icn3d 3.30.4 → 3.30.6

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Files changed (4) hide show
  1. package/icn3d.js +90 -77
  2. package/icn3d.min.js +3 -3
  3. package/icn3d.module.js +90 -77
  4. package/package.json +1 -1
package/icn3d.module.js CHANGED
@@ -12884,17 +12884,17 @@ class SetDialog {
12884
12884
 
12885
12885
  setTemplateMenu() { let me = this.icn3dui; me.icn3d;
12886
12886
  let group2tpl = {};
12887
- group2tpl['V'] = ['CD28_1yjdC_human_V', 'CD2_1hnfA_human_V-n1', 'CD8a_1cd8A_human_V', 'FAB-HEAVY_5esv_V-n1', 'FAB-LIGHT_5esv_V-n1', 'ICOS_6x4gA_human_V', 'LAG3_7tzgD_human_V-n1', 'PDL1_4z18B_human_V-n1', 'PD1_4zqkB_human_V', 'TCRa_6jxrm_human_V-n1', 'VISTA_6oilA_human_V', 'VNAR_1t6vN_shark_V'];
12888
- group2tpl['C1'] = ['B2Microglobulin_7phrL_human_C1', 'FAB-LIGHT_5esv_C1-n2', 'FAB-HEAVY_5esv_C1-n2', 'GHR_1axiB_human_FN3-n1', 'MHCIa_7phrH_human_C1', 'TCRa_6jxrm_human_C1-n2', 'VTCN1_Q7Z7D3_human_V-n2'];
12889
- group2tpl['C2'] = ['CD2_1hnfA_human_C2-n2', 'Contactin1_3s97C_human_C2-n2', 'LAG3_7tzgD_human_C2-n2', 'Siglec3_5j0bB_human_C2-n2'];
12890
- group2tpl['I'] = ['BTLA_2aw2A_human_Iset', 'CD19_6al5A_human_C2orV-n1', 'JAM1_1nbqA_human_VorIset-n2', 'Palladin_2dm3A_human_Iset-n1', 'Titin_4uowM_human_Unk-n152'];
12891
- group2tpl['E'] = ['ASF1A_2iijA_human', 'CoAtomerGamma1_1r4xA_human', 'Endo-1,4-BetaXylanase10A_1i8aA_bacteria_n4', 'IsdA_2iteA_bacteria', 'MPT63_1lmiA_bacteria', 'NaCaExchanger_2fwuA_dog_n2', 'NaKATPaseTransporterBeta_2zxeB_spurdogshark', 'TP34_2o6cA_bacteria', 'TP47_1o75A_bacteria', 'TEAD1_3kysC_human'];
12887
+ group2tpl['IgV'] = ['CD28_1yjdC_human_V', 'CD2_1hnfA_human_V-n1', 'CD8a_1cd8A_human_V', 'FAB-HEAVY_5esv_V-n1', 'FAB-LIGHT_5esv_V-n1', 'ICOS_6x4gA_human_V', 'LAG3_7tzgD_human_V-n1', 'PD1_4zqkB_human_V', 'PDL1_4z18B_human_V-n1', 'TCRa_6jxrm_human_V-n1', 'VISTA_6oilA_human_V', 'VNAR_1t6vN_shark_V'];
12888
+ group2tpl['IgC1'] = ['B2Microglobulin_7phrL_human_C1', 'CD3d_6jxrd_human_C1', 'CD3e_6jxrf_human_C1', 'FAB-LIGHT_5esv_C1-n2', 'FAB-HEAVY_5esv_C1-n2', 'GHR_1axiB_human_C1-n1', 'LAG3_7tzgD_human_C1-n2', 'MHCIa_7phrH_human_C1', 'Siglec3_5j0bB_human_C1-n2', 'TCRa_6jxrm_human_C1-n2', 'VTCN1_Q7Z7D3_human_C1-n2'];
12889
+ group2tpl['IgC2'] = ['CD2_1hnfA_human_C2-n2', 'CD3g_6jxrg_human_C2'];
12890
+ group2tpl['IgI'] = ['BTLA_2aw2A_human_Iset', 'Contactin1_3s97C_human_Iset-n2', 'JAM1_1nbqA_human_Iset-n2', 'Palladin_2dm3A_human_Iset-n1', 'Titin_4uowM_human_Iset-n152'];
12891
+ group2tpl['IgE'] = ['CoAtomerGamma1_1r4xA_human', 'Endo-1,4-BetaXylanase10A_1i8aA_bacteria_n4', 'IsdA_2iteA_bacteria', 'NaKATPaseTransporterBeta_2zxeB_spurdogshark', 'TP34_2o6cA_bacteria', 'TP47_1o75A_bacteria'];
12892
12892
 
12893
- group2tpl['FN3'] = ['Contactin1_2ee2A_human_FN3-n9', 'IL6Rb_1bquB_human_FN3-n2', 'IL6Rb_1bquB_human_FN3-n3', 'InsulinR_8guyE_human_FN3-n1', 'InsulinR_8guyE_human_FN3-n2', 'Sidekick2_1wf5A_human_FN3-n7'];
12893
+ group2tpl['IgFN3'] = ['Contactin1_2ee2A_human_FN3-n9', 'IL6Rb_1bquB_human_FN3-n2', 'IL6Rb_1bquB_human_FN3-n3', 'InsulinR_8guyE_human_FN3-n1', 'InsulinR_8guyE_human_FN3-n2', 'Sidekick2_1wf5A_human_FN3-n7'];
12894
12894
 
12895
- group2tpl['FN3-like'] = ['BArrestin1_4jqiA_rat_n1', 'C3_2qkiD_human_n1', 'RBPJ_6py8C_human_Unk-n1', 'RBPJ_6py8C_human_Unk-n2'];
12895
+ group2tpl['IgFN3-like'] = ['ASF1A_2iijA_human', 'BArrestin1_4jqiA_rat_n1', 'C3_2qkiD_human_n1', 'MPT63_1lmiA_bacteria', 'NaCaExchanger_2fwuA_dog_n2', 'RBPJ_6py8C_human_Unk-n1', 'RBPJ_6py8C_human_Unk-n2', 'TEAD1_3kysC_human'];
12896
12896
 
12897
- group2tpl['Other'] = ['CuZnSuperoxideDismutase_1hl5C_human', 'ECadherin_4zt1A_human_n2', 'LaminAC_1ifrA_human', 'ORF7a_1xakA_virus'];
12897
+ group2tpl['Other Ig'] = ['CD19_6al5A_human-n1', 'CuZnSuperoxideDismutase_1hl5C_human', 'ECadherin_4zt1A_human_n2', 'LaminAC_1ifrA_human', 'ORF7a_1xakA_virus'];
12898
12898
 
12899
12899
  let tpl2strandsig = {};
12900
12900
  tpl2strandsig['ASF1A_2iijA_human'] = "A A' B C C' E F G G+";
@@ -12902,33 +12902,33 @@ class SetDialog {
12902
12902
  tpl2strandsig['BArrestin1_4jqiA_rat_n1'] = "A- A A' B C C' E F G";
12903
12903
  tpl2strandsig['BTLA_2aw2A_human_Iset'] = "A A' B C C' D E F G";
12904
12904
  tpl2strandsig['C3_2qkiD_human_n1'] = "A A' B C C' E F G";
12905
- tpl2strandsig['CD19_6al5A_human_C2orV-n1'] = "A' B C C' D E F G";
12905
+ tpl2strandsig['CD19_6al5A_human-n1'] = "A' B C C' D E F G";
12906
12906
  tpl2strandsig['CD28_1yjdC_human_V'] = "A A' B C C' C'' D E F G";
12907
12907
  tpl2strandsig['CD2_1hnfA_human_C2-n2'] = "A B C C' E F G";
12908
12908
  tpl2strandsig['CD2_1hnfA_human_V-n1'] = "A' B C C' C'' D E F G";
12909
- tpl2strandsig['CD3d_6jxrd_human_Iset'] = "A B C D E F G";
12910
- tpl2strandsig['CD3e_6jxrf_human_Iset'] = "A B C C' D E F G";
12911
- tpl2strandsig['CD3g_6jxrg_human_Iset'] = "A B C C' E F G G+";
12909
+ tpl2strandsig['CD3d_6jxrd_human_C1'] = "A B C D E F G";
12910
+ tpl2strandsig['CD3e_6jxrf_human_C1'] = "A B C C' D E F G";
12911
+ tpl2strandsig['CD3g_6jxrg_human_C2'] = "A B C C' E F G G+";
12912
12912
  tpl2strandsig['CD8a_1cd8A_human_V'] = "A A' B C C' C'' D E F G";
12913
12913
  tpl2strandsig['CoAtomerGamma1_1r4xA_human'] = "A- A B C D E F G";
12914
12914
  tpl2strandsig['Contactin1_2ee2A_human_FN3-n9'] = "A A' B C C' E F G";
12915
- tpl2strandsig['Contactin1_3s97C_human_C2-n2'] = "A A' B C D E F G";
12915
+ tpl2strandsig['Contactin1_3s97C_human_Iset-n2'] = "A A' B C D E F G";
12916
12916
  tpl2strandsig['CuZnSuperoxideDismutase_1hl5C_human'] = "A- A B C C' E F G";
12917
12917
  tpl2strandsig['ECadherin_4zt1A_human_n2'] = "A' B C D E F G";
12918
12918
  tpl2strandsig['Endo-1,4-BetaXylanase10A_1i8aA_bacteria_n4'] = "A--- A-- A- A B C C' C'' D E F G";
12919
12919
  tpl2strandsig['FAB-HEAVY_5esv_C1-n2'] = "A B C D E F G";
12920
12920
  tpl2strandsig['FAB-HEAVY_5esv_V-n1'] = "A B C C' C'' D E F G";
12921
- tpl2strandsig['FAB-LIGHT_5esv_C1-n2'] = "A B C C' E F G";
12921
+ tpl2strandsig['FAB-LIGHT_5esv_C1-n2'] = "A B C C' D E F G";
12922
12922
  tpl2strandsig['FAB-LIGHT_5esv_V-n1'] = "A A' B C C' C'' D E F G";
12923
- tpl2strandsig['GHR_1axiB_human_FN3-n1'] = "A B C C' D E F G";
12923
+ tpl2strandsig['GHR_1axiB_human_C1-n1'] = "A B C C' D E F G";
12924
12924
  tpl2strandsig['ICOS_6x4gA_human_V'] = "A B C C' C'' D E F G";
12925
12925
  tpl2strandsig['IL6Rb_1bquB_human_FN3-n2'] = "A B C C' E F G";
12926
12926
  tpl2strandsig['IL6Rb_1bquB_human_FN3-n3'] = "A B C C' E F G";
12927
12927
  tpl2strandsig['InsulinR_8guyE_human_FN3-n1'] = "A B C C' E F G";
12928
12928
  tpl2strandsig['InsulinR_8guyE_human_FN3-n2'] = "A B C C' E F G";
12929
12929
  tpl2strandsig['IsdA_2iteA_bacteria'] = "A- A B C C' D E F G";
12930
- tpl2strandsig['JAM1_1nbqA_human_VorIset-n2'] = "A A' B C C' D E F G";
12931
- tpl2strandsig['LAG3_7tzgD_human_C2-n2'] = "A A' B C C' D E F G";
12930
+ tpl2strandsig['JAM1_1nbqA_human_Iset-n2'] = "A A' B C C' D E F G";
12931
+ tpl2strandsig['LAG3_7tzgD_human_C1-n2'] = "A A' B C C' D E F G";
12932
12932
  tpl2strandsig['LAG3_7tzgD_human_V-n1'] = "A' B C C' D E F G";
12933
12933
  tpl2strandsig['LaminAC_1ifrA_human'] = "A- A B C C' E E+ F G";
12934
12934
  tpl2strandsig['MHCIa_7phrH_human_C1'] = "A B C C' D E F G";
@@ -12942,16 +12942,16 @@ class SetDialog {
12942
12942
  tpl2strandsig['RBPJ_6py8C_human_Unk-n1'] = "A A' B C C' E F G";
12943
12943
  tpl2strandsig['RBPJ_6py8C_human_Unk-n2'] = "A B C D E F G";
12944
12944
  tpl2strandsig['Sidekick2_1wf5A_human_FN3-n7'] = "A B C C' E F G";
12945
- tpl2strandsig['Siglec3_5j0bB_human_C2-n2'] = "A A' B C D E F G";
12945
+ tpl2strandsig['Siglec3_5j0bB_human_C1-n2'] = "A A' B C D E F G";
12946
12946
  tpl2strandsig['TCRa_6jxrm_human_C1-n2'] = "A B C D E F G";
12947
12947
  tpl2strandsig['TCRa_6jxrm_human_V-n1'] = "A A' B C C' C'' D E F G";
12948
12948
  tpl2strandsig['TEAD1_3kysC_human'] = "A A+ A' B C C' E F G G+";
12949
12949
  tpl2strandsig['TP34_2o6cA_bacteria'] = "A- A B C C' D E F G";
12950
12950
  tpl2strandsig['TP47_1o75A_bacteria'] = "A B C C' D E F G";
12951
- tpl2strandsig['Titin_4uowM_human_Unk-n152'] = "A A' B C C' D E F G";
12951
+ tpl2strandsig['Titin_4uowM_human_Iset-n152'] = "A A' B C C' D E F G";
12952
12952
  tpl2strandsig['VISTA_6oilA_human_V'] = "A A' B C C' C'' D E F G G+";
12953
12953
  tpl2strandsig['VNAR_1t6vN_shark_V'] = "A A' B C C' D E F G";
12954
- tpl2strandsig['VTCN1_Q7Z7D3_human_V-n2'] = "A B C C' D E F G G+";
12954
+ tpl2strandsig['VTCN1_Q7Z7D3_human_C1-n2'] = "A B C C' D E F G G+";
12955
12955
 
12956
12956
  let html = '';
12957
12957
  for(let group in group2tpl) {
@@ -38894,7 +38894,7 @@ class AnnoIg {
38894
38894
  // titleArray.push(igType + confidance + ' (TM:' + parseFloat(tmscore).toFixed(2) + ')');
38895
38895
  // fullTitleArray.push(igType + confidance + ' (TM:' + parseFloat(tmscore).toFixed(2) + '), template: ' + info.refpdbname + ', Seq. identity: ' + parseFloat(info.seqid).toFixed(2) + ', aligned residues: ' + info.nresAlign);
38896
38896
 
38897
- let igType = (parseFloat(tmscore) < 0.75 ) ? 'Ig' : ic.ref2igtype[info.refpdbname];
38897
+ let igType = (parseFloat(tmscore) < ic.refnumCls.TMThreshold ) ? 'Ig' : ic.ref2igtype[info.refpdbname];
38898
38898
  titleArray.push(igType + ' (TM:' + parseFloat(tmscore).toFixed(2) + ')');
38899
38899
  fullTitleArray.push(igType + ' (TM:' + parseFloat(tmscore).toFixed(2) + '), template: ' + info.refpdbname + ', Seq. identity: ' + parseFloat(info.seqid).toFixed(2) + ', aligned residues: ' + info.nresAlign);
38900
38900
 
@@ -66729,6 +66729,8 @@ class Dssp {
66729
66729
  class Refnum {
66730
66730
  constructor(icn3d) {
66731
66731
  this.icn3d = icn3d;
66732
+ this.TMThreshold = 0.85;
66733
+ this.topClusters = 5;
66732
66734
  }
66733
66735
 
66734
66736
  async hideIgRefNum() { let ic = this.icn3d; ic.icn3dui;
@@ -66763,7 +66765,7 @@ class Dssp {
66763
66765
 
66764
66766
  setRefPdbs() { let ic = this.icn3d; ic.icn3dui;
66765
66767
  // round 1, 16 templates
66766
- ic.refpdbArray = ['1InsulinR_8guyE_human_FN3-n1', '1Endo-1,4-BetaXylanase10A_1i8aA_bacteria_n4', '1CoAtomerGamma1_1r4xA_human', '1C3_2qkiD_human_n1', '1CuZnSuperoxideDismutase_1hl5C_human', '1ASF1A_2iijA_human', '1FAB-LIGHT_5esv_C1-n2', '1CD2_1hnfA_human_C2-n2', '1NaCaExchanger_2fwuA_dog_n2', '1NaKATPaseTransporterBeta_2zxeB_spurdogshark', '1FAB-HEAVY_5esv_V-n1', '1PDL1_4z18B_human_V-n1', '1BTLA_2aw2A_human_Iset', '1LaminAC_1ifrA_human', '1CD3g_6jxrg_human_Iset', '1CD28_1yjdC_human_V', '1CD19_6al5A_human_C2orV-n1'];
66768
+ ic.refpdbArray = ['1InsulinR_8guyE_human_FN3-n1', '1Endo-1,4-BetaXylanase10A_1i8aA_bacteria_n4', '1CoAtomerGamma1_1r4xA_human', '1C3_2qkiD_human_n1', '1CuZnSuperoxideDismutase_1hl5C_human', '1ASF1A_2iijA_human', '1FAB-LIGHT_5esv_C1-n2', '1CD2_1hnfA_human_C2-n2', '1NaCaExchanger_2fwuA_dog_n2', '1NaKATPaseTransporterBeta_2zxeB_spurdogshark', '1FAB-HEAVY_5esv_V-n1', '1PDL1_4z18B_human_V-n1', '1BTLA_2aw2A_human_Iset', '1LaminAC_1ifrA_human', '1CD3g_6jxrg_human_C2', '1CD28_1yjdC_human_V', '1CD19_6al5A_human-n1'];
66767
66769
 
66768
66770
  // round 2
66769
66771
  ic.refpdbHash = {};
@@ -66773,19 +66775,19 @@ class Dssp {
66773
66775
  ic.refpdbHash['1C3_2qkiD_human_n1'] = ['C3_2qkiD_human_n1', 'BArrestin1_4jqiA_rat_n1', 'RBPJ_6py8C_human_Unk-n1'];
66774
66776
  ic.refpdbHash['1CuZnSuperoxideDismutase_1hl5C_human'] = ['CuZnSuperoxideDismutase_1hl5C_human', 'TEAD1_3kysC_human'];
66775
66777
  ic.refpdbHash['1ASF1A_2iijA_human'] = ['ASF1A_2iijA_human', 'RBPJ_6py8C_human_Unk-n2', 'TP47_1o75A_bacteria'];
66776
- ic.refpdbHash['1FAB-LIGHT_5esv_C1-n2'] = ['FAB-LIGHT_5esv_C1-n2', 'GHR_1axiB_human_FN3-n1', 'VTCN1_Q7Z7D3_human_V-n2', 'B2Microglobulin_7phrL_human_C1', 'FAB-HEAVY_5esv_C1-n2', 'MHCIa_7phrH_human_C1'];
66777
- ic.refpdbHash['1CD2_1hnfA_human_C2-n2'] = ['CD2_1hnfA_human_C2-n2', 'Siglec3_5j0bB_human_C2-n2'];
66778
+ ic.refpdbHash['1FAB-LIGHT_5esv_C1-n2'] = ['FAB-LIGHT_5esv_C1-n2', 'GHR_1axiB_human_C1-n1', 'VTCN1_Q7Z7D3_human_C1-n2', 'B2Microglobulin_7phrL_human_C1', 'FAB-HEAVY_5esv_C1-n2', 'MHCIa_7phrH_human_C1'];
66779
+ ic.refpdbHash['1CD2_1hnfA_human_C2-n2'] = ['CD2_1hnfA_human_C2-n2', 'Siglec3_5j0bB_human_C1-n2'];
66778
66780
  ic.refpdbHash['1NaCaExchanger_2fwuA_dog_n2'] = ['NaCaExchanger_2fwuA_dog_n2', 'ORF7a_1xakA_virus', 'ECadherin_4zt1A_human_n2'];
66779
66781
  ic.refpdbHash['1NaKATPaseTransporterBeta_2zxeB_spurdogshark'] = ['NaKATPaseTransporterBeta_2zxeB_spurdogshark'];
66780
66782
  ic.refpdbHash['1FAB-HEAVY_5esv_V-n1'] = ['FAB-HEAVY_5esv_V-n1', 'FAB-LIGHT_5esv_V-n1', 'VNAR_1t6vN_shark_V', 'TCRa_6jxrm_human_V-n1', 'VISTA_6oilA_human_V', 'CD8a_1cd8A_human_V', 'PD1_4zqkB_human_V'];
66781
66783
  ic.refpdbHash['1PDL1_4z18B_human_V-n1'] = ['PDL1_4z18B_human_V-n1', 'CD2_1hnfA_human_V-n1', 'LAG3_7tzgD_human_V-n1'];
66782
- ic.refpdbHash['1BTLA_2aw2A_human_Iset'] = ['BTLA_2aw2A_human_Iset', 'Palladin_2dm3A_human_Iset-n1', 'Titin_4uowM_human_Unk-n152', 'LAG3_7tzgD_human_C2-n2', 'JAM1_1nbqA_human_VorIset-n2', 'Contactin1_3s97C_human_C2-n2'];
66783
- ic.refpdbHash['1LaminAC_1ifrA_human'] = ['LaminAC_1ifrA_human', 'CD3d_6jxrd_human_Iset'];
66784
- ic.refpdbHash['1CD3g_6jxrg_human_Iset'] = ['CD3g_6jxrg_human_Iset', 'TCRa_6jxrm_human_C1-n2', 'IsdA_2iteA_bacteria'];
66785
- ic.refpdbHash['1CD28_1yjdC_human_V'] = ['CD28_1yjdC_human_V', 'MPT63_1lmiA_bacteria', 'CD3e_6jxrf_human_Iset'];
66786
- ic.refpdbHash['1CD19_6al5A_human_C2orV-n1'] = ['CD19_6al5A_human_C2orV-n1'];
66784
+ ic.refpdbHash['1BTLA_2aw2A_human_Iset'] = ['BTLA_2aw2A_human_Iset', 'Palladin_2dm3A_human_Iset-n1', 'Titin_4uowM_human_Iset-n152', 'LAG3_7tzgD_human_C1-n2', 'JAM1_1nbqA_human_Iset-n2', 'Contactin1_3s97C_human_Iset-n2'];
66785
+ ic.refpdbHash['1LaminAC_1ifrA_human'] = ['LaminAC_1ifrA_human', 'CD3d_6jxrd_human_C1'];
66786
+ ic.refpdbHash['1CD3g_6jxrg_human_C2'] = ['CD3g_6jxrg_human_C2', 'TCRa_6jxrm_human_C1-n2', 'IsdA_2iteA_bacteria'];
66787
+ ic.refpdbHash['1CD28_1yjdC_human_V'] = ['CD28_1yjdC_human_V', 'MPT63_1lmiA_bacteria', 'CD3e_6jxrf_human_C1'];
66788
+ ic.refpdbHash['1CD19_6al5A_human-n1'] = ['CD19_6al5A_human-n1'];
66787
66789
 
66788
- ic.refpdbHash['all_templates'] = ['ASF1A_2iijA_human', 'B2Microglobulin_7phrL_human_C1', 'BArrestin1_4jqiA_rat_n1', 'BTLA_2aw2A_human_Iset', 'C3_2qkiD_human_n1', 'CD19_6al5A_human_C2orV-n1', 'CD28_1yjdC_human_V', 'CD2_1hnfA_human_C2-n2', 'CD2_1hnfA_human_V-n1', 'CD3d_6jxrd_human_Iset', 'CD3e_6jxrf_human_Iset', 'CD3g_6jxrg_human_Iset', 'CD8a_1cd8A_human_V', 'CoAtomerGamma1_1r4xA_human', 'Contactin1_2ee2A_human_FN3-n9', 'Contactin1_3s97C_human_C2-n2', 'CuZnSuperoxideDismutase_1hl5C_human', 'ECadherin_4zt1A_human_n2', 'Endo-1,4-BetaXylanase10A_1i8aA_bacteria_n4', 'FAB-HEAVY_5esv_C1-n2', 'FAB-HEAVY_5esv_V-n1', 'FAB-LIGHT_5esv_C1-n2', 'FAB-LIGHT_5esv_V-n1', 'GHR_1axiB_human_FN3-n1', 'ICOS_6x4gA_human_V', 'IL6Rb_1bquB_human_FN3-n2', 'IL6Rb_1bquB_human_FN3-n3', 'InsulinR_8guyE_human_FN3-n1', 'InsulinR_8guyE_human_FN3-n2', 'IsdA_2iteA_bacteria', 'JAM1_1nbqA_human_VorIset-n2', 'LAG3_7tzgD_human_C2-n2', 'LAG3_7tzgD_human_V-n1', 'LaminAC_1ifrA_human', 'MHCIa_7phrH_human_C1', 'MPT63_1lmiA_bacteria', 'NaCaExchanger_2fwuA_dog_n2', 'NaKATPaseTransporterBeta_2zxeB_spurdogshark', 'ORF7a_1xakA_virus', 'PD1_4zqkB_human_V', 'PDL1_4z18B_human_V-n1', 'Palladin_2dm3A_human_Iset-n1', 'RBPJ_6py8C_human_Unk-n1', 'RBPJ_6py8C_human_Unk-n2', 'Sidekick2_1wf5A_human_FN3-n7', 'Siglec3_5j0bB_human_C2-n2', 'TCRa_6jxrm_human_C1-n2', 'TCRa_6jxrm_human_V-n1', 'TEAD1_3kysC_human', 'TP34_2o6cA_bacteria', 'TP47_1o75A_bacteria', 'Titin_4uowM_human_Unk-n152', 'VISTA_6oilA_human_V', 'VNAR_1t6vN_shark_V', 'VTCN1_Q7Z7D3_human_V-n2'];
66790
+ ic.refpdbHash['all_templates'] = ['ASF1A_2iijA_human', 'B2Microglobulin_7phrL_human_C1', 'BArrestin1_4jqiA_rat_n1', 'BTLA_2aw2A_human_Iset', 'C3_2qkiD_human_n1', 'CD19_6al5A_human-n1', 'CD28_1yjdC_human_V', 'CD2_1hnfA_human_C2-n2', 'CD2_1hnfA_human_V-n1', 'CD3d_6jxrd_human_C1', 'CD3e_6jxrf_human_C1', 'CD3g_6jxrg_human_C2', 'CD8a_1cd8A_human_V', 'CoAtomerGamma1_1r4xA_human', 'Contactin1_2ee2A_human_FN3-n9', 'Contactin1_3s97C_human_Iset-n2', 'CuZnSuperoxideDismutase_1hl5C_human', 'ECadherin_4zt1A_human_n2', 'Endo-1,4-BetaXylanase10A_1i8aA_bacteria_n4', 'FAB-HEAVY_5esv_C1-n2', 'FAB-HEAVY_5esv_V-n1', 'FAB-LIGHT_5esv_C1-n2', 'FAB-LIGHT_5esv_V-n1', 'GHR_1axiB_human_C1-n1', 'ICOS_6x4gA_human_V', 'IL6Rb_1bquB_human_FN3-n2', 'IL6Rb_1bquB_human_FN3-n3', 'InsulinR_8guyE_human_FN3-n1', 'InsulinR_8guyE_human_FN3-n2', 'IsdA_2iteA_bacteria', 'JAM1_1nbqA_human_Iset-n2', 'LAG3_7tzgD_human_C1-n2', 'LAG3_7tzgD_human_V-n1', 'LaminAC_1ifrA_human', 'MHCIa_7phrH_human_C1', 'MPT63_1lmiA_bacteria', 'NaCaExchanger_2fwuA_dog_n2', 'NaKATPaseTransporterBeta_2zxeB_spurdogshark', 'ORF7a_1xakA_virus', 'PD1_4zqkB_human_V', 'PDL1_4z18B_human_V-n1', 'Palladin_2dm3A_human_Iset-n1', 'RBPJ_6py8C_human_Unk-n1', 'RBPJ_6py8C_human_Unk-n2', 'Sidekick2_1wf5A_human_FN3-n7', 'Siglec3_5j0bB_human_C1-n2', 'TCRa_6jxrm_human_C1-n2', 'TCRa_6jxrm_human_V-n1', 'TEAD1_3kysC_human', 'TP34_2o6cA_bacteria', 'TP47_1o75A_bacteria', 'Titin_4uowM_human_Iset-n152', 'VISTA_6oilA_human_V', 'VNAR_1t6vN_shark_V', 'VTCN1_Q7Z7D3_human_C1-n2'];
66789
66791
 
66790
66792
  // use known ref structure
66791
66793
  ic.refpdbHash['5ESV_C'] = ['FAB-HEAVY_5esv_V-n1', 'FAB-HEAVY_5esv_C1-n2'];
@@ -66793,7 +66795,7 @@ class Dssp {
66793
66795
  ic.refpdbHash['8GUY_E'] = ['InsulinR_8guyE_human_FN3-n1', 'InsulinR_8guyE_human_FN3-n2'];
66794
66796
  ic.refpdbHash['6JXR_m'] = ['TCRa_6jxrm_human_V-n1', 'TCRa_6jxrm_human_C1-n2'];
66795
66797
  ic.refpdbHash['1HNF_A'] = ['CD2_1hnfA_human_V-n1', 'CD2_1hnfA_human_C2-n2'];
66796
- ic.refpdbHash['7TZG_D'] = ['LAG3_7tzgD_human_V-n1', 'LAG3_7tzgD_human_C2-n2'];
66798
+ ic.refpdbHash['7TZG_D'] = ['LAG3_7tzgD_human_V-n1', 'LAG3_7tzgD_human_C1-n2'];
66797
66799
  ic.refpdbHash['6PY8_C'] = ['RBPJ_6py8C_human_Unk-n1', 'RBPJ_6py8C_human_Unk-n2'];
66798
66800
  ic.refpdbHash['1BQU_B'] = ['IL6Rb_1bquB_human_FN3-n2', 'IL6Rb_1bquB_human_FN3-n3'];
66799
66801
 
@@ -66803,7 +66805,7 @@ class Dssp {
66803
66805
  ic.refpdbHash['1I8A_A'] = ['Endo-1,4-BetaXylanase10A_1i8aA_bacteria_n4'];
66804
66806
  ic.refpdbHash['2FWU_A'] = ['NaCaExchanger_2fwuA_dog_n2'];
66805
66807
  ic.refpdbHash['4JQI_A'] = ['BArrestin1_4jqiA_rat_n1'];
66806
- ic.refpdbHash['1NBQ_A'] = ['JAM1_1nbqA_human_VorIset-n2'];
66808
+ ic.refpdbHash['1NBQ_A'] = ['JAM1_1nbqA_human_Iset-n2'];
66807
66809
  ic.refpdbHash['1O75_A'] = ['TP47_1o75A_bacteria'];
66808
66810
  ic.refpdbHash['7PHR_H'] = ['MHCIa_7phrH_human_C1'];
66809
66811
  ic.refpdbHash['2IIJ_A'] = ['ASF1A_2iijA_human'];
@@ -66815,9 +66817,9 @@ class Dssp {
66815
66817
  ic.refpdbHash['2AW2_A'] = ['BTLA_2aw2A_human_Iset'];
66816
66818
  ic.refpdbHash['1HL5_C'] = ['CuZnSuperoxideDismutase_1hl5C_human'];
66817
66819
  ic.refpdbHash['1WF5_A'] = ['Sidekick2_1wf5A_human_FN3-n7'];
66818
- ic.refpdbHash['5J0B_B'] = ['Siglec3_5j0bB_human_C2-n2'];
66820
+ ic.refpdbHash['5J0B_B'] = ['Siglec3_5j0bB_human_C1-n2'];
66819
66821
  ic.refpdbHash['1IFR_A'] = ['LaminAC_1ifrA_human'];
66820
- ic.refpdbHash['Q7Z7D3_A'] = ['VTCN1_Q7Z7D3_human_V-n2'];
66822
+ ic.refpdbHash['Q7Z7D3_A'] = ['VTCN1_Q7Z7D3_human_C1-n2'];
66821
66823
  ic.refpdbHash['4ZQK_B'] = ['PD1_4zqkB_human_V'];
66822
66824
  ic.refpdbHash['2DM3_A'] = ['Palladin_2dm3A_human_Iset-n1'];
66823
66825
  ic.refpdbHash['2ITE_A'] = ['IsdA_2iteA_bacteria'];
@@ -66825,17 +66827,17 @@ class Dssp {
66825
66827
  ic.refpdbHash['4ZT1_A'] = ['ECadherin_4zt1A_human_n2'];
66826
66828
  ic.refpdbHash['1LMI_A'] = ['MPT63_1lmiA_bacteria'];
66827
66829
  ic.refpdbHash['1CD8_A'] = ['CD8a_1cd8A_human_V'];
66828
- ic.refpdbHash['3S97_C'] = ['Contactin1_3s97C_human_C2-n2'];
66829
- ic.refpdbHash['1AXI_B'] = ['GHR_1axiB_human_FN3-n1'];
66830
+ ic.refpdbHash['3S97_C'] = ['Contactin1_3s97C_human_Iset-n2'];
66831
+ ic.refpdbHash['1AXI_B'] = ['GHR_1axiB_human_C1-n1'];
66830
66832
  ic.refpdbHash['6X4G_A'] = ['ICOS_6x4gA_human_V'];
66831
66833
  ic.refpdbHash['2EE2_A'] = ['Contactin1_2ee2A_human_FN3-n9'];
66832
- ic.refpdbHash['4UOW_M'] = ['Titin_4uowM_human_Unk-n152'];
66833
- ic.refpdbHash['6A15_A'] = ['CD19_6al5A_human_C2orV-n1'];
66834
+ ic.refpdbHash['4UOW_M'] = ['Titin_4uowM_human_Iset-n152'];
66835
+ ic.refpdbHash['6A15_A'] = ['CD19_6al5A_human-n1'];
66834
66836
  ic.refpdbHash['2QKI_D'] = ['C3_2qkiD_human_n1'];
66835
66837
  ic.refpdbHash['1YJD_C'] = ['CD28_1yjdC_human_V'];
66836
- ic.refpdbHash['6JXR_d'] = ['CD3d_6jxrd_human_Iset'];
66837
- ic.refpdbHash['6JXR_f'] = ['CD3e_6jxrf_human_Iset'];
66838
- ic.refpdbHash['6JXR_g'] = ['CD3g_6jxrg_human_Iset'];
66838
+ ic.refpdbHash['6JXR_d'] = ['CD3d_6jxrd_human_C1'];
66839
+ ic.refpdbHash['6JXR_f'] = ['CD3e_6jxrf_human_C1'];
66840
+ ic.refpdbHash['6JXR_g'] = ['CD3g_6jxrg_human_C2'];
66839
66841
 
66840
66842
  // assign Ig types
66841
66843
  ic.ref2igtype = {};
@@ -66845,17 +66847,17 @@ class Dssp {
66845
66847
  ic.ref2igtype['BArrestin1_4jqiA_rat_n1'] = 'IgFN3-like';
66846
66848
  ic.ref2igtype['BTLA_2aw2A_human_Iset'] = 'IgI';
66847
66849
  ic.ref2igtype['C3_2qkiD_human_n1'] = 'IgFN3-like';
66848
- ic.ref2igtype['CD19_6al5A_human_C2orV-n1'] = 'CD19';
66850
+ ic.ref2igtype['CD19_6al5A_human-n1'] = 'CD19';
66849
66851
  ic.ref2igtype['CD28_1yjdC_human_V'] = 'IgV';
66850
66852
  ic.ref2igtype['CD2_1hnfA_human_C2-n2'] = 'IgC2';
66851
66853
  ic.ref2igtype['CD2_1hnfA_human_V-n1'] = 'IgV';
66852
- ic.ref2igtype['CD3d_6jxrd_human_Iset'] = 'IgI';
66853
- ic.ref2igtype['CD3e_6jxrf_human_Iset'] = 'IgI';
66854
- ic.ref2igtype['CD3g_6jxrg_human_Iset'] = 'IgI';
66854
+ ic.ref2igtype['CD3d_6jxrd_human_C1'] = 'IgI';
66855
+ ic.ref2igtype['CD3e_6jxrf_human_C1'] = 'IgI';
66856
+ ic.ref2igtype['CD3g_6jxrg_human_C2'] = 'IgI';
66855
66857
  ic.ref2igtype['CD8a_1cd8A_human_V'] = 'IgV';
66856
66858
  ic.ref2igtype['CoAtomerGamma1_1r4xA_human'] = 'IgE';
66857
66859
  ic.ref2igtype['Contactin1_2ee2A_human_FN3-n9'] = 'IgFN3';
66858
- ic.ref2igtype['Contactin1_3s97C_human_C2-n2'] = 'IgC2';
66860
+ ic.ref2igtype['Contactin1_3s97C_human_Iset-n2'] = 'IgC2';
66859
66861
  ic.ref2igtype['CuZnSuperoxideDismutase_1hl5C_human'] = 'SOD';
66860
66862
  ic.ref2igtype['ECadherin_4zt1A_human_n2'] = 'Cadherin';
66861
66863
  ic.ref2igtype['Endo-1,4-BetaXylanase10A_1i8aA_bacteria_n4'] = 'IgE';
@@ -66863,15 +66865,15 @@ class Dssp {
66863
66865
  ic.ref2igtype['FAB-HEAVY_5esv_V-n1'] = 'IgV';
66864
66866
  ic.ref2igtype['FAB-LIGHT_5esv_C1-n2'] = 'IgC1';
66865
66867
  ic.ref2igtype['FAB-LIGHT_5esv_V-n1'] = 'IgV';
66866
- ic.ref2igtype['GHR_1axiB_human_FN3-n1'] = 'IgFN3';
66868
+ ic.ref2igtype['GHR_1axiB_human_C1-n1'] = 'IgFN3';
66867
66869
  ic.ref2igtype['ICOS_6x4gA_human_V'] = 'IgV';
66868
66870
  ic.ref2igtype['IL6Rb_1bquB_human_FN3-n2'] = 'IgFN3';
66869
66871
  ic.ref2igtype['IL6Rb_1bquB_human_FN3-n3'] = 'IgFN3';
66870
66872
  ic.ref2igtype['InsulinR_8guyE_human_FN3-n1'] = 'IgFN3';
66871
66873
  ic.ref2igtype['InsulinR_8guyE_human_FN3-n2'] = 'IgFN3';
66872
66874
  ic.ref2igtype['IsdA_2iteA_bacteria'] = 'IgE';
66873
- ic.ref2igtype['JAM1_1nbqA_human_VorIset-n2'] = 'IgI';
66874
- ic.ref2igtype['LAG3_7tzgD_human_C2-n2'] = 'IgC2';
66875
+ ic.ref2igtype['JAM1_1nbqA_human_Iset-n2'] = 'IgI';
66876
+ ic.ref2igtype['LAG3_7tzgD_human_C1-n2'] = 'IgC2';
66875
66877
  ic.ref2igtype['LAG3_7tzgD_human_V-n1'] = 'IgV';
66876
66878
  ic.ref2igtype['LaminAC_1ifrA_human'] = 'Lamin';
66877
66879
  ic.ref2igtype['MHCIa_7phrH_human_C1'] = 'IgC1';
@@ -66885,16 +66887,16 @@ class Dssp {
66885
66887
  ic.ref2igtype['RBPJ_6py8C_human_Unk-n1'] = 'IgFN3-like';
66886
66888
  ic.ref2igtype['RBPJ_6py8C_human_Unk-n2'] = 'IgFN3-like';
66887
66889
  ic.ref2igtype['Sidekick2_1wf5A_human_FN3-n7'] = 'IgFN3';
66888
- ic.ref2igtype['Siglec3_5j0bB_human_C2-n2'] = 'IgC2';
66890
+ ic.ref2igtype['Siglec3_5j0bB_human_C1-n2'] = 'IgC2';
66889
66891
  ic.ref2igtype['TCRa_6jxrm_human_C1-n2'] = 'IgC1';
66890
66892
  ic.ref2igtype['TCRa_6jxrm_human_V-n1'] = 'IgV';
66891
66893
  ic.ref2igtype['TEAD1_3kysC_human'] = 'IgE';
66892
66894
  ic.ref2igtype['TP34_2o6cA_bacteria'] = 'IgE';
66893
66895
  ic.ref2igtype['TP47_1o75A_bacteria'] = 'IgE';
66894
- ic.ref2igtype['Titin_4uowM_human_Unk-n152'] = 'IgI';
66896
+ ic.ref2igtype['Titin_4uowM_human_Iset-n152'] = 'IgI';
66895
66897
  ic.ref2igtype['VISTA_6oilA_human_V'] = 'IgV';
66896
66898
  ic.ref2igtype['VNAR_1t6vN_shark_V'] = 'IgV';
66897
- ic.ref2igtype['VTCN1_Q7Z7D3_human_V-n2'] = 'IgV';
66899
+ ic.ref2igtype['VTCN1_Q7Z7D3_human_C1-n2'] = 'IgV';
66898
66900
  }
66899
66901
 
66900
66902
  getPdbAjaxArray() { let ic = this.icn3d, me = ic.icn3dui;
@@ -67309,17 +67311,20 @@ class Dssp {
67309
67311
  if(bBstrand && bCstrand && bEstrand && bFstrand) break;
67310
67312
  }
67311
67313
 
67312
- if(!(bBstrand && bCstrand && bEstrand && bFstrand) || !(bBSheet && bCSheet && bESheet && bFSheet)) {
67313
- // if(!(bBstrand && bCstrand && bEstrand && bFstrand)) {
67314
- if(!me.bNode && !(bBstrand && bCstrand && bEstrand && bFstrand)) console.log("Some of the Ig strands B, C, E, F are missing in the domain " + domainid + "...");
67315
- if(!me.bNode && !(bBSheet && bCSheet && bESheet && bFSheet)) console.log("Some of the Ig strands B, C, E, F are not beta sheets...");
67316
- // if(!me.bNode && (BCnt < 3 || CCnt < 3 || ECnt < 3 || FCnt < 3)) console.log("Some of the Ig strands B, C, E, F are missing in the domain " + domainid + "...");
67317
- if(ic.domainid2refpdbname[domainid][0] == refpdbname) {
67318
- delete ic.domainid2refpdbname[domainid];
67319
- delete ic.domainid2score[domainid];
67314
+ // if(refpdbname != 'CD19_6al5A_human-n1') { // relax for CD19
67315
+ if(!(bBstrand && bCstrand && bEstrand && bFstrand) || !(bBSheet && bCSheet && bESheet && bFSheet)) {
67316
+ // if(!(bBstrand && bCstrand && bEstrand && bFstrand)) {
67317
+ if(!me.bNode && !(bBstrand && bCstrand && bEstrand && bFstrand)) console.log("Some of the Ig strands B, C, E, F are missing in the domain " + domainid + "...");
67318
+ if(!me.bNode && !(bBSheet && bCSheet && bESheet && bFSheet)) console.log("Some of the Ig strands B, C, E, F are not beta sheets...");
67319
+ // if(!me.bNode && (BCnt < 3 || CCnt < 3 || ECnt < 3 || FCnt < 3)) console.log("Some of the Ig strands B, C, E, F are missing in the domain " + domainid + "...");
67320
+ if(ic.domainid2refpdbname[domainid][0] == refpdbname) {
67321
+ delete ic.domainid2refpdbname[domainid];
67322
+ delete ic.domainid2score[domainid];
67323
+ }
67324
+ continue;
67320
67325
  }
67321
- continue;
67322
- }
67326
+ // }
67327
+
67323
67328
  }
67324
67329
 
67325
67330
  if(!bRound1) {
@@ -67348,7 +67353,8 @@ class Dssp {
67348
67353
  ic.domainid2score[domainid] = queryData[0].score + '_' + queryData[0].frac_identical + '_' + queryData[0].num_res ;
67349
67354
 
67350
67355
  if(bRound1) {
67351
- ic.domainid2refpdbname[domainid] = score > 0.75 ? [refpdbname] : ['all_templates'];
67356
+ // ic.domainid2refpdbname[domainid] = score > 0.75 ? [refpdbname] : ['all_templates'];
67357
+ ic.domainid2refpdbname[domainid] = score >= this.TMThreshold ? [refpdbname] : ['all_templates'];
67352
67358
  }
67353
67359
  else {
67354
67360
  ic.domainid2refpdbname[domainid] = [refpdbname];
@@ -67367,7 +67373,7 @@ class Dssp {
67367
67373
  }
67368
67374
  }
67369
67375
 
67370
- // combine the top four clusters for the 2nd round alignment
67376
+ // combine the top clusters for the 2nd round alignment
67371
67377
  if(bRound1) {
67372
67378
  for(let domainid in domainid2refpdbnamelist) {
67373
67379
  if(!me.bNode && ic.domainid2refpdbname[domainid][0] == 'all_templates') {
@@ -67376,8 +67382,8 @@ class Dssp {
67376
67382
  refpdbnameList.sort(function(a, b) {
67377
67383
  return refpdbname2score[b] - refpdbname2score[a]
67378
67384
  });
67379
- // top 4 templates
67380
- ic.domainid2refpdbname[domainid] = refpdbnameList.slice(0,4);
67385
+ // top templates
67386
+ ic.domainid2refpdbname[domainid] = refpdbnameList.slice(0, this.topClusters);
67381
67387
  }
67382
67388
  }
67383
67389
  }
@@ -67609,13 +67615,13 @@ class Dssp {
67609
67615
 
67610
67616
  let currStrand;
67611
67617
 
67612
- // let bCd19 = refpdbnameArray.length == 1 && refpdbnameArray[0] == 'CD19_6al5A_human_C2orV-n1';
67618
+ // let bCd19 = refpdbnameArray.length == 1 && refpdbnameArray[0] == 'CD19_6al5A_human-n1';
67613
67619
  for(let i = 0, il = segArray.length; i < il; ++i) {
67614
67620
  let seg = segArray[i];
67615
67621
  if(!seg) continue;
67616
67622
 
67617
- let qStart = seg.q_start;
67618
- parseInt(seg.q_start);
67623
+ seg.q_start;
67624
+ let qStartInt = parseInt(seg.q_start);
67619
67625
  if(isNaN(seg.q_start)) seg.q_start.substr(seg.q_start.length - 1, 1);
67620
67626
 
67621
67627
  // one item in "seq"
@@ -67628,7 +67634,8 @@ class Dssp {
67628
67634
  let resid = chainid + '_' + seg.t_start;
67629
67635
  //let refnum = qStartInt.toString() + postfix;
67630
67636
  //let refnum = qStart + postfix;
67631
- let refnum = qStart;
67637
+ //let refnum = qStart;
67638
+ let refnum = qStartInt;
67632
67639
 
67633
67640
  let refnumLabel = this.getLabelFromRefnum(refnum);
67634
67641
  currStrand = (refnumLabel) ? refnumLabel.replace(new RegExp(refnum,'g'), '') : undefined;
@@ -68043,7 +68050,7 @@ class Dssp {
68043
68050
  if(!ic.chainid2refpdbname[chnid]) return false;
68044
68051
 
68045
68052
  // auto-generate ref numbers for loops
68046
- let currStrand = '', prevStrand = '';
68053
+ let currStrand = '', prevStrand = '', prevValidStrand = '';
68047
68054
  let refnumLabel, refnumStr_ori, refnumStr, postfix, strandPostfix, refnum, refnum3c, refnum2c;
68048
68055
  let bExtendedStrand = false, bSecThird9 = false;
68049
68056
 
@@ -68107,7 +68114,8 @@ class Dssp {
68107
68114
  if(!bSecThird9 || (bExtendedStrand && !bSecThird9)) {
68108
68115
  let lastTwo = parseInt(refnum.toString().substr(refnum.toString().length - 2, 2));
68109
68116
 
68110
- if(currStrand != prevStrand) { // reset currCnt
68117
+ // reset currCnt
68118
+ if(currStrand != prevStrand && currStrand != prevValidStrand) { // sometimes the same resid appear several times, e.g, 7M7B_H_135
68111
68119
  bFoundAnchor = false;
68112
68120
 
68113
68121
  if(strandHash[currStrand + postfix]) {
@@ -68209,6 +68217,8 @@ class Dssp {
68209
68217
  }
68210
68218
  }
68211
68219
  }
68220
+
68221
+ prevValidStrand = currStrand;
68212
68222
  }
68213
68223
  }
68214
68224
 
@@ -68296,6 +68306,7 @@ class Dssp {
68296
68306
  for(let il = strandArray.length, i = il - 1; i >= 0; --i) {
68297
68307
  // let strandTmp = strandArray[i].strand.substr(0, 1);
68298
68308
  let strandTmp = strandArray[i].strand;
68309
+
68299
68310
  if(strandTmp != 'G' && strandArray[i].endRefnum - strandArray[i].startRefnum + 1 < 3) { // remove the strand
68300
68311
  if(i != il - 1) { // modify
68301
68312
  strandArray[i + 1].loopResCnt += strandArray[i].loopResCnt + parseInt(strandArray[i].endResi) - parseInt(strandArray[i].startResi) + 1;
@@ -68312,7 +68323,7 @@ class Dssp {
68312
68323
  let domainid = ic.resid2domainid[resid];
68313
68324
  removeDomainidHash[domainid] = 1;
68314
68325
  continue;
68315
- }
68326
+ }
68316
68327
  }
68317
68328
  }
68318
68329
 
@@ -68429,10 +68440,12 @@ class Dssp {
68429
68440
  let halfLen = parseInt(len / 2.0 + 0.5);
68430
68441
 
68431
68442
  if(loopCnt <= halfLen) {
68432
- currRefnum = strandArray[prevStrandCnt].endRefnum + loopCnt;
68433
- refnumLabelNoPostfix = strandArray[prevStrandCnt].strand + currRefnum;
68434
- refnumLabel = refnumLabelNoPostfix + strandArray[prevStrandCnt].strandPostfix;
68435
- domainid = strandArray[prevStrandCnt].domainid;
68443
+ if(strandArray[prevStrandCnt]) {
68444
+ currRefnum = strandArray[prevStrandCnt].endRefnum + loopCnt;
68445
+ refnumLabelNoPostfix = strandArray[prevStrandCnt].strand + currRefnum;
68446
+ refnumLabel = refnumLabelNoPostfix + strandArray[prevStrandCnt].strandPostfix;
68447
+ domainid = strandArray[prevStrandCnt].domainid;
68448
+ }
68436
68449
  }
68437
68450
  else {
68438
68451
  currRefnum = strandArray[strandCnt].startRefnum - len + loopCnt - 1;
package/package.json CHANGED
@@ -1,6 +1,6 @@
1
1
  {
2
2
  "name": "icn3d",
3
- "version": "3.30.4",
3
+ "version": "3.30.6",
4
4
  "main": "./icn3d.js",
5
5
  "exports": {
6
6
  ".": {