from PyQt5 import QtCore
from collections import OrderedDict

init_sequence_type = OrderedDict([('general', OrderedDict([('Features to be extracted', ['rRNA', 'CDS', 'tRNA', 'misc_feature']),
                                                   ('Qualifiers to be recognized (rRNA):', [
                                                       'gene', 'product', 'note']),
                                                    ('Qualifiers to be recognized (CDS):', [
                                                       'gene', 'product', 'note']),
                                                    ('Qualifiers to be recognized (tRNA):', [
                                                       'gene', 'product', 'note']),
                                                    ('Qualifiers to be recognized (misc_feature):', [
                                                       'gene', 'product', 'note']),
                                                    ('Qualifiers to be recognized (all):', [
                                                       'gene', 'product', 'note']),
                                                   ('Names unification', [['Old Name', 'New Name'],
                                                                          ["CO1", "cox1"]
                                                                          ]),
                                                    ('extract all features', True)])),
                                  ('Mitogenome', OrderedDict([('Features to be extracted', ['rRNA', 'CDS', 'tRNA', 'misc_feature']),
                                                              ('Qualifiers to be recognized (rRNA):', [
                                                               'product', 'gene', 'note']),
                                                              ('Qualifiers to be recognized (misc_feature):', [
                                                               'product', 'gene', 'note']),
                                                              ('Names unification', [['Old Name', 'New Name'],
                                                                                     [
                                                                                         '12S Ribosomal RNA', 'rrnS'],
                                                                                     [
                                                                                         '12S ribosomal RNA', 'rrnS'],
                                                                                     ['12S rRNA',
                                                                                         'rrnS'],
                                                                                     ['12s rRNA',
                                                                                         'rrnS'],
                                                                                     [
                                                                                         '12S subunit RNA', 'rrnS'],
                                                                                     [
                                                                                         '16S ribosomal RNA', 'rrnL'],
                                                                                     ['16S rRNA',
                                                                                         'rrnL'],
                                                                                     ['16s rRNA',
                                                                                         'rrnL'],
                                                                                     [
                                                                                         '16S subunit RNA', 'rrnL'],
                                                                                     [
                                                                                         'ATP synthase F0 subunit 6', 'atp6'],
                                                                                     [
                                                                                         'ATP synthase F0 subunit 8', 'atp8'],
                                                                                     ['ATPASE 6',
                                                                                         'atp6'],
                                                                                     ['ATPASE 8',
                                                                                         'atp8'],
                                                                                     [
                                                                                         'ATPase subunit 6', 'atp6'],
                                                                                     ['ATPASE6',
                                                                                         'atp6'],
                                                                                     ['ATPASE8',
                                                                                         'atp8'],
                                                                                     ['CO1',
                                                                                         'cox1'],
                                                                                     ['CO2',
                                                                                         'cox2'],
                                                                                     ['CO3',
                                                                                         'cox3'],
                                                                                     ['COB',
                                                                                         'cytb'],
                                                                                     ['cob',
                                                                                         'cytb'],
                                                                                     ['COI',
                                                                                         'cox1'],
                                                                                     ['COII',
                                                                                         'cox2'],
                                                                                     ['COIII',
                                                                                         'cox3'],
                                                                                     ['COXI',
                                                                                         'cox1'],
                                                                                     ['COXII',
                                                                                         'cox2'],
                                                                                     ['COXIII',
                                                                                         'cox3'],
                                                                                     ['CYT B',
                                                                                         'cytb'],
                                                                                     [
                                                                                         'cytochrome b', 'cytb'],
                                                                                     [
                                                                                         'cytochrome c oxidase subunit 1', 'cox1'],
                                                                                     [
                                                                                         'cytochrome c oxidase subunit 2', 'cox2'],
                                                                                     [
                                                                                         'cytochrome c oxidase subunit 3', 'cox3'],
                                                                                     [
                                                                                         'cytochrome c oxidase subunit I', 'cox1'],
                                                                                     [
                                                                                         'cytochrome c oxidase subunit II', 'cox2'],
                                                                                     [
                                                                                         'cytochrome c oxidase subunit III', 'cox3'],
                                                                                     [
                                                                                         'cytochrome oxidase subunit 1', 'cox1'],
                                                                                     [
                                                                                         'cytochrome oxidase subunit 2', 'cox2'],
                                                                                     [
                                                                                         'cytochrome oxidase subunit 3', 'cox3'],
                                                                                     [
                                                                                         'large ribosomal RNA', 'rrnL'],
                                                                                     [
                                                                                         'large ribosomal RNA subunit RNA', 'rrnL'],
                                                                                     [
                                                                                         'large subunit ribosomal RNA', 'rrnL'],
                                                                                     ['l-rRNA',
                                                                                         'rrnL'],
                                                                                     ['nad4l',
                                                                                         'nad4L'],
                                                                                     [
                                                                                         'NADH dehydrogenase subunit 1', 'nad1'],
                                                                                     [
                                                                                         'NADH dehydrogenase subunit 2', 'nad2'],
                                                                                     [
                                                                                         'NADH dehydrogenase subunit 3', 'nad3'],
                                                                                     [
                                                                                         'NADH dehydrogenase subunit 4', 'nad4'],
                                                                                     [
                                                                                         'NADH dehydrogenase subunit 4L', 'nad4L'],
                                                                                     [
                                                                                         'NADH dehydrogenase subunit 5', 'nad5'],
                                                                                     [
                                                                                         'NADH dehydrogenase subunit 6', 'nad6'],
                                                                                     [
                                                                                         'NADH dehydrogenase subunit5', 'nad5'],
                                                                                     ['ND1',
                                                                                         'nad1'],
                                                                                     ['ND2',
                                                                                         'nad2'],
                                                                                     ['ND3',
                                                                                         'nad3'],
                                                                                     ['ND4',
                                                                                         'nad4'],
                                                                                     ['ND4L',
                                                                                         'nad4L'],
                                                                                     ['nd4l',
                                                                                         'nad4L'],
                                                                                     ['ND5',
                                                                                         'nad5'],
                                                                                     ['ND6', 'nad6'],
                                                                                    ['COX1', 'cox1'],
                                                                                    ['COX2', 'cox2'],
                                                                                    ['COX3', 'cox3'],
                                                                                    ['CYTB', 'cytb'],
                                                                                    ['ATP8', 'atp8'],
                                                                                    ['ATP6', 'atp6'],
                                                                                    ['NADH1', 'nad1'],
                                                                                    ['NADH2', 'nad2'],
                                                                                    ['ATPase 8', 'atp8'],
                                                                                    ['ATPase 6', 'atp6'],
                                                                                    ['NADH3', 'nad3'],
                                                                                    ['NADH4L', 'nad4L'],
                                                                                    ['NADH4', 'nad4'],
                                                                                    ['NADH5', 'nad5'],
                                                                                    ['NADH6', 'nad6'],
                                                                                    ['cytochrome oxidase subunit I', 'cox1'],
                                                                                    ['cytochrome oxidase subunit II', 'cox2'],
                                                                                    ['ATPase subunit 8', 'atp8'],
                                                                                    ['cytochrome oxidase subunit III', 'cox3'],
                                                                                     [
                                                                                         'ribosomal RNA large subunit', 'rrnL'],
                                                                                     [
                                                                                         'ribosomal RNA small subunit', 'rrnS'],
                                                                                     [
                                                                                         'small ribosomal RNA', 'rrnS'],
                                                                                     [
                                                                                         'small ribosomal RNA subunit RNA', 'rrnS'],
                                                                                     [
                                                                                         'small subunit ribosomal RNA', 'rrnS'],
                                                                                     ['s-rRNA',
                                                                                         'rrnS'],
                                                                                     ['trnA',
                                                                                         'A'],
                                                                                     ['tRNA-Ala',
                                                                                         'A'],
                                                                                     ['tRNA-Arg',
                                                                                         'R'],
                                                                                     ['tRNA-Asn',
                                                                                         'N'],
                                                                                     ['tRNA-Asp',
                                                                                         'D'],
                                                                                     ['tRNA-Cys',
                                                                                         'C'],
                                                                                     ['tRNA-Gln',
                                                                                         'Q'],
                                                                                     ['tRNA-Glu',
                                                                                         'E'],
                                                                                     ['tRNA-Gly',
                                                                                         'G'],
                                                                                     ['tRNA-His',
                                                                                         'H'],
                                                                                     ['tRNA-Ile',
                                                                                         'I'],
                                                                                     ['tRNA-Leu',
                                                                                         'L'],
                                                                                     ['tRNA-Lys',
                                                                                         'K'],
                                                                                     ['tRNA-Met',
                                                                                         'M'],
                                                                                     ['tRNA-Phe',
                                                                                         'F'],
                                                                                     ['tRNA-Pro',
                                                                                         'P'],
                                                                                     ['tRNA-Ser',
                                                                                         'S'],
                                                                                     ['tRNA-Thr',
                                                                                         'T'],
                                                                                     ['tRNA-Trp',
                                                                                         'W'],
                                                                                     ['tRNA-Tyr',
                                                                                         'Y'],
                                                                                     ['tRNA-Val',
                                                                                         'V'],
                                                                                     ['trnC',
                                                                                         'C'],
                                                                                     ['trnK',
                                                                                         'K'],
                                                                                     ['trnL',
                                                                                         'L'],
                                                                                     ['trnM',
                                                                                         'M'],
                                                                                     ['trnN',
                                                                                         'N'],
                                                                                     ['trnP',
                                                                                         'P'],
                                                                                     ['trnQ',
                                                                                         'Q'],
                                                                                     ['trnR',
                                                                                         'R'],
                                                                                     ['trnS',
                                                                                         'S'],
                                                                                     ['trnT',
                                                                                         'T'],
                                                                                     ['trnV',
                                                                                         'V'],
                                                                                     ['trnW',
                                                                                         'W'],
                                                                                     ['trnY',
                                                                                         'Y'],
                                                                                     ]),
                                                              ('Qualifiers to be recognized (CDS):', [
                                                               'gene', 'product', 'note']),
                                                              ('Qualifiers to be recognized (tRNA):', ['product', 'gene', 'note'])])),
                            ('18S', OrderedDict([('Features to be extracted', ['rRNA', 'misc_feature']),
                                                       ('Qualifiers to be recognized (rRNA):', [
                                                        'gene', 'product', 'note']),
                                                       ('Qualifiers to be recognized (misc_feature):', [
                                                        'gene', 'product', 'note']),
                                                       ('Names unification', [['Old Name', 'New Name'],
                                                                              ["18S ribosomal RNA", "18s"],
                                                                              ["small subunit ribosomal RNA", "18s"],
                                                                              [
                                                                                  "macronuclear small-subunit ribosomal RNA",
                                                                                  "18s"],
                                                                              ["18S small subunit ribosomal RNA",
                                                                               "18s"],
                                                                              ["18S rRNA", "18s"],
                                                                              ["ribosomal RNA small-subunit", "18s"],
                                                                              ["nuclear small subunit ribosomal RNA",
                                                                               "18s"],
                                                                              ["small subunit RNA", "18s"]])])),
                            ('16S', OrderedDict([('Features to be extracted', ['rRNA', 'misc_feature']),
                                                       ('Qualifiers to be recognized (rRNA):', [
                                                        'gene', 'product', 'note']),
                                                       ('Qualifiers to be recognized (misc_feature):', [
                                                        'gene', 'product', 'note']),
                                                       ('Names unification', [['Old Name', 'New Name'],
                                                                              ["16S ribosomal RNA", "16s"],
                                                                              ["16S rRNA", "16s"],
                                                                              ["16s rRNA", "16s"],
                                                                              ["16S subunit RNA", "16s"]])])),
                            ('cox1', OrderedDict([('Features to be extracted', ['CDS']),
                                                   ('Qualifiers to be recognized (CDS):', [
                                                       'gene', 'product', 'note']),
                                                   ('Names unification', [['Old Name', 'New Name'],
                                                                          ["CO1", "cox1"],
                                                                          ["COI", "cox1"],
                                                                          ["COXI", "cox1"],
                                                                          ["cytochrome c oxidase subunit 1", "cox1"],
                                                                          ["cytochrome c oxidase subunit I", "cox1"],
                                                                          ["cytochrome oxidase subunit 1", "cox1"],
                                                                          ["cox1", "cox1"]])])),
                            ('chloroplast genome', OrderedDict([('Features to be extracted',
                                                                 ['rRNA', 'CDS', 'tRNA', 'misc_feature', 'exon',
                                                                  'intron', 'STS', 'tmRNA']),
                                                   ('Qualifiers to be recognized (rRNA):', [
                                                       'gene', 'product', 'note']),
                                                    ('Qualifiers to be recognized (CDS):', [
                                                       'gene', 'product', 'note']),
                                                    ('Qualifiers to be recognized (tRNA):', [
                                                       'gene', 'product', 'note']),
                                                    ('Qualifiers to be recognized (misc_feature):', [
                                                       'gene', 'product', 'note']),
                                                    ('Qualifiers to be recognized (exon):', [
                                                       'gene', 'product', 'note']),
                                                    ('Qualifiers to be recognized (intron):', [
                                                       'gene', 'product', 'note']),
                                                    ('Qualifiers to be recognized (STS):', [
                                                       'gene', 'product', 'note']),
                                                    ('Qualifiers to be recognized (tmRNA):', [
                                                       'gene', 'product', 'note']),
                                                    ('Qualifiers to be recognized (all):', [
                                                       'gene', 'product', 'note']),
                                                   ('Names unification', [['Old Name', 'New Name'],
                                                                          [
                                                                              'acetyl-CoA carboxylase carboxyltransferase beta subunit',
                                                                              'accD'], ['acpP2', 'acpP2'],
                                                                          ['ATP synthase CF1 alpha subunit', 'atpA'],
                                                                          ['AtpA', 'atpA'], ['ATPA', 'atpA'],
                                                                          ['ATP synthase CF1 beta subunit', 'atpB'],
                                                                          ['AtpB', 'atpB'], ['ATPB', 'atpB'],
                                                                          ['ATP synthase CF1 epsilon subunit', 'atpE'],
                                                                          ['AtpE', 'atpE'], ['ATPE', 'atpE'],
                                                                          ['ATP synthase CF0 subunit I', 'atpF'],
                                                                          ['ATP synthase CF0 subunit III', 'atpH'],
                                                                          ['ATP synthase CF0 subunit IV', 'atpI'],
                                                                          ['similar to atpI', 'atpI'],
                                                                          ['chloroplast envelope membrane protein',
                                                                           'cemA'],
                                                                          ['envelope membrane protein', 'cemA'], [
                                                                              'light-independent protochlorophyllide reductase subunit B',
                                                                              'chlB'],
                                                                          ['photochlorophyllide reductase subunit B',
                                                                           'chlB'], [
                                                                              'Light-independent protochlorophyllide reductase iron-sulfur ATP-binding protein',
                                                                              'chlL'],
                                                                          ['photochlorophyllide reductase subunit L',
                                                                           'chlL'], [
                                                                              'Light-independent protochlorophyllide reductase subunit N',
                                                                              'chlN'], [
                                                                              'light-independent protochlorophyllide reductase subunit N',
                                                                              'chlN'],
                                                                          ['Photochlorophyllide reductase subunit N',
                                                                           'chlN'],
                                                                          ['photochlorophyllide reductase subunit N',
                                                                           'chlN'], [
                                                                              'ATP-dependent Clp protease proteolytic subunit',
                                                                              'clpP'],
                                                                          ['clp protease proteolytic subunit', 'clpP'],
                                                                          ['aceohydroxyacid synthase small subunit',
                                                                           'ilvH'], ['maturase K', 'matK'],
                                                                          ['Maturase K', 'matK'],
                                                                          ['NADH dehydrogenase subunit 1', 'nad1'],
                                                                          ['NADH dehydrogenase subunit 2', 'nad2'],
                                                                          ['NADH dehydrogenase subunit 3', 'nad3'],
                                                                          ['NADH dehydrogenase subunit 4', 'nad4'],
                                                                          ['NADH dehydrogenase subunit 4L', 'nad4L'],
                                                                          ['NADH dehydrogenase subunit 5', 'nad5'],
                                                                          ['NADH dehydrogenase subunit 6', 'nad6'],
                                                                          ['NADH dehydrogenase subunit 7', 'nad7'],
                                                                          ['NADH dehydrogenase subunit I', 'nadI'],
                                                                          ['NdhK', 'ndhK'], ['cytochrome f', 'petA'],
                                                                          ['cytochrome b/b6', 'petB'],
                                                                          ['cytochrome b6/f complex subunit IV',
                                                                           'petD'],
                                                                          ['cytochrome b6/f complex subunit V', 'petG'],
                                                                          ['cytochrome b6-f complex subunit V', 'petG'],
                                                                          ['photosystem II protein D1', 'psbA'],
                                                                          ['photosystem II protein D2', 'psbD'], [
                                                                              'photosystem II cytochrome b559 alpha subunit',
                                                                              'psbE'], [
                                                                              'photosystem II cytochrome b559 beta subunit',
                                                                              'psbF'],
                                                                          ['photosystem II protein I', 'psbI'],
                                                                          ['photosystem II protein J', 'psbJ'],
                                                                          ['photosystem II protein K', 'psbK'],
                                                                          ['photosystem II protein L', 'psbL'],
                                                                          ['photosystem II protein M', 'psbM'],
                                                                          ['photosystem II protein N', 'psbN'],
                                                                          ['photosystem II protein T', 'psbT'],
                                                                          ['photosystem II protein Z', 'psbZ'],
                                                                          ['ribosomal protein L14', 'rpl14'],
                                                                          ['ribosomal protein L16', 'rpl16'],
                                                                          ['putative ribosomal protein L2', 'rpl2'],
                                                                          ['ribosomal protein L2', 'rpl2'],
                                                                          ['putative ribosomal protein L20', 'rpl20'],
                                                                          ['ribosomal protein L20', 'rpl20'],
                                                                          ['ribosomal protein L22', 'rpl22'],
                                                                          ['ribosomal protein L23', 'rpl23'],
                                                                          ['ribosomal protein L32', 'rpl32'],
                                                                          ['ribosomal protein L33', 'rpl33'],
                                                                          ['ribosomal protein L36', 'rpl36'],
                                                                          ['RNA polymerase alpha protein', 'rpoA'],
                                                                          ['RNA polymerase alpha subunit', 'rpoA'],
                                                                          ['beta subunit of RNA polymerase', 'rpoB'],
                                                                          ['RNA polymerase beta subunit', 'rpoB'],
                                                                          ["RNA polymerase beta' subunit", 'rpoC1'],
                                                                          ["RNA polymerase beta'' subunit", 'rpoC2'],
                                                                          ['ribosomal protein S11', 'rps11'],
                                                                          ["3'rps12", 'rps12'],
                                                                          ["3'rps12 exon", 'rps12'],
                                                                          ['ribosomal protein S12', 'rps12'],
                                                                          ['ribosomal protein S14', 'rps14'],
                                                                          ['ribosomal protein S15', 'rps15'],
                                                                          ['ribosomal proteins S15', 'rps15'],
                                                                          ['ribosomal protein S16', 'rps16'],
                                                                          ['ribosomal protein S18', 'rps18'],
                                                                          ['ribosomal protein S19', 'rps19'],
                                                                          ['ribosomal protein S9', 'rps19'], [
                                                                              "5' end of rps19 at the IRa/LSC boundary; the intact rps19 spans the IRb/LSC boundary",
                                                                              'rps19'],
                                                                          ['ribosomal protein S2', 'rps2'],
                                                                          ['ribosomal protein S3', 'rps3'],
                                                                          ['ribosomal protein S4', 'rps4'],
                                                                          ['ribosomal protein S7', 'rps7'],
                                                                          ['ribosomal protein S8', 'rps8'],
                                                                          ['16rrn', 'rrn16'], ['16s', 'rrn16'],
                                                                          ['16S', 'rrn16'],
                                                                          ['16S ribosomal RNA', 'rrn16'],
                                                                          ['16S rRNA', 'rrn16'],
                                                                          ['16S small subunit ribosomal RNA', 'rrn16'],
                                                                          ['16SrRNA', 'rrn16'], ['rRNA16', 'rrn16'],
                                                                          ['rrna16', 'rrn16'], ['rrna16S', 'rrn16'],
                                                                          ['23rrn', 'rrn23'], ['23S', 'rrn23'],
                                                                          ['23S large subunit ribosomal RNA', 'rrn23'],
                                                                          ['23S ribosomal RNA', 'rrn23'],
                                                                          ['23S rRNA', 'rrn23'], ['23SrRNA', 'rrn23'],
                                                                          ['rrn23S', 'rrn23'], ['rrn23s', 'rrn23'],
                                                                          ['rrn23S rRNA', 'rrn23'], ['rRNA23', 'rrn23'],
                                                                          ['rrna23S', 'rrn23'],
                                                                          ['4.5 ribosomal RNA', 'rrn4.5'],
                                                                          ['4.5rrn', 'rrn4.5'], ['4.5S', 'rrn4.5'],
                                                                          ['4.5S ribosomal RNA', 'rrn4.5'],
                                                                          ['4.5S rRNA', 'rrn4.5'],
                                                                          ['4.5S small subunit ribosomal RNA',
                                                                           'rrn4.5'], ['4.5Srrn', 'rrn4.5'],
                                                                          ['4.5SrRNA', 'rrn4.5'], ['rrn4.55', 'rrn4.5'],
                                                                          ['rrn4.5S', 'rrn4.5'], ['rrn4.5s', 'rrn4.5'],
                                                                          ['rrn4.5S rRNA', 'rrn4.5'],
                                                                          ['rRNA4.5', 'rrn4.5'], ['rRNA4.5S', 'rrn4.5'],
                                                                          ['5 ribosomal RNA', 'rrn5'], ['5rrn', 'rrn5'],
                                                                          ['5S', 'rrn5'], ['5S ribosomal RNA', 'rrn5'],
                                                                          ['5S rRNA', 'rrn5'],
                                                                          ['5S small subunit ribosomal RNA', 'rrn5'],
                                                                          ['5S subunit ribosomal RNA', 'rrn5'],
                                                                          ['5SrRNA', 'rrn5'], ['rrn5', 'rrn5'],
                                                                          ["rrn5'", 'rrn5'], ['rrn5rRNA', 'rrn5'],
                                                                          ['rrn5S', 'rrn5'], ['rrn5s', 'rrn5'],
                                                                          ['rrn5S rRNA', 'rrn5'], ['rRNA5', 'rrn5'],
                                                                          ['rRNA5S', 'rrn5'],
                                                                          ['anticodon:CAU; trnfM-CAU_2', 'trnfM-CAU'],
                                                                          ['trnfM_CAU', 'trnfM-CAU'],
                                                                          ['trnfM_cau', 'trnfM-CAU'],
                                                                          ["5' fragment hypothetical chloroplast RF1",
                                                                           'ycf1'],
                                                                          ['hypothetical chloroplast RF19-like protein',
                                                                           'ycf1'],
                                                                          ['hypothetical chloroplast ycf1', 'ycf1'],
                                                                          ['putative chloroplast protein RF1', 'ycf1'],
                                                                          ['putative chloroplast RF1', 'ycf1'],
                                                                          ['hypothetical chloroplast RF2', 'ycf2'],
                                                                          ['hypothetical chloroplast RF21', 'ycf2'],
                                                                          ['putative chloroplast RF21', 'ycf2'],
                                                                          ['photosystem I assembly protein Ycf3',
                                                                           'ycf3'],
                                                                          ['photosystem I assembly protein ycf3',
                                                                           'ycf3'],
                                                                          ['photosystem I assembly protein Ycf4',
                                                                           'ycf4'],
                                                                          ['photosystem I assembly protein ycf4',
                                                                           'ycf4']
                                                                          ]),
                                                    ('extract all features', True)]))
                              ])

preset_workflow = {
"Align AA, Optimize alignments, Concatenation, Select best-fit partition model, and Build ML and BI trees/Concatenate Sequence/checkBox": "true",
"Align AA, Optimize alignments, Concatenation, Select best-fit partition model, and Build ML and BI trees/Concatenate Sequence/checkBox_12": "true",
"Align AA, Optimize alignments, Concatenation, Select best-fit partition model, and Build ML and BI trees/Concatenate Sequence/checkBox_13": "false",
"Align AA, Optimize alignments, Concatenation, Select best-fit partition model, and Build ML and BI trees/Concatenate Sequence/checkBox_2": "true",
"Align AA, Optimize alignments, Concatenation, Select best-fit partition model, and Build ML and BI trees/Concatenate Sequence/checkBox_3": "true",
"Align AA, Optimize alignments, Concatenation, Select best-fit partition model, and Build ML and BI trees/Concatenate Sequence/checkBox_4": "true",
"Align AA, Optimize alignments, Concatenation, Select best-fit partition model, and Build ML and BI trees/Concatenate Sequence/checkBox_5": "false",
"Align AA, Optimize alignments, Concatenation, Select best-fit partition model, and Build ML and BI trees/Concatenate Sequence/checkBox_9": "false",
"Align AA, Optimize alignments, Concatenation, Select best-fit partition model, and Build ML and BI trees/Concatenate Sequence/comboBox": "0",
"Align AA, Optimize alignments, Concatenation, Select best-fit partition model, and Build ML and BI trees/Concatenate Sequence/groupBox": "false",
"Align AA, Optimize alignments, Concatenation, Select best-fit partition model, and Build ML and BI trees/Concatenate Sequence/groupBox_3": "false",
"Align AA, Optimize alignments, Concatenation, Select best-fit partition model, and Build ML and BI trees/Concatenate Sequence/groupBox_4": "false",
"Align AA, Optimize alignments, Concatenation, Select best-fit partition model, and Build ML and BI trees/Concatenate Sequence/groupBox_5": "false",
"Align AA, Optimize alignments, Concatenation, Select best-fit partition model, and Build ML and BI trees/Concatenate Sequence/groupBox_top_line": "true",
"Align AA, Optimize alignments, Concatenation, Select best-fit partition model, and Build ML and BI trees/Concatenate Sequence/lineEdit": "concatenation",
"Align AA, Optimize alignments, Concatenation, Select best-fit partition model, and Build ML and BI trees/Concatenate Sequence/pos": QtCore.QPoint(875, 254),
"Align AA, Optimize alignments, Concatenation, Select best-fit partition model, and Build ML and BI trees/Concatenate Sequence/pushButton_color": "#f9c997",
"Align AA, Optimize alignments, Concatenation, Select best-fit partition model, and Build ML and BI trees/Concatenate Sequence/size": QtCore.QSize(537, 514),
"Align AA, Optimize alignments, Concatenation, Select best-fit partition model, and Build ML and BI trees/Concatenate Sequence/spinBox_5": "5",
"Align AA, Optimize alignments, Concatenation, Select best-fit partition model, and Build ML and BI trees/Concatenate Sequence/spinBox_6": "8",
"Align AA, Optimize alignments, Concatenation, Select best-fit partition model, and Build ML and BI trees/Concatenate Sequence/spinBox_7": "15",
"Align AA, Optimize alignments, Concatenation, Select best-fit partition model, and Build ML and BI trees/Concatenate Sequence/spinBox_8": "45",
"Align AA, Optimize alignments, Concatenation, Select best-fit partition model, and Build ML and BI trees/Gblocks/comboBox_11": ["Don't Save", 'Save'],
"Align AA, Optimize alignments, Concatenation, Select best-fit partition model, and Build ML and BI trees/Gblocks/comboBox_12": ['Save', 'Save Text', 'Save Short', "Don't Save"],
"Align AA, Optimize alignments, Concatenation, Select best-fit partition model, and Build ML and BI trees/Gblocks/comboBox_13": ['Yes', 'No'],
"Align AA, Optimize alignments, Concatenation, Select best-fit partition model, and Build ML and BI trees/Gblocks/comboBox_5": ['With Half', 'All', 'None'],
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"Concatenation, Select best-fit partition model for AA, and Build BI tree/MAFFT/size": QtCore.QSize(500, 510),
"Concatenation, Select best-fit partition model for AA, and Build BI tree/ModelFinder/checkBox": "false",
"Concatenation, Select best-fit partition model for AA, and Build BI tree/ModelFinder/checkBox_2": "true",
"Concatenation, Select best-fit partition model for AA, and Build BI tree/ModelFinder/comboBox_3": "0",
"Concatenation, Select best-fit partition model for AA, and Build BI tree/ModelFinder/comboBox_4": "0",
"Concatenation, Select best-fit partition model for AA, and Build BI tree/ModelFinder/comboBox_5": "1",
"Concatenation, Select best-fit partition model for AA, and Build BI tree/ModelFinder/comboBox_6": "0",
"Concatenation, Select best-fit partition model for AA, and Build BI tree/ModelFinder/comboBox_9": "0",
"Concatenation, Select best-fit partition model for AA, and Build BI tree/ModelFinder/pos": QtCore.QPoint(1239, 262),
"Concatenation, Select best-fit partition model for AA, and Build BI tree/ModelFinder/radioButton": "false",
"Concatenation, Select best-fit partition model for AA, and Build BI tree/ModelFinder/radioButton_2": "true",
"Concatenation, Select best-fit partition model for AA, and Build BI tree/ModelFinder/size": QtCore.QSize(500, 519),
"Concatenation, Select best-fit partition model for AA, and Build BI tree/MrBayes/checkBox": "true",
"Concatenation, Select best-fit partition model for AA, and Build BI tree/MrBayes/checkBox_2": "false",
"Concatenation, Select best-fit partition model for AA, and Build BI tree/MrBayes/checkBox_3": "true",
"Concatenation, Select best-fit partition model for AA, and Build BI tree/MrBayes/comboBox_4": "0",
"Concatenation, Select best-fit partition model for AA, and Build BI tree/MrBayes/comboBox_5": "-1",
"Concatenation, Select best-fit partition model for AA, and Build BI tree/MrBayes/comboBox_6": "0",
"Concatenation, Select best-fit partition model for AA, and Build BI tree/MrBayes/comboBox_7": "-1",
"Concatenation, Select best-fit partition model for AA, and Build BI tree/MrBayes/comboBox_8": "0",
"Concatenation, Select best-fit partition model for AA, and Build BI tree/MrBayes/comboBox_9": "0",
"Concatenation, Select best-fit partition model for AA, and Build BI tree/MrBayes/doubleSpinBox_2": "0.25",
"Concatenation, Select best-fit partition model for AA, and Build BI tree/MrBayes/partition defination": [['Model', 'Subset Name', '', 'Start', '', 'Stop'], [['', '', '=', '', '-', ''], ['', '', '=', '', '-', ''], ['', '', '=', '', '-', ''], ['', '', '=', '', '-', '']]],
"Concatenation, Select best-fit partition model for AA, and Build BI tree/MrBayes/pos": QtCore.QPoint(1064, 204),
"Concatenation, Select best-fit partition model for AA, and Build BI tree/MrBayes/pushButton_partition": "true",
"Concatenation, Select best-fit partition model for AA, and Build BI tree/MrBayes/size": QtCore.QSize(557, 673),
"Concatenation, Select best-fit partition model for AA, and Build BI tree/MrBayes/spinBox": "4",
"Concatenation, Select best-fit partition model for AA, and Build BI tree/MrBayes/spinBox_10": "12500",
"Concatenation, Select best-fit partition model for AA, and Build BI tree/MrBayes/spinBox_2": "5000000",
"Concatenation, Select best-fit partition model for AA, and Build BI tree/MrBayes/spinBox_6": "100",
"Concatenation, Select best-fit partition model for AA, and Build BI tree/MrBayes/spinBox_7": "2",
"Concatenation, Select best-fit partition model for AA, and Build BI tree/MrBayes/spinBox_8": "4",
"Concatenation, Select best-fit partition model for AA, and Build BI tree/PartitionFinder/aa_list_model": ['LG', 'LG+G', 'LG+G+F', 'WAG', 'WAG+G', 'WAG+G+F'],
"Concatenation, Select best-fit partition model for AA, and Build BI tree/PartitionFinder/comboBox": ['linked', 'unlinked'],
"Concatenation, Select best-fit partition model for AA, and Build BI tree/PartitionFinder/comboBox_2": ['mrbayes', 'all', 'allx', 'beast', 'gamma', 'gammai', '<list>'],
"Concatenation, Select best-fit partition model for AA, and Build BI tree/PartitionFinder/comboBox_3": ['AICc', 'BIC', 'AIC'],
"Concatenation, Select best-fit partition model for AA, and Build BI tree/PartitionFinder/comboBox_4": ['greedy', 'all', 'rcluster', 'rclusterf', 'hcluster', 'kmeans', 'user define'],
"Concatenation, Select best-fit partition model for AA, and Build BI tree/PartitionFinder/comboBox_5": ['greedy', 'all', 'rcluster', 'rclusterf', 'hcluster', 'kmeans', 'user define'],
"Concatenation, Select best-fit partition model for AA, and Build BI tree/PartitionFinder/comboBox_6": ['linked', 'unlinked'],
"Concatenation, Select best-fit partition model for AA, and Build BI tree/PartitionFinder/comboBox_7": ['AICc', 'BIC', 'AIC'],
"Concatenation, Select best-fit partition model for AA, and Build BI tree/PartitionFinder/comboBox_8": ['mrbayes', 'all', 'allx', 'beast', 'gamma', 'gammai', '<list>'],
"Concatenation, Select best-fit partition model for AA, and Build BI tree/PartitionFinder/nuc_list_model": ['JC', 'JC+G', 'HKY', 'HKY+G', 'GTR', 'GTR+G'],
"Concatenation, Select best-fit partition model for AA, and Build BI tree/PartitionFinder/pos": QtCore.QPoint(1052, 247),
"Concatenation, Select best-fit partition model for AA, and Build BI tree/PartitionFinder/pushButton_cmd1": [['--raxml', '--all-states', '--force-restart', '--min-subset-size', '--no-ml-tree', '--processes', '--quick', '--rcluster-max', '--rcluster-percent', '--save-phylofiles', '--weights'], [False, False, False, False, False, False, False, False, False, False, False]],
"Concatenation, Select best-fit partition model for AA, and Build BI tree/PartitionFinder/pushButton_cmd2": [['--raxml', '--all-states', '--force-restart', '--min-subset-size', '--no-ml-tree', '--processes', '--quick', '--rcluster-max', '--rcluster-percent', '--save-phylofiles', '--weights'], [False, False, False, False, False, False, False, False, False, False, False]],
"Concatenation, Select best-fit partition model for AA, and Build BI tree/PartitionFinder/size": QtCore.QSize(500, 559),
"Concatenation, Select best-fit partition model for AA, and Build BI tree/PartitionFinder/tabWidget": "1",
"Concatenation, Select best-fit partition model for AA, and Build BI tree/PartitionFinder/textEdit": "",
"Concatenation, Select best-fit partition model for AA, and Build BI tree/PartitionFinder/textEdit_2": "",
"Concatenation, Select best-fit partition model for AA, and Build BI tree/PartitionFinder/user_search": "together = (Gene1_codon1, Gene1_codon2, Gene1_codon3, intron);\
intron_123 = (Gene1_codon1, Gene1_codon2, Gene1_codon3) (intron);\
intron_12_3 = (Gene1_codon1, Gene1_codon2) (Gene1_codon3) (intron);\
separate = (Gene1_codon1) (Gene1_codon2) (Gene1_codon3) (intron);",
"Concatenation, Select best-fit partition model for AA, and Build BI tree/checkBox": "false",
"Concatenation, Select best-fit partition model for AA, and Build BI tree/checkBox_2": "true",
"Concatenation, Select best-fit partition model for AA, and Build BI tree/checkBox_3": "false",
"Concatenation, Select best-fit partition model for AA, and Build BI tree/checkBox_4": "true",
"Concatenation, Select best-fit partition model for AA, and Build BI tree/checkBox_5": "false",
"Concatenation, Select best-fit partition model for AA, and Build BI tree/checkBox_6": "false",
"Concatenation, Select best-fit partition model for AA, and Build BI tree/checkBox_7": "true",
"Concatenation, Select best-fit partition model for AA, and Build BI tree/checkBox_8": "false",
"Concatenation, Select best-fit partition model for AA, and Build BI tree/checkBox_9": "false",
"Concatenation, Select best-fit partition model for AA, and Build BI tree/checkBox_10": "false",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/Concatenate Sequence/checkBox": "true",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/Concatenate Sequence/checkBox_12": "true",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/Concatenate Sequence/checkBox_13": "false",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/Concatenate Sequence/checkBox_2": "true",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/Concatenate Sequence/checkBox_3": "true",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/Concatenate Sequence/checkBox_4": "true",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/Concatenate Sequence/checkBox_5": "false",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/Concatenate Sequence/checkBox_9": "false",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/Concatenate Sequence/comboBox": "0",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/Concatenate Sequence/groupBox": "false",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/Concatenate Sequence/groupBox_3": "false",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/Concatenate Sequence/groupBox_4": "false",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/Concatenate Sequence/groupBox_5": "false",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/Concatenate Sequence/groupBox_top_line": "true",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/Concatenate Sequence/lineEdit": "concatenation",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/Concatenate Sequence/pos": QtCore.QPoint(875, 254),
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/Concatenate Sequence/pushButton_color": "#f9c997",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/Concatenate Sequence/size": QtCore.QSize(537, 514),
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/Concatenate Sequence/spinBox_5": "5",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/Concatenate Sequence/spinBox_6": "8",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/Concatenate Sequence/spinBox_7": "15",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/Concatenate Sequence/spinBox_8": "45",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/Gblocks/comboBox_11": ["Don't Save", 'Save'],
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/Gblocks/comboBox_12": ['Save', 'Save Text', 'Save Short', "Don't Save"],
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/Gblocks/comboBox_13": ['Yes', 'No'],
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/Gblocks/comboBox_5": ['With Half', 'All', 'None'],
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/Gblocks/comboBox_6": ['Save', "Don't Save"],
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/Gblocks/comboBox_7": ["Don't Save", 'Save'],
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/Gblocks/comboBox_8": ["Don't Save", 'Save'],
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/Gblocks/comboBox_9": ["Don't Save", 'Save'],
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/Gblocks/lineEdit_3": "_gb",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/Gblocks/pos": QtCore.QPoint(875, 254),
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/Gblocks/radioButton": "false",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/Gblocks/radioButton_2": "true",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/Gblocks/radioButton_3": "false",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/Gblocks/size": QtCore.QSize(658, 665),
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/Gblocks/spinBox": "60",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/Gblocks/spinBox_2": "8",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/Gblocks/spinBox_3": "10",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/IQ-TREE/checkBox": "false",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/IQ-TREE/checkBox_2": "true",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/IQ-TREE/checkBox_3": "false",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/IQ-TREE/checkBox_4": "false",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/IQ-TREE/checkBox_5": "false",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/IQ-TREE/checkBox_6": "true",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/IQ-TREE/checkBox_7": "false",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/IQ-TREE/checkBox_8": "true",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/IQ-TREE/comboBox_10": "-1",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/IQ-TREE/comboBox_11": "-1",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/IQ-TREE/comboBox_3": "0",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/IQ-TREE/comboBox_4": "0",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/IQ-TREE/comboBox_5": "0",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/IQ-TREE/comboBox_6": "0",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/IQ-TREE/comboBox_7": "0",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/IQ-TREE/comboBox_8": "0",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/IQ-TREE/comboBox_9": "0",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/IQ-TREE/doubleSpinBox": "0.9",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/IQ-TREE/pos": QtCore.QPoint(467, 213),
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/IQ-TREE/size": QtCore.QSize(556, 675),
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/IQ-TREE/spinBox": "4",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/IQ-TREE/spinBox_3": "20000",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/IQ-TREE/spinBox_4": "1000",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/IQ-TREE/spinBox_5": "1000",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/MAFFT/AA_radioButton_2": "false",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/MAFFT/N2P_radioButton": "false",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/MAFFT/PCG_radioButton_2": "false",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/MAFFT/RNAs_radioButton_2": "true",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/MAFFT/checkBox_2": "true",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/MAFFT/codon_radioButton": "false",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/MAFFT/comboBox_2": "3",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/MAFFT/comboBox_3": "0",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/MAFFT/comboBox_9": "0",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/MAFFT/normal_radioButton": "true",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/MAFFT/pos": QtCore.QPoint(875, 254),
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/MAFFT/pushButton_par": [['--adjustdirection', '--adjustdirectionaccurately', '--thread 1', '--op 1.53', '--ep 0.123', '--kappa 2', '--lop -2.00', '--lep 0.1', '--lexp -0.1', '--LOP -6.00', '--LEXP 0.00', '--bl 62', '--jtt 1', '--tm 1', '--fmodel'], [False, False, False, False, False, False, False, False, False, False, False, False, False, False, False]],
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/MAFFT/size": QtCore.QSize(500, 510),
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/ModelFinder/checkBox": "false",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/ModelFinder/checkBox_2": "true",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/ModelFinder/comboBox_3": "0",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/ModelFinder/comboBox_4": "0",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/ModelFinder/comboBox_5": "1",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/ModelFinder/comboBox_6": "0",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/ModelFinder/comboBox_9": "0",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/ModelFinder/pos": QtCore.QPoint(1239, 262),
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/ModelFinder/radioButton": "false",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/ModelFinder/radioButton_2": "true",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/ModelFinder/size": QtCore.QSize(500, 519),
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/MrBayes/checkBox": "true",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/MrBayes/checkBox_2": "false",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/MrBayes/checkBox_3": "true",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/MrBayes/comboBox_4": "0",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/MrBayes/comboBox_5": "-1",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/MrBayes/comboBox_6": "0",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/MrBayes/comboBox_7": "-1",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/MrBayes/comboBox_8": "0",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/MrBayes/comboBox_9": "0",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/MrBayes/doubleSpinBox_2": "0.25",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/MrBayes/partition defination": [['Model', 'Subset Name', '', 'Start', '', 'Stop'], [['', '', '=', '', '-', ''], ['', '', '=', '', '-', ''], ['', '', '=', '', '-', ''], ['', '', '=', '', '-', '']]],
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/MrBayes/pos": QtCore.QPoint(1064, 204),
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/MrBayes/pushButton_partition": "true",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/MrBayes/size": QtCore.QSize(557, 673),
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/MrBayes/spinBox": "4",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/MrBayes/spinBox_10": "12500",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/MrBayes/spinBox_2": "5000000",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/MrBayes/spinBox_6": "100",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/MrBayes/spinBox_7": "2",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/MrBayes/spinBox_8": "4",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/PartitionFinder/aa_list_model": ['LG', 'LG+G', 'LG+G+F', 'WAG', 'WAG+G', 'WAG+G+F'],
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/PartitionFinder/comboBox": ['linked', 'unlinked'],
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/PartitionFinder/comboBox_2": ['mrbayes', 'all', 'allx', 'beast', 'gamma', 'gammai', '<list>'],
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/PartitionFinder/comboBox_3": ['AICc', 'BIC', 'AIC'],
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/PartitionFinder/comboBox_4": ['greedy', 'all', 'rcluster', 'rclusterf', 'hcluster', 'kmeans', 'user define'],
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/PartitionFinder/comboBox_5": ['greedy', 'all', 'rcluster', 'rclusterf', 'hcluster', 'kmeans', 'user define'],
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/PartitionFinder/comboBox_6": ['linked', 'unlinked'],
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/PartitionFinder/comboBox_7": ['AICc', 'BIC', 'AIC'],
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/PartitionFinder/comboBox_8": ['mrbayes', 'all', 'allx', 'beast', 'gamma', 'gammai', '<list>'],
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/PartitionFinder/nuc_list_model": ['JC', 'JC+G', 'HKY', 'HKY+G', 'GTR', 'GTR+G'],
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/PartitionFinder/pos": QtCore.QPoint(1052, 247),
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/PartitionFinder/pushButton_cmd1": [['--raxml', '--all-states', '--force-restart', '--min-subset-size', '--no-ml-tree', '--processes', '--quick', '--rcluster-max', '--rcluster-percent', '--save-phylofiles', '--weights'], [False, False, False, False, False, False, False, False, False, False, False]],
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/PartitionFinder/pushButton_cmd2": [['--raxml', '--all-states', '--force-restart', '--min-subset-size', '--no-ml-tree', '--processes', '--quick', '--rcluster-max', '--rcluster-percent', '--save-phylofiles', '--weights'], [False, False, False, False, False, False, False, False, False, False, False]],
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/PartitionFinder/size": QtCore.QSize(500, 559),
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/PartitionFinder/tabWidget": "0",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/PartitionFinder/textEdit": "",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/PartitionFinder/textEdit_2": "",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/PartitionFinder/user_search": "together = (Gene1_codon1, Gene1_codon2, Gene1_codon3, intron);\
intron_123 = (Gene1_codon1, Gene1_codon2, Gene1_codon3) (intron);\
intron_12_3 = (Gene1_codon1, Gene1_codon2) (Gene1_codon3) (intron);\
separate = (Gene1_codon1) (Gene1_codon2) (Gene1_codon3) (intron);",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/checkBox": "false",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/checkBox_2": "true",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/checkBox_3": "false",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/checkBox_4": "true",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/checkBox_5": "false",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/checkBox_6": "false",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/checkBox_7": "true",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/checkBox_8": "false",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/checkBox_9": "false",
"Concatenation, Select best-fit partition model for DNA, and Build BI tree/checkBox_10": "false",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/Concatenate Sequence/checkBox": "true",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/Concatenate Sequence/checkBox_12": "true",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/Concatenate Sequence/checkBox_13": "false",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/Concatenate Sequence/checkBox_2": "true",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/Concatenate Sequence/checkBox_3": "true",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/Concatenate Sequence/checkBox_4": "true",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/Concatenate Sequence/checkBox_5": "false",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/Concatenate Sequence/checkBox_9": "false",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/Concatenate Sequence/comboBox": "0",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/Concatenate Sequence/groupBox": "false",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/Concatenate Sequence/groupBox_3": "false",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/Concatenate Sequence/groupBox_4": "false",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/Concatenate Sequence/groupBox_5": "false",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/Concatenate Sequence/groupBox_top_line": "true",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/Concatenate Sequence/lineEdit": "concatenation",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/Concatenate Sequence/pos": QtCore.QPoint(875, 254),
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/Concatenate Sequence/pushButton_color": "#f9c997",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/Concatenate Sequence/size": QtCore.QSize(537, 514),
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/Concatenate Sequence/spinBox_5": "5",
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"Concatenation, Select best-fit partition model for DNA, and Build ML tree/Concatenate Sequence/spinBox_7": "15",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/Concatenate Sequence/spinBox_8": "45",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/Gblocks/comboBox_11": ["Don't Save", 'Save'],
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/Gblocks/comboBox_12": ['Save', 'Save Text', 'Save Short', "Don't Save"],
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/Gblocks/comboBox_13": ['Yes', 'No'],
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/Gblocks/comboBox_5": ['With Half', 'All', 'None'],
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/Gblocks/comboBox_6": ['Save', "Don't Save"],
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/Gblocks/comboBox_7": ["Don't Save", 'Save'],
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/Gblocks/comboBox_8": ["Don't Save", 'Save'],
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/Gblocks/comboBox_9": ["Don't Save", 'Save'],
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/Gblocks/lineEdit_3": "_gb",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/Gblocks/pos": QtCore.QPoint(875, 254),
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/Gblocks/radioButton": "false",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/Gblocks/radioButton_2": "true",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/Gblocks/radioButton_3": "false",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/Gblocks/size": QtCore.QSize(658, 665),
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/Gblocks/spinBox": "60",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/Gblocks/spinBox_2": "8",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/Gblocks/spinBox_3": "10",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/IQ-TREE/checkBox": "false",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/IQ-TREE/checkBox_2": "true",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/IQ-TREE/checkBox_3": "false",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/IQ-TREE/checkBox_4": "false",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/IQ-TREE/checkBox_5": "false",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/IQ-TREE/checkBox_6": "true",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/IQ-TREE/checkBox_7": "false",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/IQ-TREE/checkBox_8": "true",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/IQ-TREE/comboBox_10": "-1",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/IQ-TREE/comboBox_11": "-1",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/IQ-TREE/comboBox_3": "0",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/IQ-TREE/comboBox_4": "0",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/IQ-TREE/comboBox_5": "0",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/IQ-TREE/comboBox_6": "0",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/IQ-TREE/comboBox_7": "2",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/IQ-TREE/comboBox_8": "0",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/IQ-TREE/comboBox_9": "0",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/IQ-TREE/doubleSpinBox": "0.9",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/IQ-TREE/pos": QtCore.QPoint(1033, 118),
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/IQ-TREE/size": QtCore.QSize(556, 675),
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/IQ-TREE/spinBox": "4",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/IQ-TREE/spinBox_3": "20000",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/IQ-TREE/spinBox_4": "1000",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/IQ-TREE/spinBox_5": "1000",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/MAFFT/AA_radioButton_2": "false",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/MAFFT/N2P_radioButton": "false",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/MAFFT/PCG_radioButton_2": "false",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/MAFFT/RNAs_radioButton_2": "true",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/MAFFT/checkBox_2": "true",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/MAFFT/codon_radioButton": "false",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/MAFFT/comboBox_2": "3",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/MAFFT/comboBox_3": "0",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/MAFFT/comboBox_9": "0",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/MAFFT/normal_radioButton": "true",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/MAFFT/pos": QtCore.QPoint(875, 254),
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/MAFFT/pushButton_par": [['--adjustdirection', '--adjustdirectionaccurately', '--thread 1', '--op 1.53', '--ep 0.123', '--kappa 2', '--lop -2.00', '--lep 0.1', '--lexp -0.1', '--LOP -6.00', '--LEXP 0.00', '--bl 62', '--jtt 1', '--tm 1', '--fmodel'], [False, False, False, False, False, False, False, False, False, False, False, False, False, False, False]],
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/MAFFT/size": QtCore.QSize(500, 510),
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/ModelFinder/checkBox": "false",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/ModelFinder/checkBox_2": "true",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/ModelFinder/comboBox_3": "0",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/ModelFinder/comboBox_4": "0",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/ModelFinder/comboBox_5": "1",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/ModelFinder/comboBox_6": "0",
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"Concatenation, Select best-fit partition model for DNA, and Build ML tree/ModelFinder/pos": QtCore.QPoint(1239, 262),
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/ModelFinder/radioButton": "false",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/ModelFinder/radioButton_2": "true",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/ModelFinder/size": QtCore.QSize(500, 519),
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/MrBayes/checkBox": "true",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/MrBayes/checkBox_2": "false",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/MrBayes/checkBox_3": "true",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/MrBayes/comboBox_4": "0",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/MrBayes/comboBox_5": "-1",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/MrBayes/comboBox_6": "0",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/MrBayes/comboBox_7": "-1",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/MrBayes/comboBox_8": "0",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/MrBayes/comboBox_9": "0",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/MrBayes/doubleSpinBox_2": "0.25",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/MrBayes/partition defination": [['Model', 'Subset Name', '', 'Start', '', 'Stop'], [['', '', '=', '', '-', ''], ['', '', '=', '', '-', ''], ['', '', '=', '', '-', ''], ['', '', '=', '', '-', '']]],
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/MrBayes/pos": QtCore.QPoint(1064, 204),
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/MrBayes/pushButton_partition": "true",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/MrBayes/size": QtCore.QSize(557, 673),
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/MrBayes/spinBox": "4",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/MrBayes/spinBox_10": "12500",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/MrBayes/spinBox_2": "5000000",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/MrBayes/spinBox_6": "100",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/MrBayes/spinBox_7": "2",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/MrBayes/spinBox_8": "4",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/PartitionFinder/aa_list_model": ['LG', 'LG+G', 'LG+G+F', 'WAG', 'WAG+G', 'WAG+G+F'],
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/PartitionFinder/comboBox": ['linked', 'unlinked'],
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/PartitionFinder/comboBox_2": ['all', 'mrbayes', 'allx', 'beast', 'gamma', 'gammai', '<list>'],
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/PartitionFinder/comboBox_3": ['AICc', 'BIC', 'AIC'],
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/PartitionFinder/comboBox_4": ['greedy', 'all', 'rcluster', 'rclusterf', 'hcluster', 'kmeans', 'user define'],
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/PartitionFinder/comboBox_5": ['greedy', 'all', 'rcluster', 'rclusterf', 'hcluster', 'kmeans', 'user define'],
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/PartitionFinder/comboBox_6": ['linked', 'unlinked'],
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/PartitionFinder/comboBox_7": ['AICc', 'BIC', 'AIC'],
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/PartitionFinder/comboBox_8": ['mrbayes', 'all', 'allx', 'beast', 'gamma', 'gammai', '<list>'],
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/PartitionFinder/nuc_list_model": ['JC', 'JC+G', 'HKY', 'HKY+G', 'GTR', 'GTR+G'],
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/PartitionFinder/pos": QtCore.QPoint(1052, 247),
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/PartitionFinder/pushButton_cmd1": [['--raxml', '--all-states', '--force-restart', '--min-subset-size', '--no-ml-tree', '--processes', '--quick', '--rcluster-max', '--rcluster-percent', '--save-phylofiles', '--weights'], [False, False, False, False, False, False, False, False, False, False, False]],
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/PartitionFinder/pushButton_cmd2": [['--raxml', '--all-states', '--force-restart', '--min-subset-size', '--no-ml-tree', '--processes', '--quick', '--rcluster-max', '--rcluster-percent', '--save-phylofiles', '--weights'], [False, False, False, False, False, False, False, False, False, False, False]],
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/PartitionFinder/size": QtCore.QSize(500, 559),
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/PartitionFinder/tabWidget": "0",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/PartitionFinder/textEdit": "",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/PartitionFinder/textEdit_2": "",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/PartitionFinder/user_search": "together = (Gene1_codon1, Gene1_codon2, Gene1_codon3, intron);\
intron_123 = (Gene1_codon1, Gene1_codon2, Gene1_codon3) (intron);\
intron_12_3 = (Gene1_codon1, Gene1_codon2) (Gene1_codon3) (intron);\
separate = (Gene1_codon1) (Gene1_codon2) (Gene1_codon3) (intron);",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/checkBox": "false",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/checkBox_2": "true",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/checkBox_3": "false",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/checkBox_4": "true",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/checkBox_5": "false",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/checkBox_6": "true",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/checkBox_7": "false",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/checkBox_8": "false",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/checkBox_9": "false",
"Concatenation, Select best-fit partition model for DNA, and Build ML tree/checkBox_10": "false",
"Select best-fit model then build BI tree/Concatenate Sequence/checkBox": "true",
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"Select best-fit model then build BI tree/Concatenate Sequence/checkBox_2": "true",
"Select best-fit model then build BI tree/Concatenate Sequence/checkBox_3": "true",
"Select best-fit model then build BI tree/Concatenate Sequence/checkBox_4": "true",
"Select best-fit model then build BI tree/Concatenate Sequence/checkBox_5": "false",
"Select best-fit model then build BI tree/Concatenate Sequence/checkBox_9": "false",
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"Select best-fit model then build BI tree/Concatenate Sequence/groupBox": "false",
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"Select best-fit model then build BI tree/Concatenate Sequence/groupBox_5": "false",
"Select best-fit model then build BI tree/Concatenate Sequence/groupBox_top_line": "true",
"Select best-fit model then build BI tree/Concatenate Sequence/lineEdit": "concatenation",
"Select best-fit model then build BI tree/Concatenate Sequence/pos": QtCore.QPoint(875, 254),
"Select best-fit model then build BI tree/Concatenate Sequence/pushButton_color": "#f9c997",
"Select best-fit model then build BI tree/Concatenate Sequence/size": QtCore.QSize(537, 514),
"Select best-fit model then build BI tree/Concatenate Sequence/spinBox_5": "5",
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"Select best-fit model then build BI tree/Concatenate Sequence/spinBox_8": "45",
"Select best-fit model then build BI tree/Gblocks/comboBox_11": ["Don't Save", 'Save'],
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"Select best-fit model then build BI tree/Gblocks/comboBox_13": ['Yes', 'No'],
"Select best-fit model then build BI tree/Gblocks/comboBox_5": ['With Half', 'All', 'None'],
"Select best-fit model then build BI tree/Gblocks/comboBox_6": ['Save', "Don't Save"],
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"Select best-fit model then build BI tree/Gblocks/comboBox_8": ["Don't Save", 'Save'],
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"Select best-fit model then build BI tree/Gblocks/lineEdit_3": "_gb",
"Select best-fit model then build BI tree/Gblocks/pos": QtCore.QPoint(875, 254),
"Select best-fit model then build BI tree/Gblocks/radioButton": "false",
"Select best-fit model then build BI tree/Gblocks/radioButton_2": "true",
"Select best-fit model then build BI tree/Gblocks/radioButton_3": "false",
"Select best-fit model then build BI tree/Gblocks/size": QtCore.QSize(658, 665),
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"Select best-fit model then build BI tree/Gblocks/spinBox_2": "8",
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"Select best-fit model then build BI tree/IQ-TREE/comboBox_10": "-1",
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"Select best-fit model then build BI tree/IQ-TREE/size": QtCore.QSize(556, 675),
"Select best-fit model then build BI tree/IQ-TREE/spinBox": "4",
"Select best-fit model then build BI tree/IQ-TREE/spinBox_3": "20000",
"Select best-fit model then build BI tree/IQ-TREE/spinBox_4": "1000",
"Select best-fit model then build BI tree/IQ-TREE/spinBox_5": "1000",
"Select best-fit model then build BI tree/MAFFT/AA_radioButton_2": "false",
"Select best-fit model then build BI tree/MAFFT/N2P_radioButton": "false",
"Select best-fit model then build BI tree/MAFFT/PCG_radioButton_2": "false",
"Select best-fit model then build BI tree/MAFFT/RNAs_radioButton_2": "true",
"Select best-fit model then build BI tree/MAFFT/checkBox_2": "true",
"Select best-fit model then build BI tree/MAFFT/codon_radioButton": "false",
"Select best-fit model then build BI tree/MAFFT/comboBox_2": "3",
"Select best-fit model then build BI tree/MAFFT/comboBox_3": "0",
"Select best-fit model then build BI tree/MAFFT/comboBox_9": "0",
"Select best-fit model then build BI tree/MAFFT/normal_radioButton": "true",
"Select best-fit model then build BI tree/MAFFT/pos": QtCore.QPoint(875, 254),
"Select best-fit model then build BI tree/MAFFT/pushButton_par": [['--adjustdirection', '--adjustdirectionaccurately', '--thread 1', '--op 1.53', '--ep 0.123', '--kappa 2', '--lop -2.00', '--lep 0.1', '--lexp -0.1', '--LOP -6.00', '--LEXP 0.00', '--bl 62', '--jtt 1', '--tm 1', '--fmodel'], [False, False, False, False, False, False, False, False, False, False, False, False, False, False, False]],
"Select best-fit model then build BI tree/MAFFT/size": QtCore.QSize(500, 510),
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"Select best-fit model then build BI tree/ModelFinder/comboBox_3": "0",
"Select best-fit model then build BI tree/ModelFinder/comboBox_4": "0",
"Select best-fit model then build BI tree/ModelFinder/comboBox_5": "1",
"Select best-fit model then build BI tree/ModelFinder/comboBox_6": "0",
"Select best-fit model then build BI tree/ModelFinder/comboBox_9": "0",
"Select best-fit model then build BI tree/ModelFinder/pos": QtCore.QPoint(1239, 262),
"Select best-fit model then build BI tree/ModelFinder/radioButton": "false",
"Select best-fit model then build BI tree/ModelFinder/radioButton_2": "true",
"Select best-fit model then build BI tree/ModelFinder/size": QtCore.QSize(500, 519),
"Select best-fit model then build BI tree/MrBayes/checkBox": "true",
"Select best-fit model then build BI tree/MrBayes/checkBox_2": "false",
"Select best-fit model then build BI tree/MrBayes/checkBox_3": "true",
"Select best-fit model then build BI tree/MrBayes/comboBox_4": "0",
"Select best-fit model then build BI tree/MrBayes/comboBox_5": "-1",
"Select best-fit model then build BI tree/MrBayes/comboBox_6": "0",
"Select best-fit model then build BI tree/MrBayes/comboBox_7": "-1",
"Select best-fit model then build BI tree/MrBayes/comboBox_8": "0",
"Select best-fit model then build BI tree/MrBayes/comboBox_9": "0",
"Select best-fit model then build BI tree/MrBayes/doubleSpinBox_2": "0.25",
"Select best-fit model then build BI tree/MrBayes/partition defination": [['Model', 'Subset Name', '', 'Start', '', 'Stop'], [['', '', '=', '', '-', ''], ['', '', '=', '', '-', ''], ['', '', '=', '', '-', ''], ['', '', '=', '', '-', '']]],
"Select best-fit model then build BI tree/MrBayes/pos": QtCore.QPoint(1064, 204),
"Select best-fit model then build BI tree/MrBayes/pushButton_partition": "false",
"Select best-fit model then build BI tree/MrBayes/size": QtCore.QSize(557, 673),
"Select best-fit model then build BI tree/MrBayes/spinBox": "4",
"Select best-fit model then build BI tree/MrBayes/spinBox_10": "12500",
"Select best-fit model then build BI tree/MrBayes/spinBox_2": "5000000",
"Select best-fit model then build BI tree/MrBayes/spinBox_6": "100",
"Select best-fit model then build BI tree/MrBayes/spinBox_7": "2",
"Select best-fit model then build BI tree/MrBayes/spinBox_8": "4",
"Select best-fit model then build BI tree/PartitionFinder/aa_list_model": ['LG', 'LG+G', 'LG+G+F', 'WAG', 'WAG+G', 'WAG+G+F'],
"Select best-fit model then build BI tree/PartitionFinder/comboBox": ['unlinked', 'linked'],
"Select best-fit model then build BI tree/PartitionFinder/comboBox_2": ['all', 'allx', 'beast', 'mrbayes', 'gamma', 'gammai', '<list>'],
"Select best-fit model then build BI tree/PartitionFinder/comboBox_3": ['AICc', 'BIC', 'AIC'],
"Select best-fit model then build BI tree/PartitionFinder/comboBox_4": ['all', 'greedy', 'rcluster', 'rclusterf', 'hcluster', 'kmeans', 'user define'],
"Select best-fit model then build BI tree/PartitionFinder/comboBox_5": ['greedy', 'all', 'rcluster', 'rclusterf', 'hcluster', 'kmeans', 'user define'],
"Select best-fit model then build BI tree/PartitionFinder/comboBox_6": ['linked', 'unlinked'],
"Select best-fit model then build BI tree/PartitionFinder/comboBox_7": ['AICc', 'BIC', 'AIC'],
"Select best-fit model then build BI tree/PartitionFinder/comboBox_8": ['mrbayes', 'all', 'allx', 'beast', 'gamma', 'gammai', '<list>'],
"Select best-fit model then build BI tree/PartitionFinder/nuc_list_model": ['JC', 'JC+G', 'HKY', 'HKY+G', 'GTR', 'GTR+G'],
"Select best-fit model then build BI tree/PartitionFinder/pos": QtCore.QPoint(1052, 247),
"Select best-fit model then build BI tree/PartitionFinder/pushButton_cmd1": [['--raxml', '--all-states', '--force-restart', '--min-subset-size', '--no-ml-tree', '--processes', '--quick', '--rcluster-max', '--rcluster-percent', '--save-phylofiles', '--weights'], [False, False, False, False, False, False, False, False, False, False, False]],
"Select best-fit model then build BI tree/PartitionFinder/pushButton_cmd2": [['--raxml', '--all-states', '--force-restart', '--min-subset-size', '--no-ml-tree', '--processes', '--quick', '--rcluster-max', '--rcluster-percent', '--save-phylofiles', '--weights'], [False, False, False, False, False, False, False, False, False, False, False]],
"Select best-fit model then build BI tree/PartitionFinder/size": QtCore.QSize(500, 559),
"Select best-fit model then build BI tree/PartitionFinder/tabWidget": "1",
"Select best-fit model then build BI tree/PartitionFinder/textEdit": "",
"Select best-fit model then build BI tree/PartitionFinder/textEdit_2": "",
"Select best-fit model then build BI tree/PartitionFinder/user_search": "together = (Gene1_codon1, Gene1_codon2, Gene1_codon3, intron);\
intron_123 = (Gene1_codon1, Gene1_codon2, Gene1_codon3) (intron);\
intron_12_3 = (Gene1_codon1, Gene1_codon2) (Gene1_codon3) (intron);\
separate = (Gene1_codon1) (Gene1_codon2) (Gene1_codon3) (intron);",
"Select best-fit model then build BI tree/checkBox": "false",
"Select best-fit model then build BI tree/checkBox_2": "false",
"Select best-fit model then build BI tree/checkBox_3": "false",
"Select best-fit model then build BI tree/checkBox_4": "false",
"Select best-fit model then build BI tree/checkBox_5": "true",
"Select best-fit model then build BI tree/checkBox_6": "false",
"Select best-fit model then build BI tree/checkBox_7": "true",
"Select best-fit model then build BI tree/checkBox_8": "false",
"Select best-fit model then build BI tree/checkBox_9": "false",
"Select best-fit model then build BI tree/checkBox_10": "false",
"Test run/Concatenate Sequence/checkBox": True,
"Test run/Concatenate Sequence/checkBox_12": True,
"Test run/Concatenate Sequence/checkBox_13": False,
"Test run/Concatenate Sequence/checkBox_2": True,
"Test run/Concatenate Sequence/checkBox_3": True,
"Test run/Concatenate Sequence/checkBox_4": True,
"Test run/Concatenate Sequence/checkBox_5": False,
"Test run/Concatenate Sequence/checkBox_9": False,
"Test run/Concatenate Sequence/comboBox": 0,
"Test run/Concatenate Sequence/groupBox": False,
"Test run/Concatenate Sequence/groupBox_3": False,
"Test run/Concatenate Sequence/groupBox_4": False,
"Test run/Concatenate Sequence/groupBox_5": False,
"Test run/Concatenate Sequence/groupBox_top_line": True,
"Test run/Concatenate Sequence/lineEdit": "concatenation",
"Test run/Concatenate Sequence/pos": QtCore.QPoint(875, 254),
"Test run/Concatenate Sequence/pushButton_color": "#f9c997",
"Test run/Concatenate Sequence/size": QtCore.QSize(537, 514),
"Test run/Concatenate Sequence/spinBox_5": 5,
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"Test run/Concatenate Sequence/spinBox_8": 45,
"Test run/Gblocks/comboBox_11": ["Don't Save", 'Save'],
"Test run/Gblocks/comboBox_12": ['Save', 'Save Text', 'Save Short', "Don't Save"],
"Test run/Gblocks/comboBox_13": ['Yes', 'No'],
"Test run/Gblocks/comboBox_5": ['With Half', 'All', 'None'],
"Test run/Gblocks/comboBox_6": ['Save', "Don't Save"],
"Test run/Gblocks/comboBox_7": ["Don't Save", 'Save'],
"Test run/Gblocks/comboBox_8": ["Don't Save", 'Save'],
"Test run/Gblocks/comboBox_9": ["Don't Save", 'Save'],
"Test run/Gblocks/lineEdit_3": "_gb",
"Test run/Gblocks/pos": QtCore.QPoint(875, 254),
"Test run/Gblocks/radioButton": False,
"Test run/Gblocks/radioButton_2": False,
"Test run/Gblocks/radioButton_3": True,
"Test run/Gblocks/size": QtCore.QSize(658, 665),
"Test run/Gblocks/spinBox": 60,
"Test run/Gblocks/spinBox_2": 8,
"Test run/Gblocks/spinBox_3": 10,
"Test run/IQ-TREE/checkBox": False,
"Test run/IQ-TREE/checkBox_2": True,
"Test run/IQ-TREE/checkBox_3": False,
"Test run/IQ-TREE/checkBox_4": False,
"Test run/IQ-TREE/checkBox_5": False,
"Test run/IQ-TREE/checkBox_6": True,
"Test run/IQ-TREE/checkBox_7": False,
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"Test run/IQ-TREE/comboBox_3": 0,
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"Test run/IQ-TREE/comboBox_6": 2,
"Test run/IQ-TREE/comboBox_7": 2,
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"Test run/IQ-TREE/doubleSpinBox": 0.9,
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"Test run/IQ-TREE/size": QtCore.QSize(556, 675),
"Test run/IQ-TREE/spinBox": 4,
"Test run/IQ-TREE/spinBox_3": 5000,
"Test run/IQ-TREE/spinBox_4": 1000,
"Test run/IQ-TREE/spinBox_5": 1000,
"Test run/MAFFT/AA_radioButton_2": False,
"Test run/MAFFT/N2P_radioButton": False,
"Test run/MAFFT/PCG_radioButton_2": True,
"Test run/MAFFT/RNAs_radioButton_2": False,
"Test run/MAFFT/checkBox_2": True,
"Test run/MAFFT/codon_radioButton": True,
"Test run/MAFFT/comboBox_2": 3,
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"Test run/MAFFT/pushButton_par": [['--adjustdirection', '--adjustdirectionaccurately', '--thread 1', '--op 1.53', '--ep 0.123', '--kappa 2', '--lop -2.00', '--lep 0.1', '--lexp -0.1', '--LOP -6.00', '--LEXP 0.00', '--bl 62', '--jtt 1', '--tm 1', '--fmodel'], [False, False, False, False, False, False, False, False, False, False, False, False, False, False, False]],
"Test run/MAFFT/size": QtCore.QSize(500, 515),
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"Test run/ModelFinder/comboBox_3": "0",
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"Test run/ModelFinder/comboBox_5": "1",
"Test run/ModelFinder/comboBox_6": "0",
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"Test run/ModelFinder/pos": QtCore.QPoint(1239, 262),
"Test run/ModelFinder/radioButton": "false",
"Test run/ModelFinder/radioButton_2": "true",
"Test run/ModelFinder/size": QtCore.QSize(500, 519),
"Test run/MrBayes/checkBox": True,
"Test run/MrBayes/checkBox_2": False,
"Test run/MrBayes/checkBox_3": True,
"Test run/MrBayes/checkBox_4": False,
"Test run/MrBayes/comboBox_10": -1,
"Test run/MrBayes/comboBox_4": 0,
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"Test run/MrBayes/comboBox_6": 0,
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"Test run/MrBayes/doubleSpinBox_2": 0.25,
"Test run/MrBayes/partition defination": [['Model', 'Subset Name', '', 'Start', '', 'Stop'], [['', '', '=', '', '-', ''], ['', '', '=', '', '-', ''], ['', '', '=', '', '-', ''], ['', '', '=', '', '-', '']]],
"Test run/MrBayes/pos": QtCore.QPoint(1064, 204),
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"Test run/MrBayes/spinBox_10": 25,
"Test run/MrBayes/spinBox_2": 10000,
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"Test run/MrBayes/spinBox_7": 2,
"Test run/MrBayes/spinBox_8": 4,
"Test run/PartitionFinder/aa_list_model": ['LG', 'LG+G', 'LG+G+F', 'WAG', 'WAG+G', 'WAG+G+F'],
"Test run/PartitionFinder/comboBox": ['unlinked', 'linked'],
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"Test run/PartitionFinder/comboBox_3": ['AICc', 'BIC', 'AIC'],
"Test run/PartitionFinder/comboBox_4": ['all', 'greedy', 'rcluster', 'rclusterf', 'hcluster', 'kmeans', 'user define'],
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"temporary/Concatenate Sequence/groupBox_top_line": "true",
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"temporary/PartitionFinder/size": QtCore.QSize(500, 559),
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"temporary/PartitionFinder/textEdit_2": "",
"temporary/PartitionFinder/user_search": "together = (Gene1_codon1, Gene1_codon2, Gene1_codon3, intron);\
intron_123 = (Gene1_codon1, Gene1_codon2, Gene1_codon3) (intron);\
intron_12_3 = (Gene1_codon1, Gene1_codon2) (Gene1_codon3) (intron);\
separate = (Gene1_codon1) (Gene1_codon2) (Gene1_codon3) (intron);",
"temporary/checkBox": "true",
"temporary/checkBox_2": "true",
"temporary/checkBox_3": "true",
"temporary/checkBox_4": "true",
"temporary/checkBox_5": "false",
"temporary/checkBox_6": "true",
"temporary/checkBox_7": "true",
"temporary/checkBox_8": "false",
"temporary/checkBox_9": "false",
"temporary/checkBox_10": "false",
}