protected void SetUp()
{
base_cycle_metric_header header = new base_cycle_metric_header();
if(metrics.Count == 0)
{
System.Diagnostics.Stopwatch timer = new System.Diagnostics.Stopwatch();
timer.Start();
float[] focus1 = new float[]{2.24664021f, 2.1896739f, 0, 0};
ushort[] p90_1 = new ushort[]{302, 273, 0, 0};
for(uint lane = 1;lane <=8;lane++)
{
for(uint tile = 1;tile <=TileCount;tile++)
{
for(uint cycle = 1;cycle <=318;cycle++)
{
metrics.Add(new extraction_metric(lane, tile, cycle, new csharp_date_time(9859129975844165472ul), (p90_1), (focus1), 4));
}
}
}
extraction_metric_set = new base_extraction_metrics(metrics, Version, header);
timer.Stop();
System.Console.WriteLine("Setup: " + timer.Elapsed.Hours +" : " + timer.Elapsed.Minutes +" : " + timer.Elapsed.Seconds);
System.Console.WriteLine("Size: " + metrics.Count + " - " + extraction_metric_set.size());
}
}
protected void SetUp()
{
base_cycle_metric_header header = new base_cycle_metric_header();
float[] focus1 = new float[]{2.24664021f, 2.1896739f, 0, 0};
ushort[] p90_1 = new ushort[]{302, 273, 0, 0};
expected_metrics.Add(new extraction_metric(7, 1114, 1, new csharp_date_time(9859129975844165472ul), (p90_1), (focus1), 4));
float[] focus2 = new float[]{2.23177338f, 2.20616174f, 0, 0};
ushort[] p90_2 = new ushort[]{312, 273, 0, 0};
expected_metrics.Add(new extraction_metric(7, 1214, 1, new csharp_date_time(9859129975872781680ul), (p90_2), (focus2), 4));
float[] focus3 = new float[]{2.10524225f, 2.14023066f, 0, 0};
ushort[] p90_3 = new ushort[]{349, 302, 0, 0};
expected_metrics.Add(new extraction_metric(7, 2114, 1, new csharp_date_time(9859129975901427921ul), (p90_3), (focus3), 4));
int[] tmp = new int[]{
2,38
,7,0,90,4,1,0,-12,-56,15,64,-98,35,12,64,0,0,0,0,0,0,0,0,46,1,17,1,0,0,0,0,96,-41,-104,36,122,-86,-46,-120
,7,0,-66,4,1,0,96,-43,14,64,-63,49,13,64,0,0,0,0,0,0,0,0,56,1,17,1,0,0,0,0,112,125,77,38,122,-86,-46,-120
,7,0,66,8,1,0,74,-68,6,64,-118,-7,8,64,0,0,0,0,0,0,0,0,93,1,46,1,0,0,0,0,-47,-104,2,40,122,-86,-46,-120
};
expected_binary_data = new byte[tmp.Length];
for(int i=0;i<expected_binary_data.Length;i++) expected_binary_data[i] = (byte)tmp[i];
expected_metric_set = new base_extraction_metrics(expected_metrics, Version, header);
c_csharp_comm.read_interop_from_buffer(expected_binary_data, (uint)expected_binary_data.Length, actual_metric_set);
actual_metrics = actual_metric_set.metrics();
}
protected void SetUp()
{
extraction_metric_header header = new extraction_metric_header(2);
if (metrics.Count == 0)
{
System.Diagnostics.Stopwatch timer = new System.Diagnostics.Stopwatch();
timer.Start();
float[] focus1 = new float[] { 2.24664021f, 2.1896739f, 0, 0 };
ushort[] p90_1 = new ushort[] { 302, 273, 0, 0 };
for (uint lane = 1; lane <= 8; lane++)
{
for (uint tile = 1; tile <= TileCount; tile++)
{
for (uint cycle = 1; cycle <= 318; cycle++)
{
metrics.Add(new extraction_metric(lane, tile, cycle, new csharp_date_time(9859129975844165472ul), (p90_1), (focus1), 4));
}
}
}
extraction_metric_set = new base_extraction_metrics(metrics, Version, header);
timer.Stop();
System.Console.WriteLine("Setup: " + timer.Elapsed.Hours + " : " + timer.Elapsed.Minutes + " : " + timer.Elapsed.Seconds);
System.Console.WriteLine("Size: " + metrics.Count + " - " + extraction_metric_set.size());
}
}
protected void SetUp()
{
extraction_metric_header header = new extraction_metric_header(2);
float[] focus1 = new float[] { 2.24664021f, 2.1896739f, 0, 0 };
ushort[] p90_1 = new ushort[] { 302, 273, 0, 0 };
expected_metrics.Add(new extraction_metric(7, 1114, 1, new csharp_date_time(9859129975844165472ul), (p90_1), (focus1), 4));
float[] focus2 = new float[] { 2.23177338f, 2.20616174f, 0, 0 };
ushort[] p90_2 = new ushort[] { 312, 273, 0, 0 };
expected_metrics.Add(new extraction_metric(7, 1214, 1, new csharp_date_time(9859129975872781680ul), (p90_2), (focus2), 4));
float[] focus3 = new float[] { 2.10524225f, 2.14023066f, 0, 0 };
ushort[] p90_3 = new ushort[] { 349, 302, 0, 0 };
expected_metrics.Add(new extraction_metric(7, 2114, 1, new csharp_date_time(9859129975901427921ul), (p90_3), (focus3), 4));
int[] tmp = new int[] {
2, 38
, 7, 0, 90, 4, 1, 0, -12, -56, 15, 64, -98, 35, 12, 64, 0, 0, 0, 0, 0, 0, 0, 0, 46, 1, 17, 1, 0, 0, 0, 0, 96, -41, -104, 36, 122, -86, -46, -120
, 7, 0, -66, 4, 1, 0, 96, -43, 14, 64, -63, 49, 13, 64, 0, 0, 0, 0, 0, 0, 0, 0, 56, 1, 17, 1, 0, 0, 0, 0, 112, 125, 77, 38, 122, -86, -46, -120
, 7, 0, 66, 8, 1, 0, 74, -68, 6, 64, -118, -7, 8, 64, 0, 0, 0, 0, 0, 0, 0, 0, 93, 1, 46, 1, 0, 0, 0, 0, -47, -104, 2, 40, 122, -86, -46, -120
};
expected_binary_data = new byte[tmp.Length];
for (int i = 0; i < expected_binary_data.Length; i++)
{
expected_binary_data[i] = (byte)tmp[i];
}
expected_metric_set = new base_extraction_metrics(expected_metrics, Version, header);
c_csharp_comm.read_interop_from_buffer(expected_binary_data, (uint)expected_binary_data.Length, actual_metric_set);
}
public void set_extraction_metric_set(base_extraction_metrics metrics)
{
c_csharp_run_metricsPINVOKE.run_metrics_set_extraction_metric_set(swigCPtr, base_extraction_metrics.getCPtr(metrics));
if (c_csharp_run_metricsPINVOKE.SWIGPendingException.Pending)
{
throw c_csharp_run_metricsPINVOKE.SWIGPendingException.Retrieve();
}
}
static int Main(string[] args)
{
int ret;
if((ret = Helper.CheckArguments(args)) != 0) return ret;
base_extraction_metrics extraction_metric_set = new base_extraction_metrics ();
if ((ret = Helper.ReadInterop (args [0], extraction_metric_set)) != 0)
return ret;
Console.WriteLine("Time: {0}", DateTime.FromBinary((Int64)extraction_metric_set.AllMetrics.ToList()[0].date_time_csharp().value));
return 0;
}
public static void copy_focus(base_extraction_metrics metrics, float[] focus_scores, uint channel, uint n)
{
unsafe
{
fixed(float *swig_ptrTo_focus_scores = focus_scores)
{
{
c_csharp_run_metricsPINVOKE.copy_focus(base_extraction_metrics.getCPtr(metrics), (global::System.IntPtr)swig_ptrTo_focus_scores, channel, n);
if (c_csharp_run_metricsPINVOKE.SWIGPendingException.Pending)
{
throw c_csharp_run_metricsPINVOKE.SWIGPendingException.Retrieve();
}
}
}
}
}
static int Main(string[] args)
{
int ret;
if ((ret = Helper.CheckArguments(args)) != 0)
{
return(ret);
}
base_extraction_metrics extraction_metric_set = new base_extraction_metrics();
if ((ret = Helper.ReadInterop(args [0], extraction_metric_set)) != 0)
{
return(ret);
}
Console.WriteLine("Time: {0}", DateTime.FromBinary((Int64)extraction_metric_set.at(0).date_time_csharp().value));
return(0);
}
public void TestDispose()
{
run_metrics tmp = new run_metrics();
using (base_extraction_metrics set = tmp.extraction_metric_set())
{
ushort_vector tmp1 = new ushort_vector();
float_vector tmp2 = new float_vector();
set.insert(new extraction_metric(1, 1, 1, tmp1, tmp2));
}
using (base_extraction_metrics set = tmp.extraction_metric_set())
{
Assert.AreEqual((int)set.size(), 1);
}
using (base_extraction_metrics set = tmp.extraction_metric_set())
{
Assert.AreEqual((int)set.at(0).lane(), 1);
}
}
public static int ReadInterop(string filename, base_extraction_metrics extraction_metric_set)
{
try
{
c_csharp_comm.read_interop(filename, extraction_metric_set);
}
catch (incomplete_file_exception) {}
catch (file_not_found_exception ex)
{
Console.WriteLine("File not found: " + filename);
Console.WriteLine(ex);
return(1);
}
catch (bad_format_exception ex)
{
Console.WriteLine(ex);
return(1);
}
return(0);
}
public void Test_incomplete_file_exception()
{
int[] tmp = new int[] {
3, 38
, 7, 0, 90, 4, 1, 0, -12, -56, 15, 64, -98, 35, 12, 64, 0, 0, 0, 0, 0, 0, 0, 0, 46, 1, 17, 1, 0, 0, 0, 0, 96, -41, -104, 36, 122, -86, -46, -120
, 7, 0, -66, 4, 1, 0, 96, -43, 14, 64, -63, 49, 13, 64, 0, 0, 0, 0, 0, 0, 0, 0, 56, 1, 17, 1, 0, 0, 0, 0, 112, 125, 77, 38, 122, -86, -46, -120
, 7, 0, 66, 8, 1, 0, 74, -68, 6, 64, -118, -7, 8, 64, 0, 0, 0, 0, 0, 0, 0, 0, 93, 1, 46, 1, 0, 0, 0, 0, -47, -104, 2, 40, 122, -86, -46, -120
};
byte[] expected_binary_data = new byte[tmp.Length];
for (int i = 0; i < expected_binary_data.Length; i++)
{
expected_binary_data[i] = (byte)tmp[i];
}
base_extraction_metrics expected_metric_set = new base_extraction_metrics();
try{
c_csharp_comm.read_interop_from_buffer(expected_binary_data, (uint)expected_binary_data.Length, expected_metric_set);
Assert.Fail("No exception thrown!");
}catch (Illumina.InterOp.Comm.incomplete_file_exception) {}
}
public static int ReadInterop(string filename, base_extraction_metrics extraction_metric_set)
{
try
{
c_csharp_comm.read_interop (filename, extraction_metric_set);
}
catch(incomplete_file_exception){}
catch(file_not_found_exception ex)
{
Console.WriteLine("File not found: "+filename);
Console.WriteLine (ex);
return 1;
}
catch(bad_format_exception ex)
{
Console.WriteLine (ex);
return 1;
}
return 0;
}
public base_extraction_metrics extraction_metric_set()
{
base_extraction_metrics ret = new base_extraction_metrics(c_csharp_run_metricsPINVOKE.run_metrics_extraction_metric_set(swigCPtr), false);
return(ret);
}
