[2019-01-30 21:20:29.986] [jointLog] [info] parsing read library format
[2019-01-30 21:20:29.986] [jointLog] [info] There is 1 library.
[2019-01-30 21:20:30.044] [jointLog] [info] Loading Quasi index
[2019-01-30 21:20:30.044] [jointLog] [info] Loading 32-bit quasi index
[2019-01-30 21:20:30.425] [jointLog] [info] done
[2019-01-30 21:20:30.425] [jointLog] [info] Index contained 5838 targets
[2019-01-30 21:21:54.063] [jointLog] [info] Computed 7671 rich equivalence classes for further processing
[2019-01-30 21:21:54.063] [jointLog] [info] Counted 3126572 total reads in the equivalence classes 
[2019-01-30 21:21:54.074] [jointLog] [warning] 0.0188954% 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 21:21:54.075] [jointLog] [warning] Only 3126572 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 21:21:54.075] [jointLog] [info] Mapping rate = 9.05407%

[2019-01-30 21:21:54.075] [jointLog] [info] finished quantifyLibrary()
[2019-01-30 21:21:54.075] [jointLog] [info] Starting optimizer
[2019-01-30 21:21:54.080] [jointLog] [info] Marked 0 weighted equivalence classes as degenerate
[2019-01-30 21:21:54.081] [jointLog] [info] iteration = 0 | max rel diff. = 713.328
[2019-01-30 21:21:54.097] [jointLog] [info] iteration = 100 | max rel diff. = 0.11543
[2019-01-30 21:21:54.112] [jointLog] [info] iteration = 200 | max rel diff. = 0.0575008
[2019-01-30 21:21:54.127] [jointLog] [info] iteration = 300 | max rel diff. = 0.0433146
[2019-01-30 21:21:54.142] [jointLog] [info] iteration = 400 | max rel diff. = 0.0297493
[2019-01-30 21:21:54.157] [jointLog] [info] iteration = 500 | max rel diff. = 0.0247589
[2019-01-30 21:21:54.173] [jointLog] [info] iteration = 600 | max rel diff. = 0.0191493
[2019-01-30 21:21:54.188] [jointLog] [info] iteration = 700 | max rel diff. = 0.0155013
[2019-01-30 21:21:54.202] [jointLog] [info] iteration = 800 | max rel diff. = 0.0129275
[2019-01-30 21:21:54.219] [jointLog] [info] iteration = 900 | max rel diff. = 0.0101359
[2019-01-30 21:21:54.064] [fileLog] [info] 
At end of round 0
==================
Observed 34532223 total fragments (34532223 in most recent round)

[2019-01-30 21:21:54.235] [jointLog] [info] iteration = 1000 | max rel diff. = 0.0101357
[2019-01-30 21:21:54.252] [jointLog] [info] iteration = 1100 | max rel diff. = 0.0101357
[2019-01-30 21:21:54.260] [jointLog] [info] iteration = 1143 | max rel diff. = 0.0089613
[2019-01-30 21:21:54.260] [jointLog] [info] Finished optimizer
[2019-01-30 21:21:54.260] [jointLog] [info] writing output 

[2019-01-30 21:21:54.271] [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_03/lib_format_counts.json for details