[2019-03-06 00:16:26.183] [jointLog] [info] parsing read library format
[2019-03-06 00:16:26.183] [jointLog] [info] There is 1 library.
[2019-03-06 00:16:26.244] [jointLog] [info] Loading Quasi index
[2019-03-06 00:16:26.244] [jointLog] [info] Loading 32-bit quasi index
[2019-03-06 00:16:26.635] [jointLog] [info] done
[2019-03-06 00:16:26.635] [jointLog] [info] Index contained 5838 targets
[2019-03-06 00:17:48.358] [fileLog] [info] 
At end of round 0
==================
Observed 34532223 total fragments (34532223 in most recent round)

[2019-03-06 00:17:48.357] [jointLog] [info] Computed 7671 rich equivalence classes for further processing
[2019-03-06 00:17:48.357] [jointLog] [info] Counted 3126572 total reads in the equivalence classes 
[2019-03-06 00:17:48.368] [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.


[2019-03-06 00:17:48.369] [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.

[2019-03-06 00:17:48.369] [jointLog] [info] Mapping rate = 9.05407%

[2019-03-06 00:17:48.369] [jointLog] [info] finished quantifyLibrary()
[2019-03-06 00:17:48.370] [jointLog] [info] Starting optimizer
[2019-03-06 00:17:48.374] [jointLog] [info] Marked 0 weighted equivalence classes as degenerate
[2019-03-06 00:17:48.374] [jointLog] [info] iteration = 0 | max rel diff. = 713.297
[2019-03-06 00:17:48.396] [jointLog] [info] iteration = 100 | max rel diff. = 0.115436
[2019-03-06 00:17:48.411] [jointLog] [info] iteration = 200 | max rel diff. = 0.0575028
[2019-03-06 00:17:48.426] [jointLog] [info] iteration = 300 | max rel diff. = 0.0433133
[2019-03-06 00:17:48.441] [jointLog] [info] iteration = 400 | max rel diff. = 0.029745
[2019-03-06 00:17:48.458] [jointLog] [info] iteration = 500 | max rel diff. = 0.024761
[2019-03-06 00:17:48.476] [jointLog] [info] iteration = 600 | max rel diff. = 0.019143
[2019-03-06 00:17:48.493] [jointLog] [info] iteration = 700 | max rel diff. = 0.0155036
[2019-03-06 00:17:48.511] [jointLog] [info] iteration = 800 | max rel diff. = 0.0129289
[2019-03-06 00:17:48.529] [jointLog] [info] iteration = 900 | max rel diff. = 0.0101354
[2019-03-06 00:17:48.547] [jointLog] [info] iteration = 1000 | max rel diff. = 0.0101352
[2019-03-06 00:17:48.562] [jointLog] [info] iteration = 1100 | max rel diff. = 0.0101351
[2019-03-06 00:17:48.569] [jointLog] [info] iteration = 1143 | max rel diff. = 0.00896299
[2019-03-06 00:17:48.569] [jointLog] [info] Finished optimizer
[2019-03-06 00:17:48.569] [jointLog] [info] writing output 

[2019-03-06 00:17:48.580] [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: nbK5_09/lib_format_counts.json for details