[2019-01-24 12:08:50.138] [jointLog] [info] parsing read library format [2019-01-24 12:08:50.138] [jointLog] [info] There is 1 library. [2019-01-24 12:08:50.199] [jointLog] [info] Loading Quasi index [2019-01-24 12:08:50.199] [jointLog] [info] Loading 32-bit quasi index [2019-01-24 12:08:52.982] [jointLog] [info] done [2019-01-24 12:08:52.982] [jointLog] [info] Index contained 49695 targets [2019-01-24 12:09:46.647] [jointLog] [info] Computed 62169 rich equivalence classes for further processing [2019-01-24 12:09:46.647] [jointLog] [info] Counted 12605879 total reads in the equivalence classes [2019-01-24 12:09:46.655] [jointLog] [warning] 0.0207925% 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 12:09:46.655] [jointLog] [info] Mapping rate = 52.823% [2019-01-24 12:09:46.655] [jointLog] [info] finished quantifyLibrary() [2019-01-24 12:09:46.655] [jointLog] [info] Starting optimizer [2019-01-24 12:09:46.695] [jointLog] [info] Marked 0 weighted equivalence classes as degenerate [2019-01-24 12:09:46.696] [jointLog] [info] iteration = 0 | max rel diff. = 200.722 [2019-01-24 12:09:46.648] [fileLog] [info] At end of round 0 ================== Observed 23864387 total fragments (23864387 in most recent round) [2019-01-24 12:09:46.835] [jointLog] [info] iteration = 100 | max rel diff. = 0.116691 [2019-01-24 12:09:46.955] [jointLog] [info] iteration = 200 | max rel diff. = 0.054439 [2019-01-24 12:09:47.075] [jointLog] [info] iteration = 300 | max rel diff. = 0.0363258 [2019-01-24 12:09:47.199] [jointLog] [info] iteration = 400 | max rel diff. = 0.0283503 [2019-01-24 12:09:47.319] [jointLog] [info] iteration = 500 | max rel diff. = 0.0225884 [2019-01-24 12:09:47.443] [jointLog] [info] iteration = 600 | max rel diff. = 0.0197088 [2019-01-24 12:09:47.564] [jointLog] [info] iteration = 700 | max rel diff. = 0.0166926 [2019-01-24 12:09:47.687] [jointLog] [info] iteration = 800 | max rel diff. = 0.0145053 [2019-01-24 12:09:47.813] [jointLog] [info] iteration = 900 | max rel diff. = 0.0126437 [2019-01-24 12:09:47.939] [jointLog] [info] iteration = 1000 | max rel diff. = 0.0122782 [2019-01-24 12:09:48.063] [jointLog] [info] iteration = 1100 | max rel diff. = 0.0122782 [2019-01-24 12:09:48.188] [jointLog] [info] iteration = 1200 | max rel diff. = 0.0103528 [2019-01-24 12:09:48.205] [jointLog] [info] iteration = 1214 | max rel diff. = 0.00901314 [2019-01-24 12:09:48.209] [jointLog] [info] Finished optimizer [2019-01-24 12:09:48.209] [jointLog] [info] writing output [2019-01-24 12:09:48.295] [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_01/lib_format_counts.json for details [2019-01-24 12:49:04.083] [jointLog] [info] parsing read library format [2019-01-24 12:49:04.083] [jointLog] [info] There is 1 library. [2019-01-24 12:49:04.144] [jointLog] [info] Loading Quasi index [2019-01-24 12:49:04.144] [jointLog] [info] Loading 32-bit quasi index [2019-01-24 12:49:06.980] [jointLog] [info] done [2019-01-24 12:49:06.980] [jointLog] [info] Index contained 49695 targets [2019-01-24 12:50:00.261] [fileLog] [info] At end of round 0 ================== Observed 23864387 total fragments (23864387 in most recent round) [2019-01-24 12:50:00.260] [jointLog] [info] Computed 62169 rich equivalence classes for further processing [2019-01-24 12:50:00.260] [jointLog] [info] Counted 12605879 total reads in the equivalence classes [2019-01-24 12:50:00.268] [jointLog] [warning] 0.0207925% 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 12:50:00.268] [jointLog] [info] Mapping rate = 52.823% [2019-01-24 12:50:00.268] [jointLog] [info] finished quantifyLibrary() [2019-01-24 12:50:00.269] [jointLog] [info] Starting optimizer [2019-01-24 12:50:00.304] [jointLog] [info] Marked 0 weighted equivalence classes as degenerate [2019-01-24 12:50:00.306] [jointLog] [info] iteration = 0 | max rel diff. = 200.726 [2019-01-24 12:50:00.429] [jointLog] [info] iteration = 100 | max rel diff. = 0.116691 [2019-01-24 12:50:00.549] [jointLog] [info] iteration = 200 | max rel diff. = 0.05444 [2019-01-24 12:50:00.670] [jointLog] [info] iteration = 300 | max rel diff. = 0.0361125 [2019-01-24 12:50:00.791] [jointLog] [info] iteration = 400 | max rel diff. = 0.0283501 [2019-01-24 12:50:00.913] [jointLog] [info] iteration = 500 | max rel diff. = 0.0225887 [2019-01-24 12:50:01.040] [jointLog] [info] iteration = 600 | max rel diff. = 0.0197749 [2019-01-24 12:50:01.162] [jointLog] [info] iteration = 700 | max rel diff. = 0.0168482 [2019-01-24 12:50:01.286] [jointLog] [info] iteration = 800 | max rel diff. = 0.0145049 [2019-01-24 12:50:01.409] [jointLog] [info] iteration = 900 | max rel diff. = 0.0126433 [2019-01-24 12:50:01.537] [jointLog] [info] iteration = 1000 | max rel diff. = 0.0122783 [2019-01-24 12:50:01.661] [jointLog] [info] iteration = 1100 | max rel diff. = 0.0122783 [2019-01-24 12:50:01.779] [jointLog] [info] iteration = 1195 | max rel diff. = 0.00974132 [2019-01-24 12:50:01.784] [jointLog] [info] Finished optimizer [2019-01-24 12:50:01.784] [jointLog] [info] writing output [2019-01-24 12:50:01.870] [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_01/lib_format_counts.json for details [2019-01-24 20:38:14.053] [jointLog] [info] parsing read library format [2019-01-24 20:38:14.053] [jointLog] [info] There is 1 library. [2019-01-24 20:38:14.115] [jointLog] [info] Loading Quasi index [2019-01-24 20:38:14.115] [jointLog] [info] Loading 32-bit quasi index [2019-01-24 20:38:16.889] [jointLog] [info] done [2019-01-24 20:38:16.889] [jointLog] [info] Index contained 49695 targets [2019-01-24 20:39:13.243] [fileLog] [info] At end of round 0 ================== Observed 23864387 total fragments (23864387 in most recent round) [2019-01-24 20:39:13.242] [jointLog] [info] Computed 62169 rich equivalence classes for further processing [2019-01-24 20:39:13.242] [jointLog] [info] Counted 12605879 total reads in the equivalence classes [2019-01-24 20:39:13.251] [jointLog] [warning] 0.0207925% 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 20:39:13.251] [jointLog] [info] Mapping rate = 52.823% [2019-01-24 20:39:13.251] [jointLog] [info] finished quantifyLibrary() [2019-01-24 20:39:13.251] [jointLog] [info] Starting optimizer [2019-01-24 20:39:13.291] [jointLog] [info] Marked 0 weighted equivalence classes as degenerate [2019-01-24 20:39:13.292] [jointLog] [info] iteration = 0 | max rel diff. = 200.725 [2019-01-24 20:39:13.415] [jointLog] [info] iteration = 100 | max rel diff. = 0.116693 [2019-01-24 20:39:13.536] [jointLog] [info] iteration = 200 | max rel diff. = 0.0544396 [2019-01-24 20:39:13.657] [jointLog] [info] iteration = 300 | max rel diff. = 0.0363253 [2019-01-24 20:39:13.781] [jointLog] [info] iteration = 400 | max rel diff. = 0.0283504 [2019-01-24 20:39:13.907] [jointLog] [info] iteration = 500 | max rel diff. = 0.0225882 [2019-01-24 20:39:14.030] [jointLog] [info] iteration = 600 | max rel diff. = 0.0197365 [2019-01-24 20:39:14.153] [jointLog] [info] iteration = 700 | max rel diff. = 0.0166923 [2019-01-24 20:39:14.276] [jointLog] [info] iteration = 800 | max rel diff. = 0.0145051 [2019-01-24 20:39:14.399] [jointLog] [info] iteration = 900 | max rel diff. = 0.0126437 [2019-01-24 20:39:14.523] [jointLog] [info] iteration = 1000 | max rel diff. = 0.0122782 [2019-01-24 20:39:14.647] [jointLog] [info] iteration = 1100 | max rel diff. = 0.0122782 [2019-01-24 20:39:14.771] [jointLog] [info] iteration = 1200 | max rel diff. = 0.0103527 [2019-01-24 20:39:14.788] [jointLog] [info] iteration = 1214 | max rel diff. = 0.00901315 [2019-01-24 20:39:14.792] [jointLog] [info] Finished optimizer [2019-01-24 20:39:14.792] [jointLog] [info] writing output [2019-01-24 20:39:14.883] [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_01/lib_format_counts.json for details