[2019-01-30 21:21:54.703] [jointLog] [info] parsing read library format
[2019-01-30 21:21:54.703] [jointLog] [info] There is 1 library.
[2019-01-30 21:21:54.764] [jointLog] [info] Loading Quasi index
[2019-01-30 21:21:54.764] [jointLog] [info] Loading 32-bit quasi index
[2019-01-30 21:21:55.157] [jointLog] [info] done
[2019-01-30 21:21:55.157] [jointLog] [info] Index contained 5838 targets
[2019-01-30 21:22:48.470] [fileLog] [info] 
At end of round 0
==================
Observed 22496850 total fragments (22496850 in most recent round)

[2019-01-30 21:22:48.469] [jointLog] [info] Computed 7356 rich equivalence classes for further processing
[2019-01-30 21:22:48.469] [jointLog] [info] Counted 2065907 total reads in the equivalence classes 
[2019-01-30 21:22:48.480] [jointLog] [warning] 0.0315555% 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 21:22:48.480] [jointLog] [warning] Only 2065907 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 21:22:48.480] [jointLog] [info] Mapping rate = 9.18309%

[2019-01-30 21:22:48.480] [jointLog] [info] finished quantifyLibrary()
[2019-01-30 21:22:48.481] [jointLog] [info] Starting optimizer
[2019-01-30 21:22:48.487] [jointLog] [info] Marked 0 weighted equivalence classes as degenerate
[2019-01-30 21:22:48.487] [jointLog] [info] iteration = 0 | max rel diff. = 551.059
[2019-01-30 21:22:48.506] [jointLog] [info] iteration = 100 | max rel diff. = 0.124265
[2019-01-30 21:22:48.521] [jointLog] [info] iteration = 200 | max rel diff. = 0.0621501
[2019-01-30 21:22:48.536] [jointLog] [info] iteration = 300 | max rel diff. = 0.0433954
[2019-01-30 21:22:48.550] [jointLog] [info] iteration = 400 | max rel diff. = 0.0270718
[2019-01-30 21:22:48.565] [jointLog] [info] iteration = 500 | max rel diff. = 0.0244143
[2019-01-30 21:22:48.579] [jointLog] [info] iteration = 600 | max rel diff. = 0.016607
[2019-01-30 21:22:48.594] [jointLog] [info] iteration = 700 | max rel diff. = 0.0147562
[2019-01-30 21:22:48.608] [jointLog] [info] iteration = 800 | max rel diff. = 0.0137182
[2019-01-30 21:22:48.623] [jointLog] [info] iteration = 900 | max rel diff. = 0.0104647
[2019-01-30 21:22:48.638] [jointLog] [info] iteration = 1000 | max rel diff. = 0.0104646
[2019-01-30 21:22:48.648] [jointLog] [info] iteration = 1068 | max rel diff. = 0.00877226
[2019-01-30 21:22:48.648] [jointLog] [info] Finished optimizer
[2019-01-30 21:22:48.648] [jointLog] [info] writing output 

[2019-01-30 21:22:48.659] [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_01/lib_format_counts.json for details