Examples with SimulationInfo org.vcell.sbmlsim.api.common.SimulationInfo used on opensource projects

Example 6 with SimulationInfo

use of org.vcell.sbmlsim.api.common.SimulationInfo in project vcell by virtualcell.

the class VCellSbmlSimCLI method process_simdata.

private void process_simdata() throws Exception {
    Gson gson = new Gson();
    SimulationInfo simInfo = null;
    if (simhandle != null) {
        simInfo = new SimulationInfo(simhandle);
    } else {
        throw new CliException("simhandle (simulation handle) not specified");
    }
    VariableInfo varInfo = null;
    if (varinfoJSON != null) {
        try {
            varInfo = gson.fromJson(varinfoJSON, VariableInfo.class);
        } catch (Exception e) {
            throw new CliException("failed to parse JSON text for varInfo: " + e.getMessage(), e);
        }
    } else {
        throw new CliException("varinfo (variableInfo) not specified");
    }
    if (timepointIndex == null) {
        throw new CliException("timepoint index not specified");
    }
    if (outputfile == null) {
        throw new CliException("outputfile not specified");
    }
    SimData simdata = simService.getData(simInfo, varInfo, timepointIndex);
    String simdataJSON = gson.toJson(simdata);
    FileUtils.write(outputfile, simdataJSON);
}