[2019-01-30 21:11:10.918] [jointLog] [info] parsing read library format
[2019-01-30 21:11:10.918] [jointLog] [info] There is 1 library.
[2019-01-30 21:11:10.978] [jointLog] [info] Loading Quasi index
[2019-01-30 21:11:10.978] [jointLog] [info] Loading 32-bit quasi index
[2019-01-30 21:11:11.408] [jointLog] [info] done
[2019-01-30 21:11:11.408] [jointLog] [info] Index contained 5838 targets
[2019-01-30 21:12:15.580] [jointLog] [info] Computed 7398 rich equivalence classes for further processing
[2019-01-30 21:12:15.580] [jointLog] [info] Counted 2479140 total reads in the equivalence classes 
[2019-01-30 21:12:15.591] [jointLog] [warning] 0.0136297% of fragments were shorter than the k used to build the index (31).
If this fraction is too large, consider re-building the index with a smaller k.
The minimum read size found was 20.


[2019-01-30 21:12:15.591] [jointLog] [warning] Only 2479140 fragments were mapped, but the number of burn-in fragments was set to 5000000.
The effective lengths have been computed using the observed mappings.

[2019-01-30 21:12:15.591] [jointLog] [info] Mapping rate = 9.56952%

[2019-01-30 21:12:15.591] [jointLog] [info] finished quantifyLibrary()
[2019-01-30 21:12:15.592] [jointLog] [info] Starting optimizer
[2019-01-30 21:12:15.596] [jointLog] [info] Marked 0 weighted equivalence classes as degenerate
[2019-01-30 21:12:15.597] [jointLog] [info] iteration = 0 | max rel diff. = 615.829
[2019-01-30 21:12:15.614] [jointLog] [info] iteration = 100 | max rel diff. = 0.117133
[2019-01-30 21:12:15.630] [jointLog] [info] iteration = 200 | max rel diff. = 0.0562926
[2019-01-30 21:12:15.647] [jointLog] [info] iteration = 300 | max rel diff. = 0.0377845
[2019-01-30 21:12:15.663] [jointLog] [info] iteration = 400 | max rel diff. = 0.0261346
[2019-01-30 21:12:15.678] [jointLog] [info] iteration = 500 | max rel diff. = 0.0214208
[2019-01-30 21:12:15.693] [jointLog] [info] iteration = 600 | max rel diff. = 0.0177707
[2019-01-30 21:12:15.708] [jointLog] [info] iteration = 700 | max rel diff. = 0.0152763
[2019-01-30 21:12:15.723] [jointLog] [info] iteration = 800 | max rel diff. = 0.013019
[2019-01-30 21:12:15.738] [jointLog] [info] iteration = 900 | max rel diff. = 0.0119452
[2019-01-30 21:12:15.753] [jointLog] [info] iteration = 1000 | max rel diff. = 0.0106928
[2019-01-30 21:12:15.581] [fileLog] [info] 
At end of round 0
==================
Observed 25906632 total fragments (25906632 in most recent round)

[2019-01-30 21:12:15.757] [jointLog] [info] iteration = 1027 | max rel diff. = 0.00911444
[2019-01-30 21:12:15.757] [jointLog] [info] Finished optimizer
[2019-01-30 21:12:15.757] [jointLog] [info] writing output 

[2019-01-30 21:12:15.768] [jointLog] [warning] NOTE: Read Lib [( /dev/fd/63, /dev/fd/62 )] :

Greater than 5% of the fragments disagreed with the provided library type; check the file: bleached_K5_03/lib_format_counts.json for details