offset+0.5*amplitude*(1+tanh(cyclePeriod*((t+phase)/cyclePeriod-floor((t+phase)/cyclePeriod))/rampDuration))-0.5*amplitude*(1+tanh((cyclePeriod*((t+phase)/cyclePeriod-floor((t+phase)/cyclePeriod))-pulseDuration)/rampDuration))+0.5*amplitude*(1+tanh((cyclePeriod*((t+phase)/cyclePeriod-floor((t+phase)/cyclePeriod))-cyclePeriod)/rampDuration))
(q1*light*cP+1)/(1+(r1*cP9)^2+(r2*cP7)^2+(r3*cP5n)^2+(r4*cTn)^2)/(1+(r11*(cL+f5*cC))^2)*gml-m1*cL_m
(light+m4*(1-light))*cL_m/gml-m3*cL
(q1*light*cP+1)/(1+(r1*cP9)^2+(r2*cP7)^2+(r3*cP5n)^2+(r4*cTn)^2)*gmc-m1*cC_m
(light+m4*(1-light))*cC_m/gmc-m3*cC
p7*(1-light)*(1-cP)-m11*cP*light
gm9*(q3*cP*light+(1+a3*r33*cR)/((1+r33*cR)*(1+(r5*(cL+f5*cC))^2)*(1+(r6*(cLUX+f6*cNOX)*(cE34+f1*cE3)/(1+f3*(cLUX+f2*cNOX)+f4*(cE34+f1*cE3)))^2)*(1+(r7*cTn)^2)*(1+(r40*cP5n)^2)))-m12*cP9_m
cP9_m/gm9-m13*cP9
1/((1+(r8*(cL+f5*cC))^2)*(1+(r9*(cLUX+f6*cNOX)*(cE34+f1*cE3)/(1+f3*(cLUX+f2*cNOX)+f4*(cE34+f1*cE3)))^2)*(1+(r10*cTn)^2)*(1+(r41*cP5n)^2))*gm7-m14*cP7_m
cP7_m/gm7-(m15+m23*(1-light))*cP7
(1+a4*r34*cR)/((1+r34*cR)*(1+(r12*(cL+f5*cC))^2)*(1+(r13*(cLUX+f6*cNOX)*(cE34+f1*cE3)/(1+f3*(cLUX+f2*cNOX)+f4*(cE34+f1*cE3)))^2)*(1+(r14*cTn)^2))*gm5-m16*cP5_m
cP5_m/gm5-(m17+m24*cZTL)*cP5c-t5*cP5c+t6*cP5n
t5*cP5c-t6*cP5n-m42*cP5n
gmt*(1+a5*r35*cR)/((1+r35*cR)*(1+(r15*(cL+f5*cC))^2)*(1+(r16*(cLUX+f6*cNOX)*(cE34+f1*cE3)/(1+f3*(cLUX+f2*cNOX)+f4*(cE34+f1*cE3)))^2)*(1+(r17*cTn)^2))-m5*cT_m
t7*cTc-t8/(1+m37*cP5n)*cTn-m43/(1+m38*cP5n)*cTn
cT_m/gmt-(m8+m6*cZTL)*cTc-t7*cTc+t8/(1+m37*cP5n)*cTn
gm4*(1+a6*r36*cR)/((1+r36*cR)*(1+(r18*(cLUX+f6*cNOX)*(cE34+f1*cE3)/(1+f3*(cLUX+f2*cNOX)+f4*(cE34+f1*cE3)))^2)*(1+(r19*(cL+f5*cC))^2)*(1+(r20*cTn)^2))-m7*cE4_m
p23*cE4_m/gm4-m35*cE4-cE4^2
cE4^2-m36*cE4d-p25*cE3*cE4d
gm3*1/(1+(r21*(cL+f5*cC))^2)-m26*cE3_m
p16*cE3_m/gm3-p25*cE3*cE4d-(m30*cCOP1d+m29*cCOP1n+m9+m10*cGn)*cE3
p25*cE3*cE4d-m22*cE34*(m30*cCOP1d+m29*cCOP1n+m9+m10*cGn)
gmlux*(1+a7*r37*cR)/((1+r37*cR)*(1+(r22*(cLUX+f6*cNOX)*(cE34+f1*cE3)/(1+f3*(cLUX+f2*cNOX)+f4*(cE34+f1*cE3)))^2)*(1+(r23*(cL+f5*cC))^2)*(1+(r24*cTn)^2))-m34*cLUX_m
cLUX_m/gmlux-m39*cLUX
n5-p6*cCOP1c-m27*cCOP1c*(1+p15*light)
p6*cCOP1c-(n14+n6*light*cP)*cCOP1n-m27*cCOP1n*(1+p15*light)
(n14+n6*light*cP)*cCOP1n-m31*cCOP1d*(1+m33*(1-light))
p14-(p12*cZTL*cGc-(p13*(1-light)+p10*light)*cZG)-m20*cZTL
p12*cZTL*cGc-(p13*(1-light)+p10*light)*cZG-m21*cZG
gmg*(1+a8*r38*cR)/((1+r38*cR)*(1+(r25*(cLUX+f6*cNOX)*(cE34+f1*cE3)/(1+f3*(cLUX+f2*cNOX)+f4*(cE34+f1*cE3)))^2)*(1+(r26*(cL+f5*cC))^2)*(1+(r27*cTn)^2))-m18*cG_m
p11*cG_m/gmg-(p12*cZTL*cGc-(p13*(1-light)+p10*light)*cZG)-p28*cGc+p29/(1+t9*(cE3+cE34))*cGn-m19*cGc
p28*cGc-p29/(1+t9*(cE3+cE34))*cGn-m19*cGn-m25*(cE3+cE34)*(1+m28*cCOP1d+m32*cCOP1n)*cGn
gmn*1/((1+(r28*(cL+f5*cC))^2)*(1+(r29*cP7)^2))-m44*cNOX_m
cNOX_m/gmn-m45*cNOX
gmr*1/(1+(r30*cP9)^2+(r31*cP7)^2+(r32*cP5n)^2)-m46*cR_m
cR_m/gmr-m47*cR
2019-12-20T10:31:32Z
F2014 model (Fogelmark et al. 2014) with one parameter set moved into SBML by Uriel Urquiza, 2016. Converted to SBML L2V4 in Copasi v4.8, then step function added in SBSI by Andrew Millar, 2019.
<CN=Root,Model=F2014_1,Vector=Values[Lum],Reference=Value>
"tanh() step function"(<CN=Root,Model=F2014_1,Reference=Time>,<CN=Root,Model=F2014_1,Vector=Values[offsetStep1],Reference=Value>,<CN=Root,Model=F2014_1,Vector=Values[amplitudeStep1],Reference=Value>,<CN=Root,Model=F2014_1,Vector=Values[phaseStep1],Reference=Value>,<CN=Root,Model=F2014_1,Vector=Values[pulseDurationStep1],Reference=Value>,<CN=Root,Model=F2014_1,Vector=Values[cyclePeriodStep1],Reference=Value>,<CN=Root,Model=F2014_1,Vector=Values[rampDurationStep1],Reference=Value>)
<CN=Root,Model=F2014_1,Reference=Time> gt 314
0
1
1
0 549990355732000.6 294329816557185.4 229638559903079.3 135231544371874.7 585761171409497 39367936077454.16 36187472105072.45 48784102662575.37 176023982631633.2 60920565709919.73 33374256898466.46 122076719640266.9 42304381000925.94 39081266834201.11 302598446829745.3 1377140797089.775 2392868964264.221 54980497963.49957 295387933377229.5 184752579480110.3 325862915898821.7 3357205936134372 290965136256837.1 541798832493340.5 197857024800656.8 547696166620053.5 12985781468569.94 104666459487421.1 94517355449979.03 5133674465204.507 43050900179445.27 5879009073200.901 12206180410510.38 98220707553466.36 245863099897282.4 0.5 0.5 0.260699797415876 5.67291083453615 1.39497995329712 8.55625596394726 3.42242583680467 1.941452610395 0.289928352467984 1 0.612650329520401 0.432194850011746 0.61543456657566 1 0.3 0.761085531559676 1 0.465925995574278 5.31371653082642 0.714605100726697 0.153239236039233 25.7681076777026 0.0897675003506835 0.0602117136256986 0.265355391954576 0.0273222116521986 0.268689679632278 12.2739275242191 1.42241629577561 2.56978737810592 0.665415750957885 1.75344049952814 30.7479753430994 9.981320097469689 1.85567940367853 1 0.5015190715080981 0.179127247661857 0.08543757750382081 7.17453563276147 2.87421706102115 4.98652122440301 44.9947965311863 3.903593827843 1 0.538278988654036 0.0749878303966143 1.49960715467808 0.251804190599699 0.112023116724327 0.922898727023884 1 1.96044321224873 0.0604073691564024 5.34430215169706 9.73959271208715 2.24996410364331 1.86940687320084 3.77219172287477 28.338827152664 0.0100133663757846 1.1393392436218 1.77361051404299 0.100012606673053 0.450957180928901 1 8.87405817488054 0.0892296010608275 41.9448781897633 15.93382067872 0.108992306306517 1.27667083703535 1.01126826330164 0.941309354930052 0.506021278205633 1.00309780235536 1 3.3364815097166 1.03188278912802 0.12111668004209 4.94871914638597 0.0100141173930701 0.18857427478948 0.0100092544923402 0.300685161459758 1 1.52780752250254 9.958497863185009 56.5033450670316 3.27999348831396 4.31459879799176 0.156094511339341 0.200127841326187 0.23 0.6 0.1 3 0.1 20 0.3 13 0.3 8 0.7 0.2 1.8 0.1 1 3.01350976521618 3.8868593793845 41.1910867700399 4.773874619925 1.33950294437781 4.50489088024139 1.911694263131 1.06136552917862 10.1808194308934 2.5426930907629 0.2 0.652607422942003 0.0382048354886287 9.997807121957051 1 5.90974158397438 0.274456022629256 0.67687663284158 0.803858860044364 1 1.41115789177253 0.0397530026396528 6.96740721371259 5.27294688402198 0.246637071596616 0.384902320703916 92.00309361765351 0.266936324375642 0.913280316058451 0.488746075434377 0.3813237348287 0.224557224136489 0.972679142796299 0.06537198466968371 0.0600907008950921 0.0810078944729984 0.292294649926589 0.101160962053535 0.0554192479391397 0.202713127483946 0.0702480653497299 0.0648959592733221 0.502476456685596 0.0022867957034432 0.00397345171818716 9.12972491859903e-005 0.490503119451177 0.306788823516077 0.541108009844487 5.57477066001525 0.483158893302705 0.899677974027477 0.32854926320268 0.909470726062153 0.0215633937582362 0.173802715275193 0.156949734406667 0.00852466554960425 0.071487689398036 0.00976232257261565 0.0202688359659336 0.163099294202215 0.408265212728049 0 1 0 12 24 0.05 1
Automatically generated report.
Automatically generated report.
Automatically generated report.
Automatically generated report.
Automatically generated report.
Automatically generated report.
Automatically generated report.
Automatically generated report.