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15 | |
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16 | |
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18 | :class "struct-model" |
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19 | :super-classes ("module") |
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20 | :documentation "superclass that must be used as a marker for all structural network modules opened in the visual editor") |
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28 | :value "no")) |
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58 | :system-theoretic "integer-parameter" |
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104 | |
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105 | (define-terminal |
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107 | :super-classes ("term-struct")) |
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108 | |
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109 | |
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110 | (define-terminal |
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113 | :properties |
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116 | :icon "icons/struct/term-output") |
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117 | |
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118 | |
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119 | (define-terminal |
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122 | :properties |
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124 | :value "no")) |
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125 | :icon "icons/struct/term-input") |
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126 | |
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127 | |
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128 | (define-module |
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142 | :geometry-side "bottom" |
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143 | :geometry-position "0.5"))) |
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144 | |
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145 | |
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146 | (define-module |
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149 | :properties |
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151 | :value "no")) |
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152 | :icon "icons/struct/reservoir") |
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153 | |
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154 | |
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155 | (define-module |
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156 | :class "gate" |
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157 | :super-classes ("struct-library") |
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158 | :variables |
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160 | :documentation "confidence level of this element: 1-most established (values between 0 and 1)" |
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161 | :system-theoretic "real-parameter" |
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162 | :value "1") |
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163 | ("defval" |
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164 | :documentation "Default value of the logical state of the reaction. empty = undefined" |
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165 | :system-theoretic "integer-parameter") |
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166 | ("ignore_in_export" |
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167 | :documentation "parameter determining whether the gate is exported to the |
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168 | CellNetAnalyzer. Allowed Values 0 (exported) or 1 (ignored in export), default |
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169 | 0." |
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170 | :system-theoretic "integer-parameter" |
---|
171 | :value "0") |
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172 | ("logexcl" |
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173 | :documentation "parameter defining the gate to be excluded from logical |
---|
174 | analysis. Allowed Values 0 (included) or 1 (excluded), default 0." |
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175 | :system-theoretic "integer-parameter" |
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176 | :value "0") |
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177 | ("map_number" |
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178 | :documentation "parameter determining the map in CellNetAnalyzer. Should be a positive int, default is 1." |
---|
179 | :system-theoretic "integer-parameter" |
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180 | :value "1") |
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182 | :documentation "parameter defining the gate to be monotone. Allowed Values 0 (non monotone) or >0 (monotone), default 0.01d0=monotone." |
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183 | :system-theoretic "real-parameter" |
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184 | :value "0.01d0") |
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187 | :system-theoretic "integer-parameter" |
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188 | :value "1") |
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191 | :system-theoretic "real-parameter" |
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192 | :value "1"))) |
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200 | |
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1053 | ("activ2.ignore_in_export" |
---|
1054 | :value "parent.ignore_in_export") |
---|
1055 | ("struct_adapter.ignore_in_export" |
---|
1056 | :value "parent.ignore_in_export")) |
---|
1057 | :terminals |
---|
1058 | (("input1" |
---|
1059 | :is-eq-to "activ.input1") |
---|
1060 | ("input2" |
---|
1061 | :is-eq-to "activ2.input1") |
---|
1062 | ("input3" |
---|
1063 | :is-eq-to "activ0.input1") |
---|
1064 | ("input4" |
---|
1065 | :is-eq-to "activ1.input1") |
---|
1066 | ("output" |
---|
1067 | :is-eq-to "struct_adapter.output")) |
---|
1068 | :modules |
---|
1069 | (("activ" |
---|
1070 | :is-a "activ" |
---|
1071 | :geometry-x "55" |
---|
1072 | :geometry-y "129") |
---|
1073 | ("activ0" |
---|
1074 | :is-a "activ" |
---|
1075 | :geometry-x "250" |
---|
1076 | :geometry-y "77") |
---|
1077 | ("activ1" |
---|
1078 | :is-a "activ" |
---|
1079 | :geometry-x "330" |
---|
1080 | :geometry-y "127") |
---|
1081 | ("activ2" |
---|
1082 | :is-a "activ" |
---|
1083 | :geometry-x "122" |
---|
1084 | :geometry-y "76") |
---|
1085 | ("struct_adapter" |
---|
1086 | :is-a "struct-adapter-gate" |
---|
1087 | :geometry-x "172" |
---|
1088 | :geometry-y "176")) |
---|
1089 | :links |
---|
1090 | (("struct_adapterinput_activ2output" |
---|
1091 | :terminals ("struct_adapter.input" "activ2.output" "activ.output" |
---|
1092 | "activ0.output" "activ1.output") |
---|
1093 | :nodes (("174" "104")) |
---|
1094 | :edges (("0" "-1" nil) ("1" "-1" nil) ("2" "-1" nil) ("3" "-1" nil) |
---|
1095 | ("4" "-1" nil))))) |
---|
1096 | |
---|
1097 | |
---|
1098 | (define-module |
---|
1099 | :class "or-5" |
---|
1100 | :super-classes ("or" "gate-5") |
---|
1101 | :properties |
---|
1102 | (("abstract" |
---|
1103 | :value "no")) |
---|
1104 | :geometry-width "407" |
---|
1105 | :geometry-height "300" |
---|
1106 | :parameters |
---|
1107 | (("activ.ignore_in_export" |
---|
1108 | :value "parent.ignore_in_export") |
---|
1109 | ("activ0.ignore_in_export" |
---|
1110 | :value "parent.ignore_in_export") |
---|
1111 | ("activ1.ignore_in_export" |
---|
1112 | :value "parent.ignore_in_export") |
---|
1113 | ("activ2.ignore_in_export" |
---|
1114 | :value "parent.ignore_in_export") |
---|
1115 | ("activ3.ignore_in_export" |
---|
1116 | :value "parent.ignore_in_export") |
---|
1117 | ("struct_adapter.ignore_in_export" |
---|
1118 | :value "parent.ignore_in_export")) |
---|
1119 | :terminals |
---|
1120 | (("input1" |
---|
1121 | :is-eq-to "activ.input1") |
---|
1122 | ("input2" |
---|
1123 | :is-eq-to "activ2.input1") |
---|
1124 | ("input3" |
---|
1125 | :is-eq-to "activ0.input1") |
---|
1126 | ("input4" |
---|
1127 | :is-eq-to "activ1.input1") |
---|
1128 | ("input5" |
---|
1129 | :is-eq-to "activ3.input1") |
---|
1130 | ("output" |
---|
1131 | :is-eq-to "struct_adapter.output")) |
---|
1132 | :modules |
---|
1133 | (("activ" |
---|
1134 | :is-a "activ" |
---|
1135 | :geometry-x "55" |
---|
1136 | :geometry-y "129") |
---|
1137 | ("activ0" |
---|
1138 | :is-a "activ" |
---|
1139 | :geometry-x "250" |
---|
1140 | :geometry-y "77") |
---|
1141 | ("activ1" |
---|
1142 | :is-a "activ" |
---|
1143 | :geometry-x "330" |
---|
1144 | :geometry-y "127") |
---|
1145 | ("activ2" |
---|
1146 | :is-a "activ" |
---|
1147 | :geometry-x "122" |
---|
1148 | :geometry-y "76") |
---|
1149 | ("activ3" |
---|
1150 | :is-a "activ" |
---|
1151 | :geometry-x "165" |
---|
1152 | :geometry-y "62") |
---|
1153 | ("struct_adapter" |
---|
1154 | :is-a "struct-adapter-gate" |
---|
1155 | :geometry-x "172" |
---|
1156 | :geometry-y "176")) |
---|
1157 | :links |
---|
1158 | (("struct_adapterinput_activ2output" |
---|
1159 | :terminals ("struct_adapter.input" "activ2.output" "activ.output" |
---|
1160 | "activ0.output" "activ1.output" "activ3.output") |
---|
1161 | :nodes (("174" "104")) |
---|
1162 | :edges (("0" "-1" nil) ("1" "-1" nil) ("2" "-1" nil) ("3" "-1" nil) |
---|
1163 | ("4" "-1" nil) ("5" "-1" nil))))) |
---|
1164 | |
---|
1165 | |
---|
1166 | (define-module |
---|
1167 | :class "somehow-3" |
---|
1168 | :super-classes ("gate-3" "somehow") |
---|
1169 | :properties |
---|
1170 | (("abstract" |
---|
1171 | :value "no")) |
---|
1172 | :icon "icons/struct/somehow") |
---|
1173 | |
---|
1174 | |
---|
1175 | (define-module |
---|
1176 | :class "somehow-4" |
---|
1177 | :super-classes ("gate-4" "somehow") |
---|
1178 | :properties |
---|
1179 | (("abstract" |
---|
1180 | :value "no")) |
---|
1181 | :icon "icons/struct/somehow") |
---|
1182 | |
---|
1183 | |
---|
1184 | (define-module |
---|
1185 | :class "somehow-5" |
---|
1186 | :super-classes ("gate-5" "somehow") |
---|
1187 | :properties |
---|
1188 | (("abstract" |
---|
1189 | :value "no")) |
---|
1190 | :icon "icons/struct/somehow") |
---|
1191 | |
---|
1192 | |
---|