[2019-01-24 12:13:42.841] [jointLog] [info] parsing read library format [2019-01-24 12:13:42.841] [jointLog] [info] There is 1 library. [2019-01-24 12:13:42.903] [jointLog] [info] Loading Quasi index [2019-01-24 12:13:42.903] [jointLog] [info] Loading 32-bit quasi index [2019-01-24 12:13:45.616] [jointLog] [info] done [2019-01-24 12:13:45.616] [jointLog] [info] Index contained 49695 targets [2019-01-24 12:14:44.833] [fileLog] [info] At end of round 0 ================== Observed 26090741 total fragments (26090741 in most recent round) [2019-01-24 12:14:44.833] [jointLog] [info] Computed 66512 rich equivalence classes for further processing [2019-01-24 12:14:44.833] [jointLog] [info] Counted 13487415 total reads in the equivalence classes [2019-01-24 12:14:44.842] [jointLog] [warning] 0.047308% 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. [2019-01-24 12:14:44.842] [jointLog] [info] Mapping rate = 51.6943% [2019-01-24 12:14:44.842] [jointLog] [info] finished quantifyLibrary() [2019-01-24 12:14:44.842] [jointLog] [info] Starting optimizer [2019-01-24 12:14:44.941] [jointLog] [info] Marked 0 weighted equivalence classes as degenerate [2019-01-24 12:14:44.943] [jointLog] [info] iteration = 0 | max rel diff. = 208.968 [2019-01-24 12:14:45.070] [jointLog] [info] iteration = 100 | max rel diff. = 0.115561 [2019-01-24 12:14:45.198] [jointLog] [info] iteration = 200 | max rel diff. = 0.0547037 [2019-01-24 12:14:45.324] [jointLog] [info] iteration = 300 | max rel diff. = 0.0374895 [2019-01-24 12:14:45.451] [jointLog] [info] iteration = 400 | max rel diff. = 0.0292574 [2019-01-24 12:14:45.579] [jointLog] [info] iteration = 500 | max rel diff. = 0.0223909 [2019-01-24 12:14:45.707] [jointLog] [info] iteration = 600 | max rel diff. = 0.018208 [2019-01-24 12:14:45.834] [jointLog] [info] iteration = 700 | max rel diff. = 0.017379 [2019-01-24 12:14:45.962] [jointLog] [info] iteration = 800 | max rel diff. = 0.0143658 [2019-01-24 12:14:46.090] [jointLog] [info] iteration = 900 | max rel diff. = 0.0142054 [2019-01-24 12:14:46.219] [jointLog] [info] iteration = 1000 | max rel diff. = 0.0110114 [2019-01-24 12:14:46.348] [jointLog] [info] iteration = 1100 | max rel diff. = 0.0101317 [2019-01-24 12:14:46.478] [jointLog] [info] iteration = 1200 | max rel diff. = 0.0101317 [2019-01-24 12:14:46.489] [jointLog] [info] iteration = 1209 | max rel diff. = 0.0099401 [2019-01-24 12:14:46.494] [jointLog] [info] Finished optimizer [2019-01-24 12:14:46.494] [jointLog] [info] writing output [2019-01-24 12:14:46.584] [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_02/lib_format_counts.json for details [2019-01-24 12:53:57.368] [jointLog] [info] parsing read library format [2019-01-24 12:53:57.368] [jointLog] [info] There is 1 library. [2019-01-24 12:53:57.430] [jointLog] [info] Loading Quasi index [2019-01-24 12:53:57.430] [jointLog] [info] Loading 32-bit quasi index [2019-01-24 12:54:00.339] [jointLog] [info] done [2019-01-24 12:54:00.339] [jointLog] [info] Index contained 49695 targets [2019-01-24 12:55:00.258] [jointLog] [info] Computed 66512 rich equivalence classes for further processing [2019-01-24 12:55:00.258] [jointLog] [info] Counted 13487415 total reads in the equivalence classes [2019-01-24 12:55:00.268] [jointLog] [warning] 0.047308% 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. [2019-01-24 12:55:00.268] [jointLog] [info] Mapping rate = 51.6943% [2019-01-24 12:55:00.268] [jointLog] [info] finished quantifyLibrary() [2019-01-24 12:55:00.268] [jointLog] [info] Starting optimizer [2019-01-24 12:55:00.301] [jointLog] [info] Marked 0 weighted equivalence classes as degenerate [2019-01-24 12:55:00.302] [jointLog] [info] iteration = 0 | max rel diff. = 208.963 [2019-01-24 12:55:00.259] [fileLog] [info] At end of round 0 ================== Observed 26090741 total fragments (26090741 in most recent round) [2019-01-24 12:55:00.430] [jointLog] [info] iteration = 100 | max rel diff. = 0.111392 [2019-01-24 12:55:00.555] [jointLog] [info] iteration = 200 | max rel diff. = 0.0546961 [2019-01-24 12:55:00.680] [jointLog] [info] iteration = 300 | max rel diff. = 0.0369432 [2019-01-24 12:55:00.806] [jointLog] [info] iteration = 400 | max rel diff. = 0.0309818 [2019-01-24 12:55:00.934] [jointLog] [info] iteration = 500 | max rel diff. = 0.0223858 [2019-01-24 12:55:01.060] [jointLog] [info] iteration = 600 | max rel diff. = 0.0182096 [2019-01-24 12:55:01.186] [jointLog] [info] iteration = 700 | max rel diff. = 0.0174845 [2019-01-24 12:55:01.312] [jointLog] [info] iteration = 800 | max rel diff. = 0.0143652 [2019-01-24 12:55:01.440] [jointLog] [info] iteration = 900 | max rel diff. = 0.0142066 [2019-01-24 12:55:01.567] [jointLog] [info] iteration = 1000 | max rel diff. = 0.0110121 [2019-01-24 12:55:01.695] [jointLog] [info] iteration = 1100 | max rel diff. = 0.0101322 [2019-01-24 12:55:01.828] [jointLog] [info] iteration = 1200 | max rel diff. = 0.0101323 [2019-01-24 12:55:01.838] [jointLog] [info] iteration = 1208 | max rel diff. = 0.00994035 [2019-01-24 12:55:01.846] [jointLog] [info] Finished optimizer [2019-01-24 12:55:01.846] [jointLog] [info] writing output [2019-01-24 12:55:01.939] [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_02/lib_format_counts.json for details [2019-01-24 20:43:07.633] [jointLog] [info] parsing read library format [2019-01-24 20:43:07.633] [jointLog] [info] There is 1 library. [2019-01-24 20:43:07.694] [jointLog] [info] Loading Quasi index [2019-01-24 20:43:07.694] [jointLog] [info] Loading 32-bit quasi index [2019-01-24 20:43:10.518] [jointLog] [info] done [2019-01-24 20:43:10.518] [jointLog] [info] Index contained 49695 targets [2019-01-24 20:44:12.119] [jointLog] [info] Computed 66512 rich equivalence classes for further processing [2019-01-24 20:44:12.119] [jointLog] [info] Counted 13487415 total reads in the equivalence classes [2019-01-24 20:44:12.130] [jointLog] [warning] 0.047308% 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. [2019-01-24 20:44:12.130] [jointLog] [info] Mapping rate = 51.6943% [2019-01-24 20:44:12.130] [jointLog] [info] finished quantifyLibrary() [2019-01-24 20:44:12.130] [jointLog] [info] Starting optimizer [2019-01-24 20:44:12.230] [jointLog] [info] Marked 0 weighted equivalence classes as degenerate [2019-01-24 20:44:12.231] [jointLog] [info] iteration = 0 | max rel diff. = 208.972 [2019-01-24 20:44:12.120] [fileLog] [info] At end of round 0 ================== Observed 26090741 total fragments (26090741 in most recent round) [2019-01-24 20:44:12.362] [jointLog] [info] iteration = 100 | max rel diff. = 0.115565 [2019-01-24 20:44:12.493] [jointLog] [info] iteration = 200 | max rel diff. = 0.0546013 [2019-01-24 20:44:12.622] [jointLog] [info] iteration = 300 | max rel diff. = 0.0373472 [2019-01-24 20:44:12.751] [jointLog] [info] iteration = 400 | max rel diff. = 0.029866 [2019-01-24 20:44:12.880] [jointLog] [info] iteration = 500 | max rel diff. = 0.0223884 [2019-01-24 20:44:13.009] [jointLog] [info] iteration = 600 | max rel diff. = 0.0182067 [2019-01-24 20:44:13.138] [jointLog] [info] iteration = 700 | max rel diff. = 0.0174467 [2019-01-24 20:44:13.267] [jointLog] [info] iteration = 800 | max rel diff. = 0.0143655 [2019-01-24 20:44:13.396] [jointLog] [info] iteration = 900 | max rel diff. = 0.0142059 [2019-01-24 20:44:13.526] [jointLog] [info] iteration = 1000 | max rel diff. = 0.011011 [2019-01-24 20:44:13.655] [jointLog] [info] iteration = 1100 | max rel diff. = 0.0101312 [2019-01-24 20:44:13.785] [jointLog] [info] iteration = 1200 | max rel diff. = 0.0101312 [2019-01-24 20:44:13.795] [jointLog] [info] iteration = 1209 | max rel diff. = 0.00993983 [2019-01-24 20:44:13.801] [jointLog] [info] Finished optimizer [2019-01-24 20:44:13.801] [jointLog] [info] writing output [2019-01-24 20:44:13.890] [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_02/lib_format_counts.json for details