[2019-01-30 21:14:18.261] [jointLog] [info] parsing read library format
[2019-01-30 21:14:18.261] [jointLog] [info] There is 1 library.
[2019-01-30 21:14:18.321] [jointLog] [info] Loading Quasi index
[2019-01-30 21:14:18.321] [jointLog] [info] Loading 32-bit quasi index
[2019-01-30 21:14:18.748] [jointLog] [info] done
[2019-01-30 21:14:18.748] [jointLog] [info] Index contained 5838 targets
[2019-01-30 21:14:59.925] [jointLog] [info] Computed 6627 rich equivalence classes for further processing
[2019-01-30 21:14:59.925] [jointLog] [info] Counted 1294477 total reads in the equivalence classes 
[2019-01-30 21:14:59.937] [jointLog] [warning] 0.0100547% 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 21:14:59.937] [jointLog] [warning] Only 1294477 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 21:14:59.937] [jointLog] [info] Mapping rate = 7.48881%

[2019-01-30 21:14:59.937] [jointLog] [info] finished quantifyLibrary()
[2019-01-30 21:14:59.938] [jointLog] [info] Starting optimizer
[2019-01-30 21:14:59.942] [jointLog] [info] Marked 0 weighted equivalence classes as degenerate
[2019-01-30 21:14:59.942] [jointLog] [info] iteration = 0 | max rel diff. = 305.93
[2019-01-30 21:14:59.961] [jointLog] [info] iteration = 100 | max rel diff. = 0.113977
[2019-01-30 21:14:59.976] [jointLog] [info] iteration = 200 | max rel diff. = 0.0606186
[2019-01-30 21:14:59.991] [jointLog] [info] iteration = 300 | max rel diff. = 0.043268
[2019-01-30 21:15:00.005] [jointLog] [info] iteration = 400 | max rel diff. = 0.0293288
[2019-01-30 21:15:00.019] [jointLog] [info] iteration = 500 | max rel diff. = 0.0217735
[2019-01-30 21:15:00.034] [jointLog] [info] iteration = 600 | max rel diff. = 0.0174293
[2019-01-30 21:15:00.048] [jointLog] [info] iteration = 700 | max rel diff. = 0.0147432
[2019-01-30 21:15:00.062] [jointLog] [info] iteration = 800 | max rel diff. = 0.0118476
[2019-01-30 21:14:59.926] [fileLog] [info] 
At end of round 0
==================
Observed 17285483 total fragments (17285483 in most recent round)

[2019-01-30 21:15:00.079] [jointLog] [info] iteration = 900 | max rel diff. = 0.0111509
[2019-01-30 21:15:00.096] [jointLog] [info] iteration = 1000 | max rel diff. = 0.0113565
[2019-01-30 21:15:00.111] [jointLog] [info] iteration = 1091 | max rel diff. = 0.00876264
[2019-01-30 21:15:00.111] [jointLog] [info] Finished optimizer
[2019-01-30 21:15:00.111] [jointLog] [info] writing output 

[2019-01-30 21:15:00.122] [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_06/lib_format_counts.json for details