Deprecated in favor of imaging_table This developer application is to help debug InterOp files.

Running the Program

The program runs as follows:

 $ dumptext 140131_1287_0851_A01n401drr

In this sample, 140131_1287_0851_A01n401drr is a run folder and the summary is written to the standard output.

 # Version: v1.0.14
 # CorrectedInt,1
 # Column Count: 26
 Lane,Tile,Cycle,AverageCycleIntensity,SignalToNoise,CalledCount_NC,CalledCount_A,CalledCount_C,CalledCount_G,CalledCount_T,CalledIntensity_A,CalledIntensity_C,CalledIntensity_G,CalledIntensity_T,AllIntensity_A,AllIntensity_C,AllIntensity_G,AllIntensity_T
 1,1110,25,1101,12.0613,0,574630,422083,412422,595042,4277,4260,4297,4234,1265,932,920,1286
 1,1110,1,1329,15.1487,7085,613597,397592,392897,593006,5220,5200,5228,5221,1639,1069,1037,1563
 1,1110,2,1277,14.7306,0,635012,354595,413136,601434,5036,5001,5003,4982,1626,917,1047,1514
 # Error,1
 # Column Count: 4
 Lane,Tile,Cycle,ErrorRate
 1,1110,1,0.162742
 1,1110,2,0.11915
 1,1110,3,0.0860728
 # Extraction,1
 # Column Count: 12
 # Channel Count: 4
 Lane,Tile,Cycle,TimeStamp,MaxIntensity_a,MaxIntensity_c,MaxIntensity_g,MaxIntensity_t,Focus_a,Focus_c,Focus_g,Focus_t
 1,1110,1,1420585636,6830,8444,3300,7030,3.09255,3.22699,2.928,2.9999
 1,1110,2,1420585637,6646,8197,3161,6780,3.07496,3.2106,2.9338,2.9947
 1,1110,3,1420585637,6581,8121,3130,6745,3.06585,3.21393,2.93435,2.99376
 # Q,1
 # Bin Count: 7
 # Column Count: 3
 Lower,Value,Upper
 0,6,9
 10,15,19
 20,22,24
 25,27,29
 30,33,34
 35,37,39
 40,40,49
 # Column Count: 10
 Lane,Tile,Cycle,Bin_1,Bin_2,Bin_3,Bin_4,Bin_5,Bin_6,Bin_7
 1,1110,1,0,11900,3569,36075,1952633,0,0
 1,1110,2,0,12063,4044,38008,1950062,0,0
 1,1110,3,0,5827,3883,42582,1951885,0,0
 # QByLane,1
 # Bin Count: 7
 # Column Count: 3
 Lower,Value,Upper
 0,6,9
 10,15,19
 20,22,24
 25,27,29
 30,33,34
 35,37,39
 40,40,49
 # Column Count: 10
 Lane,Tile,Cycle,Bin_1,Bin_2,Bin_3,Bin_4,Bin_5,Bin_6,Bin_7
 1,0,1,0,11900,3569,36075,1952633,0,0
 1,0,2,0,12063,4044,38008,1950062,0,0
 1,0,3,0,5827,3883,42582,1951885,0,0
 # Q2030,1
 # Column Count: 7
 Lane,Tile,Cycle,Q20,Q30,Total,MedianQScore
 1,1110,1,1992277,1952633,2004177,33
 1,1110,2,1992114,1950062,2004177,33
 1,1110,3,1998350,1951885,2004177,33
 # Tile,1
 # Column Count: 10
 Lane,Tile,Read,ClusterCount,ClusterCountPF,Density,DensityPF,Aligned,Prephasing,Phasing
 1,1110,1,2.08311e+06,2.00418e+06,723230,695825,1.5076,0.341797,0.128489

Explanation of output

The first line is the version of the library/executable. After that each metric starts with the metric name followed by the version of the text format, e.g.

 # Tile,1

Next, the metric may print header any available information such as channel count for extraction metrics, e.g.

 # Channel Count: 4

Every metric includes the number of columns, e.g.

 # Column Count: 12

There may be an extended header such as the one for Q-metrics, e.g.

 Lower,Value,Upper
 0,6,9
 10,15,19
 20,22,24
 25,27,29
 30,33,34
 35,37,39
 40,40,49

Finally, the records from the record follow a text header, e.g.

 Lane,Tile,Cycle,Q20,Q30,Total,MedianQScore
 1,1110,1,1992277,1952633,2004177,33

Command line options

The following command line options are supported:

 --subset=n (where `n` is an integer greater than 0)
     This option selects the first `n` records and displays only those.