Supplement of Foss. Rec., 23, 83–93, 2020 https://doi.org/10.5194/fr-23-83-2020-supplement © Author(s) 2020. This work is distributed under the Creative Commons Attribution 4.0 License.
Supplement of
An alternative interpretation of Peltochelys duchastelii as a paracryptodire
Walter G. Joyce and Yann Rollot
Correspondence to:Walter G. Joyce (walter.joyce@unifr.ch)
• fr-23-83-2020-supplement-title-page.pdf • Gaffney et al. 2007 + Peltochelys.nex • Joyce 2007 + Peltochelys.nex
• Lyson and Joyce 2019 + Peltochelys.nex
#NEXUS
[written Tue Oct 22 11:53:48 CEST 2019 by Mesquite version 3.51 (build 898) at geosmac15.unifr.ch/134.21.31.191] BEGIN TAXA;
TITLE Taxa;
DIMENSIONS NTAX=30; TAXLABELS
'Synapsida/Diapsida' Proganochelys Australochelys Palaeochersis Proterochersis Megapleurodira Kayentachelys Kallokibotion Mongolochelys Compsemys Peltochelys Pleurosternidae Baenidae Xinjiangchelys Solnhofia Plesiochelyidae Meiolania Ninjemys Niolamia Chubutemys Sinemys Otwayemys Hangaiemys Dracochelys Ordosemys Judithemys Chelydridae Chelonioidea Trionychoidea Testudinoidea
; END;
BEGIN CHARACTERS;
TITLE 'Matrix in file "Gaffney_compsemys1.nex"'; DIMENSIONS NCHAR=111;
FORMAT DATATYPE = STANDARD GAP = - MISSING = ? SYMBOLS = " 0 1 2 3 4 5 6"; CHARSTATELABELS
1 'NA, nasals' / present absent,
2 'NA, size' / 'small,_absent' very_large, 3 'NA, nares divided' / yes no,
4 'NA, nasomaxillary sinus' / absent present, 5 'LA, lacrimal bone' / present absent, 6 'LA, lacrimal foramen' / present absent,
7 'PF, meet on midline' / 'no,_separated_by_na-fr_contact' yes, 8 'PF, pf-po contact' / present 'absent_(fr_to_orbit)',
9 'PF, pf-vo contact' / absent present,
10 'PA, processus inferior parietalis' / small_to_absent large, 11 'PA, pa-sq contact' / present absent,
12 'PA, temporal emargination' / fully_roofed_skull shallow_emargination deep_emargination, 13 'ST, supratemporal' / present absent,
14 'JU, cheek emargination' / 'absent,_shallow,_large_Ju' 'absent,_shallow,_large_Qj' moderate_to_deep, 15 'SQ, meet on midline' / no yes,
16 'SQ, posterolateral process' / no yes, 17 'SQ, sq-so contact' / absent present,
18 'SQ, broad sq-qj contact' / 'absent,_narrow' broad_contact_below_cavum_tympani, 19 'PO, length' / short long,
20 'PO, po-sq contact' / present absent, 21 'PM, premaxillary hook' / absent present,
22 'MX, accessory ridge on triturating surface' / absent present,
23 'MX, length of facial region' / 'shorter,_equal_to_orbit_length' longer_than_orbit, 24 'VO, vomer' / double single,
25 'VO, teeth' / present absent, 26 'PAL, teeth' / present absent,
27 'PAL, foramen palatinum posterius large' / 'small-moderate' very_large, 28 'PT, vertical flange on proc pter ext' / absent present,
29 'PT, interpterygoid vacuity' / 'widely,_slightly_open' completely_closed_by_medial_extension_of_pt, 30 'PT, canalis caroticus internus, posterior to foramen basisphenoidale' / absent
'at_least_partially_covered_by_bs-pt' covered_by_prootic,
'yes,_distal_to_foramen_basisphenoidale',
32 'PT, canalis caroticus lateralis vs canalis caroticus internus' / 'lateralis_equal_to,_larger_than_internus' lateralis_smaller_than_internus,
33 'PT, foramen posterius canalis carotici interni' / not_formed_by_bs_and_pt 'formed_by_bs_and_pt,_and_located_midway_along_bs',
34 'PT, middle ear with ossified floor formed by postero-medial pterygoid process' / process_absent present, 35 'PT, pt-bo contact' / absent present,
36 'PT, deep concavity on qu ramus' / absent present, 37 'PT, bs-pt space' / interpterygoid_vacuity_widely_open
'distinct_space,_perhaps_a_foramen_posterius_caroticum_laterale,_present' 'closed_pt-bs_suture,_foramen_basisphenoidale_possibly_present',
38 'PT, intrapterygoid slit' / 'absent,_small' 'extensive,_completely_covering_foramen_basisphenoidale', 39 'QU, posterior pocket for stapes' / present absent,
40 'QU, cavum tympani' / absent present,
41 'QU, middle ear with complete lateral wall' / not_complete complete, 42 'QU, cavum tympani curved dorsally' / absent present,
43 'QU, acute posterior margin' / no yes,
44 'QU, incisura columellae auris' / separated_from_eustachian_tube with_eust_tube, 45 'QU, antrum postoticum' / absent present,
46 'QU, covers OP laterally' / no yes,
47 'QU, cranioquadrate space' / relatively_open a_well_defined_canal, 48 'OP, processus paroccipitalis' / loosely_articulated tightly_fused, 49 'OP, fenestra perilymphatica' / relativly_large relatively_small, 50 'PR, anterior surface otic chamber' / faces_more_anterodorsally 'faces_more_anteriorly,_anteroventrally_(processus_trochlearis_oticum)',
51 'PR, otic chamber thickness' / anterior_wall_thin anterior_wall_thick, 52 'SO, crista supraoccipitalis' / low_to_absent distinct_sagittal_plate,
53 'SO, wide occipital plate' / wide_occipital_plate_with_depressions absent, 54 'SO, supraoccipital with horizontal plate' / no yes,
55 'EX, recessus scalae tympani' / not_formed_in_bone formed_in_bone_with_fenestra_perilymphatica, 56 'BS, basipterygoid articulation' / open_articulation sutured_joint,
57 'BS, foramen anterius canalis carotici interni' / widely_separated close_together,
58 'BS, foramen basisphenoidale' / 'formed_by_bs,_equals_fpcci' 'formed_by_bs+pt,_equals_fpcci' 'formed_by_bs+pt,_more_posterior_fpcci_present' absent_due_to_prootic_forming_fpcci
absent_due_to_solid_pterygoid_covering,
59 'BS, foramen posterius canalis carotici interni' / equals_foramen__basisphenoidale formed_in_part_by_bs formed_entirely_by_pt formed_by_prootic,
60 'BS, paired pits' / absent present,
61 'BS, ventral BS/BO tubercle' / single paired absent,
62 'CA, columella auris' / 'thick,_without_distinct_footplate' 'thin,_with_distinct_wide_footplate', 63 'JW, splenial' / present absent,
64 'CE, proportions' / as_high_as_wide wider_than_high_for_posterior_cervicals, 65 'CE, central articulations' / unformed formed,
66 'CE, anterior end of eighth cervical' / unformed cotyle condyle, 67 'CE, ribs' / present absent,
68 'CE, transverse processes' / middle_of_centrum anterior_edge_of_centrum, 69 'CE, doubled transverse processes' / present_on_any_cervical absent_on_all, 70 'CE, fourth cervical articulation' / amphicoelous biconvex opisthocoelous, 71 'CE, double articulation between 5 and 6' / absent present,
72 'CE, double articulation between 6th and 7th' / absent present, 73 'CE, double articulation between 7 and 8' / absent present,
74 'CE, strong ventral process' / absent_on_all_centra present_on_posterior_centra, 75 'CE, neural spine on 8th cervical' / high low,
77 'CAU, tail rings' / absent present, 78 'CAU, tail club' / absent present,
79 'CAU, biconcave caudal near base of tail' / absent present,
80 'CAU, central articulations' / posterior_not_procoelous all_centra_procoelous, 81 'CAU, chevrons' / well_developed_and_present_on_nearly_all_caudals small_or_present_on_only_a_few_caudals,
82 'SH, coracoid foramen' / present absent, 83 'SH, coracoid columnar' / 'no,_flat_plate' yes, 84 'POSTC, paddles formed by limbs' / absent present,
85 'PEL, pelvis sutured to shell' / not_sutured_to_shell sutured_to_shell, 86 'PEL, pelvis narrow' / pelvis_widely_placed ilia_close_to_midline, 87 'CAR, first thoracic rib' / 'extends,_nearly_extends_to_peripherals' extends_less_than_halfway_across_costal,
88 'CAR, anterior articulation of first thoracic centrum' / faces_anteriorly_to_slightly_anteroventrally faces_strongly_anteroventrally,
89 'CAR, knob on ventral surface of nuchal that articulates with 8th cervical' / absent present, 90 'CAR, tenth thoracic rib' / reaches_8th_costal free_from_costal,
91 'CAR, sacrum with dorsal 10' / no yes, 92 'CAR, ninth costal bone' / present absent,
93 'CAR, Suprapygal' / nearly_equally_subdivided_into_two first_suprapygal_much_smaller_than_second only_one_suprapygal second_suprapygal_absent_or_much_smaller_than_first second_suprapygal_divided_by_first no_suprapygal three_suprapygals,
94 'CAR, supramaginal scales' / 12 3 none,
95 'PLA, plastral fontanelles surrounded by hyo-hypoplastra' / absent retained_in_adult, 96 'PLA, carapace-plastron attachment' / sutured ligamentous,
97 'PLA, plastral buttresses' / reaching_peripherals reaching_costals, 98 'PLA, entoplastron separating epiplastra' / yes no,
99 'PLA, dorsal process on epiplastron' / '_large,_reaches_carapace' smaller_than_length_of_epiplastron absent,
100 'PLA, epiplastron' / broad narrow, 101 'PLA, epiplastral beak' / absent present, 102 'PLA, bridge of plastron' / broad narrow, 103 'PLA, mesoplastra' / present absent,
104 'PLA, xiphiplastron' / moderately_broad narrow, 105 'PLA, xiph median notch' / absent present, 106 'PLA, gular scales' / 2_pair 1_pair,
107 'PLA, inframarginals' / '3-4_pair' '0-2_pair_(ax,_ing)',
108 'PLA, abdominal scute relative to midline' / meets_on_midline withdrawn_from_midline, 109 'PLA, pectoral scute' / not_on_epiplastron on_epiplastron,
110 'PLA, femoral-anal sulcus' / not_reaching_hypoplastron reaching_hypoplastron, 111 'PLA, midline sulcus sinuous' / no yes ;
MATRIX 'Synapsida/Diapsida'00000000000000000000??00000? 0000000000000000000000000000000000000000000000000000000000????????????0???????????? Proganochelys 0000000000000000000000000000000? 000000000000000000000000100000000000000000000100000000000000?000000000000000000 Australochelys ?000?0??0??0?00000??000???0?000?0000001110000111??010001?0001?? 0??????????????????????????????????????????????? Palaeochersis 0000?0??0??0?00000??001???0?000?0000001111100111?0010001?00010?00?0????????? 0000000000???????0000000000000?0??0 Proterochersis ???????????????????????????????????????????????????????????????????????????????????? 11000?1??100000000001000?00 Megapleurodira 0010110101(0 1)11200000(0 1)(0 1)(0 1)0111001201000(0 1)2011111(0 1)111100011011(0 1)3302100(0 1)(1 2)101(0 1 2)00000(0 1 2)0000111011(0 1)0001121(0 1)0(0 1)12000(0 1)01010?00
Kayentachelys 0010110111001000001000011?01000?000010111110111101111011000021?00000000000? 000000110000000001200001000000000?00 Kallokibotion 000?110?1100100000100001110110000110101111111111?1111011?0002??00000000000000? 000??0000000?13200112000000000?00 Mongolochelys 00101100110010101010010111011000010010111110111101111011?0002??000000000000? 000001?00?001??00210011000000000?00 Compsemys 0010110011??1000?0001001110110??1110201111101111?111101101002?? 0????????????????????0?000??12200112000001000001 Peltochelys ???????????????????????????????????????????????????????????????????????????????????? 0????0?1020011?000000000001 Pleurosternidae 00101101110(0 1)1000001010011101100011102011111011111111101101002?000000000000? 00000011000000?01(0 1)2001110000000000(0 1)0 Baenidae 00101101110(0 1)1200001000011101100111102011111111111111101101002100(0 1)000100000000000011000000?01(1 4)200112000000000010 Xinjiangchelys ????11??????????????????????111001?0(1 2)011111?1111?11110?102112??0000100000000?? 10???00?100?01?2?10110011000000(0 1)1 Solnhofia 0010111111111?00001?0011110111100110201111101111011110111220210000100000000?00? 00?1000?????162110????0100?????? Plesiochelyidae 001011111101?200001000011101111001(0 1)020111110111101111011042021000010000000000000011000000?0102(0 1)0112000100000?00 Meiolania 01(0 1)1110011001101110001011101111?01101111111111110111111102202? 001100010000011100011000001101?2110110001000?00?0 Ninjemys ??0111?????01?0111??01011101111?01?0111111111111?11111?1???????????????????? 11????????????????????????????????? Niolamia 011?1100??001?0111??000111?1111001?010111111111101111111?2102??????????????? 1?????????????????????????????????? Chubutemys ?01?11?0??0010000??00001110?111101?01011111?1111???11011?21021?012?1????0?? 2???????????0?????2????????????????? Sinemys 00101101111212000001000111111110010010111110111101111011021?2???1201020?0012?? 110??00?000?01?2110121001001?00?0 Otwayemys ???????????????00????0??????????????????1???1??????????????????012?0010?0002???00??? 0?00?????21?012000100??0?00 Hangaiemys 0010111111021200001010011111111001111011111?1111?111101102212??01?11? 100010???????????1????10201012101100100000 Dracochelys ?01?11?1?1121?00001?1001111?11100111101111101111?1111011?22?2??012000?0?? 112????????0?000?010??1012??110?1?0??0 Ordosemys 0010110?11111200001000011101111001111011111011110111101112112???1201010?0012?? 110??00?001???02110121?1100??0000 Judithemys 0010111?1102120000100001110111100110101111101111?111101102212??0111111?? 01010011011000100??102010121011101?0000 Chelydridae 1010111011121000001010(0 1)111011111011020111110111101111011042021111111111101110011011000110(0 1)01(0 1)211012(0 1)(0 1)11101(0 1)1110 Chelonioidea 001011(0 1)(0 1)1(0 1)(0 1)(1 2)100000100(0 1)0111011110011(0 1)(1 2)011111011110(0 1)111011142(0 1)211111111100(0 1)1010001111100(0 1)(0 1)1001(0 2 3)21101210(0 1)1101(0 1)0010 Trionychoidea 1010111(0 1)111(1 2)120000110(0 1)01110111100110(1 2)011111011110(0 1)1110110(2 4)2021111211120111110001111000110101(2 5)2(0 1)0(0 1)120001000(0 1)000(0 1) Testudinoidea 1010111(0 1)111(1 2)120000010(0 1)011101111101(0 1)0(1 2)01111101111011110110(2 4)2021111211111111120001111000110001(1 3)2(0 1)01120001001(0 1)0000 ; END; BEGIN ASSUMPTIONS;
OPTIONS DEFTYPE = unord PolyTcount = MINSTEPS; TYPESET * UNTITLED = unord: 1- 111;
END;
BEGIN paup;
outgroup 'Synapsida/Diapsida'; set increase = auto taxlabels = full; pset collapse = minbrlen;
hsearch;
set torder = right tcompress = yes; condense deldupes = yes;
filter best = yes; contree / strict = no; contree / adams = yes; END;
BEGIN TREES;
Title 'Trees from "Gaffney_compsemys1.nex"'; ID 016df2cf1afc1;
LINK Taxa = Taxa; TRANSLATE [0] n0 'Synapsida/Diapsida', [1] n1 Proganochelys, [2] n2 Australochelys, [3] n3 Palaeochersis, [4] n4 Proterochersis, [5] n5 Megapleurodira, [6] n6 Kayentachelys, [7] n7 Kallokibotion, [8] n8 Mongolochelys, [9] n9 Compsemys, [10] n10 Peltochelys, [11] n11 Pleurosternidae, [12] n12 Baenidae, [13] n13 Xinjiangchelys, [14] n14 Solnhofia, [15] n15 Plesiochelyidae, [16] n16 Meiolania, [17] n17 Ninjemys, [18] n18 Niolamia, [19] n19 Chubutemys, [20] n20 Sinemys, [21] n21 Otwayemys, [22] n22 Hangaiemys, [23] n23 Dracochelys, [24] n24 Ordosemys, [25] n25 Judithemys, [26] n26 Chelydridae, [27] n27 Chelonioidea, [28] n28 Trionychoidea, [29] n29 Testudinoidea; TREE UNTITLED = (n0,(n1,(n2,(n3,((n4,n5),(n6,(((n7,((n9,n11),n12)),(n13,(((n16,n17),n18),n21,n19),(n20, (((n22,n25),((n26,n27),(n28,n29))),n23),n24),(n14,n15))),n8)))))));
END;
BEGIN NOTES;
TEXT TAXON = 10 CHARACTER = 90 TEXT = damaged_in_USNM_material; TEXT TAXON = 13 CHARACTER = 90 TEXT = check;
TEXT TAXON = 10 CHARACTER = 91 TEXT = damaged; END; BEGIN MacClade; Version 4.0 84; LastModified -940030720; FileSettings treewindow '0' '0' '1' '1'; Singles 010;
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ListWindow TypeSets closed Geneva '9' '50' '10' '276' '490'; ListWindow WtSets closed Geneva '9' '50' '10' '276' '490'; ListWindow ExSets closed Geneva '9' '50' '10' '276' '490'; ListWindow CharSets closed Geneva '9' '50' '10' '276' '490'; ListWindow TaxSets closed Geneva '9' '50' '10' '276' '490'; ListWindow CharPartitions closed Geneva '9' '50' '10' '276' '490'; ListWindow CharPartNames closed Geneva '9' '50' '10' '276' '490'; ListWindow WtSets closed Geneva '9' '50' '10' '276' '490';
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ProbModelSet * UNTITLED = 'Mk1 (est.)': 1- 111; END; Begin MESQUITE; MESQUITESCRIPTVERSION 2; TITLE AUTO; tell ProjectCoordinator; timeSaved 1571738028324; getEmployee #mesquite.minimal.ManageTaxa.ManageTaxa; tell It; setID 0 5388893176134838727; tell It; setDefaultOrder 0 1 2 3 4 5 6 7 8 9 29 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28; attachments ; endTell; endTell; getEmployee #mesquite.charMatrices.ManageCharacters.ManageCharacters; tell It; setID 0 3718121776701920956; mqVersion 351;
checksumv 0 3 3193531235 null getNumChars 111 numChars 111 getNumTaxa 30 numTaxa 30 short true bits 127 states 127 sumSquaresStatesOnly 15995.0 sumSquares 15995.0 longCompressibleToShort false usingShortMatrix true NumFiles 1 NumMatrices 1;
mqVersion; endTell;
getWindow; tell It;
suppress;
setResourcesState false false 100; setPopoutState 300; setExplanationSize 0; setAnnotationSize 0; setFontIncAnnot 0; setFontIncExp 0; setSize 1985 1311; setLocation 107 46; setFont Default; setFontSize 24; getToolPalette; tell It; endTell; desuppress; endTell; getEmployee #mesquite.charMatrices.BasicDataWindowCoord.BasicDataWindowCoord; tell It; showDataWindow #3718121776701920956 #mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindowMaker; tell It; getWindow; tell It; setExplanationSize 50; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 1885 1219; setLocation 107 46; setFont Default; setFontSize 14; getToolPalette; tell It; setTool mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindow.ibeam; endTell; setActive; setTool mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindow.ibeam; colorCells #mesquite.charMatrices.ColorByState.ColorByState; tell It; setStateLimit 9; toggleUniformMaximum on; endTell; colorRowNames #mesquite.charMatrices.TaxonGroupColor.TaxonGroupColor; colorColumnNames #mesquite.charMatrices.CharGroupColor.CharGroupColor; colorText #mesquite.charMatrices.NoColor.NoColor; setBackground White; toggleShowNames off; toggleShowTaxonNames on; toggleTight off; toggleThinRows off; toggleShowChanges on; toggleSeparateLines off; toggleShowStates on; toggleAutoWCharNames off;
toggleAutoTaxonNames off; toggleShowDefaultCharNames off; toggleConstrainCW on; toggleBirdsEye off; toggleShowPaleGrid off; toggleShowPaleCellColors off; toggleShowPaleExcluded off; togglePaleInapplicable on; toggleShowBoldCellText off; toggleAllowAutosize on; toggleColorsPanel off; toggleDiagonal on; setDiagonalHeight 80; toggleLinkedScrolling on; toggleScrollLinkedTables off; endTell; showWindow; getWindow; tell It; forceAutosize; endTell; getEmployee #mesquite.charMatrices.AlterData.AlterData; tell It; toggleBySubmenus off; endTell; getEmployee #mesquite.charMatrices.ColorCells.ColorCells; tell It; setColor Red; removeColor off; endTell; 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.QuickKeySelector.QuickKeySelector; tell It; autotabOff; endTell; getEmployee #mesquite.charMatrices.SelSummaryStrip.SelSummaryStrip; tell It; showStrip off; endTell; getEmployee #mesquite.categ.SmallStateNamesEditor.SmallStateNamesEditor; tell It; panelOpen true; endTell;
endTell; endTell; endTell; end;
#NEXUS
[written Tue Nov 26 16:47:33 CET 2019 by Mesquite version 3.51 (build 898) at geosmac15.unifr.ch/134.21.31.191] BEGIN TAXA;
TITLE Taxa;
DIMENSIONS NTAX=69; TAXLABELS
hypothetical_ancestor Proganochelys '***Proterochersis' Palaeochersis '***Australochelys' Kayentachelys Meiolania Mongolochelys Kallokibotion Platychelys Caribemys Notoemys Elseya Chelodina Phrynops Ermnochelys Pelomedusa Podocnemis Compsemys Peltochelys Dorsetochelys Pleurosternon Glyptops Dinochelys Neurankylus Trinitichelys Plesiobaena Boremys Baena Chisternon Portlandemys Plesiochelys Solnhofia Thalassemys Santanachelys Xinjianchelys Hangaiemys Judithemys Dracochelys Sinemys Ordosemys Toxochelys Caretta Chelonia
Mesodermochelys Dermochelys Protochelydra Macroclemmys Chelydra Platysternon '***Mongolemys elegans' Go._polyphemus Chrysemys Geoclemmys Emarginachelys Baptemys Dermatemys Hoplochelys Staurotypus
St._odoratus Kinosternon Zangerlia_neimongolensis Basilemys Adocus '***Sandownia' Ap._spinifera Lis._punctata Anosteria Carettochelys
; END;
BEGIN CHARACTERS;
TITLE 'Matrix in file "Joyce+Peltochelys.nex"'; DIMENSIONS NCHAR=138;
FORMAT DATATYPE = STANDARD GAP = - MISSING = ? SYMBOLS = " 0 1 2 3"; CHARSTATELABELS 1 Na_A, 2 Na_B, 3 Na_C, 4 Pf_A, 5 Pf_B, 6 Pf_C, 7 '*Pf D', 8 Pf_E, 9 La_A, 10 Fr_A, 11 Pa_A, 12 Pa_B, 13 Pa_C, 14 Ju_A, 15 Ju_B, 16 Qj_A, 17 Qj_B, 18 Sq_A, 19 Sq_B, 20 Po_A, 21 St_A, 22 Pm_A, 23 Pm_B, 24 Pm_C, 25 Pm_D, 26 Pm_E, 27 '*Vo A',
28 Vo_B, 29 Vo_C, 30 Pal_A, 31 Qu_A, 32 Qu_B, 33 '*Qu C', 34 Qu_D, 35 '*Qu E', 36 Qu_F, 37 Epi_A, 38 Pt_A, 39 Pt_B, 40 Pt_C, 41 Pt_D, 42 Pt_E, 43 Pt_F, 44 Pt_G, 45 Pt_H, 46 So_A, 47 So_B, 48 Ex_A, 49 Op_A, 50 Bs_A, 51 Bs_B, 52 Hyoman, 53 Stap_A, 54 '*Stap B', 55 Jug_A, 56 Caro_A, 57 Peri_A, 58 Den_A, 59 Spl_A, 60 '*Cpx A', 61 '*Cpx B', 62 Nu_A, 63 Nu_B, 64 neural_A, 65 '*Per A', 66 Per_B, 67 Co_A, 68 '*Co B', 69 Co_C, 70 Cer_A, 71 '*SM A', 72 Ve_A, 73 Ve_B, 74 Ve_C, 75 Plas_A, 76 Plas_B, 77 Plas_C, 78 Ent_A, 79 Ent_B, 80 Ent_C, 81 Ent_D,
82 Ent_E, 83 Epi_A, 84 Hyo_A, 85 '*Mes A', 86 Hypo_A, 87 Xiphi_A, 88 Xiphi_B, 89 PS_A, 90 PS_B, 91 Gul_A, 92 ExGul_A, 93 ExGul_B, 94 ExGul_C, 95 IntGul_A, 96 Hum_A, 97 Pec_A, 98 '*Abd A', 99 An_A, 100 Infr_A, 101 CR_A, 102 CV_A, 103 CV_B, 104 CV_C, 105 CA_A, 106 CA_B, 107 CA_C, 108 CA_D, 109 CA_E, 110 CA_F, 111 CA_G, 112 CA_H, 113 DR_A, 114 DR_B, 115 DR_C, 116 DV_A, 117 Chev_A, 118 Cau_A, 119 Cau_B, 120 '*Cl A', 121 Sca_A, 122 Sca_B, 123 Sca_C, 124 Cor_A, 125 Pel_A, 126 Il_A, 127 Il_B, 128 Il_C, 129 Il_D, 130 Isch_A, 131 Hypois_A, 132 Man_A, 133 '*Man B', 134 '*Man C', 135 Pes_A,
136 Pes_B,
137 'new: peripheral 1, costal contact: 0 = present, 1 = absent',
138 'new: nuchal contribution to margin of shell: 0 = present, 1 = absent.' ; MATRIX hypothetical_ancestor 000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000000 000000000---000000000000000000000000?? Proganochelys 000000000000-00000000000000000000000?00000000000000000000000000?000000000-0000000000000000000000000?00000---00000000000000--00000000?? '***Proterochersis' ???????????????????????????????????????????????????????????00???00??0?110? 00000100000010000000000000???????????????????0?????1??00???????? Palaeochersis 00000?01000???00000000??00001?0?1001?0100000000?1?0?100????00????0??0?0?0? 00000?00?0000000???0????0?0???0---0????1?000?0?0??01000000?? '***Australochelys' ???????10?0???00?0???0??00?0??001001??10000000??1?0?100? 0????????????????????????????????????????????????????????????????????????????????? Kayentachelys 00001011110??10000001100001010012011?01000000000100? 101000000000100000210000000100000000000001000000?00?0---00000101100101--011?????00 Meiolania 000010011001010000101{0 1}0000101011201301111000{0 1}110100110130000000? 100000210?1101010010?00000000100????00001001111100?000{2 3}1100101--01?000?0?0 Mongolochelys 0010100110010100001011000010101120110111000001101?0? 10100000000010000021011101010010000000000100000000001011100100000131100101--0??1001110 Kallokibotion 0010??011?01?1000000100000101011201301111??0??00100?1010?0?0000010000? 21000001?100011100000001000000?0??0---0???0?01??0?0?--????????01 Platychelys ??????????????????????????????????????????????????????????? 00100100000110001011100011110001001000002?0??1???????10101???????110001??????{0 1}0 Caribemys ???????????????????????????????????????????????????????????00100?0??0?2???01011? 000111?00010010000?2?0??1????????0??????????1?10?????????? Notoemys ??????????????????????????????2120???11?0??????01?0?1010???00100100000210001011? 00011?1000???1?00002?0??100?????201?????????1?11???1001100 Elseya 0110011111011101-20111000010102120231111010001001001101200000100100201211-0001110001211000100100000210001000110120101112111111110111001100 Chelodina 0110011111111101-20111000010102120231111010000011001101201000100100200211-0001110001201000101100000210001000110120101112111111110111001100 Phrynops 0110011111011101-201110000101021202311110100000110011012010001001001002111000111000121100010010000021000100011012 0101112111111110111001100 Ermnochelys 1--10101111111000101110000211021212311110100010010011010001001001001012111000111000111100010010000 0210001111111120101112110111110111001100 Pelomedusa 1--10101111111000301110000211021212311110100010010011012001001001001012111000111000111100010010000 0210001111111120101112110111110111001100 Podocnemis 1--10101111111000101110000211021212311110100110010011010001001001001012111000111000111100010010000 0210001111111120101112111111110111001100 Compsemys 0000100110?1110000?01100011010112013011110000???1?0?10111??00100100000211{0 1}00011100010110010001000000????????????1??0????????????????????11 Peltochelys ???????????????????????????????????????????????????????????00??010000?21100001? 100012000011001000000????????????????????????????????????11 Dorsetochelys 001010011101?1000000110000101?1120110111100000001? 001011?????????????????????????????????????????????????????????????????????????????????? Pleurosternon 0110??1111011100000?1100001?10112011011110010000100010111??00? 0010000021010001??000?0?00001001000000?0??0---0????????????1??0???????00 Glyptops 01101?1111?11100????110?011?101120?10111100100??10001011?
0000100100000211100011100010100000001000000?0000---0010???1111101--011?????00 Dinochelys 0?10??1111???10000???10?01??????20?1?????????????0??101??0?00?? 01000002101000111000?0?000000010000{0 1}010??0---0?1??1?1???????????1001100 Neurankylus ???0??11?1?11?????001?????????112011111110?0?000100010111? 0001001000002111000111000101?0000001000000????????????101?????????0?--????????00 Trinitichelys 0010102111111100000011000010101120?11111100000001000101110000100?00? 002111000111000101?00000010000?0?0000---??10????????????????????00 Plesiobaena 0010102111111100000011000010101120? 1111110000000100010111000010010000021110001110001010000002100001010001???11111010010?111101--0111001100 Boremys 00101021111111000000110000101011201111111000100010001011100001001000022111000111000101? 00000210000?010000---10100122????0?--????????00 Baena 1??0102111011100000011000010101120? 11111100000001000101110100100100002211100011100011100000021000010????????????1010???2????0?--011?????00 Chisternon 0010102111011100000011000010101120111111100010001000101110100100100002211-00011100010100000021000010?000100111111010012?111101--?11?????00 Portlandemys 0011100111?10??????011000010101120{1 2}101111000010010001013000??????????????????????????????????????????????????????????????????????????????? Plesiochelys 0011100111{0 1}101000000110000101011201101111010-100100010130000010010000221010{0 1}011100012100000001000000????????????0010????111101--0111001100 Solnhofia 0011100111{0 1}101000?0011000011101120110111100001001000101300000??01? 00002101110???0000200000?????00000110?0---??1??10?11110?--?111001100 Thalassemys 00101011110111000000110000111011201101111010-000100010130??00100?00?0?2?0?? 10??????12???00?????000?011??0---1???????????????????????00 Santanachelys 00101001111101000000110?001110112011?1111010-1001?001013?0?00? 00100010210011011100002000?0??????????11??????????0?1?????11?10?--0111101100 Xinjianchelys ??????????????????????????????1????????1??????????1???????? 00100100000211110011100002000000001000010?1000---20100131111101--011?????00 Hangaiemys 001110011101110000001100001010112?{1 2}1?111100101001?101013??? 001001000002111100111001020000001-10000{0 1}0111?100111112?10????????????????????00 Judithemys ???1??0111?111000?0011???0101?1120{1 2}1?1111000010010101013?0? 001001000002111100111001020000001-10000{0 1}0111?100111112?10113?11?101--0111001100 Dracochelys ???11?01111111000?0?110000101?1121{1 2}1?111100001001??01013?????????????????? 1???????1?????0????????????????????????????????????????????????? Sinemys 0010??1111111100030?11??00??1?112122?111000001001?10101300?0010010000121111{0 1}?11100-0200000???1?000?0???0????????0????1?????????????1001100 Ordosemys 0010100111?111000000110000101011211101111000010010101013??? 00100100000211111????00?0200000???1?0001011?01?01??010?10113?111101--011?????00 Toxochelys 001110011111?10000001100001010112011?1111000010010001013? 010020010001021111101110010200100???1?0?01011?110011111?010011?11110?--0111101100 Caretta 1--110011{0 1}0101000000110100101011201101111020-10011001013001002000000102111110111001020010001-110000011111001111120111112111101--01112011-0 Chelonia 1--1?001110101000000110101101011201101111020-10011001013001002001000102111110111001020010001-11000001111100111112011111211110?--01112011-0 Mesodermochelys ?????????????????????????????????????????????10??????????011020010001?2??? 11011100102001?0??????????11101???????20101112111101--011??????? Dermochelys 1--111011000-0000000110000101011201111111020-10011001013001202003-0-1-2---11-1110010200110---1---11111001111120-01112111101--01112011-0 Protochelydra 1--11?01101111000000110000101?112022?111100011001?0010130???????????0????? 1001110010200000?1-1000110???????????????????2110101--0???????00 Macroclemmys 1--1100110111100000011000110101120220111100? 110010001013001001101000001111110111001020000001-100011011111001111120110132110101--0111001100
Chelydra 1- -11001101111000000110001101011202201111000110010001013001001101000002111110111001020000001-100011011111001111120110132110101--0111001100 Platysternon 1- -11001101111001000110001101011201201111000110010001013001001001000002111100111000020100001-100000011111001110120110132110101--0111001100 '***Mongolemys elegans' 1--{0 1}1001111111000000110000101011202101111000010? 10001013001001001000002111000111000121100001-1000000????100111012?1101?2110101--011100??00 Go._polyphemus 1- -11001111111000300110000101011202201111000110010001013001001001000002111000111000121100001-100000111111001110120111112110101--0110001100 Chrysemys 1- -11001111111000300110000101011202101110000110010001013001001001000002111000111000121100001-100000111111001110120111112110101--0111001100 Geoclemmys 1- -11001101111100300110000101011202101111000110010001013001011001000002111000111000121100001-100000111111001110120111112110101--0111001100 Emarginachelys 1--1100111111100030011000010111120{1 2}101111000110010001013???0111010000? 2111100111000020000001-100??0011??10011111??1?????110101--0111001100 Baptemys 1--11001111111000300110000101111202101111000{0 1}1001?00-213001011001000002111000111000121000001-10010001111101111112?111132110101--1111001100 Dermatemys 1--110011{0 1}111100030011000010111120210111100011001000-213001001{0 1}01001002111000111000120100001-110100011111111111120111112110101--0111001100 Hoplochelys ????????????????????????????????????????????????????????0?? 021101000002111000111000020000001-1001100????????????201????2??010?--????????00 Staurotypus 1--1100110111110130011000110111120210111100011001000111300102110210{0 1}002111001111000020000001-10012001111101111112111111211010?--1111001100 St._odoratus 1- -11001101111001300110000101111202101111000110010001113001011102111002111001111?10020000001-111120011111011111121111112110101--1111001100 Kinosternon 1- -11001101111001300110000101111202101111000110010001113001011102111002111001111?10020000001-11112001111101111112111111211010?--1111001100 Zangerlia_neimongolensis 1--11?0110?1?1?003001100001?1?1120{1 2}2?111100001001?001013?0100??11?? 00?211?000111000020000100210000001111100000012??1????110101--011000?100 Basilemys 1--1??01111??1000300110?00??1??12022?111?0??????1????????0100101100{0 1}002111000111000020000100{0 2}100000011111000000????????211?101--011000??00 Adocus 1--11001111111? 003001100001011112021011110001100100010130010010110010021110001110000200001000100000011111000000 02?11???2110101--0111001100 '***Sandownia' 1--1100111011100000011{0 1}?0011111120{1 2}211111010-00010001013001??????????????????????????????????????????????????????????????????????????????? Ap._spinifera 1--11101111111100300111210111111201201111001110010001013001201003-01--2---11-11110-0200-1----1---110110000002201-1112110101--01110111-0 Lis._punctata 1--11101111111100300111210111111201201111001110010001013001201003-01--2---11-11110-0200-1----1---110110000002201-1112110101--01110111-0 Anosteria 1--1??01111??100030011?200111?112022?1111001{0 1}1001?0010130??10100200100211? 10-111000020001----1---????????????????????11??0?--?111021100 Carettochelys 1--111011111110013001112001111112022011110011100100010130011010020010-2---10-111000020001----1---11011000000120111112110101--0111021100 ; END;
BEGIN paup;
outgroup hypothetical_ancestor;
ctype ord : 7 24 27 33 35 54 60 61 65 66 68 71 85 98 120 134 135; hsearch;
condense deldupes = yes; filter best = yes;
END;
BEGIN ASSUMPTIONS;
TYPESET * UNTITLED = unord: 1- 6 8- 26 28- 32 34 36- 53 55- 59 62- 64 66- 67 69- 70 72- 84 86- 97 99- 119 121- 132 135- 138, ord: 7 27 33 35 54 60- 61 65-71\3 85 98 120 133- 134;
END;
BEGIN MESQUITECHARMODELS;
ProbModelSet * UNTITLED = 'Mk1 (est.)': 1- 138; END;
BEGIN NOTES;
TEXT TAXON = 20 CHARACTER = 62 TEXT = ?_not_1; TEXT TAXON = 20 CHARACTER = 63 TEXT = ?_not_0; TEXT TAXON = 20 CHARACTER = 65 TEXT = '1, not 2'; TEXT TAXON = 20 CHARACTER = 68 TEXT = '0, not 1'; TEXT TAXON = 19 CHARACTER = 70 TEXT = '0, not ?'; TEXT TAXON = 19 CHARACTER = 74 TEXT = '0/1, not 2'; TEXT TAXON = 20 CHARACTER = 79 TEXT = '?, not 1'; TEXT TAXON = 20 CHARACTER = 84 TEXT = '1, not 0'; TEXT TAXON = 20 CHARACTER = 90 TEXT = '1, not 0'; END; Begin MESQUITE; MESQUITESCRIPTVERSION 2; TITLE AUTO; tell ProjectCoordinator; timeSaved 1574783253632; getEmployee #mesquite.minimal.ManageTaxa.ManageTaxa; tell It; setID 0 4345420922122845777; tell It; setDefaultOrder 0 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 1 63 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 64 65 66 67 68; attachments ; endTell;
endTell;
getEmployee #mesquite.charMatrices.ManageCharacters.ManageCharacters; tell It;
setID 0 670605164941142207; mqVersion 351;
checksumv 0 3 507140264 null getNumChars 138 numChars 138 getNumTaxa 69 numTaxa 69 short true bits 2305843009213693967 states 15 sumSquaresStatesOnly 26596.0 sumSquares -1.521856386081038E20 longCompressibleToShort false usingShortMatrix true NumFiles 1 NumMatrices 1;
mqVersion; endTell;
getWindow; tell It; suppress;
setResourcesState false false 100; setPopoutState 300; setExplanationSize 0; setAnnotationSize 0; setFontIncAnnot 0; setFontIncExp 0; setSize 1872 1260; setLocation 448 48; setFont Default; setFontSize 24; getToolPalette; tell It; endTell; desuppress; endTell; getEmployee #mesquite.charMatrices.BasicDataWindowCoord.BasicDataWindowCoord; tell It; showDataWindow #670605164941142207 #mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindowMaker; tell It; getWindow; tell It; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 1772 1188; setLocation 448 48; setFont Default; setFontSize 12; getToolPalette; tell It; setTool mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindow.ibeam; endTell; setActive; setTool mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindow.ibeam; 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; toggleDiagonal on; setDiagonalHeight 80; toggleLinkedScrolling on; toggleScrollLinkedTables off; endTell; showWindow; getWindow; tell It; forceAutosize; endTell; getEmployee #mesquite.charMatrices.AlterData.AlterData; tell It; toggleBySubmenus off; 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.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.QuickKeySelector.QuickKeySelector; tell It; autotabOff; endTell; getEmployee #mesquite.charMatrices.SelSummaryStrip.SelSummaryStrip; tell It; showStrip off; endTell; getEmployee #mesquite.categ.SmallStateNamesEditor.SmallStateNamesEditor; tell It; panelOpen true; endTell; endTell; endTell; getEmployee #mesquite.charMatrices.ManageCharacters.ManageCharacters; tell It; showCharacters #670605164941142207 #mesquite.lists.CharacterList.CharacterList; tell It; setData 0; getWindow; tell It; useTargetValue off; setTargetValue ; newAssistant #mesquite.lists.DefaultCharOrder.DefaultCharOrder; newAssistant #mesquite.lists.CharListInclusion.CharListInclusion; newAssistant #mesquite.lists.CharListPartition.CharListPartition; newAssistant #mesquite.parsimony.CharListParsModels.CharListParsModels; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 1772 1188; setLocation 448 48; setFont Default; setFontSize 24; getToolPalette; tell It; endTell; endTell; showWindow; getEmployee #mesquite.lists.CharListAnnotPanel.CharListAnnotPanel; tell It; togglePanel off; endTell; endTell; endTell; endTell; end;
#NEXUS
[written Wed Dec 11 13:58:27 CET 2019 by Mesquite version 3.51 (build 898) at geosmac15.unifr.ch/134.21.31.191] BEGIN TAXA;
TITLE Taxa;
DIMENSIONS NTAX=32; TAXLABELS
Proganochelys Kayantechelys Arundelemys_dardeni Dinochelys_whitei Glyptops_plicatulus Uluops_uluops Trinitichelys_hiatti Neurankylus_exemius Hayemys_latifrons Plesiobaena_antiqua Peckemys_brinkman
Cedrobaena_putorius Boremys_pulchra Boremys_grandis Eubaena_cephalica Palatobaena_cohen Palatobaena_bairdi Palatobaena_gaffneyi Stygiochelys_estesi Baena_arenosa Chisternon_undatum Gammerabaena_sonsalla
Denizenemys_nodosa Denizenemys_ornata Pleurosternon Berruchelus_russelli__ Compsemys_victa
Dorsetochelys_typocardium__ Peltochelys_duchastelli Riodevemys_inumbragigas__ Selenemys_lusitanica__ Toremys_cassiopeia
; END;
BEGIN CHARACTERS;
TITLE 'Matrix in file "palato 9-26-08paup.nex"'; DIMENSIONS NCHAR=107;
FORMAT DATATYPE = STANDARD GAP = - MISSING = ? SYMBOLS = " 0 1 2 3 4 5 6 7 8 9"; CHARSTATELABELS
1 '*skull shape in dorsal view' / 'wedge_shaped_(width_approximates_length)' 'long_(length_is_more_than_twice_the_width)' round,
2 preorbital_length / short long,
3 orbit_shape / circular 'posterior_notch_(not_perfect_circle)',
4 size_of_orbit / 'orbit_larger_than_maxillary_height,_but_not_as_large_as_tympanum' orbit_smaller_than_maxillary_height,
5 orientation_of_orbit / laterally dorsally,
6 '*lingual ridge' / complete 'reduced,_anteriorly_only' absent,
7 shape_of_triturating_surface / lingual_and_labial_margins_more_or_less_parallel 'lingual_and_labial_margins_diverge_posteriorly,_triturating_surface_greatly_expanded_posteriorly', 8 'intermaxillary arch/ tongue groove' / broad narrow,
9 palatine_contribution_to_triturating_surface / no yes,
10 interorbital_width / wide 'narrow_(hour_glass_shaped_around_the_orbits)', 11 swollen_maxillae / no yes,
12 nasal_size / large reduced,
13 frontal_contribution_to_external_nares / absent 'present,_between_nasals_and_maxillae' 'present,_between_nasals_along_midline',
14 '*prefrontal exposure on skull roof' / large reduced absent,
15 postorbital_contribution_of_frontal / frontal_extends_well_beyond_posterior_portion_of_orbit frontal_ends_before_or_even_with_orbit,
16 '*frontal contribution to orbits (in lateral view)' / absent small large, 17 frontal_maxilla_contact / absent present,
18 '*jugal contribution to orbit' / large small absent,
19 jugal_extends_ventrally_as_far_as_maxilla / '_yes,_jugal_extends_ventrally_as_far_as_the_maxilla' 'no,_jugal_ends_ventrally_before_maxilla_does',
20 posterodorsal_extension_of_quadratojugal / QJ_extends_over_tympanum QJ_does_not_crest_tympanum, 21 squamosal_parietal_contact / 'present,_upper_temporal_emargination_shallow'
'absent,_upper_temporal_emargination_deep',
23 posterior_thickening_of_parietal / 'does_not_thin_out_posteriorly_(i.e._remains_thick)' thins_out_posteriorly, 24 posterior_extention_of_crista_supraoccipitalis / extends_beyond_occipital_condyle does_not_extend_beyond_occipital_condyle, 25 praepalatine_foramen / located_entirely_within_premaxillae 'located_within_suture_of_premaxillae,_vomer,_and_maxillae',
26 posterior_edge_of_vomer / straight pointed_posteriorly,
27 foramen_palatinum_posterius / formed_by_pterygoid_and_palatine formed_entirely_by_palatine, 28 '*midline contact of pterygoid' / large small absent,
29 pterygoid_basioccipital_contact / poorly_developed well_developed, 30 epipterygoid / present absent,
31 basisphenoid_size_and_shape / triangular pentagonal rectangular,
32 contribution_of_opisthotic_to_stapedial_foramen / excluded_from_stapedial_foramen enters_stapedial_foramen,
33 '*splenial' / large reduced absent,
34 tubercle_on_posterolateral_edge_of_dentary / absent present, 35 'shape of the dentary/surangular contact' / 'Z-shaped' straight,
36 '*scalloping of posterior rim of carapace' / absent 'present,_but_slight' distinct, 37 5th_vertebral_forms_postior_edge_of_shell / no yes,
38 posterior_margin_of_carapace / posterior_margin_rounded_convex posterior_margin_flat_or_concave, 39 fenestrae_between_costals_and_peripherals_in_adults / no
'yes,_fenestra_present,_even_in_individuals_where_sutures_are_fused', 40 preneural / absent present,
41 peripheral_count / 11 12_or_more,
42 mesoplastral_reduction / mesoplastral_with_midline_contact midline_contact_absent mesoplastra_absent, 43 cervical_scutes / absent single multiple,
44 vertebral_length_versus_width / width_significantly_greater_than_length length_and_width_approximately_equal length_greater_than_width,
45 nuchal_scute / absent present,
46 anterior_supernumary_pleural / absent present, 47 posterior_supernumerary_pleural / absent present, 48 supramarginal_scales / absent present,
49 placement_of_marginal_I / great_majority_located_over_nuchal 'evenly spans nuchal/peripheral suture' majority_located_over_peripheral_1,
50 'epiplastral processes (i.e., cleithra)' / present absent,
51 gulars / smaller_than_extragulars as_large_as_extragulars much_larger_than_extragulars, 52 medial_contact_of_extragulars / absent present,
53 placement_of_anal_scute / anal_on_xiphiplastron_only anal_laps_onto_hypoplastron_as_well, 54 xiphiplastron_hypoplastron_suture / straight 'z-shaped',
55 Pygal_notch / absent present,
56 anteriorly_scalloped_shell / absent 'present;_apomorphy_of_Boremys', 57 sulcus_around_external_narial_opening / no present,
58 external_pterygoideus / present greatly_reduced, 59 angle_between_maxillae / acute_angle obtuse_angle, 60 jugal_thickening / absent present,
61 vertical_indentation_on_maxilla_anterior_of_orbit / absent 'present,_autapomorphy_of_Gamerabaena_sonsalla', 62 Basiocciptal_shape / Blocky_without_any_tubercles 'Sagitally_horzontal_tubercles_present;_autapomorphy_of_Palatobaena_cohen', 63 length_between_orbit_and_cheek_emargination / '1/2_or_greater_than_the_diameter_of_orbit' equal_to_the_diameter_of_the_orbit significantly_less_than_half_the_diameter_of_the_orbit,
64 'shape of frontal/parietal suture' / slightly_curved_to_straight greatly_curved_or_knotched, 65 size_of_mandibular_condoyle / small large,
67 orbit_inset_into_maxilla / no yes,
68 Parietal_width_versus_length / maximum_combined_width_of_parietals_less_then_their_length maximum_combined_width_of_parietals_greater_than_their_length,
69 Internal_carotid_location / within_basisphenoid halfway_between_suture_of_basisphenoid_and_pterygoid, 70 Interpterygoid_vacuity / present absent, 71 Cheek_emargination / no_emargination
'deeply_emarginated,_reaching_at_least_to_the_ventral_margion_of_the_orbit', 72 Hooked_premaxilla / absent present,
73 'Nasal/frontal suture shape' / straight 'convex_anteriorly_(i.e._frontals_extend_in_between_nasals)', 74 'nasal/premaxilla relationship' / Nasals_extend_even_with_premaxilla_anteriorly
Nasals_do_not_reach_as_far_as_anterior_edge_of_premaxillae_anteriorly, 75 Hooked_mandible / absent present,
76 labial_ridge_on_mandible / present absent, 77 snout_shape / rectangular_snout pointed_snout,
78 lateral_internal_carotid / subequal_to_the_internal_carotid_artery_foramen half_the_diameter_of_the_internal_carotid,
79 size_of_tympanum / 'small_(smaller_than_diameter_of_orbit)' 'large_(larger_than_diameter_of_orbit)', 80 Size_of_the_external_narial_opening / 'small,_significantly_smaller_than_the_orbit'
'large,_approximately_the_same_size_as_the_orbit',
81 distal_caudals / same_length_as_proximal_caudals significantly_longer_than_proximal_caudals, 82 Presence_of_free_cervical_ribs / present absent,
83 articular_surfaces_on_cervical_vertebrae / 'no,_all_are_amphicoelous' 'yes,_some_vertebrae_are_proceolous_or_ophisthocoelous',
84 fenestra_perilymphatica / large small, 85 sculptured_skull / 'absent_(may_have_crenulations,_but_sculpturing_not_similar_to_that_found_on_shell)' 'knobs_(similar_to_that_found_on_the_shell,_where_known)', 86 shell_sculpturing / smooth_to_slightly_sculptured 'distinct_tubercles_for_sculpturing_"glyptops_like"_sculpturing' knobby, 87 Shape_of_3rd_vertebral / as_wide_anteriorly_as_it_is_wide_posteriorly narrower_anteriorly_compared_to_its_posterior_width,
88 nuchal_opens_on_anterior_margin_of_shell / yes 'no,_peripherals_meet_anteriorly', 89 xiphiplastral_knotch / absent present,
90 distinct_thickening_on_plastron_medial_to_inguinal_buttresses / 'absent,_no_distinct_thickening' 'present,_distinct,_rounded_thickening_medial_to_inguinal_buttresses_of_plastron',
91 distinct_plastral_thickening_of_plastron_medial_to_axillary_buttress / absent present, 92 development_of_axillary_buttress / poorly_developed_with_the_buttress_only_weakly_extending_onto_the_costals 'well_developed_with_the_buttress_extending_onto_the_costals_(forming_a_distinct_neck_shield)', 93 extent_of_inguinal_buttress / 'poorly_developed_with_the_buttress_not_extending_onto_the_middle_of_the_costals_(ends_on_the_distal_portion_of _costal)' _well_developed_withthe_buttress_reaching_the_costals,
94 number_of_suprapygals / one two, 95 suprapygal_size / large small,
96 neural_5 / wider_than_long longer_than_wide,
97 neural_6_contacts / contacts_costals_5_and_6 'contacts_costals_5,_6,_and_7',
98 distinct_thickening_on_the_lateral_portion_of_the_posterior_plastral_lobe / absent present, 99 'new: peripheral 1 contact with costal 1' / absent present,
100 'new: relative width of suprapygals' / suprapygal_1_clearly_narrower_than_suprapygal_2 about_the_same_width,
101 'new: lateral margins of nuchal' / margins_parallel margins_convergent,
102 'new: entoplastral dimensions' / longer_than_broad about_equal broader_than_long, 103 'new: midline sulcus' / straight highly_sinuous,
104 'extra state: absence of cervical', 105 extra_state_for_mesoplastra, 106 extra_state_for_marginal_overlap_on_nuchal, 107 extra_state_for_relative_size_of_gulars ; MATRIX Proganochelys 000000000000000000000000000?00000000000000100?? 1100000000000000000000000000000000000000?00000????0????0???? Kayantechelys 00000000000000010?0?0000000? 00000010000000100000100000000000000000000000001000000000000000000??00010100???? Arundelemys_dardeni 0000010010000001021?110100001001????????????????????????000000?0? 000110010??01?0????11????????????????????? Dinochelys_whitei ?0000?0?000000010???0????????????0?00000001000001?10100000000?00??001101? 110????00??10000?00010???11110???? Glyptops_plicatulus 10000200110000120210001?00020020000000000011000010100000000000000? 00110111101?00?00?1100010001010111110???? Uluops_uluops 0000010010000011001000000000101?????????????????????????00000? 100000111010??0?10???01?????????????????????? Trinitichelys_hiatti 00000100010001120210111010001?11??????00?01100?0110000? 0000000000000111000??0?00??001110?1011??1?1???10???? Neurankylus_exemius 00?00??0?00000110???0010???01?01?0?10000001100001110000000000101000011? 0001001?111100010010111011110110???? Hayemys_latifrons 00??0??0?00000001210111??0101?00????????????????????????000000000? 00111000??0?11???00???0?????????????????? Plesiobaena_antiqua 000001101001(0 2)11212001110110110100101111010110000210111100000000001001110010111111110000001111001111-000???? Peckemys_brinkman 00000010110??11111101000110211100111?1?010100000111??? 10000001200100????????????????????01111?????????0???? Cedrobaena_putorius 00000111111??1111100111010(0 1)2111001?????????????????????? 000000001010??????????????????????????????????????? Boremys_pulchra 01000?11?10101121?101110? 00011101002110110211111111101110000000001001110010111111000020001111011111-000???? Boremys_grandis ??????????????????????????????????? 211011022111111110111?????????????????????????????20001111011?11?000???? Eubaena_cephalica 01010111011101101210111010001110???????????????????????? 000000110100111001??1?11???00000??????????????????? Palatobaena_cohen 2000121010112201110011101100111001111110?0110000210?11? 011110111111011101101??11???0000001111????11??10???? Palatobaena_bairdi 20001210101122111000100011001110011????????????????????? 11110011121011101101??11???00?????????????????????? Palatobaena_gaffneyi 20011210101122111100100011011110???????????????????????? 111100111210111011????11???00?????????????????????? Stygiochelys_estesi 00100110001112121110111100111111??????????2211?0??01??? 0000000100100111001011111???000000111111???????????? Baena_arenosa 001001100001? 21210110001000011112101110011220100110111100000000000011110?1011111???0000001111??1111-000???? Chisternon_undatum 001001100011121210110101001111112001110110221100110110100000000101011110010111111110000001111?? 1?11-000???? Gammerabaena_sonsalla 0000111000111100120??????1001110????????????????????????00001?11??1? 111001??1??1???00?????????????????????? Denizenemys_nodosa ???????????????????????????????????2110?1022110011110? 11?????????????????????????????20001111????11-000???? Denizenemys_ornata ???????????????????????????????????1110?1011000011010? 10?????????????????????????????20001111????1????0????
Pleurosternon 10000200?0000012021000100?020021??? 000000000000010100000000000100100111011??0?00?00111001?0001010?10120???? Berruchelus_russelli__ ???????????????????????????????????00000000? 000001200000?????????????????????????????1?11??1110?0?001{1 2}1???? Compsemys_victa 000002001000000000010?0??000100001?000000001000001200000000000?00? 00110110??1?00????1101110111000000121???? Dorsetochelys_typocardium__ 100002001000001201100010?000000????00000001100001? 100000000000000200111011????1?????11000????1010?11120???? Peltochelys_duchastelli ???????????????????????????????????0000100?100000? 100000?????????????????????????????1010??1?1010?01121???? Riodevemys_inumbragigas__ ???????????????????????????????????00000011000001? 100000?????????????????????????????1000??0?1010?10121???? Selenemys_lusitanica__ ??????????????????????????????????? 000000000000001100000?????????????????????????????1010????1010?00121???? Toremys_cassiopeia ???????????????????????????????????00000000?00001? 100000?????????????????????????????1001??0?10?0?10120???? ; END; BEGIN paup;
outgroup Kayantechelys Proganochelys;
set increase = auto taxlabels = full torder = right tcompress = yes; pset collapse = minbrlen;
exe ratchet1.nex;
savetrees file = trl.tre append = yes; clear;
exe ratchet2.nex;
savetrees file = trl.tre append = yes; clear;
exe ratchet3.nex;
savetrees file = trl.tre append = yes; clear;
exe ratchet4.nex;
savetrees file = trl.tre append = yes; clear;
exe ratchet5.nex;
savetrees file = trl.tre append = yes; clear;
gettrees file = trl.tre allblocks = yes; condense deldupes = yes;
filter best = yes; hsearch start = current; condense deldupes = yes; filter best = yes;
END;
BEGIN ASSUMPTIONS;
OPTIONS DEFTYPE = unord PolyTcount = MINSTEPS;
TYPESET * UNTITLED = unord: 1- 5 7- 13 15 17 19- 27 29- 32 34- 35 37- 41 45- 48 50 52- 62 64- 65 67- 101 103- 107, ord: 6 14 16 18 28 33-36\3 42- 44 49 51 63-66\3 102;
BEGIN NOTES;
TEXT TAXON = 25 TEXT = check_scoring_once_appropriate_papers_are_obtained; TEXT TAXON = 27 TEXT = check_all_scoring_against_actual_specimen;
TEXT CHARACTER = 1 TEXT = changed_and_ordered;
TEXT TAXON = 22 CHARACTER = 5 TEXT = could_go_either_way;
TEXT TAXON = 5 CHARACTER = 6 TEXT = check...temp._changed_from_0_to_2;
TEXT TAXON = 15 CHARACTER = 6 TEXT = changed_based_on_material_found_in_2009; TEXT TAXON = 25 CHARACTER = 6 TEXT = changed_from_?_to_2;
TEXT TAXON = 27 CHARACTER = 6 TEXT = changed_from_1_to_2; TEXT TAXON = 8 CHARACTER = 7 TEXT =
'changed_from_0_to_?,_I_don''t_know_how_we_can_know_this_one,_maybe_based_on_lower_jaw_but_that_is_an_ex trapolation';
TEXT CHARACTER = 8 TEXT = changed_the_polarity; TEXT TAXON = 7 CHARACTER = 8 TEXT = changed;
TEXT CHARACTER = 9 TEXT = POLARITY_SHOULD_BE_CHANGED; TEXT TAXON = 7 CHARACTER = 9 TEXT = changed;
TEXT TAXON = 5 CHARACTER = 10 TEXT = changed; TEXT TAXON = 7 CHARACTER = 10 TEXT = changed; TEXT TAXON = 21 CHARACTER = 10 TEXT = changed; TEXT TAXON = 22 CHARACTER = 10 TEXT = changed;
TEXT TAXON = 25 CHARACTER = 10 TEXT = changed_from_1_to_0;
TEXT TAXON = 15 CHARACTER = 11 TEXT = changed_from_0_to_1_based_on_new_material; TEXT TAXON = 21 CHARACTER = 11 TEXT = changed_from_0_to_1;
TEXT TAXON = 10 CHARACTER = 13 TEXT =
'as_in_the_Plesiobaena_paper,_but_changed_from_Gamera_and_cohen'; TEXT TAXON = 5 CHARACTER = 15 TEXT = changed_from_0_to_1; TEXT TAXON = 7 CHARACTER = 15 TEXT = tough_to_say;
TEXT TAXON = 25 CHARACTER = 15 TEXT = changed_to_1; TEXT CHARACTER = 16 TEXT = polarity_changed;
TEXT TAXON = 8 CHARACTER = 16 TEXT = CHANGED; TEXT CHARACTER = 18 TEXT = POLARITY_CHANGED;
TEXT TAXON = 7 CHARACTER = 18 TEXT = changed_from_1_to_2; TEXT TAXON = 9 CHARACTER = 18 TEXT = changed_from_1_to_2; TEXT CHARACTER = 19 TEXT = polarity_changed;
TEXT TAXON = 7 CHARACTER = 21 TEXT =
'while_there_is_a_slight_contact_between_the_squamosal_and_parietal,_the_upper_temporal_emargination_is_deep...'; TEXT CHARACTER = 22 TEXT = POLARITY_CHANGED;
TEXT CHARACTER = 23 TEXT = POLARITY_CHANGED;
TEXT TAXON = 25 CHARACTER = 26 TEXT = changed_from_0_to_?; TEXT CHARACTER = 28 TEXT = POLARITY_CHANGED;
TEXT TAXON = 5 CHARACTER = 29 TEXT = flopped_back_and_forth_on_this_one; TEXT TAXON = 25 CHARACTER = 29 TEXT = changed_from_?_to_0;
TEXT TAXON = 10 CHARACTER = 30 TEXT = 'CHANGED_(SEE_BRINKMAN,_2003)'; TEXT CHARACTER = 31 TEXT = POLARITY_CHANGED;
TEXT TAXON = 7 CHARACTER = 31 TEXT = changed_from_0_to_1; TEXT TAXON = 1 CHARACTER = 32 TEXT = check;
TEXT TAXON = 25 CHARACTER = 32 TEXT = 'changed,_see_gaffney,_1979_p._128_DOUBLE_CHECK!'; TEXT TAXON = 8 CHARACTER = 33 TEXT = check;
TEXT TAXON = 8 CHARACTER = 34 TEXT = check; TEXT TAXON = 1 CHARACTER = 35 TEXT = check; TEXT TAXON = 8 CHARACTER = 35 TEXT = check; TEXT CHARACTER = 39 TEXT =
'check_for_palatobaena_paper;_Brinkman_says_adult_Plesiobaena_specimens_do_not_have_fenestrae...'; TEXT TAXON = 27 CHARACTER = 43 TEXT = 'not applicable, not 0';
TEXT CHARACTER = 44 TEXT = changed_number_of_character_states; TEXT CHARACTER = 48 TEXT = reconsider_polarity;
TEXT TAXON = 27 CHARACTER = 49 TEXT = '2, not 0'; TEXT CHARACTER = 50 TEXT = double_check_this_character; TEXT TAXON = 4 CHARACTER = 50 TEXT = check;
TEXT TAXON = 25 CHARACTER = 50 TEXT = check; TEXT CHARACTER = 51 TEXT = change_polarity; TEXT TAXON = 7 CHARACTER = 51 TEXT = close; TEXT TAXON = 25 CHARACTER = 51 TEXT = check; TEXT TAXON = 27 CHARACTER = 51 TEXT = '2, not 0'; TEXT TAXON = 25 CHARACTER = 53 TEXT = check; TEXT TAXON = 1 CHARACTER = 62 TEXT = check; TEXT TAXON = 8 CHARACTER = 62 TEXT = check; TEXT TAXON = 3 CHARACTER = 63 TEXT = broken; TEXT TAXON = 5 CHARACTER = 75 TEXT = check;
TEXT CHARACTER = 78 TEXT = check_character_scoring; TEXT TAXON = 5 CHARACTER = 82 TEXT = check; TEXT TAXON = 7 CHARACTER = 82 TEXT = check; TEXT TAXON = 4 CHARACTER = 90 TEXT = check; TEXT TAXON = 8 CHARACTER = 92 TEXT = check; TEXT TAXON = 27 CHARACTER = 92 TEXT = '1, not 0';
TEXT CHARACTER = 93 TEXT = might_add_a_3rd_state_where_it_reaches_neaurals_as_in_baenodds.; TEXT TAXON = 8 CHARACTER = 93 TEXT = check;
TEXT TAXON = 27 CHARACTER = 93 TEXT = '1, not 0'; TEXT TAXON = 27 CHARACTER = 94 TEXT = '1, not 0'; END; BEGIN MacClade; Version 4.0 84; LastModified -939548019; FileSettings editor '0' '1' '1' '0'; Singles 000;
Editor 0001100111111110010001001 '0' '24' Geneva '9' '100' '1' all; EditorPosition '44' '4' '515' '1419';
TreeWindowPosition '46' '6' '835' '1390';
ListWindow Characters closed Geneva '9' '589' '753' '273' '572' 000; ListWindow Taxa closed Geneva '9' '318' '246' '273' '284' 100000; ListWindow Trees closed Geneva '9' '50' '10' '129' '379';
ListWindow TypeSets closed Geneva '9' '50' '10' '276' '490'; ListWindow WtSets closed Geneva '9' '50' '10' '276' '490'; ListWindow ExSets closed Geneva '9' '50' '10' '276' '490'; ListWindow CharSets closed Geneva '9' '50' '10' '276' '490'; ListWindow TaxSets closed Geneva '9' '50' '10' '276' '490'; ListWindow CharPartitions closed Geneva '9' '50' '10' '276' '490'; ListWindow CharPartNames closed Geneva '9' '50' '10' '276' '490'; ListWindow WtSets closed Geneva '9' '50' '10' '276' '490';
ChartWindowPosition '52' '30' '818' '1380';
StateNamesSymbols open Geneva '9' '10' '680' '65' '192' '548'; WindowOrder Data States;
OtherSymbols & / 00 ? -; Correlation '0' '0' '1000' '0' '0' 10011010; Salmo 00000001; EditorFile '2'; ExportHTML _ MOSS '100' 110000; PrettyPrint 10; EditorToolsPosition '768' '926' '115' '165'; TreeToolsPosition '740' '9' '126' '138'; TreeWindowProgram 10; TreeWindow 0000; Continuous '0' '3' 1; Calculations 0000001; SummaryMode '0' '0' 0;
NexusOptions '0' '0' '50' 001011011; TipLabel '1';
TreeFont Geneva '9' ( normal ); TreeShape 1.0 1.0 0100; TraceLabels 0101; ChartColors '0' '0' '65535' '9' '0' 1; ChartBiggestSpot 1; ChartPercent 10; ChartBarWidth '10' 1; ChartVerticalAxis 10101; ChartMinMax '0'; TraceAllChangesDisplay '1' 1; BarsOnBranchesDisplay '0' '0' '60000' '10000' '10000' '10000' '10000' '60000' '65000' '65000' '65000' '6' '1' 0000101; ContinuousBranchLabels 0; AllStatesBranchLabels 1; IndexNotation '2' 1;
PrintTree 10.00 '2' '2' '2' '2' '2' '2' '2' '2' '2' '2' '2' Geneva '9' ( normal ) Geneva '10' ( normal ) Geneva '9' ( normal ) Geneva '9' ( normal ) Geneva '9' ( bold ) Geneva '9' ( normal ) Geneva '9' ( normal ) '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '0' '1' '1' '1' '1' '1' '30251' '-39' '4' '-40' '0' '1' '2' '1' '8' '0' '0' '0' '2' 1000111000000000000100000111000; MatchChar 00 .; EntryInterpretation 01; ColorOptions 00; TreeTools '0' '5' '4' '0' '10' '4' '0' 00100111111101110; EditorTools '0' '0' '0' '1000' '0' '0' '6' '3' '0' 100000101110001; PairAlign '2' '2' '3' '2' '1' '1' '2' '1' '3' 1010; BothTools '1'; END; BEGIN MESQUITECHARMODELS;
ProbModelSet * UNTITLED = 'Mk1 (est.)': 1- 107; END; Begin MESQUITE; MESQUITESCRIPTVERSION 2; TITLE AUTO; tell ProjectCoordinator; timeSaved 1576069107817; getEmployee #mesquite.minimal.ManageTaxa.ManageTaxa; tell It; setID 0 2204592169376652573; tell It; setDefaultOrder 0 1 4 5 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 6 27 3 2 31 28 29 32; attachments ; endTell; endTell; getEmployee #mesquite.charMatrices.ManageCharacters.ManageCharacters; tell It; setID 0 5887150998515415147; tell It; setDefaultOrder 0 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 50 51 52 53 55 56 57 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 98 101 103 105 117 107 108 109 110 111 112 113 114;
attachments ; endTell;
mqVersion 351;
checksumv 0 3 3003249394 null getNumChars 107 numChars 107 getNumTaxa 32 numTaxa 32 short true bits 2305843009213693959 states 7 sumSquaresStatesOnly 5641.0 sumSquares -9.2233720368547707E18 longCompressibleToShort false usingShortMatrix true NumFiles 1 NumMatrices 1;
mqVersion; endTell;
getWindow; tell It; suppress;
setResourcesState false false 100; setPopoutState 300; setExplanationSize 0; setAnnotationSize 0; setFontIncAnnot 0; setFontIncExp 0; setSize 1284 858; setLocation 661 292; setFont Default; setFontSize 24; getToolPalette; tell It; endTell; desuppress; endTell; getEmployee #mesquite.charMatrices.BasicDataWindowCoord.BasicDataWindowCoord; tell It; showDataWindow #5887150998515415147 #mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindowMaker; tell It; getWindow; tell It; getTable; tell It; rowNamesWidth 175; endTell; setExplanationSize 50; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 1184 766; setLocation 661 292; setFont Default; setFontSize 12; getToolPalette; tell It; setTool mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindow.ibeam; endTell; setActive; setTool mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindow.ibeam; colorCells #mesquite.charMatrices.ColorByState.ColorByState;
tell It; setStateLimit 9; toggleUniformMaximum on; endTell; colorRowNames #mesquite.charMatrices.TaxonGroupColor.TaxonGroupColor; colorColumnNames #mesquite.charMatrices.CharGroupColor.CharGroupColor; colorText #mesquite.charMatrices.NoColor.NoColor; setBackground White; toggleShowNames off; 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; toggleDiagonal on; setDiagonalHeight 80; toggleLinkedScrolling on; toggleScrollLinkedTables off; endTell; showWindow; getWindow; tell It; forceAutosize; endTell; getEmployee #mesquite.charMatrices.AlterData.AlterData; tell It; toggleBySubmenus off; endTell; getEmployee #mesquite.charMatrices.ColorCells.ColorCells; tell It; setColor Red; removeColor off; endTell; getEmployee #mesquite.categ.StateNamesEditor.StateNamesEditor; tell It; makeWindow; tell It; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0;
setSize 1184 786; setLocation 661 292; setFont Default; setFontSize 24; getToolPalette; tell It; setTool mesquite.categ.StateNamesEditor.StateNamesWindow.ibeam; endTell; rowsAreCharacters on; toggleConstrainChar on; toggleConstrainCharNum 3; togglePanel off; toggleSummaryPanel off; endTell; showWindow; endTell; 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.QuickKeySelector.QuickKeySelector; tell It; autotabOff; endTell; getEmployee #mesquite.charMatrices.SelSummaryStrip.SelSummaryStrip; tell It; showStrip off; endTell; getEmployee #mesquite.categ.SmallStateNamesEditor.SmallStateNamesEditor; tell It; panelOpen true; endTell; endTell; endTell; getEmployee #mesquite.charMatrices.ManageCharacters.ManageCharacters; tell It; showCharacters #5887150998515415147 #mesquite.lists.CharacterList.CharacterList; tell It; setData 0; getWindow; tell It; useTargetValue off; setTargetValue ; newAssistant #mesquite.lists.DefaultCharOrder.DefaultCharOrder; newAssistant #mesquite.lists.CharListInclusion.CharListInclusion; newAssistant #mesquite.lists.CharListPartition.CharListPartition;
newAssistant #mesquite.parsimony.CharListParsModels.CharListParsModels; setExplanationSize 30; setAnnotationSize 20; setFontIncAnnot 0; setFontIncExp 0; setSize 1184 786; setLocation 661 292; setFont Default; setFontSize 24; getToolPalette; tell It; endTell; endTell; showWindow; getEmployee #mesquite.lists.CharListAnnotPanel.CharListAnnotPanel; tell It; togglePanel off; endTell; endTell; endTell; endTell; end;
