[2019-01-30 21:22:49.017] [jointLog] [info] parsing read library format
[2019-01-30 21:22:49.017] [jointLog] [info] There is 1 library.
[2019-01-30 21:22:49.078] [jointLog] [info] Loading Quasi index
[2019-01-30 21:22:49.078] [jointLog] [info] Loading 32-bit quasi index
[2019-01-30 21:22:49.478] [jointLog] [info] done
[2019-01-30 21:22:49.478] [jointLog] [info] Index contained 5838 targets
[2019-01-30 21:23:52.964] [fileLog] [info] 
At end of round 0
==================
Observed 26090741 total fragments (26090741 in most recent round)

[2019-01-30 21:23:52.963] [jointLog] [info] Computed 7419 rich equivalence classes for further processing
[2019-01-30 21:23:52.963] [jointLog] [info] Counted 2384873 total reads in the equivalence classes 
[2019-01-30 21:23:52.973] [jointLog] [warning] 0.047308% 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 21:23:52.974] [jointLog] [warning] Only 2384873 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 21:23:52.974] [jointLog] [info] Mapping rate = 9.14069%

[2019-01-30 21:23:52.974] [jointLog] [info] finished quantifyLibrary()
[2019-01-30 21:23:52.974] [jointLog] [info] Starting optimizer
[2019-01-30 21:23:52.981] [jointLog] [info] Marked 0 weighted equivalence classes as degenerate
[2019-01-30 21:23:52.981] [jointLog] [info] iteration = 0 | max rel diff. = 587.786
[2019-01-30 21:23:52.999] [jointLog] [info] iteration = 100 | max rel diff. = 0.116773
[2019-01-30 21:23:53.016] [jointLog] [info] iteration = 200 | max rel diff. = 0.0557389
[2019-01-30 21:23:53.032] [jointLog] [info] iteration = 300 | max rel diff. = 0.0365148
[2019-01-30 21:23:53.047] [jointLog] [info] iteration = 400 | max rel diff. = 0.0289878
[2019-01-30 21:23:53.062] [jointLog] [info] iteration = 500 | max rel diff. = 0.0204643
[2019-01-30 21:23:53.078] [jointLog] [info] iteration = 600 | max rel diff. = 0.0174253
[2019-01-30 21:23:53.093] [jointLog] [info] iteration = 700 | max rel diff. = 0.0162272
[2019-01-30 21:23:53.109] [jointLog] [info] iteration = 800 | max rel diff. = 0.012992
[2019-01-30 21:23:53.126] [jointLog] [info] iteration = 900 | max rel diff. = 0.0120714
[2019-01-30 21:23:53.143] [jointLog] [info] iteration = 1000 | max rel diff. = 0.00983096
[2019-01-30 21:23:53.143] [jointLog] [info] iteration = 1001 | max rel diff. = 0.00983096
[2019-01-30 21:23:53.144] [jointLog] [info] Finished optimizer
[2019-01-30 21:23:53.144] [jointLog] [info] writing output 

[2019-01-30 21:23:53.155] [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: non-bleached_44_02/lib_format_counts.json for details