Project ID: plumID:19.013
Source: apply_corrections/plumed.dat
Originally used with PLUMED version: 2.4
Stable: zipped raw stdout - zipped raw stderr - stderr
Master: zipped raw stdout - zipped raw stderr - stderr
# vim: ft=plumedEnables syntax highlighting for PLUMED files in vim. See here for more details.INCLUDEIncludes an external input file, similar to #include in C preprocessor. More details. Show included fileFILE=cv.dat # The command: # INCLUDE FILE=cv.dat # ensures PLUMED loads the contents of the file called cv.dat # The contents of this file are shown below (click the red comment to hide them). The INCLUDE action with label cv.dat calculates somethingfile to be includedMOLINFOThis command is used to provide information on the molecules that are present in your system. More detailsSTRUCTURE=AAAA.pdba file in pdb format containing a reference structureMOLTYPE=rna #Number of total residues: 4 #Number of biased residues: 4 ########################### #### Torsions ########################### #### alpha The MOLINFO action with label calculates somethinga2:what kind of molecule is contained in the pdb file - usually not needed since protein/RNA/DNA are compatibleTORSIONCalculate a torsional angle. More detailsATOMS=the four atoms involved in the torsional angle@alpha-2#biased The TORSION action with label a2 calculates the following quantities:the four atoms that are required to calculate the alpha backbone dihedral for residue 2. Click here for more information.a3:
Quantity Description a2.value the TORSION involving these atoms TORSIONCalculate a torsional angle. More detailsATOMS=the four atoms involved in the torsional angle@alpha-3#biased The TORSION action with label a3 calculates the following quantities:the four atoms that are required to calculate the alpha backbone dihedral for residue 3. Click here for more information.a4:
Quantity Description a3.value the TORSION involving these atoms TORSIONCalculate a torsional angle. More detailsATOMS=the four atoms involved in the torsional angle@alpha-4#biased #### beta The TORSION action with label a4 calculates the following quantities:the four atoms that are required to calculate the alpha backbone dihedral for residue 4. Click here for more information.b2:
Quantity Description a4.value the TORSION involving these atoms TORSIONCalculate a torsional angle. More detailsATOMS=the four atoms involved in the torsional angle@beta-2#biased The TORSION action with label b2 calculates the following quantities:the four atoms that are required to calculate the beta backbone dihedral for residue 2. Click here for more information.b3:
Quantity Description b2.value the TORSION involving these atoms TORSIONCalculate a torsional angle. More detailsATOMS=the four atoms involved in the torsional angle@beta-3#biased The TORSION action with label b3 calculates the following quantities:the four atoms that are required to calculate the beta backbone dihedral for residue 3. Click here for more information.b4:
Quantity Description b3.value the TORSION involving these atoms TORSIONCalculate a torsional angle. More detailsATOMS=the four atoms involved in the torsional angle@beta-4#biased #### gamma The TORSION action with label b4 calculates the following quantities:the four atoms that are required to calculate the beta backbone dihedral for residue 4. Click here for more information.g1:
Quantity Description b4.value the TORSION involving these atoms TORSIONCalculate a torsional angle. More detailsATOMS=the four atoms involved in the torsional angle@gamma-1#biased The TORSION action with label g1 calculates the following quantities:the four atoms that are required to calculate the gamma backbone dihedral for residue 1. Click here for more information.g2:
Quantity Description g1.value the TORSION involving these atoms TORSIONCalculate a torsional angle. More detailsATOMS=the four atoms involved in the torsional angle@gamma-2#biased The TORSION action with label g2 calculates the following quantities:the four atoms that are required to calculate the gamma backbone dihedral for residue 2. Click here for more information.g3:
Quantity Description g2.value the TORSION involving these atoms TORSIONCalculate a torsional angle. More detailsATOMS=the four atoms involved in the torsional angle@gamma-3#biased The TORSION action with label g3 calculates the following quantities:the four atoms that are required to calculate the gamma backbone dihedral for residue 3. Click here for more information.g4:
Quantity Description g3.value the TORSION involving these atoms TORSIONCalculate a torsional angle. More detailsATOMS=the four atoms involved in the torsional angle@gamma-4#biased #### epsilon The TORSION action with label g4 calculates the following quantities:the four atoms that are required to calculate the gamma backbone dihedral for residue 4. Click here for more information.e1:
Quantity Description g4.value the TORSION involving these atoms TORSIONCalculate a torsional angle. More detailsATOMS=the four atoms involved in the torsional angle@epsilon-1#biased The TORSION action with label e1 calculates the following quantities:the four atoms that are required to calculate the backbone epsilon dihedral for residue 1. Click here for more information.e2:
Quantity Description e1.value the TORSION involving these atoms TORSIONCalculate a torsional angle. More detailsATOMS=the four atoms involved in the torsional angle@epsilon-2#biased The TORSION action with label e2 calculates the following quantities:the four atoms that are required to calculate the backbone epsilon dihedral for residue 2. Click here for more information.e3:
Quantity Description e2.value the TORSION involving these atoms TORSIONCalculate a torsional angle. More detailsATOMS=the four atoms involved in the torsional angle@epsilon-3#biased #### zeta The TORSION action with label e3 calculates the following quantities:the four atoms that are required to calculate the backbone epsilon dihedral for residue 3. Click here for more information.z1:
Quantity Description e3.value the TORSION involving these atoms TORSIONCalculate a torsional angle. More detailsATOMS=the four atoms involved in the torsional angle@zeta-1#biased The TORSION action with label z1 calculates the following quantities:the four atoms that are required to calculate the zeta backbone dihedral for residue 1. Click here for more information.z2:
Quantity Description z1.value the TORSION involving these atoms TORSIONCalculate a torsional angle. More detailsATOMS=the four atoms involved in the torsional angle@zeta-2#biased The TORSION action with label z2 calculates the following quantities:the four atoms that are required to calculate the zeta backbone dihedral for residue 2. Click here for more information.z3:
Quantity Description z2.value the TORSION involving these atoms TORSIONCalculate a torsional angle. More detailsATOMS=the four atoms involved in the torsional angle@zeta-3#biased #### chi The TORSION action with label z3 calculates the following quantities:the four atoms that are required to calculate the zeta backbone dihedral for residue 3. Click here for more information.c1:
Quantity Description z3.value the TORSION involving these atoms TORSIONCalculate a torsional angle. More detailsATOMS=the four atoms involved in the torsional angle@chi-1#biased The TORSION action with label c1 calculates the following quantities:the four atoms that are required to alcullate the chi dihedral for residue 1. Click here for more information.c2:
Quantity Description c1.value the TORSION involving these atoms TORSIONCalculate a torsional angle. More detailsATOMS=the four atoms involved in the torsional angle@chi-2#biased The TORSION action with label c2 calculates the following quantities:the four atoms that are required to alcullate the chi dihedral for residue 2. Click here for more information.c3:
Quantity Description c2.value the TORSION involving these atoms TORSIONCalculate a torsional angle. More detailsATOMS=the four atoms involved in the torsional angle@chi-3#biased The TORSION action with label c3 calculates the following quantities:the four atoms that are required to alcullate the chi dihedral for residue 3. Click here for more information.c4:
Quantity Description c3.value the TORSION involving these atoms TORSIONCalculate a torsional angle. More detailsATOMS=the four atoms involved in the torsional angle@chi-4#biased ########################### #### Puckering ###########################the four atoms that are required to alcullate the chi dihedral for residue 4. Click here for more information.
The TORSION action with label c4 calculates the following quantities:puck1:
Quantity Description c4.value the TORSION involving these atoms PUCKERINGCalculate sugar pseudorotation coordinates. More detailsATOMS=the five or six atoms of the sugar ring in the proper order@sugar-1#biased The PUCKERING action with label puck1 calculates the following quantities:the heavy atoms of the sugar in residue 1. Click here for more information.puck2:
Quantity Description puck1.phs Pseudorotation phase (5 membered rings) puck1.amp Pseudorotation amplitude (5 membered rings) puck1.Zx Pseudorotation x Cartesian component (5 membered rings) puck1.Zy Pseudorotation y Cartesian component (5 membered rings) puck1.phi Pseudorotation phase (6 membered rings) puck1.theta Theta angle (6 membered rings) puck1.amplitude Pseudorotation amplitude (6 membered rings) puck1.qx Cartesian component x (6 membered rings) puck1.qy Cartesian component y (6 membered rings) puck1.qz Cartesian component z (6 membered rings) PUCKERINGCalculate sugar pseudorotation coordinates. More detailsATOMS=the five or six atoms of the sugar ring in the proper order@sugar-2#biased The PUCKERING action with label puck2 calculates the following quantities:the heavy atoms of the sugar in residue 2. Click here for more information.puck3:
Quantity Description puck2.phs Pseudorotation phase (5 membered rings) puck2.amp Pseudorotation amplitude (5 membered rings) puck2.Zx Pseudorotation x Cartesian component (5 membered rings) puck2.Zy Pseudorotation y Cartesian component (5 membered rings) puck2.phi Pseudorotation phase (6 membered rings) puck2.theta Theta angle (6 membered rings) puck2.amplitude Pseudorotation amplitude (6 membered rings) puck2.qx Cartesian component x (6 membered rings) puck2.qy Cartesian component y (6 membered rings) puck2.qz Cartesian component z (6 membered rings) PUCKERINGCalculate sugar pseudorotation coordinates. More detailsATOMS=the five or six atoms of the sugar ring in the proper order@sugar-3#biased The PUCKERING action with label puck3 calculates the following quantities:the heavy atoms of the sugar in residue 3. Click here for more information.puck4:
Quantity Description puck3.phs Pseudorotation phase (5 membered rings) puck3.amp Pseudorotation amplitude (5 membered rings) puck3.Zx Pseudorotation x Cartesian component (5 membered rings) puck3.Zy Pseudorotation y Cartesian component (5 membered rings) puck3.phi Pseudorotation phase (6 membered rings) puck3.theta Theta angle (6 membered rings) puck3.amplitude Pseudorotation amplitude (6 membered rings) puck3.qx Cartesian component x (6 membered rings) puck3.qy Cartesian component y (6 membered rings) puck3.qz Cartesian component z (6 membered rings) PUCKERINGCalculate sugar pseudorotation coordinates. More detailsATOMS=the five or six atoms of the sugar ring in the proper order@sugar-4#biased # --- End of included input --- The PUCKERING action with label puck4 calculates the following quantities:the heavy atoms of the sugar in residue 4. Click here for more information.
Quantity Description puck4.phs Pseudorotation phase (5 membered rings) puck4.amp Pseudorotation amplitude (5 membered rings) puck4.Zx Pseudorotation x Cartesian component (5 membered rings) puck4.Zy Pseudorotation y Cartesian component (5 membered rings) puck4.phi Pseudorotation phase (6 membered rings) puck4.theta Theta angle (6 membered rings) puck4.amplitude Pseudorotation amplitude (6 membered rings) puck4.qx Cartesian component x (6 membered rings) puck4.qy Cartesian component y (6 membered rings) puck4.qz Cartesian component z (6 membered rings) INCLUDEIncludes an external input file, similar to #include in C preprocessor. More details. Show included fileFILE=bias # The command: # INCLUDE FILE=bias # ensures PLUMED loads the contents of the file called bias # The contents of this file are shown below (click the red comment to hide them).file to be included# vim: ft=plumedThe INCLUDE action with label bias calculates somethingalpha2:Enables syntax highlighting for PLUMED files in vim. See here for more details.TORSIONCalculate a torsional angle. More detailsATOMS=the four atoms involved in the torsional angle@alpha-2The TORSION action with label alpha2 calculates the following quantities:the four atoms that are required to calculate the alpha backbone dihedral for residue 2. Click here for more information.beta2:
Quantity Description alpha2.value the TORSION involving these atoms TORSIONCalculate a torsional angle. More detailsATOMS=the four atoms involved in the torsional angle@beta-2The TORSION action with label beta2 calculates the following quantities:the four atoms that are required to calculate the beta backbone dihedral for residue 2. Click here for more information.alpha3:
Quantity Description beta2.value the TORSION involving these atoms TORSIONCalculate a torsional angle. More detailsATOMS=the four atoms involved in the torsional angle@alpha-3The TORSION action with label alpha3 calculates the following quantities:the four atoms that are required to calculate the alpha backbone dihedral for residue 3. Click here for more information.beta3:
Quantity Description alpha3.value the TORSION involving these atoms TORSIONCalculate a torsional angle. More detailsATOMS=the four atoms involved in the torsional angle@beta-3The TORSION action with label beta3 calculates the following quantities:the four atoms that are required to calculate the beta backbone dihedral for residue 3. Click here for more information.alpha4:
Quantity Description beta3.value the TORSION involving these atoms TORSIONCalculate a torsional angle. More detailsATOMS=the four atoms involved in the torsional angle@alpha-4The TORSION action with label alpha4 calculates the following quantities:the four atoms that are required to calculate the alpha backbone dihedral for residue 4. Click here for more information.beta4:
Quantity Description alpha4.value the TORSION involving these atoms TORSIONCalculate a torsional angle. More detailsATOMS=the four atoms involved in the torsional angle@beta-4The TORSION action with label beta4 calculates the following quantities:the four atoms that are required to calculate the beta backbone dihedral for residue 4. Click here for more information.chi1:
Quantity Description beta4.value the TORSION involving these atoms TORSIONCalculate a torsional angle. More detailsATOMS=the four atoms involved in the torsional angle@chi-1The TORSION action with label chi1 calculates the following quantities:the four atoms that are required to alcullate the chi dihedral for residue 1. Click here for more information.chi2:
Quantity Description chi1.value the TORSION involving these atoms TORSIONCalculate a torsional angle. More detailsATOMS=the four atoms involved in the torsional angle@chi-2The TORSION action with label chi2 calculates the following quantities:the four atoms that are required to alcullate the chi dihedral for residue 2. Click here for more information.chi3:
Quantity Description chi2.value the TORSION involving these atoms TORSIONCalculate a torsional angle. More detailsATOMS=the four atoms involved in the torsional angle@chi-3The TORSION action with label chi3 calculates the following quantities:the four atoms that are required to alcullate the chi dihedral for residue 3. Click here for more information.chi4:
Quantity Description chi3.value the TORSION involving these atoms TORSIONCalculate a torsional angle. More detailsATOMS=the four atoms involved in the torsional angle@chi-4The TORSION action with label chi4 calculates the following quantities:the four atoms that are required to alcullate the chi dihedral for residue 4. Click here for more information.zeta1:
Quantity Description chi4.value the TORSION involving these atoms TORSIONCalculate a torsional angle. More detailsATOMS=the four atoms involved in the torsional angle@zeta-1The TORSION action with label zeta1 calculates the following quantities:the four atoms that are required to calculate the zeta backbone dihedral for residue 1. Click here for more information.epsilon1:
Quantity Description zeta1.value the TORSION involving these atoms TORSIONCalculate a torsional angle. More detailsATOMS=the four atoms involved in the torsional angle@epsilon-1The TORSION action with label epsilon1 calculates the following quantities:the four atoms that are required to calculate the backbone epsilon dihedral for residue 1. Click here for more information.zeta2:
Quantity Description epsilon1.value the TORSION involving these atoms TORSIONCalculate a torsional angle. More detailsATOMS=the four atoms involved in the torsional angle@zeta-2The TORSION action with label zeta2 calculates the following quantities:the four atoms that are required to calculate the zeta backbone dihedral for residue 2. Click here for more information.epsilon2:
Quantity Description zeta2.value the TORSION involving these atoms TORSIONCalculate a torsional angle. More detailsATOMS=the four atoms involved in the torsional angle@epsilon-2The TORSION action with label epsilon2 calculates the following quantities:the four atoms that are required to calculate the backbone epsilon dihedral for residue 2. Click here for more information.zeta3:
Quantity Description epsilon2.value the TORSION involving these atoms TORSIONCalculate a torsional angle. More detailsATOMS=the four atoms involved in the torsional angle@zeta-3The TORSION action with label zeta3 calculates the following quantities:the four atoms that are required to calculate the zeta backbone dihedral for residue 3. Click here for more information.epsilon3:
Quantity Description zeta3.value the TORSION involving these atoms TORSIONCalculate a torsional angle. More detailsATOMS=the four atoms involved in the torsional angle@epsilon-3The TORSION action with label epsilon3 calculates the following quantities:the four atoms that are required to calculate the backbone epsilon dihedral for residue 3. Click here for more information.gamma1:
Quantity Description epsilon3.value the TORSION involving these atoms TORSIONCalculate a torsional angle. More detailsATOMS=the four atoms involved in the torsional angle@gamma-1The TORSION action with label gamma1 calculates the following quantities:the four atoms that are required to calculate the gamma backbone dihedral for residue 1. Click here for more information.delta1:
Quantity Description gamma1.value the TORSION involving these atoms TORSIONCalculate a torsional angle. More detailsATOMS=the four atoms involved in the torsional angle@delta-1The TORSION action with label delta1 calculates the following quantities:the four atoms that are required to calculate the delta backbone dihedral for residue 1. Click here for more information.gamma2:
Quantity Description delta1.value the TORSION involving these atoms TORSIONCalculate a torsional angle. More detailsATOMS=the four atoms involved in the torsional angle@gamma-2The TORSION action with label gamma2 calculates the following quantities:the four atoms that are required to calculate the gamma backbone dihedral for residue 2. Click here for more information.delta2:
Quantity Description gamma2.value the TORSION involving these atoms TORSIONCalculate a torsional angle. More detailsATOMS=the four atoms involved in the torsional angle@delta-2The TORSION action with label delta2 calculates the following quantities:the four atoms that are required to calculate the delta backbone dihedral for residue 2. Click here for more information.gamma3:
Quantity Description delta2.value the TORSION involving these atoms TORSIONCalculate a torsional angle. More detailsATOMS=the four atoms involved in the torsional angle@gamma-3The TORSION action with label gamma3 calculates the following quantities:the four atoms that are required to calculate the gamma backbone dihedral for residue 3. Click here for more information.delta3:
Quantity Description gamma3.value the TORSION involving these atoms TORSIONCalculate a torsional angle. More detailsATOMS=the four atoms involved in the torsional angle@delta-3The TORSION action with label delta3 calculates the following quantities:the four atoms that are required to calculate the delta backbone dihedral for residue 3. Click here for more information.gamma4:
Quantity Description delta3.value the TORSION involving these atoms TORSIONCalculate a torsional angle. More detailsATOMS=the four atoms involved in the torsional angle@gamma-4The TORSION action with label gamma4 calculates the following quantities:the four atoms that are required to calculate the gamma backbone dihedral for residue 4. Click here for more information.delta4:
Quantity Description gamma4.value the TORSION involving these atoms TORSIONCalculate a torsional angle. More detailsATOMS=the four atoms involved in the torsional angle@delta-4The TORSION action with label delta4 calculates the following quantities:the four atoms that are required to calculate the delta backbone dihedral for residue 4. Click here for more information.sumcosalpha:
Quantity Description delta4.value the TORSION involving these atoms MATHEVALAn alias to the CUSTOM function that can also be used to calaculate combinations of variables using a custom expression. More detailsARG=alpha2,alpha3,alpha4the input to this functionVAR=v2,v3,v4the names to give each of the arguments in the functionFUNC=cos(1*v2)+cos(1*v3)+cos(1*v4the function you wish to evaluatePERIODIC=NO The MATHEVAL action with label sumcosalpha calculates the following quantities:if the output of your function is periodic then you should specify the periodicity of the functionsumsinalpha:
Quantity Description sumcosalpha.value an arbitrary function MATHEVALAn alias to the CUSTOM function that can also be used to calaculate combinations of variables using a custom expression. More detailsARG=alpha2,alpha3,alpha4the input to this functionVAR=v2,v3,v4the names to give each of the arguments in the functionFUNC=sin(1*v2)+sin(1*v3)+sin(1*v4the function you wish to evaluatePERIODIC=NO The MATHEVAL action with label sumsinalpha calculates the following quantities:if the output of your function is periodic then you should specify the periodicity of the function2sumcosalpha:
Quantity Description sumsinalpha.value an arbitrary function MATHEVALAn alias to the CUSTOM function that can also be used to calaculate combinations of variables using a custom expression. More detailsARG=alpha2,alpha3,alpha4the input to this functionVAR=v2,v3,v4the names to give each of the arguments in the functionFUNC=cos(2*v2)+cos(2*v3)+cos(2*v4the function you wish to evaluatePERIODIC=NO The MATHEVAL action with label 2sumcosalpha calculates the following quantities:if the output of your function is periodic then you should specify the periodicity of the function2sumsinalpha:
Quantity Description 2sumcosalpha.value an arbitrary function MATHEVALAn alias to the CUSTOM function that can also be used to calaculate combinations of variables using a custom expression. More detailsARG=alpha2,alpha3,alpha4the input to this functionVAR=v2,v3,v4the names to give each of the arguments in the functionFUNC=sin(2*v2)+sin(2*v3)+sin(2*v4the function you wish to evaluatePERIODIC=NO The MATHEVAL action with label 2sumsinalpha calculates the following quantities:if the output of your function is periodic then you should specify the periodicity of the function3sumcosalpha:
Quantity Description 2sumsinalpha.value an arbitrary function MATHEVALAn alias to the CUSTOM function that can also be used to calaculate combinations of variables using a custom expression. More detailsARG=alpha2,alpha3,alpha4the input to this functionVAR=v2,v3,v4the names to give each of the arguments in the functionFUNC=cos(3*v2)+cos(3*v3)+cos(3*v4the function you wish to evaluatePERIODIC=NO The MATHEVAL action with label 3sumcosalpha calculates the following quantities:if the output of your function is periodic then you should specify the periodicity of the function3sumsinalpha:
Quantity Description 3sumcosalpha.value an arbitrary function MATHEVALAn alias to the CUSTOM function that can also be used to calaculate combinations of variables using a custom expression. More detailsARG=alpha2,alpha3,alpha4the input to this functionVAR=v2,v3,v4the names to give each of the arguments in the functionFUNC=sin(3*v2)+sin(3*v3)+sin(3*v4the function you wish to evaluatePERIODIC=NO The MATHEVAL action with label 3sumsinalpha calculates the following quantities:if the output of your function is periodic then you should specify the periodicity of the functionsumcosbeta:
Quantity Description 3sumsinalpha.value an arbitrary function MATHEVALAn alias to the CUSTOM function that can also be used to calaculate combinations of variables using a custom expression. More detailsARG=beta2,beta3,beta4the input to this functionVAR=v2,v3,v4the names to give each of the arguments in the functionFUNC=cos(1*v2)+cos(1*v3)+cos(1*v4the function you wish to evaluatePERIODIC=NO The MATHEVAL action with label sumcosbeta calculates the following quantities:if the output of your function is periodic then you should specify the periodicity of the functionsumsinbeta:
Quantity Description sumcosbeta.value an arbitrary function MATHEVALAn alias to the CUSTOM function that can also be used to calaculate combinations of variables using a custom expression. More detailsARG=beta2,beta3,beta4the input to this functionVAR=v2,v3,v4the names to give each of the arguments in the functionFUNC=sin(1*v2)+sin(1*v3)+sin(1*v4the function you wish to evaluatePERIODIC=NO The MATHEVAL action with label sumsinbeta calculates the following quantities:if the output of your function is periodic then you should specify the periodicity of the function2sumcosbeta:
Quantity Description sumsinbeta.value an arbitrary function MATHEVALAn alias to the CUSTOM function that can also be used to calaculate combinations of variables using a custom expression. More detailsARG=beta2,beta3,beta4the input to this functionVAR=v2,v3,v4the names to give each of the arguments in the functionFUNC=cos(2*v2)+cos(2*v3)+cos(2*v4the function you wish to evaluatePERIODIC=NO The MATHEVAL action with label 2sumcosbeta calculates the following quantities:if the output of your function is periodic then you should specify the periodicity of the function2sumsinbeta:
Quantity Description 2sumcosbeta.value an arbitrary function MATHEVALAn alias to the CUSTOM function that can also be used to calaculate combinations of variables using a custom expression. More detailsARG=beta2,beta3,beta4the input to this functionVAR=v2,v3,v4the names to give each of the arguments in the functionFUNC=sin(2*v2)+sin(2*v3)+sin(2*v4the function you wish to evaluatePERIODIC=NO The MATHEVAL action with label 2sumsinbeta calculates the following quantities:if the output of your function is periodic then you should specify the periodicity of the function3sumcosbeta:
Quantity Description 2sumsinbeta.value an arbitrary function MATHEVALAn alias to the CUSTOM function that can also be used to calaculate combinations of variables using a custom expression. More detailsARG=beta2,beta3,beta4the input to this functionVAR=v2,v3,v4the names to give each of the arguments in the functionFUNC=cos(3*v2)+cos(3*v3)+cos(3*v4the function you wish to evaluatePERIODIC=NO The MATHEVAL action with label 3sumcosbeta calculates the following quantities:if the output of your function is periodic then you should specify the periodicity of the function3sumsinbeta:
Quantity Description 3sumcosbeta.value an arbitrary function MATHEVALAn alias to the CUSTOM function that can also be used to calaculate combinations of variables using a custom expression. More detailsARG=beta2,beta3,beta4the input to this functionVAR=v2,v3,v4the names to give each of the arguments in the functionFUNC=sin(3*v2)+sin(3*v3)+sin(3*v4the function you wish to evaluatePERIODIC=NO The MATHEVAL action with label 3sumsinbeta calculates the following quantities:if the output of your function is periodic then you should specify the periodicity of the functionsumcosgamma:
Quantity Description 3sumsinbeta.value an arbitrary function MATHEVALAn alias to the CUSTOM function that can also be used to calaculate combinations of variables using a custom expression. More detailsARG=gamma1,gamma2,gamma3,gamma4the input to this functionVAR=v1,v2,v3,v4the names to give each of the arguments in the functionFUNC=cos(1*v1)+cos(1*v2)+cos(1*v3)+cos(1*v4the function you wish to evaluatePERIODIC=NO The MATHEVAL action with label sumcosgamma calculates the following quantities:if the output of your function is periodic then you should specify the periodicity of the functionsumsingamma:
Quantity Description sumcosgamma.value an arbitrary function MATHEVALAn alias to the CUSTOM function that can also be used to calaculate combinations of variables using a custom expression. More detailsARG=gamma1,gamma2,gamma3,gamma4the input to this functionVAR=v1,v2,v3,v4the names to give each of the arguments in the functionFUNC=sin(1*v1)+sin(1*v2)+sin(1*v3)+sin(1*v4the function you wish to evaluatePERIODIC=NO The MATHEVAL action with label sumsingamma calculates the following quantities:if the output of your function is periodic then you should specify the periodicity of the function2sumcosgamma:
Quantity Description sumsingamma.value an arbitrary function MATHEVALAn alias to the CUSTOM function that can also be used to calaculate combinations of variables using a custom expression. More detailsARG=gamma1,gamma2,gamma3,gamma4the input to this functionVAR=v1,v2,v3,v4the names to give each of the arguments in the functionFUNC=cos(2*v1)+cos(2*v2)+cos(2*v3)+cos(2*v4the function you wish to evaluatePERIODIC=NO The MATHEVAL action with label 2sumcosgamma calculates the following quantities:if the output of your function is periodic then you should specify the periodicity of the function2sumsingamma:
Quantity Description 2sumcosgamma.value an arbitrary function MATHEVALAn alias to the CUSTOM function that can also be used to calaculate combinations of variables using a custom expression. More detailsARG=gamma1,gamma2,gamma3,gamma4the input to this functionVAR=v1,v2,v3,v4the names to give each of the arguments in the functionFUNC=sin(2*v1)+sin(2*v2)+sin(2*v3)+sin(2*v4the function you wish to evaluatePERIODIC=NO The MATHEVAL action with label 2sumsingamma calculates the following quantities:if the output of your function is periodic then you should specify the periodicity of the function3sumcosgamma:
Quantity Description 2sumsingamma.value an arbitrary function MATHEVALAn alias to the CUSTOM function that can also be used to calaculate combinations of variables using a custom expression. More detailsARG=gamma1,gamma2,gamma3,gamma4the input to this functionVAR=v1,v2,v3,v4the names to give each of the arguments in the functionFUNC=cos(3*v1)+cos(3*v2)+cos(3*v3)+cos(3*v4the function you wish to evaluatePERIODIC=NO The MATHEVAL action with label 3sumcosgamma calculates the following quantities:if the output of your function is periodic then you should specify the periodicity of the function3sumsingamma:
Quantity Description 3sumcosgamma.value an arbitrary function MATHEVALAn alias to the CUSTOM function that can also be used to calaculate combinations of variables using a custom expression. More detailsARG=gamma1,gamma2,gamma3,gamma4the input to this functionVAR=v1,v2,v3,v4the names to give each of the arguments in the functionFUNC=sin(3*v1)+sin(3*v2)+sin(3*v3)+sin(3*v4the function you wish to evaluatePERIODIC=NO The MATHEVAL action with label 3sumsingamma calculates the following quantities:if the output of your function is periodic then you should specify the periodicity of the functionsumcosdelta:
Quantity Description 3sumsingamma.value an arbitrary function MATHEVALAn alias to the CUSTOM function that can also be used to calaculate combinations of variables using a custom expression. More detailsARG=delta1,delta2,delta3,delta4the input to this functionVAR=v1,v2,v3,v4the names to give each of the arguments in the functionFUNC=cos(1*v1)+cos(1*v2)+cos(1*v3)+cos(1*v4the function you wish to evaluatePERIODIC=NO The MATHEVAL action with label sumcosdelta calculates the following quantities:if the output of your function is periodic then you should specify the periodicity of the functionsumsindelta:
Quantity Description sumcosdelta.value an arbitrary function MATHEVALAn alias to the CUSTOM function that can also be used to calaculate combinations of variables using a custom expression. More detailsARG=delta1,delta2,delta3,delta4the input to this functionVAR=v1,v2,v3,v4the names to give each of the arguments in the functionFUNC=sin(1*v1)+sin(1*v2)+sin(1*v3)+sin(1*v4the function you wish to evaluatePERIODIC=NO The MATHEVAL action with label sumsindelta calculates the following quantities:if the output of your function is periodic then you should specify the periodicity of the function2sumcosdelta:
Quantity Description sumsindelta.value an arbitrary function MATHEVALAn alias to the CUSTOM function that can also be used to calaculate combinations of variables using a custom expression. More detailsARG=delta1,delta2,delta3,delta4the input to this functionVAR=v1,v2,v3,v4the names to give each of the arguments in the functionFUNC=cos(2*v1)+cos(2*v2)+cos(2*v3)+cos(2*v4the function you wish to evaluatePERIODIC=NO The MATHEVAL action with label 2sumcosdelta calculates the following quantities:if the output of your function is periodic then you should specify the periodicity of the function2sumsindelta:
Quantity Description 2sumcosdelta.value an arbitrary function MATHEVALAn alias to the CUSTOM function that can also be used to calaculate combinations of variables using a custom expression. More detailsARG=delta1,delta2,delta3,delta4the input to this functionVAR=v1,v2,v3,v4the names to give each of the arguments in the functionFUNC=sin(2*v1)+sin(2*v2)+sin(2*v3)+sin(2*v4the function you wish to evaluatePERIODIC=NO The MATHEVAL action with label 2sumsindelta calculates the following quantities:if the output of your function is periodic then you should specify the periodicity of the function3sumcosdelta:
Quantity Description 2sumsindelta.value an arbitrary function MATHEVALAn alias to the CUSTOM function that can also be used to calaculate combinations of variables using a custom expression. More detailsARG=delta1,delta2,delta3,delta4the input to this functionVAR=v1,v2,v3,v4the names to give each of the arguments in the functionFUNC=cos(3*v1)+cos(3*v2)+cos(3*v3)+cos(3*v4the function you wish to evaluatePERIODIC=NO The MATHEVAL action with label 3sumcosdelta calculates the following quantities:if the output of your function is periodic then you should specify the periodicity of the function3sumsindelta:
Quantity Description 3sumcosdelta.value an arbitrary function MATHEVALAn alias to the CUSTOM function that can also be used to calaculate combinations of variables using a custom expression. More detailsARG=delta1,delta2,delta3,delta4the input to this functionVAR=v1,v2,v3,v4the names to give each of the arguments in the functionFUNC=sin(3*v1)+sin(3*v2)+sin(3*v3)+sin(3*v4the function you wish to evaluatePERIODIC=NO The MATHEVAL action with label 3sumsindelta calculates the following quantities:if the output of your function is periodic then you should specify the periodicity of the functionsumcosepsilon:
Quantity Description 3sumsindelta.value an arbitrary function MATHEVALAn alias to the CUSTOM function that can also be used to calaculate combinations of variables using a custom expression. More detailsARG=epsilon1,epsilon2,epsilon3the input to this functionVAR=v1,v2,v3the names to give each of the arguments in the functionFUNC=cos(1*v1)+cos(1*v2)+cos(1*v3the function you wish to evaluatePERIODIC=NO The MATHEVAL action with label sumcosepsilon calculates the following quantities:if the output of your function is periodic then you should specify the periodicity of the functionsumsinepsilon:
Quantity Description sumcosepsilon.value an arbitrary function MATHEVALAn alias to the CUSTOM function that can also be used to calaculate combinations of variables using a custom expression. More detailsARG=epsilon1,epsilon2,epsilon3the input to this functionVAR=v1,v2,v3the names to give each of the arguments in the functionFUNC=sin(1*v1)+sin(1*v2)+sin(1*v3the function you wish to evaluatePERIODIC=NO The MATHEVAL action with label sumsinepsilon calculates the following quantities:if the output of your function is periodic then you should specify the periodicity of the function2sumcosepsilon:
Quantity Description sumsinepsilon.value an arbitrary function MATHEVALAn alias to the CUSTOM function that can also be used to calaculate combinations of variables using a custom expression. More detailsARG=epsilon1,epsilon2,epsilon3the input to this functionVAR=v1,v2,v3the names to give each of the arguments in the functionFUNC=cos(2*v1)+cos(2*v2)+cos(2*v3the function you wish to evaluatePERIODIC=NO The MATHEVAL action with label 2sumcosepsilon calculates the following quantities:if the output of your function is periodic then you should specify the periodicity of the function2sumsinepsilon:
Quantity Description 2sumcosepsilon.value an arbitrary function MATHEVALAn alias to the CUSTOM function that can also be used to calaculate combinations of variables using a custom expression. More detailsARG=epsilon1,epsilon2,epsilon3the input to this functionVAR=v1,v2,v3the names to give each of the arguments in the functionFUNC=sin(2*v1)+sin(2*v2)+sin(2*v3the function you wish to evaluatePERIODIC=NO The MATHEVAL action with label 2sumsinepsilon calculates the following quantities:if the output of your function is periodic then you should specify the periodicity of the function3sumcosepsilon:
Quantity Description 2sumsinepsilon.value an arbitrary function MATHEVALAn alias to the CUSTOM function that can also be used to calaculate combinations of variables using a custom expression. More detailsARG=epsilon1,epsilon2,epsilon3the input to this functionVAR=v1,v2,v3the names to give each of the arguments in the functionFUNC=cos(3*v1)+cos(3*v2)+cos(3*v3the function you wish to evaluatePERIODIC=NO The MATHEVAL action with label 3sumcosepsilon calculates the following quantities:if the output of your function is periodic then you should specify the periodicity of the function3sumsinepsilon:
Quantity Description 3sumcosepsilon.value an arbitrary function MATHEVALAn alias to the CUSTOM function that can also be used to calaculate combinations of variables using a custom expression. More detailsARG=epsilon1,epsilon2,epsilon3the input to this functionVAR=v1,v2,v3the names to give each of the arguments in the functionFUNC=sin(3*v1)+sin(3*v2)+sin(3*v3the function you wish to evaluatePERIODIC=NO The MATHEVAL action with label 3sumsinepsilon calculates the following quantities:if the output of your function is periodic then you should specify the periodicity of the functionsumcoszeta:
Quantity Description 3sumsinepsilon.value an arbitrary function MATHEVALAn alias to the CUSTOM function that can also be used to calaculate combinations of variables using a custom expression. More detailsARG=zeta1,zeta2,zeta3the input to this functionVAR=v1,v2,v3the names to give each of the arguments in the functionFUNC=cos(1*v1)+cos(1*v2)+cos(1*v3the function you wish to evaluatePERIODIC=NO The MATHEVAL action with label sumcoszeta calculates the following quantities:if the output of your function is periodic then you should specify the periodicity of the functionsumsinzeta:
Quantity Description sumcoszeta.value an arbitrary function MATHEVALAn alias to the CUSTOM function that can also be used to calaculate combinations of variables using a custom expression. More detailsARG=zeta1,zeta2,zeta3the input to this functionVAR=v1,v2,v3the names to give each of the arguments in the functionFUNC=sin(1*v1)+sin(1*v2)+sin(1*v3the function you wish to evaluatePERIODIC=NO The MATHEVAL action with label sumsinzeta calculates the following quantities:if the output of your function is periodic then you should specify the periodicity of the function2sumcoszeta:
Quantity Description sumsinzeta.value an arbitrary function MATHEVALAn alias to the CUSTOM function that can also be used to calaculate combinations of variables using a custom expression. More detailsARG=zeta1,zeta2,zeta3the input to this functionVAR=v1,v2,v3the names to give each of the arguments in the functionFUNC=cos(2*v1)+cos(2*v2)+cos(2*v3the function you wish to evaluatePERIODIC=NO The MATHEVAL action with label 2sumcoszeta calculates the following quantities:if the output of your function is periodic then you should specify the periodicity of the function2sumsinzeta:
Quantity Description 2sumcoszeta.value an arbitrary function MATHEVALAn alias to the CUSTOM function that can also be used to calaculate combinations of variables using a custom expression. More detailsARG=zeta1,zeta2,zeta3the input to this functionVAR=v1,v2,v3the names to give each of the arguments in the functionFUNC=sin(2*v1)+sin(2*v2)+sin(2*v3the function you wish to evaluatePERIODIC=NO The MATHEVAL action with label 2sumsinzeta calculates the following quantities:if the output of your function is periodic then you should specify the periodicity of the function3sumcoszeta:
Quantity Description 2sumsinzeta.value an arbitrary function MATHEVALAn alias to the CUSTOM function that can also be used to calaculate combinations of variables using a custom expression. More detailsARG=zeta1,zeta2,zeta3the input to this functionVAR=v1,v2,v3the names to give each of the arguments in the functionFUNC=cos(3*v1)+cos(3*v2)+cos(3*v3the function you wish to evaluatePERIODIC=NO The MATHEVAL action with label 3sumcoszeta calculates the following quantities:if the output of your function is periodic then you should specify the periodicity of the function3sumsinzeta:
Quantity Description 3sumcoszeta.value an arbitrary function MATHEVALAn alias to the CUSTOM function that can also be used to calaculate combinations of variables using a custom expression. More detailsARG=zeta1,zeta2,zeta3the input to this functionVAR=v1,v2,v3the names to give each of the arguments in the functionFUNC=sin(3*v1)+sin(3*v2)+sin(3*v3the function you wish to evaluatePERIODIC=NO The MATHEVAL action with label 3sumsinzeta calculates the following quantities:if the output of your function is periodic then you should specify the periodicity of the functionpursumcoschi:
Quantity Description 3sumsinzeta.value an arbitrary function MATHEVALAn alias to the CUSTOM function that can also be used to calaculate combinations of variables using a custom expression. More detailsARG=chi1,chi2,chi3,chi4the input to this functionVAR=v1,v2,v3,v4the names to give each of the arguments in the functionFUNC=cos(1*v1)+cos(1*v2)+cos(1*v3)+cos(1*v4the function you wish to evaluatePERIODIC=NO The MATHEVAL action with label pursumcoschi calculates the following quantities:if the output of your function is periodic then you should specify the periodicity of the function2pursumcoschi:
Quantity Description pursumcoschi.value an arbitrary function MATHEVALAn alias to the CUSTOM function that can also be used to calaculate combinations of variables using a custom expression. More detailsARG=chi1,chi2,chi3,chi4the input to this functionVAR=v1,v2,v3,v4the names to give each of the arguments in the functionFUNC=cos(2*v1)+cos(2*v2)+cos(2*v3)+cos(2*v4the function you wish to evaluatePERIODIC=NO The MATHEVAL action with label 2pursumcoschi calculates the following quantities:if the output of your function is periodic then you should specify the periodicity of the function3pursumcoschi:
Quantity Description 2pursumcoschi.value an arbitrary function MATHEVALAn alias to the CUSTOM function that can also be used to calaculate combinations of variables using a custom expression. More detailsARG=chi1,chi2,chi3,chi4the input to this functionVAR=v1,v2,v3,v4the names to give each of the arguments in the functionFUNC=cos(3*v1)+cos(3*v2)+cos(3*v3)+cos(3*v4the function you wish to evaluatePERIODIC=NO The MATHEVAL action with label 3pursumcoschi calculates the following quantities:if the output of your function is periodic then you should specify the periodicity of the functionpursumsinchi:
Quantity Description 3pursumcoschi.value an arbitrary function MATHEVALAn alias to the CUSTOM function that can also be used to calaculate combinations of variables using a custom expression. More detailsARG=chi1,chi2,chi3,chi4the input to this functionVAR=v1,v2,v3,v4the names to give each of the arguments in the functionFUNC=sin(1*v1)+sin(1*v2)+sin(1*v3)+sin(1*v4the function you wish to evaluatePERIODIC=NO The MATHEVAL action with label pursumsinchi calculates the following quantities:if the output of your function is periodic then you should specify the periodicity of the function2pursumsinchi:
Quantity Description pursumsinchi.value an arbitrary function MATHEVALAn alias to the CUSTOM function that can also be used to calaculate combinations of variables using a custom expression. More detailsARG=chi1,chi2,chi3,chi4the input to this functionVAR=v1,v2,v3,v4the names to give each of the arguments in the functionFUNC=sin(2*v1)+sin(2*v2)+sin(2*v3)+sin(2*v4the function you wish to evaluatePERIODIC=NO The MATHEVAL action with label 2pursumsinchi calculates the following quantities:if the output of your function is periodic then you should specify the periodicity of the function3pursumsinchi:
Quantity Description 2pursumsinchi.value an arbitrary function MATHEVALAn alias to the CUSTOM function that can also be used to calaculate combinations of variables using a custom expression. More detailsARG=chi1,chi2,chi3,chi4the input to this functionVAR=v1,v2,v3,v4the names to give each of the arguments in the functionFUNC=sin(3*v1)+sin(3*v2)+sin(3*v3)+sin(3*v4the function you wish to evaluatePERIODIC=NO The MATHEVAL action with label 3pursumsinchi calculates the following quantities:if the output of your function is periodic then you should specify the periodicity of the functionpyrsumcoschi:
Quantity Description 3pursumsinchi.value an arbitrary function MATHEVALAn alias to the CUSTOM function that can also be used to calaculate combinations of variables using a custom expression. More detailsARG=chi1,chi2,chi3,chi4the input to this functionVAR=v1,v2,v3,v4the names to give each of the arguments in the functionFUNC=0*(v1)+0*(v2)+0*(v3)+0*(v4the function you wish to evaluatePERIODIC=NO The MATHEVAL action with label pyrsumcoschi calculates the following quantities:if the output of your function is periodic then you should specify the periodicity of the function2pyrsumcoschi:
Quantity Description pyrsumcoschi.value an arbitrary function MATHEVALAn alias to the CUSTOM function that can also be used to calaculate combinations of variables using a custom expression. More detailsARG=chi1,chi2,chi3,chi4the input to this functionVAR=v1,v2,v3,v4the names to give each of the arguments in the functionFUNC=0*(v1)+0*(v2)+0*(v3)+0*(v4the function you wish to evaluatePERIODIC=NO The MATHEVAL action with label 2pyrsumcoschi calculates the following quantities:if the output of your function is periodic then you should specify the periodicity of the function3pyrsumcoschi:
Quantity Description 2pyrsumcoschi.value an arbitrary function MATHEVALAn alias to the CUSTOM function that can also be used to calaculate combinations of variables using a custom expression. More detailsARG=chi1,chi2,chi3,chi4the input to this functionVAR=v1,v2,v3,v4the names to give each of the arguments in the functionFUNC=0*(v1)+0*(v2)+0*(v3)+0*(v4the function you wish to evaluatePERIODIC=NO The MATHEVAL action with label 3pyrsumcoschi calculates the following quantities:if the output of your function is periodic then you should specify the periodicity of the functionpyrsumsinchi:
Quantity Description 3pyrsumcoschi.value an arbitrary function MATHEVALAn alias to the CUSTOM function that can also be used to calaculate combinations of variables using a custom expression. More detailsARG=chi1,chi2,chi3,chi4the input to this functionVAR=v1,v2,v3,v4the names to give each of the arguments in the functionFUNC=0*(v1)+0*(v2)+0*(v3)+0*(v4the function you wish to evaluatePERIODIC=NO The MATHEVAL action with label pyrsumsinchi calculates the following quantities:if the output of your function is periodic then you should specify the periodicity of the function2pyrsumsinchi:
Quantity Description pyrsumsinchi.value an arbitrary function MATHEVALAn alias to the CUSTOM function that can also be used to calaculate combinations of variables using a custom expression. More detailsARG=chi1,chi2,chi3,chi4the input to this functionVAR=v1,v2,v3,v4the names to give each of the arguments in the functionFUNC=0*(v1)+0*(v2)+0*(v3)+0*(v4the function you wish to evaluatePERIODIC=NO The MATHEVAL action with label 2pyrsumsinchi calculates the following quantities:if the output of your function is periodic then you should specify the periodicity of the function3pyrsumsinchi:
Quantity Description 2pyrsumsinchi.value an arbitrary function MATHEVALAn alias to the CUSTOM function that can also be used to calaculate combinations of variables using a custom expression. More detailsARG=chi1,chi2,chi3,chi4the input to this functionVAR=v1,v2,v3,v4the names to give each of the arguments in the functionFUNC=0*(v1)+0*(v2)+0*(v3)+0*(v4the function you wish to evaluatePERIODIC=NO The MATHEVAL action with label 3pyrsumsinchi calculates the following quantities:if the output of your function is periodic then you should specify the periodicity of the functionkbt:
Quantity Description 3pyrsumsinchi.value an arbitrary function CONSTANTCreate a constant value that can be passed to actions More detailsVALUE=2.5 The CONSTANT action with label kbt calculates the following quantities:the single number that you would like to storemybias:
Quantity Description kbt.value the constant value that was read from the plumed input MATHEVALAn alias to the CUSTOM function that can also be used to calaculate combinations of variables using a custom expression. More detailsARG=kbt,sumcosalpha,sumcosbeta,sumcosgamma,sumcosdelta,sumcosepsilon,sumcoszeta,sumsinalpha,sumsinbeta,sumsingamma,sumsindelta,sumsinepsilon,sumsinzeta,pursumcoschi,pyrsumcoschi,pursumsinchi,pyrsumsinchi,2sumcosalpha,2sumcosbeta,2sumcosgamma,2sumcosdelta,2sumcosepsilon,2sumcoszeta,2sumsinalpha,2sumsinbeta,2sumsingamma,2sumsindelta,2sumsinepsilon,2sumsinzeta,2pursumcoschi,2pyrsumcoschi,2pursumsinchi,2pyrsumsinchi,3sumcosalpha,3sumcosbeta,3sumcosgamma,3sumcosdelta,3sumcosepsilon,3sumcoszeta,3sumsinalpha,3sumsinbeta,3sumsingamma,3sumsindelta,3sumsinepsilon,3sumsinzeta,3pursumcoschi,3pyrsumcoschi,3pursumsinchi,3pyrsumsinchithe input to this functionVAR=kbt,v1,v2,v3,v4,v5,v6,v7,v8,v9,v10,v11,v12,v13,v14,v15,v16,v17,v18,v19,v20,v21,v22,v23,v24,v25,v26,v27,v28,v29,v30,v31,v32,v33,v34,v35,v36,v37,v38,v39,v40,v41,v42,v43,v44,v45,v46,v47,v48the names to give each of the arguments in the functionFUNC=kbt*((0.028743*v1)+(-0.118088*v2)+(0.369240*v3)+(-0.068875*v4)+(-0.061779*v5)+(-0.083563*v6)+(0.045960*v7)+(-0.085707*v8)+(0.080645*v9)+(-0.011406*v10)+(0.038967*v11)+(0.220101*v12)+(-0.007880*v13)+(0.067727*v14)+(-0.086418*v15)+(-0.014430*v16)+(-0.135683*v17)+(0.199287*v18)+(-0.269494*v19)+(0.035808*v20)+(0.086680*v21)+(0.091654*v22)+(0.064641*v23)+(0.008920*v24)+(0.190771*v25)+(-0.109477*v26)+(0.054064*v27)+(0.150732*v28)+(-0.054599*v29)+(-0.116106*v30)+(-0.073151*v31)+(-0.046067*v32)+(0.122662*v33)+(-0.064958*v34)+(-0.001949*v35)+(0.109930*v36)+(0.042434*v37)+(0.061681*v38)+(0.032150*v39)+(0.016087*v40)+(0.020993*v41)+(0.051061*v42)+(-0.077758*v43)+(0.015956*v44)+(0.016977*v45)+(0.037457*v46)+(0.143994*v47)+(0.140334*v48the function you wish to evaluatePERIODIC=NO The MATHEVAL action with label mybias calculates the following quantities:if the output of your function is periodic then you should specify the periodicity of the function
Quantity Description mybias.value an arbitrary function BIASVALUETakes the value of one variable and use it as a bias More detailsARG=mybias # --- End of included input ---the input for this action is the scalar output from one or more other actions