private IFileLocation GetRuntimeExecutable()
{
#if DotNetCore
return(new FileLocation(_executableProcessor.GetEnvironmentExecutablePath("dotnet")));
#else
return(new FileLocation(_executableProcessor.GetMonoPath()));
#endif
}
private IFileLocation GetRuntimeExecutable()
{
#if DotNetCore
return(new FileLocation(_executableProcessor.GetEnvironmentExecutablePath("dotnet")));
#else
var mono = CrossPlatform.IsThisLinux() ? _executableProcessor.GetMonoPath() : null;
return(new FileLocation(mono));
#endif
}
public int Launch()
{
CommonOptions commonOptions = _modeRunner.CommonOptions;
IDirectoryLocation outFolder = commonOptions.OutputDirectory;
var log = outFolder.GetFileLocation("CanvasLog.txt");
var error = outFolder.GetFileLocation("CanvasError.txt");
IsasConfiguration config = IsasConfiguration.GetConfiguration();
IDirectoryLocation genomeRoot = commonOptions.WholeGenomeFasta?.Parent?.Parent?.Parent?.Parent?.Parent;
int returnValue = 0;
IsasFrameworkFactory.RunWithIsasFramework(outFolder, log, error, commonOptions.StartCheckpoint, commonOptions.StopCheckpoint, 0,
config.MaximumMemoryGB, config.MaximumHoursPerProcess, false, genomeRoot,
frameworkServices =>
{
var logger = frameworkServices.Logger;
try
{
var executableProcessor = new ExecutableProcessor(new NullSampleSettings(), logger);
#if DotNetCore
var runtimeExecutable = new FileLocation(executableProcessor.GetEnvironmentExecutablePath("dotnet"));
#else
var runtimeExecutable = CrossPlatform.IsThisLinux() ? new FileLocation(executableProcessor.GetMonoPath()) : null;
#endif
frameworkServices.Logger.Info($"Running Canvas {_mode} {_version}");
logger.Info($"Command-line arguments: {string.Join(" ", _args)}");
_modeRunner.Run(logger, frameworkServices.Checkpointer, frameworkServices.WorkManager, runtimeExecutable);
returnValue = 0;
}
catch (Exception e)
{
logger.Error($"Canvas workflow error: {e}");
returnValue = -1;
}
});
return(returnValue);
}
