[2019-01-24 12:07:26.575] [jointLog] [info] parsing read library format [2019-01-24 12:07:26.575] [jointLog] [info] There is 1 library. [2019-01-24 12:07:26.635] [jointLog] [info] Loading Quasi index [2019-01-24 12:07:26.635] [jointLog] [info] Loading 32-bit quasi index [2019-01-24 12:07:29.374] [jointLog] [info] done [2019-01-24 12:07:29.375] [jointLog] [info] Index contained 49695 targets [2019-01-24 12:08:46.540] [fileLog] [info] At end of round 0 ================== Observed 31656864 total fragments (31656864 in most recent round) [2019-01-24 12:08:46.539] [jointLog] [info] Computed 72303 rich equivalence classes for further processing [2019-01-24 12:08:46.539] [jointLog] [info] Counted 15490301 total reads in the equivalence classes [2019-01-24 12:08:46.548] [jointLog] [warning] 0.0123607% 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 12:08:46.548] [jointLog] [info] Mapping rate = 48.9319% [2019-01-24 12:08:46.548] [jointLog] [info] finished quantifyLibrary() [2019-01-24 12:08:46.548] [jointLog] [info] Starting optimizer [2019-01-24 12:08:46.591] [jointLog] [info] Marked 0 weighted equivalence classes as degenerate [2019-01-24 12:08:46.592] [jointLog] [info] iteration = 0 | max rel diff. = 240.468 [2019-01-24 12:08:46.726] [jointLog] [info] iteration = 100 | max rel diff. = 0.122524 [2019-01-24 12:08:46.861] [jointLog] [info] iteration = 200 | max rel diff. = 0.0555498 [2019-01-24 12:08:46.998] [jointLog] [info] iteration = 300 | max rel diff. = 0.0368269 [2019-01-24 12:08:47.134] [jointLog] [info] iteration = 400 | max rel diff. = 0.0270652 [2019-01-24 12:08:47.270] [jointLog] [info] iteration = 500 | max rel diff. = 0.0232316 [2019-01-24 12:08:47.408] [jointLog] [info] iteration = 600 | max rel diff. = 0.0190696 [2019-01-24 12:08:47.542] [jointLog] [info] iteration = 700 | max rel diff. = 0.0151902 [2019-01-24 12:08:47.673] [jointLog] [info] iteration = 800 | max rel diff. = 0.0131743 [2019-01-24 12:08:47.804] [jointLog] [info] iteration = 900 | max rel diff. = 0.0126244 [2019-01-24 12:08:47.935] [jointLog] [info] iteration = 1000 | max rel diff. = 0.0112004 [2019-01-24 12:08:48.064] [jointLog] [info] iteration = 1100 | max rel diff. = 0.0108678 [2019-01-24 12:08:48.196] [jointLog] [info] iteration = 1200 | max rel diff. = 0.0103802 [2019-01-24 12:08:48.326] [jointLog] [info] iteration = 1300 | max rel diff. = 0.0100706 [2019-01-24 12:08:48.371] [jointLog] [info] iteration = 1334 | max rel diff. = 0.00897812 [2019-01-24 12:08:48.380] [jointLog] [info] Finished optimizer [2019-01-24 12:08:48.380] [jointLog] [info] writing output [2019-01-24 12:08:48.469] [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: bleached_44_03/lib_format_counts.json for details [2019-01-24 12:47:40.003] [jointLog] [info] parsing read library format [2019-01-24 12:47:40.003] [jointLog] [info] There is 1 library. [2019-01-24 12:47:40.065] [jointLog] [info] Loading Quasi index [2019-01-24 12:47:40.065] [jointLog] [info] Loading 32-bit quasi index [2019-01-24 12:47:42.837] [jointLog] [info] done [2019-01-24 12:47:42.837] [jointLog] [info] Index contained 49695 targets [2019-01-24 12:49:00.812] [fileLog] [info] At end of round 0 ================== Observed 31656864 total fragments (31656864 in most recent round) [2019-01-24 12:49:00.811] [jointLog] [info] Computed 72303 rich equivalence classes for further processing [2019-01-24 12:49:00.811] [jointLog] [info] Counted 15490301 total reads in the equivalence classes [2019-01-24 12:49:00.820] [jointLog] [warning] 0.0123607% 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 12:49:00.820] [jointLog] [info] Mapping rate = 48.9319% [2019-01-24 12:49:00.820] [jointLog] [info] finished quantifyLibrary() [2019-01-24 12:49:00.820] [jointLog] [info] Starting optimizer [2019-01-24 12:49:00.868] [jointLog] [info] Marked 0 weighted equivalence classes as degenerate [2019-01-24 12:49:00.869] [jointLog] [info] iteration = 0 | max rel diff. = 240.469 [2019-01-24 12:49:01.000] [jointLog] [info] iteration = 100 | max rel diff. = 0.121265 [2019-01-24 12:49:01.128] [jointLog] [info] iteration = 200 | max rel diff. = 0.0553343 [2019-01-24 12:49:01.256] [jointLog] [info] iteration = 300 | max rel diff. = 0.0368311 [2019-01-24 12:49:01.384] [jointLog] [info] iteration = 400 | max rel diff. = 0.0288942 [2019-01-24 12:49:01.512] [jointLog] [info] iteration = 500 | max rel diff. = 0.023289 [2019-01-24 12:49:01.646] [jointLog] [info] iteration = 600 | max rel diff. = 0.019056 [2019-01-24 12:49:01.775] [jointLog] [info] iteration = 700 | max rel diff. = 0.0151831 [2019-01-24 12:49:01.904] [jointLog] [info] iteration = 800 | max rel diff. = 0.0131368 [2019-01-24 12:49:02.034] [jointLog] [info] iteration = 900 | max rel diff. = 0.0126246 [2019-01-24 12:49:02.163] [jointLog] [info] iteration = 1000 | max rel diff. = 0.0112256 [2019-01-24 12:49:02.294] [jointLog] [info] iteration = 1100 | max rel diff. = 0.0108676 [2019-01-24 12:49:02.426] [jointLog] [info] iteration = 1200 | max rel diff. = 0.0100705 [2019-01-24 12:49:02.557] [jointLog] [info] iteration = 1300 | max rel diff. = 0.0100706 [2019-01-24 12:49:02.600] [jointLog] [info] iteration = 1334 | max rel diff. = 0.00897819 [2019-01-24 12:49:02.605] [jointLog] [info] Finished optimizer [2019-01-24 12:49:02.605] [jointLog] [info] writing output [2019-01-24 12:49:02.694] [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: bleached_44_03/lib_format_counts.json for details [2019-01-24 20:36:49.576] [jointLog] [info] parsing read library format [2019-01-24 20:36:49.576] [jointLog] [info] There is 1 library. [2019-01-24 20:36:49.638] [jointLog] [info] Loading Quasi index [2019-01-24 20:36:49.638] [jointLog] [info] Loading 32-bit quasi index [2019-01-24 20:36:52.362] [jointLog] [info] done [2019-01-24 20:36:52.362] [jointLog] [info] Index contained 49695 targets [2019-01-24 20:38:10.532] [fileLog] [info] At end of round 0 ================== Observed 31656864 total fragments (31656864 in most recent round) [2019-01-24 20:38:10.531] [jointLog] [info] Computed 72303 rich equivalence classes for further processing [2019-01-24 20:38:10.531] [jointLog] [info] Counted 15490301 total reads in the equivalence classes [2019-01-24 20:38:10.541] [jointLog] [warning] 0.0123607% 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 20:38:10.541] [jointLog] [info] Mapping rate = 48.9319% [2019-01-24 20:38:10.541] [jointLog] [info] finished quantifyLibrary() [2019-01-24 20:38:10.541] [jointLog] [info] Starting optimizer [2019-01-24 20:38:10.586] [jointLog] [info] Marked 0 weighted equivalence classes as degenerate [2019-01-24 20:38:10.589] [jointLog] [info] iteration = 0 | max rel diff. = 240.467 [2019-01-24 20:38:10.724] [jointLog] [info] iteration = 100 | max rel diff. = 0.121879 [2019-01-24 20:38:10.858] [jointLog] [info] iteration = 200 | max rel diff. = 0.0554258 [2019-01-24 20:38:10.989] [jointLog] [info] iteration = 300 | max rel diff. = 0.0367977 [2019-01-24 20:38:11.122] [jointLog] [info] iteration = 400 | max rel diff. = 0.0264665 [2019-01-24 20:38:11.256] [jointLog] [info] iteration = 500 | max rel diff. = 0.0232654 [2019-01-24 20:38:11.387] [jointLog] [info] iteration = 600 | max rel diff. = 0.0203682 [2019-01-24 20:38:11.515] [jointLog] [info] iteration = 700 | max rel diff. = 0.0151962 [2019-01-24 20:38:11.643] [jointLog] [info] iteration = 800 | max rel diff. = 0.0132154 [2019-01-24 20:38:11.771] [jointLog] [info] iteration = 900 | max rel diff. = 0.0126242 [2019-01-24 20:38:11.901] [jointLog] [info] iteration = 1000 | max rel diff. = 0.0111944 [2019-01-24 20:38:12.032] [jointLog] [info] iteration = 1100 | max rel diff. = 0.0108682 [2019-01-24 20:38:12.162] [jointLog] [info] iteration = 1200 | max rel diff. = 0.0100707 [2019-01-24 20:38:12.291] [jointLog] [info] iteration = 1300 | max rel diff. = 0.0100707 [2019-01-24 20:38:12.335] [jointLog] [info] iteration = 1335 | max rel diff. = 0.00897824 [2019-01-24 20:38:12.339] [jointLog] [info] Finished optimizer [2019-01-24 20:38:12.339] [jointLog] [info] writing output [2019-01-24 20:38:12.429] [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: bleached_44_03/lib_format_counts.json for details