[2019-01-30 21:15:00.543] [jointLog] [info] parsing read library format
[2019-01-30 21:15:00.543] [jointLog] [info] There is 1 library.
[2019-01-30 21:15:00.603] [jointLog] [info] Loading Quasi index
[2019-01-30 21:15:00.603] [jointLog] [info] Loading 32-bit quasi index
[2019-01-30 21:15:01.013] [jointLog] [info] done
[2019-01-30 21:15:01.013] [jointLog] [info] Index contained 5838 targets
[2019-01-30 21:15:57.091] [fileLog] [info] 
At end of round 0
==================
Observed 23024986 total fragments (23024986 in most recent round)

[2019-01-30 21:15:57.090] [jointLog] [info] Computed 7727 rich equivalence classes for further processing
[2019-01-30 21:15:57.090] [jointLog] [info] Counted 2025613 total reads in the equivalence classes 
[2019-01-30 21:15:57.102] [jointLog] [warning] 0.0188665% 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 21:15:57.102] [jointLog] [warning] Only 2025613 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 21:15:57.102] [jointLog] [info] Mapping rate = 8.79746%

[2019-01-30 21:15:57.102] [jointLog] [info] finished quantifyLibrary()
[2019-01-30 21:15:57.103] [jointLog] [info] Starting optimizer
[2019-01-30 21:15:57.108] [jointLog] [info] Marked 0 weighted equivalence classes as degenerate
[2019-01-30 21:15:57.108] [jointLog] [info] iteration = 0 | max rel diff. = 539.321
[2019-01-30 21:15:57.127] [jointLog] [info] iteration = 100 | max rel diff. = 0.113552
[2019-01-30 21:15:57.143] [jointLog] [info] iteration = 200 | max rel diff. = 0.0515044
[2019-01-30 21:15:57.159] [jointLog] [info] iteration = 300 | max rel diff. = 0.0363763
[2019-01-30 21:15:57.176] [jointLog] [info] iteration = 400 | max rel diff. = 0.0277539
[2019-01-30 21:15:57.193] [jointLog] [info] iteration = 500 | max rel diff. = 0.0205168
[2019-01-30 21:15:57.210] [jointLog] [info] iteration = 600 | max rel diff. = 0.0185245
[2019-01-30 21:15:57.227] [jointLog] [info] iteration = 700 | max rel diff. = 0.0164994
[2019-01-30 21:15:57.245] [jointLog] [info] iteration = 800 | max rel diff. = 0.0142163
[2019-01-30 21:15:57.261] [jointLog] [info] iteration = 900 | max rel diff. = 0.0142163
[2019-01-30 21:15:57.279] [jointLog] [info] iteration = 1000 | max rel diff. = 0.010818
[2019-01-30 21:15:57.279] [jointLog] [info] iteration = 1005 | max rel diff. = 0.00918972
[2019-01-30 21:15:57.280] [jointLog] [info] Finished optimizer
[2019-01-30 21:15:57.280] [jointLog] [info] writing output 

[2019-01-30 21:15:57.291] [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_44_01/lib_format_counts.json for details