scaleBar.isShown=true;
	set scaleBar.lineWidth=1.0;
	set scaleBar.scaleRange=0.0;
	set tipLabels.colorAttribute="User selection";
	set tipLabels.displayAttribute="Names";
	set tipLabels.fontName="sansserif";
	set tipLabels.fontSize=8;
	set tipLabels.fontStyle=0;
	set tipLabels.isShown=true;
	set tipLabels.significantDigits=4;
	set trees.order=false;
	set trees.orderType="increasing";
	set trees.rooting=false;
	set trees.rootingType="User Selection";
	set trees.transform=false;
	set trees.transformType="cladogram";
end;