Tags: tool:polymod

All Categories (1-20 of 33)

  1. Building polymer around an molecule

    Closed | Responses: 1

    Just have a quick question, is there any possibility to build a polymer around an molecule such as a graphene flake?

    Many thanks,



  2. Total energy in Dreiding

    Closed | Responses: 1

    I have tested a simple example using Polymer Modeler.

    I found that in the lammps input generated by this module, the minimization parts are divided into 3 steps.

    The epsilon...


  3. Differentiating multiple chains

    Closed | Responses: 1

    Does the final LAMMPS output file fundamentally differentiate atoms of the same chain vs. the atoms in a different chain. i.e. say if I am making a polyethylene, will the carbon-hydrogen...


  4. Pair style selection

    Closed | Responses: 1

    I tried to model polyethylene and obtained a lammps data file for it. It has the pair coefficents. However, it does not have a pair style in the lammps data file. I selected dreiding potential...


  5. How do I add two different monomers to the tool and specify each on its own?

    Closed | Responses: 3


  6. PEEK, PGMA modeling

    Closed | Responses: 1

    Is it possible to create PEEK and Poly(glycidyl methacrylate) molecular structure in this tool?

    Can that structure be output to run MD?


  7. Is it possible to create polymers which contains Silicon?

    Closed | Responses: 1

    I'm trying to model PDMS, which contains Silicon atoms. The result of the simulation is an error: "Unknown element Si". Any suggestion?


  8. Stress Strain Curve Question

    Closed | Responses: 2


    Great tool! I have a few technical questions.

    1. What are the units of the output Pressures? (Press, Pxx. Pyy, ...., Pyz)

    2. I would like to establish a...


  9. How to obtain stress-strain curve

    Closed | Responses: 1


    Is it possible to obtain a stress-strain curve for a polymer with your tool? I would like to measure Young's Modulus of your polymers.




  10. Use the generated initial configuration in a larger simulation box

    Closed | Responses: 0

    Dear all,

    I have generated successfully an initial configuration of PE in a 50x50x50 A^3 box.

    However, once in LAMMPS, I am interested in studying the interaction of...


  11. How to change density of polymer to more than 1.0 g/cm3

    Closed | Responses: 0

    Hi , i am using LAMMPS to find out friction of between PMMA and some metal substrates . But i need PMMA which is higher than density of 1.0g/cm.

    I thought ,...


  12. Local version?

    Closed | Responses: 0

    Is it possible to use Polymer Modeler locally on my computer?




  13. What are the Dreiding paramters for graphene ?

    Closed | Responses: 1


    I am using lammps to simulate PMMA-graphene composite system. I used polymer modeller to create the PMMA chains. I want to add the graphene sheet but I am not sure what...


  14. when I runn with my own exe.lammps 3 minimize has done but at fix 1 all nvt temp 300.0 300.0 100.0 this error apear: ERROR: All pair coeffs are not set (../pair.cpp:175) I will be very thankfull.

    Closed | Responses: 1


  15. how to get a final pdb structure

    Closed | Responses: 1


  16. Why does my simulation end with an error?

    Closed | Responses: 1


    I'm interested in building long polymer chains and was eager to try out this tool. However, it appears that I get an error when I begin a simulation of a polymer built from...


  17. Polymer modeler and Mavericks

    Closed | Responses: 2

    Dear Sir, I'm trying to launch polymer modeler tool in a Mavericks MacOs machine and the site seems to be loading but nothing happens. My java version is updated (version 7 update 60). Can...


  18. Is there a way to specify an orthogonal but non-cubic simulation box or is a cubic box the only option?

    Closed | Responses: 1


  19. I can’t get LAMMPS output files

    Closed | Responses: 1

    I’m trying to run a simulation of Nylon (PA6) using z-matrix. So it works when I try to get structure output only, but in case of LAMMPS output files it makes an error like that: problem...


  20. Builder error

    Closed | Responses: 2


    When I try to construct a single polymer chain either with the available monomers or with my own z-matrix, i get the following output in the log:

    ERROR: builder failed:...