Workflow Online Calculation
Matgen also provides a module to run and analyze Density Functional Theory (DFT) calculations. It relies on Tianhe-2 computing cluster to run simulation jobs, so users need to log in with their starlight account, associate system account and make sure they have bought computing resources on Tianhe-2c WORK cluster before running DFT calculations through Matgen. Currently, Matgen only supports DFT calculations which run with Vienna Ab initio Simulation Package (VASP), so to use this module, users must have a valid VASP license.
This module mainly supports workflow design, workflow submission and workflow status monitoring, analyzed data visualization and workflow cancellation.
Choose System for DFT calculation
To run DFT simulation for a particular system, users can enter this module through the“Inorganic Crystal Materials” module on the main page, and then users can search and choose the material for DFT calculation.
Pic 1 Enter “Inorganic Crystal Materials” module
Pic 2 Search the target material and enter material detail page
Pic 3 Enter DFT calculation page: click “RERUN
Workflow Design
Matgen provides a whole workflow which includes Magnetic Testing, Geometry Optimization, Static Calculation, Band Structure Calculation, Density of States Calculation, and Magnetic Calculation. Users can choose any calculation to run and modify Input Files for each calculation.
Calculation Process Design
Though Matgen provides five calculations in the workflow, it is not necessary to run all in reality and users can choose parts of properties for simulation. In this case, users can click the calculation name and delete it.
Pic 4 Delete “Magnetic Testing”: click “Magnetic Testing”; click “delete”
Input Parameter Setting
VASP has four input files, INCAR, KPOINTS, POSCAR and POTCAR. For INCAR, KPOINTS, and POSCAR, Matgen provides a default content so that the VASP calculation result can be more physically meaningful. Users can adjust file content directly through choosing calculation, click the file name users want to edit and modifying content on the right side. For POTCAR, as the POTCAR file can be generated by combining the POTCAR files of each element in the system together, users choose pseudopotential of each element instead of editing the whole POTCAR file.
Pic 5 Edit “Geometry Optimization” input files: click “Geometry Optimization”; click “Settings”; click the file to modify; modify directly
Calculation Configuration Setting
For high-throughput jobs, users need to set calculation configurations to better run VASP. The main configuration is node number. In Matgen, users can choose node numbers less than 4 for each calculation except Band Structure Calculation.
Pic 6 Set node number for each calculation: click “submit” button after editing input files; click “submit”; choose node number for each calculation; click submit to submit workflow
Workflow Status Monitoring
After workflow submission, users will enter the job list page, and can check workflow status and status of each step in the workflow.
Pic 7 Get status of each calculation in a workflow: click “refresh” button; click “W” button; click “check” button
Pic 8 Status of each calculation in a workflow
Data Visualization
Once each calculation in a workflow is finished and there is no error in calculation, users can see results that have been processed after calculation.
Pic 9 Get data after workflow calculation: click “view” button in job lists
Workflow Cancellation
To cancel a running workflow, users can select this workflow from job list, and then cancel it.
Pic 10 Cancel workflow: select from job list; click “X” button
