[2019-01-30 21:19:07.173] [jointLog] [info] parsing read library format
[2019-01-30 21:19:07.173] [jointLog] [info] There is 1 library.
[2019-01-30 21:19:07.233] [jointLog] [info] Loading Quasi index
[2019-01-30 21:19:07.233] [jointLog] [info] Loading 32-bit quasi index
[2019-01-30 21:19:07.630] [jointLog] [info] done
[2019-01-30 21:19:07.630] [jointLog] [info] Index contained 5838 targets
[2019-01-30 21:20:29.283] [jointLog] [info] Computed 8127 rich equivalence classes for further processing
[2019-01-30 21:20:29.283] [jointLog] [info] Counted 2818911 total reads in the equivalence classes 
[2019-01-30 21:20:29.295] [jointLog] [warning] 0.0111532% 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 21:20:29.296] [jointLog] [warning] Only 2818911 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 21:20:29.296] [jointLog] [info] Mapping rate = 8.52724%

[2019-01-30 21:20:29.296] [jointLog] [info] finished quantifyLibrary()
[2019-01-30 21:20:29.296] [jointLog] [info] Starting optimizer
[2019-01-30 21:20:29.302] [jointLog] [info] Marked 0 weighted equivalence classes as degenerate
[2019-01-30 21:20:29.303] [jointLog] [info] iteration = 0 | max rel diff. = 673.377
[2019-01-30 21:20:29.323] [jointLog] [info] iteration = 100 | max rel diff. = 0.123831
[2019-01-30 21:20:29.339] [jointLog] [info] iteration = 200 | max rel diff. = 0.0596649
[2019-01-30 21:20:29.356] [jointLog] [info] iteration = 300 | max rel diff. = 0.0380999
[2019-01-30 21:20:29.373] [jointLog] [info] iteration = 400 | max rel diff. = 0.0269307
[2019-01-30 21:20:29.390] [jointLog] [info] iteration = 500 | max rel diff. = 0.0249063
[2019-01-30 21:20:29.406] [jointLog] [info] iteration = 600 | max rel diff. = 0.0157788
[2019-01-30 21:20:29.284] [fileLog] [info] 
At end of round 0
==================
Observed 33057710 total fragments (33057710 in most recent round)

[2019-01-30 21:20:29.423] [jointLog] [info] iteration = 700 | max rel diff. = 0.0153608
[2019-01-30 21:20:29.440] [jointLog] [info] iteration = 800 | max rel diff. = 0.013383
[2019-01-30 21:20:29.456] [jointLog] [info] iteration = 900 | max rel diff. = 0.0109073
[2019-01-30 21:20:29.473] [jointLog] [info] iteration = 1000 | max rel diff. = 0.0102403
[2019-01-30 21:20:29.490] [jointLog] [info] iteration = 1100 | max rel diff. = 0.0102406
[2019-01-30 21:20:29.505] [jointLog] [info] iteration = 1200 | max rel diff. = 0.0102406
[2019-01-30 21:20:29.509] [jointLog] [info] iteration = 1225 | max rel diff. = 0.0090297
[2019-01-30 21:20:29.509] [jointLog] [info] Finished optimizer
[2019-01-30 21:20:29.509] [jointLog] [info] writing output 

[2019-01-30 21:20:29.521] [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_K5_02/lib_format_counts.json for details