1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
|
#NEXUS
[written Thu Dec 20 00:38:47 CST 2007 by Mesquite version 2.01 (build j28) at eunice.local/192.168.2.1]
BEGIN TAXA;
TITLE Untitled_TAXA_Block_1;
DIMENSIONS NTAX=8;
TAXLABELS
A B C D E F G H
;
END;
BEGIN CHARACTERS;
TITLE Untitled_CHARACTERS_Block_1;
DIMENSIONS NCHAR=9;
FORMAT DATATYPE = Protein GAP = - MISSING = ?;
CHARSTATELABELS
1 one, 2 two, 3 three, 4 four, 5 five, 6 six, 7 seven, 8 eight, 9 nine ;
MATRIX
A THIS-IS-A
B THIS-IS-{D,N}
C THIS-IS-C
D THIS-IS-D
E THIS-IS-E
F THIS-IS-F
G THIS-IS-G
H THIS-IS-H
;
END;
BEGIN TREES;
Title Untitled_TREES_Block_1;
LINK Taxa = Untitled_TAXA_Block_1;
TRANSLATE
1 A,
2 B,
3 C,
4 D,
5 E,
6 F,
7 G,
8 H;
TREE basic_rake = (1:1.0,2:1.0,3:1.0,4:1.0,5:1.0,6:1.0,7:1.0,8:1.0);
END;
BEGIN CODONS;
CODESET * UNTITLED = universal: 1 - 9;
END;
BEGIN ASSUMPTIONS;
CHARSET * UNTITLEDo = 1 - 3 \ 2 4 7-9;
CHARSET * UNTITLED = 1 2 3 4 7-9;
END;
BEGIN ASSUMPTIONS;
TYPESET * UNTITLED = unord: 1 - 9;
END;
BEGIN MESQUITECHARMODELS;
ProbModelSet * UNTITLED = 'Mk1 (est.)': 1 - 9;
END;
Begin MESQUITE;
MESQUITESCRIPTVERSION 2;
TITLE AUTO;
tell ProjectCoordinator;
getEmployee #mesquite.minimal.ManageTaxa.ManageTaxa;
tell It;
setID 0 2002854640106134798;
endTell;
getEmployee #mesquite.charMatrices.ManageCharacters.ManageCharacters;
tell It;
setID 0 5914780497712519392;
checksum 0 1033486703 null;
endTell;
getEmployee #mesquite.charMatrices.BasicDataWindowCoord.BasicDataWindowCoord;
tell It;
showDataWindow #5914780497712519392 #mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindowMaker;
tell It;
getWindow;
tell It;
setExplanationSize 30;
setAnnotationSize 20;
setFontIncAnnot 0;
setFontIncExp 0;
setSize 700 564;
setLocation 370 38;
setFont SanSerif;
setFontSize 10;
getToolPalette;
tell It;
endTell;
setTool mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindow.arrow;
colorCells #mesquite.charMatrices.ColorByState.ColorByState;
setBackground White;
toggleShowNames on;
toggleShowTaxonNames on;
toggleTight off;
toggleShowChanges off;
toggleSeparateLines off;
toggleShowStates on;
toggleAutoWCharNames off;
toggleShowDefaultCharNames off;
toggleConstrainCW on;
setColumnWidth 16;
toggleBirdsEye off;
toggleColorsPanel off;
birdsEyeWidth 2;
toggleLinkedScrolling on;
toggleScrollLinkedTables off;
endTell;
showWindow;
getEmployee #mesquite.categ.StateNamesStrip.StateNamesStrip;
tell It;
showStrip 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.ColorCells.ColorCells;
tell It;
setColor Red;
removeColor off;
endTell;
getEmployee #mesquite.charMatrices.QuickKeySelector.QuickKeySelector;
tell It;
autotabOff;
endTell;
getEmployee #mesquite.align.AlignToDropped.AlignToDropped;
tell It;
gapCosts 8 3 2 2;
subCosts 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5 5;
endTell;
endTell;
endTell;
endTell;
end;
|
