[2019-01-24 12:06:26.918] [jointLog] [info] parsing read library format [2019-01-24 12:06:26.918] [jointLog] [info] There is 1 library. [2019-01-24 12:06:26.980] [jointLog] [info] Loading Quasi index [2019-01-24 12:06:26.980] [jointLog] [info] Loading 32-bit quasi index [2019-01-24 12:06:29.715] [jointLog] [info] done [2019-01-24 12:06:29.715] [jointLog] [info] Index contained 49695 targets [2019-01-24 12:07:23.322] [fileLog] [info] At end of round 0 ================== Observed 21939168 total fragments (21939168 in most recent round) [2019-01-24 12:07:23.321] [jointLog] [info] Computed 67767 rich equivalence classes for further processing [2019-01-24 12:07:23.321] [jointLog] [info] Counted 11293046 total reads in the equivalence classes [2019-01-24 12:07:23.330] [jointLog] [warning] 0.0142576% 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 12:07:23.330] [jointLog] [info] Mapping rate = 51.4744% [2019-01-24 12:07:23.330] [jointLog] [info] finished quantifyLibrary() [2019-01-24 12:07:23.330] [jointLog] [info] Starting optimizer [2019-01-24 12:07:23.469] [jointLog] [info] Marked 0 weighted equivalence classes as degenerate [2019-01-24 12:07:23.471] [jointLog] [info] iteration = 0 | max rel diff. = 181.99 [2019-01-24 12:07:23.600] [jointLog] [info] iteration = 100 | max rel diff. = 0.111055 [2019-01-24 12:07:23.728] [jointLog] [info] iteration = 200 | max rel diff. = 0.055056 [2019-01-24 12:07:23.856] [jointLog] [info] iteration = 300 | max rel diff. = 0.0384648 [2019-01-24 12:07:23.984] [jointLog] [info] iteration = 400 | max rel diff. = 0.0282859 [2019-01-24 12:07:24.111] [jointLog] [info] iteration = 500 | max rel diff. = 0.0217705 [2019-01-24 12:07:24.243] [jointLog] [info] iteration = 600 | max rel diff. = 0.0219947 [2019-01-24 12:07:24.374] [jointLog] [info] iteration = 700 | max rel diff. = 0.0160776 [2019-01-24 12:07:24.503] [jointLog] [info] iteration = 800 | max rel diff. = 0.0145652 [2019-01-24 12:07:24.635] [jointLog] [info] iteration = 900 | max rel diff. = 0.0121607 [2019-01-24 12:07:24.770] [jointLog] [info] iteration = 1000 | max rel diff. = 0.011675 [2019-01-24 12:07:24.906] [jointLog] [info] iteration = 1100 | max rel diff. = 0.01044 [2019-01-24 12:07:25.038] [jointLog] [info] iteration = 1200 | max rel diff. = 0.0104401 [2019-01-24 12:07:25.057] [jointLog] [info] iteration = 1216 | max rel diff. = 0.00875313 [2019-01-24 12:07:25.061] [jointLog] [info] Finished optimizer [2019-01-24 12:07:25.061] [jointLog] [info] writing output [2019-01-24 12:07:25.155] [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_02/lib_format_counts.json for details [2019-01-24 12:46:43.141] [jointLog] [info] parsing read library format [2019-01-24 12:46:43.141] [jointLog] [info] There is 1 library. [2019-01-24 12:46:43.204] [jointLog] [info] Loading Quasi index [2019-01-24 12:46:43.204] [jointLog] [info] Loading 32-bit quasi index [2019-01-24 12:46:46.011] [jointLog] [info] done [2019-01-24 12:46:46.011] [jointLog] [info] Index contained 49695 targets [2019-01-24 12:47:37.044] [jointLog] [info] Computed 67767 rich equivalence classes for further processing [2019-01-24 12:47:37.044] [jointLog] [info] Counted 11293046 total reads in the equivalence classes [2019-01-24 12:47:37.055] [jointLog] [warning] 0.0142576% 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 12:47:37.055] [jointLog] [info] Mapping rate = 51.4744% [2019-01-24 12:47:37.055] [jointLog] [info] finished quantifyLibrary() [2019-01-24 12:47:37.055] [jointLog] [info] Starting optimizer [2019-01-24 12:47:37.098] [jointLog] [info] Marked 0 weighted equivalence classes as degenerate [2019-01-24 12:47:37.099] [jointLog] [info] iteration = 0 | max rel diff. = 181.526 [2019-01-24 12:47:37.044] [fileLog] [info] At end of round 0 ================== Observed 21939168 total fragments (21939168 in most recent round) [2019-01-24 12:47:37.230] [jointLog] [info] iteration = 100 | max rel diff. = 0.111038 [2019-01-24 12:47:37.360] [jointLog] [info] iteration = 200 | max rel diff. = 0.055134 [2019-01-24 12:47:37.492] [jointLog] [info] iteration = 300 | max rel diff. = 0.0529038 [2019-01-24 12:47:37.622] [jointLog] [info] iteration = 400 | max rel diff. = 0.0282847 [2019-01-24 12:47:37.752] [jointLog] [info] iteration = 500 | max rel diff. = 0.0217364 [2019-01-24 12:47:37.883] [jointLog] [info] iteration = 600 | max rel diff. = 0.0219636 [2019-01-24 12:47:38.009] [jointLog] [info] iteration = 700 | max rel diff. = 0.0160771 [2019-01-24 12:47:38.137] [jointLog] [info] iteration = 800 | max rel diff. = 0.0145653 [2019-01-24 12:47:38.265] [jointLog] [info] iteration = 900 | max rel diff. = 0.0121383 [2019-01-24 12:47:38.391] [jointLog] [info] iteration = 1000 | max rel diff. = 0.0116742 [2019-01-24 12:47:38.474] [jointLog] [info] iteration = 1067 | max rel diff. = 0.009953 [2019-01-24 12:47:38.479] [jointLog] [info] Finished optimizer [2019-01-24 12:47:38.479] [jointLog] [info] writing output [2019-01-24 12:47:38.567] [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_02/lib_format_counts.json for details [2019-01-24 20:35:52.718] [jointLog] [info] parsing read library format [2019-01-24 20:35:52.718] [jointLog] [info] There is 1 library. [2019-01-24 20:35:52.778] [jointLog] [info] Loading Quasi index [2019-01-24 20:35:52.778] [jointLog] [info] Loading 32-bit quasi index [2019-01-24 20:35:55.630] [jointLog] [info] done [2019-01-24 20:35:55.630] [jointLog] [info] Index contained 49695 targets [2019-01-24 20:36:46.426] [fileLog] [info] At end of round 0 ================== Observed 21939168 total fragments (21939168 in most recent round) [2019-01-24 20:36:46.426] [jointLog] [info] Computed 67767 rich equivalence classes for further processing [2019-01-24 20:36:46.426] [jointLog] [info] Counted 11293046 total reads in the equivalence classes [2019-01-24 20:36:46.434] [jointLog] [warning] 0.0142576% 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 20:36:46.435] [jointLog] [info] Mapping rate = 51.4744% [2019-01-24 20:36:46.435] [jointLog] [info] finished quantifyLibrary() [2019-01-24 20:36:46.435] [jointLog] [info] Starting optimizer [2019-01-24 20:36:46.469] [jointLog] [info] Marked 0 weighted equivalence classes as degenerate [2019-01-24 20:36:46.471] [jointLog] [info] iteration = 0 | max rel diff. = 181.99 [2019-01-24 20:36:46.603] [jointLog] [info] iteration = 100 | max rel diff. = 0.111053 [2019-01-24 20:36:46.728] [jointLog] [info] iteration = 200 | max rel diff. = 0.0549641 [2019-01-24 20:36:46.853] [jointLog] [info] iteration = 300 | max rel diff. = 0.0384646 [2019-01-24 20:36:46.979] [jointLog] [info] iteration = 400 | max rel diff. = 0.0282863 [2019-01-24 20:36:47.104] [jointLog] [info] iteration = 500 | max rel diff. = 0.0218018 [2019-01-24 20:36:47.230] [jointLog] [info] iteration = 600 | max rel diff. = 0.0220224 [2019-01-24 20:36:47.356] [jointLog] [info] iteration = 700 | max rel diff. = 0.0160771 [2019-01-24 20:36:47.481] [jointLog] [info] iteration = 800 | max rel diff. = 0.0145656 [2019-01-24 20:36:47.608] [jointLog] [info] iteration = 900 | max rel diff. = 0.012139 [2019-01-24 20:36:47.734] [jointLog] [info] iteration = 1000 | max rel diff. = 0.0116756 [2019-01-24 20:36:47.861] [jointLog] [info] iteration = 1100 | max rel diff. = 0.0103384 [2019-01-24 20:36:47.991] [jointLog] [info] iteration = 1200 | max rel diff. = 0.0103384 [2019-01-24 20:36:48.026] [jointLog] [info] iteration = 1228 | max rel diff. = 0.00876464 [2019-01-24 20:36:48.030] [jointLog] [info] Finished optimizer [2019-01-24 20:36:48.030] [jointLog] [info] writing output [2019-01-24 20:36:48.118] [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_02/lib_format_counts.json for details