public void Histogram()
{
int[] tmp = new int[] {
6, 34, 1, 7, 2, 10, 20, 25, 30, 35, 40, 9, 19, 24, 29, 34, 39, 40, 2, 14, 21, 27, 32, 36, 40
, 7, 0, 90, 4, 1, 0, 0, 0, 0, 0, -70, 22, 4, 0, -81, -49, 1, 0, -68, 16, 0, 0, 78, -86, 42, 0, 0, 0, 0, 0, 0, 0, 0, 0
, 7, 0, 90, 4, 2, 0, 0, 0, 0, 0, 75, -81, 3, 0, -96, -81, 0, 0, 76, 4, 0, 0, 112, 62, 44, 0, 0, 0, 0, 0, 0, 0, 0, 0
, 7, 0, 90, 4, 3, 0, 0, 0, 0, 0, -80, 60, 3, 0, -74, -46, 0, 0, -85, 1, 0, 0, -106, -112, 44, 0, 0, 0, 0, 0, 0, 0, 0, 0
};
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];
}
run_metrics run = new run_metrics();
c_csharp_comm.read_interop_from_buffer(expected_binary_data, (uint)expected_binary_data.Length, run.q_metric_set());
filter_options options = new filter_options(tile_naming_method.FourDigit);
read_info_vector reads = new read_info_vector();
reads.Add(new read_info(1, 1, 26));
reads.Add(new read_info(2, 27, 76));
run.run_info(new info(
new flowcell_layout(8, 2, 2, 36, 1, 1, new string_vector(), tile_naming_method.FourDigit),
reads
));
run.legacy_channel_update(instrument_type.HiSeq);
run.finalize_after_load();
bar_plot_data data = new bar_plot_data();
c_csharp_plot.plot_qscore_histogram(run, options, data);
Assert.AreEqual(data.size(), 1);
}
public void Histogram()
{
int[] tmp = new int[]{
6,34,1,7,2,10,20,25,30,35,40,9,19,24,29,34,39,40,2,14,21,27,32,36,40
,7,0,90,4,1,0,0,0,0,0,-70,22,4,0,-81,-49,1,0,-68,16,0,0,78,-86,42,0,0,0,0,0,0,0,0,0
,7,0,90,4,2,0,0,0,0,0,75,-81,3,0,-96,-81,0,0,76,4,0,0,112,62,44,0,0,0,0,0,0,0,0,0
,7,0,90,4,3,0,0,0,0,0,-80,60,3,0,-74,-46,0,0,-85,1,0,0,-106,-112,44,0,0,0,0,0,0,0,0,0
};
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];
run_metrics run = new run_metrics();
c_csharp_comm.read_interop_from_buffer(expected_binary_data, (uint)expected_binary_data.Length, run.q_metric_set());
filter_options options = new filter_options(tile_naming_method.FourDigit);
read_info_vector reads = new read_info_vector();
reads.Add(new read_info(1, 1, 26));
reads.Add(new read_info(2, 27, 76));
run.run_info(new info(
"",
"",
1,
new flowcell_layout(8, 2, 2, 36, 1, 1, new string_vector(), tile_naming_method.FourDigit),
new string_vector(),
new image_dimensions(),
reads
));
run.legacy_channel_update(instrument_type.HiSeq);
run.finalize_after_load();
bar_plot_data data = new bar_plot_data();
c_csharp_plot.plot_qscore_histogram(run, options, data);
Assert.AreEqual(data.size(), 1);
}
public void TestBarDataIndexOutOfBoundsException()
{
bar_plot_data points = new bar_plot_data();
try{
System.Console.WriteLine(points.at(0));
Assert.Fail("No exception thrown!");
}catch (Illumina.InterOp.Metrics.index_out_of_bounds_exception) {}
}
public void ReadsIdentified()
{
int[] tmp1 = new int[] { 1
, 1, 0, 74, 47, 3, 0
, 17, 0, 65, 84, 67, 65, 67, 71, 65, 67, 45, 65, 65, 71, 71, 84, 84, 67, 65, 218, 17, 0, 0, 1, 0, 49, 11, 0, 84, 83, 67, 65, 73, 110
, 100, 101, 120, 101, 115
, 2, 0, 74, 47, 3, 0 // changed to lane 2
, 17, 0, 65, 67, 65, 71, 84, 71, 71, 84, 45, 65, 65, 71, 71, 84, 84, 67, 65, 125, 17, 0, 0, 1, 0, 50, 11, 0, 84, 83, 67, 65, 73, 110
, 100, 101, 120, 101, 115
, 3, 0, 74, 47, 3, 0 // changed to lane 3
, 17, 0, 67, 65, 71, 65, 84, 67, 67, 65, 45, 65, 65, 71, 71, 84, 84, 67, 65, 226, 17, 0, 0, 1, 0, 51, 11, 0, 84, 83, 67, 65, 73, 110
, 100, 101, 120, 101, 115 };
int[] tmp2 = new int[] { 2, 10
, 7, 0, 90, 4, 100, 0, -67, -66, 15, 74
, 7, 0, 90, 4, 102, 0, 74, 122, -59, 74
, 7, 0, 90, 4, 101, 0, 12, 94, -115, 73
, 7, 0, 90, 4, 103, 0, 16, 54, 66, 74
, 7, 0, 90, 4, -56, 0, 82, -11, 80, 58
, 7, 0, 90, 4, -55, 0, -62, 42, -99, 58
, 7, 0, 90, 4, 44, 1, -102, 113, 39, 64
, 7, 0, -66, 4, 100, 0, -67, -66, 15, 74
, 7, 0, -66, 4, 102, 0, 74, 122, -59, 74
, 7, 0, -66, 4, 101, 0, 46, 103, -113, 73
, 7, 0, -66, 4, 103, 0, 0, 2, 69, 74
, 7, 0, -66, 4, -56, 0, 21, 111, -87, 58
, 7, 0, -66, 4, -55, 0, -86, 29, -79, 58
, 7, 0, -66, 4, 44, 1, 6, -42, 39, 64
, 7, 0, 66, 8, 100, 0, -67, -66, 15, 74
, 7, 0, 66, 8, 102, 0, 74, 122, -59, 74
, 7, 0, 66, 8, 101, 0, 67, -26, -109, 73
, 7, 0, 66, 8, 103, 0, 92, 47, 75, 74
, 7, 0, 66, 8, -56, 0, 123, 22, -100, 58
, 7, 0, 66, 8, -55, 0, 85, 6, 115, 58
, 7, 0, 66, 8, 44, 1, 57, 97, 31, 64 };
byte[] expected_binary_data1 = new byte[tmp1.Length];
for (int i = 0; i < expected_binary_data1.Length; i++)
{
expected_binary_data1[i] = (byte)tmp1[i];
}
byte[] expected_binary_data2 = new byte[tmp2.Length];
for (int i = 0; i < expected_binary_data2.Length; i++)
{
expected_binary_data2[i] = (byte)tmp2[i];
}
run_metrics run = new run_metrics();
c_csharp_comm.read_interop_from_buffer(expected_binary_data1, (uint)expected_binary_data1.Length, run.index_metric_set());
c_csharp_comm.read_interop_from_buffer(expected_binary_data2, (uint)expected_binary_data2.Length, run.tile_metric_set());
read_info_vector reads = new read_info_vector();
reads.Add(new read_info(1, 1, 26));
reads.Add(new read_info(2, 27, 76));
run.run_info(new info(
new flowcell_layout(2, 2, 2, 16),
reads
));
run.legacy_channel_update(instrument_type.HiSeq);
bar_plot_data data = new bar_plot_data();
c_csharp_plot.plot_sample_qc(run, 1, data);
Assert.AreEqual(data.size(), 1);
}
public void ReadsIdentified()
{
int[] tmp1 = new int[]{1
,1,0,74,47,3,0
,17,0,65,84,67,65,67,71,65,67,45,65,65,71,71,84,84,67,65,218,17,0,0,1,0,49,11,0,84,83,67,65,73,110
,100,101,120,101,115
,2,0,74,47,3,0 // changed to lane 2
,17,0,65,67,65,71,84,71,71,84,45,65,65,71,71,84,84,67,65,125,17,0,0,1,0,50,11,0,84,83,67,65,73,110
,100,101,120,101,115
,3,0,74,47,3,0 // changed to lane 3
,17,0,67,65,71,65,84,67,67,65,45,65,65,71,71,84,84,67,65,226,17,0,0,1,0,51,11,0,84,83,67,65,73,110
,100,101,120,101,115
};
int[] tmp2 = new int[]{2,10
,7,0,90,4,100,0,-67,-66,15,74
,7,0,90,4,102,0,74,122,-59,74
,7,0,90,4,101,0,12,94,-115,73
,7,0,90,4,103,0,16,54,66,74
,7,0,90,4,-56,0,82,-11,80,58
,7,0,90,4,-55,0,-62,42,-99,58
,7,0,90,4,44,1,-102,113,39,64
,7,0,-66,4,100,0,-67,-66,15,74
,7,0,-66,4,102,0,74,122,-59,74
,7,0,-66,4,101,0,46,103,-113,73
,7,0,-66,4,103,0,0,2,69,74
,7,0,-66,4,-56,0,21,111,-87,58
,7,0,-66,4,-55,0,-86,29,-79,58
,7,0,-66,4,44,1,6,-42,39,64
,7,0,66,8,100,0,-67,-66,15,74
,7,0,66,8,102,0,74,122,-59,74
,7,0,66,8,101,0,67,-26,-109,73
,7,0,66,8,103,0,92,47,75,74
,7,0,66,8,-56,0,123,22,-100,58
,7,0,66,8,-55,0,85,6,115,58
,7,0,66,8,44,1,57,97,31,64
};
byte[] expected_binary_data1 = new byte[tmp1.Length];
for(int i=0;i<expected_binary_data1.Length;i++) expected_binary_data1[i] = (byte)tmp1[i];
byte[] expected_binary_data2 = new byte[tmp2.Length];
for(int i=0;i<expected_binary_data2.Length;i++) expected_binary_data2[i] = (byte)tmp2[i];
run_metrics run = new run_metrics();
c_csharp_comm.read_interop_from_buffer(expected_binary_data1, (uint)expected_binary_data1.Length, run.index_metric_set());
c_csharp_comm.read_interop_from_buffer(expected_binary_data2, (uint)expected_binary_data2.Length, run.tile_metric_set());
read_info_vector reads = new read_info_vector();
reads.Add(new read_info(1, 1, 26));
reads.Add(new read_info(2, 27, 76));
run.run_info(new info(
"",
"",
1,
new flowcell_layout(2, 2, 2, 16),
new string_vector(),
new image_dimensions(),
reads
));
run.legacy_channel_update(instrument_type.HiSeq);
bar_plot_data data = new bar_plot_data();
c_csharp_plot.plot_sample_qc(run, 1, data);
Assert.AreEqual(data.size(), 1);
}
public void TestBarDataIndexOutOfBoundsException()
{
bar_plot_data points = new bar_plot_data();
System.Console.WriteLine(points.at(0));
}
