[2019-01-24 11:59:24.590] [jointLog] [info] parsing read library format [2019-01-24 11:59:24.591] [jointLog] [info] There is 1 library. [2019-01-24 11:59:24.652] [jointLog] [info] Loading Quasi index [2019-01-24 11:59:24.652] [jointLog] [info] Loading 32-bit quasi index [2019-01-24 11:59:27.439] [jointLog] [info] done [2019-01-24 11:59:27.439] [jointLog] [info] Index contained 49695 targets [2019-01-24 12:00:26.964] [fileLog] [info] At end of round 0 ================== Observed 24846918 total fragments (24846918 in most recent round) [2019-01-24 12:00:26.963] [jointLog] [info] Computed 64376 rich equivalence classes for further processing [2019-01-24 12:00:26.963] [jointLog] [info] Counted 11935577 total reads in the equivalence classes [2019-01-24 12:00:26.971] [jointLog] [warning] 0.00989258% 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 12:00:26.971] [jointLog] [info] Mapping rate = 48.0364% [2019-01-24 12:00:26.971] [jointLog] [info] finished quantifyLibrary() [2019-01-24 12:00:26.972] [jointLog] [info] Starting optimizer [2019-01-24 12:00:27.016] [jointLog] [info] Marked 0 weighted equivalence classes as degenerate [2019-01-24 12:00:27.018] [jointLog] [info] iteration = 0 | max rel diff. = 196.452 [2019-01-24 12:00:27.147] [jointLog] [info] iteration = 100 | max rel diff. = 0.11145 [2019-01-24 12:00:27.273] [jointLog] [info] iteration = 200 | max rel diff. = 0.0560959 [2019-01-24 12:00:27.400] [jointLog] [info] iteration = 300 | max rel diff. = 0.037257 [2019-01-24 12:00:27.526] [jointLog] [info] iteration = 400 | max rel diff. = 0.0288056 [2019-01-24 12:00:27.655] [jointLog] [info] iteration = 500 | max rel diff. = 0.0232774 [2019-01-24 12:00:27.781] [jointLog] [info] iteration = 600 | max rel diff. = 0.019209 [2019-01-24 12:00:27.908] [jointLog] [info] iteration = 700 | max rel diff. = 0.0171878 [2019-01-24 12:00:28.033] [jointLog] [info] iteration = 800 | max rel diff. = 0.0155186 [2019-01-24 12:00:28.158] [jointLog] [info] iteration = 900 | max rel diff. = 0.0130994 [2019-01-24 12:00:28.284] [jointLog] [info] iteration = 1000 | max rel diff. = 0.0116512 [2019-01-24 12:00:28.410] [jointLog] [info] iteration = 1100 | max rel diff. = 0.0105201 [2019-01-24 12:00:28.540] [jointLog] [info] iteration = 1200 | max rel diff. = 0.0101163 [2019-01-24 12:00:28.546] [jointLog] [info] iteration = 1205 | max rel diff. = 0.00972109 [2019-01-24 12:00:28.550] [jointLog] [info] Finished optimizer [2019-01-24 12:00:28.550] [jointLog] [info] writing output [2019-01-24 12:00:28.638] [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_01/lib_format_counts.json for details [2019-01-24 12:39:54.303] [jointLog] [info] parsing read library format [2019-01-24 12:39:54.303] [jointLog] [info] There is 1 library. [2019-01-24 12:39:54.366] [jointLog] [info] Loading Quasi index [2019-01-24 12:39:54.366] [jointLog] [info] Loading 32-bit quasi index [2019-01-24 12:39:57.144] [jointLog] [info] done [2019-01-24 12:39:57.144] [jointLog] [info] Index contained 49695 targets [2019-01-24 12:40:53.622] [jointLog] [info] Computed 64376 rich equivalence classes for further processing [2019-01-24 12:40:53.622] [jointLog] [info] Counted 11935577 total reads in the equivalence classes [2019-01-24 12:40:53.630] [jointLog] [warning] 0.00989258% 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 12:40:53.630] [jointLog] [info] Mapping rate = 48.0364% [2019-01-24 12:40:53.630] [jointLog] [info] finished quantifyLibrary() [2019-01-24 12:40:53.630] [jointLog] [info] Starting optimizer [2019-01-24 12:40:53.674] [jointLog] [info] Marked 0 weighted equivalence classes as degenerate [2019-01-24 12:40:53.676] [jointLog] [info] iteration = 0 | max rel diff. = 196.449 [2019-01-24 12:40:53.622] [fileLog] [info] At end of round 0 ================== Observed 24846918 total fragments (24846918 in most recent round) [2019-01-24 12:40:53.800] [jointLog] [info] iteration = 100 | max rel diff. = 0.115948 [2019-01-24 12:40:53.923] [jointLog] [info] iteration = 200 | max rel diff. = 0.0559935 [2019-01-24 12:40:54.050] [jointLog] [info] iteration = 300 | max rel diff. = 0.0372335 [2019-01-24 12:40:54.174] [jointLog] [info] iteration = 400 | max rel diff. = 0.0282316 [2019-01-24 12:40:54.297] [jointLog] [info] iteration = 500 | max rel diff. = 0.0219671 [2019-01-24 12:40:54.420] [jointLog] [info] iteration = 600 | max rel diff. = 0.0192106 [2019-01-24 12:40:54.548] [jointLog] [info] iteration = 700 | max rel diff. = 0.0155191 [2019-01-24 12:40:54.672] [jointLog] [info] iteration = 800 | max rel diff. = 0.0155192 [2019-01-24 12:40:54.797] [jointLog] [info] iteration = 900 | max rel diff. = 0.0130633 [2019-01-24 12:40:54.923] [jointLog] [info] iteration = 1000 | max rel diff. = 0.0118233 [2019-01-24 12:40:55.048] [jointLog] [info] iteration = 1100 | max rel diff. = 0.0105198 [2019-01-24 12:40:55.174] [jointLog] [info] iteration = 1200 | max rel diff. = 0.0101165 [2019-01-24 12:40:55.179] [jointLog] [info] iteration = 1205 | max rel diff. = 0.00967195 [2019-01-24 12:40:55.185] [jointLog] [info] Finished optimizer [2019-01-24 12:40:55.185] [jointLog] [info] writing output [2019-01-24 12:40:55.273] [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_01/lib_format_counts.json for details [2019-01-24 20:28:56.428] [jointLog] [info] parsing read library format [2019-01-24 20:28:56.428] [jointLog] [info] There is 1 library. [2019-01-24 20:28:56.487] [jointLog] [info] Loading Quasi index [2019-01-24 20:28:56.487] [jointLog] [info] Loading 32-bit quasi index [2019-01-24 20:28:59.267] [jointLog] [info] done [2019-01-24 20:28:59.267] [jointLog] [info] Index contained 49695 targets [2019-01-24 20:30:01.124] [jointLog] [info] Computed 64376 rich equivalence classes for further processing [2019-01-24 20:30:01.124] [jointLog] [info] Counted 11935577 total reads in the equivalence classes [2019-01-24 20:30:01.132] [jointLog] [warning] 0.00989258% 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 20:30:01.132] [jointLog] [info] Mapping rate = 48.0364% [2019-01-24 20:30:01.132] [jointLog] [info] finished quantifyLibrary() [2019-01-24 20:30:01.132] [jointLog] [info] Starting optimizer [2019-01-24 20:30:01.176] [jointLog] [info] Marked 0 weighted equivalence classes as degenerate [2019-01-24 20:30:01.178] [jointLog] [info] iteration = 0 | max rel diff. = 196.449 [2019-01-24 20:30:01.125] [fileLog] [info] At end of round 0 ================== Observed 24846918 total fragments (24846918 in most recent round) [2019-01-24 20:30:01.302] [jointLog] [info] iteration = 100 | max rel diff. = 0.111444 [2019-01-24 20:30:01.425] [jointLog] [info] iteration = 200 | max rel diff. = 0.0560557 [2019-01-24 20:30:01.547] [jointLog] [info] iteration = 300 | max rel diff. = 0.0372287 [2019-01-24 20:30:01.675] [jointLog] [info] iteration = 400 | max rel diff. = 0.0279104 [2019-01-24 20:30:01.799] [jointLog] [info] iteration = 500 | max rel diff. = 0.0217925 [2019-01-24 20:30:01.923] [jointLog] [info] iteration = 600 | max rel diff. = 0.0192097 [2019-01-24 20:30:02.047] [jointLog] [info] iteration = 700 | max rel diff. = 0.0172511 [2019-01-24 20:30:02.173] [jointLog] [info] iteration = 800 | max rel diff. = 0.0155193 [2019-01-24 20:30:02.298] [jointLog] [info] iteration = 900 | max rel diff. = 0.0130546 [2019-01-24 20:30:02.425] [jointLog] [info] iteration = 1000 | max rel diff. = 0.0116435 [2019-01-24 20:30:02.551] [jointLog] [info] iteration = 1100 | max rel diff. = 0.01052 [2019-01-24 20:30:02.680] [jointLog] [info] iteration = 1200 | max rel diff. = 0.0101162 [2019-01-24 20:30:02.685] [jointLog] [info] iteration = 1205 | max rel diff. = 0.009706 [2019-01-24 20:30:02.693] [jointLog] [info] Finished optimizer [2019-01-24 20:30:02.693] [jointLog] [info] writing output [2019-01-24 20:30:02.791] [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_01/lib_format_counts.json for details