[2019-01-24 12:03:43.737] [jointLog] [info] parsing read library format [2019-01-24 12:03:43.737] [jointLog] [info] There is 1 library. [2019-01-24 12:03:43.798] [jointLog] [info] Loading Quasi index [2019-01-24 12:03:43.798] [jointLog] [info] Loading 32-bit quasi index [2019-01-24 12:03:46.524] [jointLog] [info] done [2019-01-24 12:03:46.524] [jointLog] [info] Index contained 49695 targets [2019-01-24 12:04:37.139] [fileLog] [info] At end of round 0 ================== Observed 21882333 total fragments (21882333 in most recent round) [2019-01-24 12:04:37.138] [jointLog] [info] Computed 61433 rich equivalence classes for further processing [2019-01-24 12:04:37.138] [jointLog] [info] Counted 11598043 total reads in the equivalence classes [2019-01-24 12:04:37.146] [jointLog] [warning] 0.0194906% 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 12:04:37.146] [jointLog] [info] Mapping rate = 53.0019% [2019-01-24 12:04:37.146] [jointLog] [info] finished quantifyLibrary() [2019-01-24 12:04:37.146] [jointLog] [info] Starting optimizer [2019-01-24 12:04:37.181] [jointLog] [info] Marked 0 weighted equivalence classes as degenerate [2019-01-24 12:04:37.182] [jointLog] [info] iteration = 0 | max rel diff. = 182.899 [2019-01-24 12:04:37.303] [jointLog] [info] iteration = 100 | max rel diff. = 0.114114 [2019-01-24 12:04:37.430] [jointLog] [info] iteration = 200 | max rel diff. = 0.0549202 [2019-01-24 12:04:37.552] [jointLog] [info] iteration = 300 | max rel diff. = 0.0381626 [2019-01-24 12:04:37.674] [jointLog] [info] iteration = 400 | max rel diff. = 0.028151 [2019-01-24 12:04:37.796] [jointLog] [info] iteration = 500 | max rel diff. = 0.0217495 [2019-01-24 12:04:37.918] [jointLog] [info] iteration = 600 | max rel diff. = 0.0178733 [2019-01-24 12:04:38.041] [jointLog] [info] iteration = 700 | max rel diff. = 0.0169543 [2019-01-24 12:04:38.164] [jointLog] [info] iteration = 800 | max rel diff. = 0.0150381 [2019-01-24 12:04:38.288] [jointLog] [info] iteration = 900 | max rel diff. = 0.0130835 [2019-01-24 12:04:38.412] [jointLog] [info] iteration = 1000 | max rel diff. = 0.0110031 [2019-01-24 12:04:38.537] [jointLog] [info] iteration = 1100 | max rel diff. = 0.0101261 [2019-01-24 12:04:38.663] [jointLog] [info] iteration = 1200 | max rel diff. = 0.0101262 [2019-01-24 12:04:38.682] [jointLog] [info] iteration = 1216 | max rel diff. = 0.00989764 [2019-01-24 12:04:38.686] [jointLog] [info] Finished optimizer [2019-01-24 12:04:38.686] [jointLog] [info] writing output [2019-01-24 12:04:38.772] [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_05/lib_format_counts.json for details [2019-01-24 12:44:04.780] [jointLog] [info] parsing read library format [2019-01-24 12:44:04.780] [jointLog] [info] There is 1 library. [2019-01-24 12:44:04.841] [jointLog] [info] Loading Quasi index [2019-01-24 12:44:04.841] [jointLog] [info] Loading 32-bit quasi index [2019-01-24 12:44:07.524] [jointLog] [info] done [2019-01-24 12:44:07.524] [jointLog] [info] Index contained 49695 targets [2019-01-24 12:44:55.982] [fileLog] [info] At end of round 0 ================== Observed 21882333 total fragments (21882333 in most recent round) [2019-01-24 12:44:55.981] [jointLog] [info] Computed 61433 rich equivalence classes for further processing [2019-01-24 12:44:55.981] [jointLog] [info] Counted 11598043 total reads in the equivalence classes [2019-01-24 12:44:55.989] [jointLog] [warning] 0.0194906% 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 12:44:55.989] [jointLog] [info] Mapping rate = 53.0019% [2019-01-24 12:44:55.989] [jointLog] [info] finished quantifyLibrary() [2019-01-24 12:44:55.990] [jointLog] [info] Starting optimizer [2019-01-24 12:44:56.028] [jointLog] [info] Marked 0 weighted equivalence classes as degenerate [2019-01-24 12:44:56.029] [jointLog] [info] iteration = 0 | max rel diff. = 182.877 [2019-01-24 12:44:56.149] [jointLog] [info] iteration = 100 | max rel diff. = 0.113855 [2019-01-24 12:44:56.269] [jointLog] [info] iteration = 200 | max rel diff. = 0.0549135 [2019-01-24 12:44:56.391] [jointLog] [info] iteration = 300 | max rel diff. = 0.038167 [2019-01-24 12:44:56.514] [jointLog] [info] iteration = 400 | max rel diff. = 0.0278776 [2019-01-24 12:44:56.639] [jointLog] [info] iteration = 500 | max rel diff. = 0.0227195 [2019-01-24 12:44:56.761] [jointLog] [info] iteration = 600 | max rel diff. = 0.018245 [2019-01-24 12:44:56.884] [jointLog] [info] iteration = 700 | max rel diff. = 0.0169549 [2019-01-24 12:44:57.006] [jointLog] [info] iteration = 800 | max rel diff. = 0.0149521 [2019-01-24 12:44:57.130] [jointLog] [info] iteration = 900 | max rel diff. = 0.0130581 [2019-01-24 12:44:57.255] [jointLog] [info] iteration = 1000 | max rel diff. = 0.0110052 [2019-01-24 12:44:57.380] [jointLog] [info] iteration = 1100 | max rel diff. = 0.0101284 [2019-01-24 12:44:57.509] [jointLog] [info] iteration = 1200 | max rel diff. = 0.0101285 [2019-01-24 12:44:57.528] [jointLog] [info] iteration = 1216 | max rel diff. = 0.00989865 [2019-01-24 12:44:57.533] [jointLog] [info] Finished optimizer [2019-01-24 12:44:57.533] [jointLog] [info] writing output [2019-01-24 12:44:57.627] [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_05/lib_format_counts.json for details [2019-01-24 20:33:12.698] [jointLog] [info] parsing read library format [2019-01-24 20:33:12.698] [jointLog] [info] There is 1 library. [2019-01-24 20:33:12.758] [jointLog] [info] Loading Quasi index [2019-01-24 20:33:12.758] [jointLog] [info] Loading 32-bit quasi index [2019-01-24 20:33:15.503] [jointLog] [info] done [2019-01-24 20:33:15.503] [jointLog] [info] Index contained 49695 targets [2019-01-24 20:34:04.087] [fileLog] [info] At end of round 0 ================== Observed 21882333 total fragments (21882333 in most recent round) [2019-01-24 20:34:04.087] [jointLog] [info] Computed 61433 rich equivalence classes for further processing [2019-01-24 20:34:04.087] [jointLog] [info] Counted 11598043 total reads in the equivalence classes [2019-01-24 20:34:04.098] [jointLog] [warning] 0.0194906% 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 20:34:04.098] [jointLog] [info] Mapping rate = 53.0019% [2019-01-24 20:34:04.098] [jointLog] [info] finished quantifyLibrary() [2019-01-24 20:34:04.098] [jointLog] [info] Starting optimizer [2019-01-24 20:34:04.127] [jointLog] [info] Marked 0 weighted equivalence classes as degenerate [2019-01-24 20:34:04.129] [jointLog] [info] iteration = 0 | max rel diff. = 182.899 [2019-01-24 20:34:04.248] [jointLog] [info] iteration = 100 | max rel diff. = 0.113743 [2019-01-24 20:34:04.366] [jointLog] [info] iteration = 200 | max rel diff. = 0.0549201 [2019-01-24 20:34:04.487] [jointLog] [info] iteration = 300 | max rel diff. = 0.0381628 [2019-01-24 20:34:04.611] [jointLog] [info] iteration = 400 | max rel diff. = 0.0278757 [2019-01-24 20:34:04.735] [jointLog] [info] iteration = 500 | max rel diff. = 0.0217951 [2019-01-24 20:34:04.859] [jointLog] [info] iteration = 600 | max rel diff. = 0.020357 [2019-01-24 20:34:04.983] [jointLog] [info] iteration = 700 | max rel diff. = 0.0169519 [2019-01-24 20:34:05.107] [jointLog] [info] iteration = 800 | max rel diff. = 0.0150391 [2019-01-24 20:34:05.232] [jointLog] [info] iteration = 900 | max rel diff. = 0.0130591 [2019-01-24 20:34:05.374] [jointLog] [info] iteration = 1000 | max rel diff. = 0.0110031 [2019-01-24 20:34:05.517] [jointLog] [info] iteration = 1100 | max rel diff. = 0.0101259 [2019-01-24 20:34:05.645] [jointLog] [info] iteration = 1200 | max rel diff. = 0.010126 [2019-01-24 20:34:05.664] [jointLog] [info] iteration = 1216 | max rel diff. = 0.00989767 [2019-01-24 20:34:05.669] [jointLog] [info] Finished optimizer [2019-01-24 20:34:05.669] [jointLog] [info] writing output [2019-01-24 20:34:05.754] [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_05/lib_format_counts.json for details