[2019-01-24 12:04:40.199] [jointLog] [info] parsing read library format [2019-01-24 12:04:40.199] [jointLog] [info] There is 1 library. [2019-01-24 12:04:40.261] [jointLog] [info] Loading Quasi index [2019-01-24 12:04:40.261] [jointLog] [info] Loading 32-bit quasi index [2019-01-24 12:04:43.037] [jointLog] [info] done [2019-01-24 12:04:43.037] [jointLog] [info] Index contained 49695 targets [2019-01-24 12:05:21.181] [fileLog] [info] At end of round 0 ================== Observed 17285483 total fragments (17285483 in most recent round) [2019-01-24 12:05:21.180] [jointLog] [info] Computed 57063 rich equivalence classes for further processing [2019-01-24 12:05:21.180] [jointLog] [info] Counted 8593018 total reads in the equivalence classes [2019-01-24 12:05:21.187] [jointLog] [warning] 0.0100547% 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 12:05:21.187] [jointLog] [info] Mapping rate = 49.7123% [2019-01-24 12:05:21.187] [jointLog] [info] finished quantifyLibrary() [2019-01-24 12:05:21.188] [jointLog] [info] Starting optimizer [2019-01-24 12:05:21.223] [jointLog] [info] Marked 0 weighted equivalence classes as degenerate [2019-01-24 12:05:21.224] [jointLog] [info] iteration = 0 | max rel diff. = 155.209 [2019-01-24 12:05:21.341] [jointLog] [info] iteration = 100 | max rel diff. = 0.109987 [2019-01-24 12:05:21.459] [jointLog] [info] iteration = 200 | max rel diff. = 0.0537334 [2019-01-24 12:05:21.581] [jointLog] [info] iteration = 300 | max rel diff. = 0.0432938 [2019-01-24 12:05:21.699] [jointLog] [info] iteration = 400 | max rel diff. = 0.0273277 [2019-01-24 12:05:21.818] [jointLog] [info] iteration = 500 | max rel diff. = 0.022358 [2019-01-24 12:05:21.937] [jointLog] [info] iteration = 600 | max rel diff. = 0.0188516 [2019-01-24 12:05:22.056] [jointLog] [info] iteration = 700 | max rel diff. = 0.0158014 [2019-01-24 12:05:22.176] [jointLog] [info] iteration = 800 | max rel diff. = 0.0146258 [2019-01-24 12:05:22.299] [jointLog] [info] iteration = 900 | max rel diff. = 0.012036 [2019-01-24 12:05:22.423] [jointLog] [info] iteration = 1000 | max rel diff. = 0.0113605 [2019-01-24 12:05:22.545] [jointLog] [info] iteration = 1100 | max rel diff. = 0.0104482 [2019-01-24 12:05:22.586] [jointLog] [info] iteration = 1135 | max rel diff. = 0.00904966 [2019-01-24 12:05:22.591] [jointLog] [info] Finished optimizer [2019-01-24 12:05:22.591] [jointLog] [info] writing output [2019-01-24 12:05:22.675] [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_K5_06/lib_format_counts.json for details [2019-01-24 12:44:59.033] [jointLog] [info] parsing read library format [2019-01-24 12:44:59.033] [jointLog] [info] There is 1 library. [2019-01-24 12:44:59.096] [jointLog] [info] Loading Quasi index [2019-01-24 12:44:59.096] [jointLog] [info] Loading 32-bit quasi index [2019-01-24 12:45:01.891] [jointLog] [info] done [2019-01-24 12:45:01.891] [jointLog] [info] Index contained 49695 targets [2019-01-24 12:45:39.686] [jointLog] [info] Computed 57063 rich equivalence classes for further processing [2019-01-24 12:45:39.686] [jointLog] [info] Counted 8593018 total reads in the equivalence classes [2019-01-24 12:45:39.694] [jointLog] [warning] 0.0100547% 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 12:45:39.694] [jointLog] [info] Mapping rate = 49.7123% [2019-01-24 12:45:39.694] [jointLog] [info] finished quantifyLibrary() [2019-01-24 12:45:39.694] [jointLog] [info] Starting optimizer [2019-01-24 12:45:39.728] [jointLog] [info] Marked 0 weighted equivalence classes as degenerate [2019-01-24 12:45:39.730] [jointLog] [info] iteration = 0 | max rel diff. = 155.194 [2019-01-24 12:45:39.851] [jointLog] [info] iteration = 100 | max rel diff. = 0.109994 [2019-01-24 12:45:39.687] [fileLog] [info] At end of round 0 ================== Observed 17285483 total fragments (17285483 in most recent round) [2019-01-24 12:45:39.976] [jointLog] [info] iteration = 200 | max rel diff. = 0.0537004 [2019-01-24 12:45:40.097] [jointLog] [info] iteration = 300 | max rel diff. = 0.0433025 [2019-01-24 12:45:40.219] [jointLog] [info] iteration = 400 | max rel diff. = 0.027385 [2019-01-24 12:45:40.343] [jointLog] [info] iteration = 500 | max rel diff. = 0.0237261 [2019-01-24 12:45:40.465] [jointLog] [info] iteration = 600 | max rel diff. = 0.0184484 [2019-01-24 12:45:40.589] [jointLog] [info] iteration = 700 | max rel diff. = 0.015803 [2019-01-24 12:45:40.712] [jointLog] [info] iteration = 800 | max rel diff. = 0.0138807 [2019-01-24 12:45:40.840] [jointLog] [info] iteration = 900 | max rel diff. = 0.0120374 [2019-01-24 12:45:40.967] [jointLog] [info] iteration = 1000 | max rel diff. = 0.011361 [2019-01-24 12:45:41.094] [jointLog] [info] iteration = 1100 | max rel diff. = 0.0104487 [2019-01-24 12:45:41.135] [jointLog] [info] iteration = 1134 | max rel diff. = 0.00905072 [2019-01-24 12:45:41.140] [jointLog] [info] Finished optimizer [2019-01-24 12:45:41.140] [jointLog] [info] writing output [2019-01-24 12:45:41.230] [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_K5_06/lib_format_counts.json for details [2019-01-24 20:34:07.197] [jointLog] [info] parsing read library format [2019-01-24 20:34:07.197] [jointLog] [info] There is 1 library. [2019-01-24 20:34:07.258] [jointLog] [info] Loading Quasi index [2019-01-24 20:34:07.258] [jointLog] [info] Loading 32-bit quasi index [2019-01-24 20:34:10.063] [jointLog] [info] done [2019-01-24 20:34:10.063] [jointLog] [info] Index contained 49695 targets [2019-01-24 20:34:49.601] [fileLog] [info] At end of round 0 ================== Observed 17285483 total fragments (17285483 in most recent round) [2019-01-24 20:34:49.600] [jointLog] [info] Computed 57063 rich equivalence classes for further processing [2019-01-24 20:34:49.600] [jointLog] [info] Counted 8593018 total reads in the equivalence classes [2019-01-24 20:34:49.608] [jointLog] [warning] 0.0100547% 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 20:34:49.608] [jointLog] [info] Mapping rate = 49.7123% [2019-01-24 20:34:49.608] [jointLog] [info] finished quantifyLibrary() [2019-01-24 20:34:49.608] [jointLog] [info] Starting optimizer [2019-01-24 20:34:49.637] [jointLog] [info] Marked 0 weighted equivalence classes as degenerate [2019-01-24 20:34:49.638] [jointLog] [info] iteration = 0 | max rel diff. = 155.209 [2019-01-24 20:34:49.765] [jointLog] [info] iteration = 100 | max rel diff. = 0.109989 [2019-01-24 20:34:49.891] [jointLog] [info] iteration = 200 | max rel diff. = 0.0537113 [2019-01-24 20:34:50.013] [jointLog] [info] iteration = 300 | max rel diff. = 0.0432942 [2019-01-24 20:34:50.132] [jointLog] [info] iteration = 400 | max rel diff. = 0.0273283 [2019-01-24 20:34:50.252] [jointLog] [info] iteration = 500 | max rel diff. = 0.0235596 [2019-01-24 20:34:50.373] [jointLog] [info] iteration = 600 | max rel diff. = 0.0184223 [2019-01-24 20:34:50.493] [jointLog] [info] iteration = 700 | max rel diff. = 0.0158013 [2019-01-24 20:34:50.614] [jointLog] [info] iteration = 800 | max rel diff. = 0.0139032 [2019-01-24 20:34:50.735] [jointLog] [info] iteration = 900 | max rel diff. = 0.0120352 [2019-01-24 20:34:50.857] [jointLog] [info] iteration = 1000 | max rel diff. = 0.0113604 [2019-01-24 20:34:50.979] [jointLog] [info] iteration = 1100 | max rel diff. = 0.010448 [2019-01-24 20:34:51.020] [jointLog] [info] iteration = 1134 | max rel diff. = 0.00905003 [2019-01-24 20:34:51.025] [jointLog] [info] Finished optimizer [2019-01-24 20:34:51.025] [jointLog] [info] writing output [2019-01-24 20:34:51.108] [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_K5_06/lib_format_counts.json for details