[2019-01-24 12:00:30.300] [jointLog] [info] parsing read library format [2019-01-24 12:00:30.300] [jointLog] [info] There is 1 library. [2019-01-24 12:00:30.361] [jointLog] [info] Loading Quasi index [2019-01-24 12:00:30.361] [jointLog] [info] Loading 32-bit quasi index [2019-01-24 12:00:33.088] [jointLog] [info] done [2019-01-24 12:00:33.088] [jointLog] [info] Index contained 49695 targets [2019-01-24 12:01:17.512] [fileLog] [info] At end of round 0 ================== Observed 18366968 total fragments (18366968 in most recent round) [2019-01-24 12:01:17.511] [jointLog] [info] Computed 64760 rich equivalence classes for further processing [2019-01-24 12:01:17.511] [jointLog] [info] Counted 9296657 total reads in the equivalence classes [2019-01-24 12:01:17.520] [jointLog] [warning] 0.0114771% 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 12:01:17.520] [jointLog] [info] Mapping rate = 50.6162% [2019-01-24 12:01:17.520] [jointLog] [info] finished quantifyLibrary() [2019-01-24 12:01:17.520] [jointLog] [info] Starting optimizer [2019-01-24 12:01:17.553] [jointLog] [info] Marked 0 weighted equivalence classes as degenerate [2019-01-24 12:01:17.554] [jointLog] [info] iteration = 0 | max rel diff. = 170.93 [2019-01-24 12:01:17.680] [jointLog] [info] iteration = 100 | max rel diff. = 0.111749 [2019-01-24 12:01:17.805] [jointLog] [info] iteration = 200 | max rel diff. = 0.0558003 [2019-01-24 12:01:17.933] [jointLog] [info] iteration = 300 | max rel diff. = 0.036431 [2019-01-24 12:01:18.058] [jointLog] [info] iteration = 400 | max rel diff. = 0.0280233 [2019-01-24 12:01:18.184] [jointLog] [info] iteration = 500 | max rel diff. = 0.0220557 [2019-01-24 12:01:18.309] [jointLog] [info] iteration = 600 | max rel diff. = 0.0187146 [2019-01-24 12:01:18.437] [jointLog] [info] iteration = 700 | max rel diff. = 0.0178621 [2019-01-24 12:01:18.565] [jointLog] [info] iteration = 800 | max rel diff. = 0.0141096 [2019-01-24 12:01:18.693] [jointLog] [info] iteration = 900 | max rel diff. = 0.0117568 [2019-01-24 12:01:18.820] [jointLog] [info] iteration = 1000 | max rel diff. = 0.0110949 [2019-01-24 12:01:18.950] [jointLog] [info] iteration = 1100 | max rel diff. = 0.0101888 [2019-01-24 12:01:19.076] [jointLog] [info] iteration = 1199 | max rel diff. = 0.00894854 [2019-01-24 12:01:19.080] [jointLog] [info] Finished optimizer [2019-01-24 12:01:19.080] [jointLog] [info] writing output [2019-01-24 12:01:19.174] [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_02/lib_format_counts.json for details [2019-01-24 12:40:56.577] [jointLog] [info] parsing read library format [2019-01-24 12:40:56.577] [jointLog] [info] There is 1 library. [2019-01-24 12:40:56.638] [jointLog] [info] Loading Quasi index [2019-01-24 12:40:56.638] [jointLog] [info] Loading 32-bit quasi index [2019-01-24 12:40:59.369] [jointLog] [info] done [2019-01-24 12:40:59.369] [jointLog] [info] Index contained 49695 targets [2019-01-24 12:41:44.347] [fileLog] [info] At end of round 0 ================== Observed 18366968 total fragments (18366968 in most recent round) [2019-01-24 12:41:44.346] [jointLog] [info] Computed 64760 rich equivalence classes for further processing [2019-01-24 12:41:44.346] [jointLog] [info] Counted 9296657 total reads in the equivalence classes [2019-01-24 12:41:44.355] [jointLog] [warning] 0.0114771% 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 12:41:44.355] [jointLog] [info] Mapping rate = 50.6162% [2019-01-24 12:41:44.355] [jointLog] [info] finished quantifyLibrary() [2019-01-24 12:41:44.355] [jointLog] [info] Starting optimizer [2019-01-24 12:41:44.389] [jointLog] [info] Marked 0 weighted equivalence classes as degenerate [2019-01-24 12:41:44.391] [jointLog] [info] iteration = 0 | max rel diff. = 170.907 [2019-01-24 12:41:44.518] [jointLog] [info] iteration = 100 | max rel diff. = 0.111755 [2019-01-24 12:41:44.644] [jointLog] [info] iteration = 200 | max rel diff. = 0.0563049 [2019-01-24 12:41:44.770] [jointLog] [info] iteration = 300 | max rel diff. = 0.0364394 [2019-01-24 12:41:44.898] [jointLog] [info] iteration = 400 | max rel diff. = 0.0280339 [2019-01-24 12:41:45.025] [jointLog] [info] iteration = 500 | max rel diff. = 0.0220594 [2019-01-24 12:41:45.151] [jointLog] [info] iteration = 600 | max rel diff. = 0.0187149 [2019-01-24 12:41:45.279] [jointLog] [info] iteration = 700 | max rel diff. = 0.0178601 [2019-01-24 12:41:45.408] [jointLog] [info] iteration = 800 | max rel diff. = 0.0141023 [2019-01-24 12:41:45.537] [jointLog] [info] iteration = 900 | max rel diff. = 0.0117612 [2019-01-24 12:41:45.666] [jointLog] [info] iteration = 1000 | max rel diff. = 0.0110978 [2019-01-24 12:41:45.800] [jointLog] [info] iteration = 1100 | max rel diff. = 0.0101907 [2019-01-24 12:41:45.893] [jointLog] [info] iteration = 1172 | max rel diff. = 0.00889743 [2019-01-24 12:41:45.898] [jointLog] [info] Finished optimizer [2019-01-24 12:41:45.898] [jointLog] [info] writing output [2019-01-24 12:41:45.994] [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_02/lib_format_counts.json for details [2019-01-24 20:30:04.091] [jointLog] [info] parsing read library format [2019-01-24 20:30:04.091] [jointLog] [info] There is 1 library. [2019-01-24 20:30:04.154] [jointLog] [info] Loading Quasi index [2019-01-24 20:30:04.154] [jointLog] [info] Loading 32-bit quasi index [2019-01-24 20:30:06.937] [jointLog] [info] done [2019-01-24 20:30:06.937] [jointLog] [info] Index contained 49695 targets [2019-01-24 20:30:50.998] [jointLog] [info] Computed 64760 rich equivalence classes for further processing [2019-01-24 20:30:50.998] [jointLog] [info] Counted 9296657 total reads in the equivalence classes [2019-01-24 20:30:51.007] [jointLog] [warning] 0.0114771% 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 20:30:51.007] [jointLog] [info] Mapping rate = 50.6162% [2019-01-24 20:30:51.007] [jointLog] [info] finished quantifyLibrary() [2019-01-24 20:30:51.007] [jointLog] [info] Starting optimizer [2019-01-24 20:30:51.045] [jointLog] [info] Marked 0 weighted equivalence classes as degenerate [2019-01-24 20:30:51.046] [jointLog] [info] iteration = 0 | max rel diff. = 170.931 [2019-01-24 20:30:50.999] [fileLog] [info] At end of round 0 ================== Observed 18366968 total fragments (18366968 in most recent round) [2019-01-24 20:30:51.169] [jointLog] [info] iteration = 100 | max rel diff. = 0.111748 [2019-01-24 20:30:51.290] [jointLog] [info] iteration = 200 | max rel diff. = 0.0558071 [2019-01-24 20:30:51.412] [jointLog] [info] iteration = 300 | max rel diff. = 0.0364306 [2019-01-24 20:30:51.536] [jointLog] [info] iteration = 400 | max rel diff. = 0.0280263 [2019-01-24 20:30:51.658] [jointLog] [info] iteration = 500 | max rel diff. = 0.0220556 [2019-01-24 20:30:51.779] [jointLog] [info] iteration = 600 | max rel diff. = 0.0187145 [2019-01-24 20:30:51.901] [jointLog] [info] iteration = 700 | max rel diff. = 0.0179586 [2019-01-24 20:30:52.027] [jointLog] [info] iteration = 800 | max rel diff. = 0.0141097 [2019-01-24 20:30:52.150] [jointLog] [info] iteration = 900 | max rel diff. = 0.0117583 [2019-01-24 20:30:52.273] [jointLog] [info] iteration = 1000 | max rel diff. = 0.0110945 [2019-01-24 20:30:52.397] [jointLog] [info] iteration = 1100 | max rel diff. = 0.0110354 [2019-01-24 20:30:52.486] [jointLog] [info] iteration = 1173 | max rel diff. = 0.00960069 [2019-01-24 20:30:52.491] [jointLog] [info] Finished optimizer [2019-01-24 20:30:52.491] [jointLog] [info] writing output [2019-01-24 20:30:52.583] [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_02/lib_format_counts.json for details