Command line: /home/unix/scalvo/.conda/envs/isoquant/bin/isoquant.py --reference ../AcaNeff.dna.fasta --bam T1.r1.mini.bam --data_type pacbio_ccs --labels T1.r1.mini --output out_mini_default
2023-12-05 14:47:34,055 - INFO - Running IsoQuant version 3.3.1
2023-12-05 14:47:34,073 - INFO -  === IsoQuant pipeline started === 
2023-12-05 14:47:34,073 - INFO - Loading reference genome from /broad/moothalab/sandbox/scalvo/paramcarta/acanthamoeba/pacbio/AcaNeff.dna.fasta
2023-12-05 14:47:34,083 - INFO - Processing 1 sample
2023-12-05 14:47:34,083 - INFO - Processing sample OUT
2023-12-05 14:47:34,083 - INFO - Sample has 1 BAM file: T1.r1.mini.bam
2023-12-05 14:47:34,087 - INFO - Collecting read alignments
2023-12-05 14:47:34,268 - INFO - Processing chromosome scaffold_10
2023-12-05 14:47:34,272 - INFO - Processing chromosome scaffold_6
2023-12-05 14:47:34,276 - INFO - Processing chromosome scaffold_7
2023-12-05 14:47:34,280 - INFO - Processing chromosome scaffold_8
2023-12-05 14:47:34,282 - INFO - Processing chromosome scaffold_5
2023-12-05 14:47:34,287 - INFO - Processing chromosome scaffold_3
2023-12-05 14:47:34,289 - INFO - Processing chromosome scaffold_4
2023-12-05 14:47:34,292 - INFO - Processing chromosome scaffold_9
2023-12-05 14:47:34,296 - INFO - Processing chromosome scaffold_2
2023-12-05 14:47:34,298 - INFO - Processing chromosome scaffold_1
2023-12-05 14:47:34,310 - INFO - Processing chromosome scaffold_11
2023-12-05 14:47:34,312 - INFO - Processing chromosome scaffold_12
2023-12-05 14:47:34,319 - INFO - Processing chromosome scaffold_14
2023-12-05 14:47:34,322 - INFO - Processing chromosome scaffold_13
2023-12-05 14:47:34,325 - INFO - Processing chromosome scaffold_16
2023-12-05 14:47:34,326 - INFO - Finished processing chromosome scaffold_6
2023-12-05 14:47:34,327 - INFO - Finished processing chromosome scaffold_10
2023-12-05 14:47:34,330 - INFO - Finished processing chromosome scaffold_7
2023-12-05 14:47:34,332 - INFO - Finished processing chromosome scaffold_8
2023-12-05 14:47:34,334 - INFO - Finished processing chromosome scaffold_5
2023-12-05 14:47:34,335 - INFO - Finished processing chromosome scaffold_3
2023-12-05 14:47:34,337 - INFO - Finished processing chromosome scaffold_4
2023-12-05 14:47:34,338 - INFO - Finished processing chromosome scaffold_2
2023-12-05 14:47:34,340 - INFO - Finished processing chromosome scaffold_9
2023-12-05 14:47:34,354 - INFO - Finished processing chromosome scaffold_11
2023-12-05 14:47:34,354 - INFO - Finished processing chromosome scaffold_12
2023-12-05 14:47:34,355 - INFO - Processing chromosome scaffold_15
2023-12-05 14:47:34,389 - INFO - Finished processing chromosome scaffold_14
2023-12-05 14:47:34,405 - INFO - Finished processing chromosome scaffold_13
2023-12-05 14:47:34,422 - INFO - Finished processing chromosome scaffold_16
2023-12-05 14:47:34,498 - INFO - Finished processing chromosome scaffold_15
2023-12-05 14:47:34,547 - INFO - Processing chromosome scaffold_17
2023-12-05 14:47:34,550 - INFO - Processing chromosome scaffold_18
2023-12-05 14:47:34,551 - INFO - Processing chromosome scaffold_19
2023-12-05 14:47:34,553 - INFO - Processing chromosome scaffold_20
2023-12-05 14:47:34,555 - INFO - Processing chromosome scaffold_21
2023-12-05 14:47:34,557 - INFO - Processing chromosome scaffold_22
2023-12-05 14:47:34,559 - INFO - Processing chromosome scaffold_24
2023-12-05 14:47:34,561 - INFO - Processing chromosome scaffold_23
2023-12-05 14:47:34,563 - INFO - Processing chromosome scaffold_25
2023-12-05 14:47:34,565 - INFO - Processing chromosome scaffold_26
2023-12-05 14:47:34,567 - INFO - Processing chromosome scaffold_27
2023-12-05 14:47:34,568 - INFO - Processing chromosome scaffold_28
2023-12-05 14:47:34,572 - INFO - Processing chromosome scaffold_29
2023-12-05 14:47:34,574 - INFO - Processing chromosome scaffold_30
2023-12-05 14:47:34,576 - INFO - Finished processing chromosome scaffold_17
2023-12-05 14:47:34,577 - INFO - Finished processing chromosome scaffold_1
2023-12-05 14:47:34,578 - INFO - Finished processing chromosome scaffold_18
2023-12-05 14:47:34,580 - INFO - Finished processing chromosome scaffold_19
2023-12-05 14:47:34,581 - INFO - Finished processing chromosome scaffold_20
2023-12-05 14:47:34,583 - INFO - Finished processing chromosome scaffold_21
2023-12-05 14:47:34,584 - INFO - Finished processing chromosome scaffold_22
2023-12-05 14:47:34,586 - INFO - Finished processing chromosome scaffold_24
2023-12-05 14:47:34,587 - INFO - Finished processing chromosome scaffold_23
2023-12-05 14:47:34,589 - INFO - Finished processing chromosome scaffold_25
2023-12-05 14:47:34,590 - INFO - Finished processing chromosome scaffold_26
2023-12-05 14:47:34,592 - INFO - Finished processing chromosome scaffold_27
2023-12-05 14:47:34,594 - INFO - Finished processing chromosome scaffold_28
2023-12-05 14:47:34,596 - INFO - Processing chromosome scaffold_31
2023-12-05 14:47:34,597 - INFO - Finished processing chromosome scaffold_29
2023-12-05 14:47:34,598 - INFO - Finished processing chromosome scaffold_30
2023-12-05 14:47:34,627 - INFO - Finished processing chromosome scaffold_31
2023-12-05 14:47:34,633 - INFO - Processing chromosome scaffold_32
2023-12-05 14:47:34,637 - INFO - Processing chromosome scaffold_34
2023-12-05 14:47:34,638 - INFO - Processing chromosome scaffold_36
2023-12-05 14:47:34,640 - INFO - Processing chromosome scaffold_35
2023-12-05 14:47:34,642 - INFO - Processing chromosome scaffold_37
2023-12-05 14:47:34,644 - INFO - Processing chromosome NC_001637.1
2023-12-05 14:47:34,646 - INFO - Processing chromosome scaffold_38
2023-12-05 14:47:34,648 - INFO - Processing chromosome scaffold_39
2023-12-05 14:47:34,650 - INFO - Processing chromosome scaffold_41
2023-12-05 14:47:34,651 - INFO - Processing chromosome scaffold_42
2023-12-05 14:47:34,653 - INFO - Processing chromosome scaffold_43
2023-12-05 14:47:34,655 - INFO - Processing chromosome scaffold_40
2023-12-05 14:47:34,660 - INFO - Processing chromosome scaffold_44
2023-12-05 14:47:34,661 - INFO - Processing chromosome scaffold_45
2023-12-05 14:47:34,663 - INFO - Processing chromosome scaffold_33
2023-12-05 14:47:34,664 - INFO - Finished processing chromosome scaffold_32
2023-12-05 14:47:34,666 - INFO - Finished processing chromosome scaffold_34
2023-12-05 14:47:34,667 - INFO - Finished processing chromosome scaffold_36
2023-12-05 14:47:34,669 - INFO - Finished processing chromosome scaffold_35
2023-12-05 14:47:34,670 - INFO - Finished processing chromosome scaffold_37
2023-12-05 14:47:34,672 - INFO - Finished processing chromosome NC_001637.1
2023-12-05 14:47:34,673 - INFO - Finished processing chromosome scaffold_38
2023-12-05 14:47:34,675 - INFO - Finished processing chromosome scaffold_39
2023-12-05 14:47:34,676 - INFO - Finished processing chromosome scaffold_41
2023-12-05 14:47:34,678 - INFO - Finished processing chromosome scaffold_42
2023-12-05 14:47:34,680 - INFO - Finished processing chromosome scaffold_43
2023-12-05 14:47:34,682 - INFO - Processing chromosome scaffold_46
2023-12-05 14:47:34,683 - INFO - Finished processing chromosome scaffold_40
2023-12-05 14:47:34,685 - INFO - Finished processing chromosome scaffold_44
2023-12-05 14:47:34,686 - INFO - Finished processing chromosome scaffold_45
2023-12-05 14:47:34,688 - INFO - Finished processing chromosome scaffold_33
2023-12-05 14:47:34,706 - INFO - Processing chromosome scaffold_48
2023-12-05 14:47:34,713 - INFO - Finished processing chromosome scaffold_46
2023-12-05 14:47:34,723 - INFO - Processing chromosome scaffold_58
2023-12-05 14:47:34,726 - INFO - Processing chromosome scaffold_47
2023-12-05 14:47:34,728 - INFO - Processing chromosome scaffold_49
2023-12-05 14:47:34,731 - INFO - Processing chromosome scaffold_50
2023-12-05 14:47:34,732 - INFO - Processing chromosome scaffold_51
2023-12-05 14:47:34,735 - INFO - Processing chromosome scaffold_52
2023-12-05 14:47:34,737 - INFO - Processing chromosome scaffold_54
2023-12-05 14:47:34,739 - INFO - Processing chromosome scaffold_53
2023-12-05 14:47:34,741 - INFO - Processing chromosome scaffold_55
2023-12-05 14:47:34,742 - INFO - Processing chromosome scaffold_56
2023-12-05 14:47:34,744 - INFO - Processing chromosome scaffold_57
2023-12-05 14:47:34,747 - INFO - Finished processing chromosome scaffold_48
2023-12-05 14:47:34,752 - INFO - Processing chromosome scaffold_59
2023-12-05 14:47:34,754 - INFO - Processing chromosome scaffold_60
2023-12-05 14:47:34,755 - INFO - Finished processing chromosome scaffold_58
2023-12-05 14:47:34,757 - INFO - Processing chromosome scaffold_61
2023-12-05 14:47:34,759 - INFO - Finished processing chromosome scaffold_47
2023-12-05 14:47:34,760 - INFO - Finished processing chromosome scaffold_49
2023-12-05 14:47:34,762 - INFO - Finished processing chromosome scaffold_50
2023-12-05 14:47:34,764 - INFO - Finished processing chromosome scaffold_51
2023-12-05 14:47:34,766 - INFO - Finished processing chromosome scaffold_52
2023-12-05 14:47:34,768 - INFO - Finished processing chromosome scaffold_54
2023-12-05 14:47:34,770 - INFO - Finished processing chromosome scaffold_53
2023-12-05 14:47:34,771 - INFO - Finished processing chromosome scaffold_55
2023-12-05 14:47:34,772 - INFO - Finished processing chromosome scaffold_56
2023-12-05 14:47:34,774 - INFO - Finished processing chromosome scaffold_57
2023-12-05 14:47:34,779 - INFO - Processing chromosome scaffold_62
2023-12-05 14:47:34,780 - INFO - Finished processing chromosome scaffold_59
2023-12-05 14:47:34,782 - INFO - Finished processing chromosome scaffold_60
2023-12-05 14:47:34,785 - INFO - Finished processing chromosome scaffold_61
2023-12-05 14:47:34,810 - INFO - Processing chromosome scaffold_63
2023-12-05 14:47:34,810 - INFO - Finished processing chromosome scaffold_62
2023-12-05 14:47:34,818 - INFO - Processing chromosome scaffold_64
2023-12-05 14:47:34,822 - INFO - Processing chromosome scaffold_66
2023-12-05 14:47:34,824 - INFO - Processing chromosome scaffold_65
2023-12-05 14:47:34,826 - INFO - Processing chromosome scaffold_67
2023-12-05 14:47:34,828 - INFO - Processing chromosome scaffold_68
2023-12-05 14:47:34,830 - INFO - Processing chromosome scaffold_69
2023-12-05 14:47:34,832 - INFO - Processing chromosome scaffold_70
2023-12-05 14:47:34,834 - INFO - Processing chromosome scaffold_71
2023-12-05 14:47:34,836 - INFO - Processing chromosome scaffold_73
2023-12-05 14:47:34,838 - INFO - Processing chromosome scaffold_74
2023-12-05 14:47:34,843 - INFO - Processing chromosome scaffold_72
2023-12-05 14:47:34,843 - INFO - Finished processing chromosome scaffold_74
2023-12-05 14:47:34,846 - INFO - Finished processing chromosome scaffold_63
2023-12-05 14:47:34,849 - INFO - Processing chromosome scaffold_76
2023-12-05 14:47:34,851 - INFO - Processing chromosome scaffold_75
2023-12-05 14:47:34,852 - INFO - Finished processing chromosome scaffold_64
2023-12-05 14:47:34,854 - INFO - Processing chromosome scaffold_77
2023-12-05 14:47:34,855 - INFO - Finished processing chromosome scaffold_66
2023-12-05 14:47:34,857 - INFO - Finished processing chromosome scaffold_65
2023-12-05 14:47:34,858 - INFO - Finished processing chromosome scaffold_67
2023-12-05 14:47:34,860 - INFO - Finished processing chromosome scaffold_68
2023-12-05 14:47:34,862 - INFO - Finished processing chromosome scaffold_69
2023-12-05 14:47:34,863 - INFO - Finished processing chromosome scaffold_70
2023-12-05 14:47:34,865 - INFO - Finished processing chromosome scaffold_71
2023-12-05 14:47:34,867 - INFO - Finished processing chromosome scaffold_73
2023-12-05 14:47:34,870 - INFO - Finished processing chromosome scaffold_72
2023-12-05 14:47:34,871 - INFO - Processing chromosome scaffold_78
2023-12-05 14:47:34,876 - INFO - Finished processing chromosome scaffold_76
2023-12-05 14:47:34,878 - INFO - Finished processing chromosome scaffold_75
2023-12-05 14:47:34,881 - INFO - Finished processing chromosome scaffold_77
2023-12-05 14:47:34,902 - INFO - Processing chromosome scaffold_88
2023-12-05 14:47:34,904 - INFO - Processing chromosome scaffold_79
2023-12-05 14:47:34,905 - INFO - Finished processing chromosome scaffold_78
2023-12-05 14:47:34,909 - INFO - Processing chromosome scaffold_80
2023-12-05 14:47:34,915 - INFO - Processing chromosome scaffold_81
2023-12-05 14:47:34,916 - INFO - Finished processing chromosome scaffold_80
2023-12-05 14:47:34,922 - INFO - Processing chromosome scaffold_82
2023-12-05 14:47:34,924 - INFO - Processing chromosome scaffold_83
2023-12-05 14:47:34,926 - INFO - Processing chromosome scaffold_84
2023-12-05 14:47:34,929 - INFO - Processing chromosome scaffold_85
2023-12-05 14:47:34,930 - INFO - Processing chromosome scaffold_86
2023-12-05 14:47:34,932 - INFO - Processing chromosome scaffold_87
2023-12-05 14:47:34,934 - INFO - Processing chromosome scaffold_90
2023-12-05 14:47:34,936 - INFO - Processing chromosome scaffold_89
2023-12-05 14:47:34,937 - INFO - Finished processing chromosome scaffold_88
2023-12-05 14:47:34,940 - INFO - Finished processing chromosome scaffold_79
2023-12-05 14:47:34,943 - INFO - Processing chromosome scaffold_91
2023-12-05 14:47:34,944 - INFO - Processing chromosome scaffold_92
2023-12-05 14:47:34,946 - INFO - Finished processing chromosome scaffold_81
2023-12-05 14:47:34,951 - INFO - Processing chromosome scaffold_93
2023-12-05 14:47:34,952 - INFO - Finished processing chromosome scaffold_82
2023-12-05 14:47:34,953 - INFO - Finished processing chromosome scaffold_83
2023-12-05 14:47:34,955 - INFO - Finished processing chromosome scaffold_84
2023-12-05 14:47:34,958 - INFO - Finished processing chromosome scaffold_85
2023-12-05 14:47:34,961 - INFO - Finished processing chromosome scaffold_86
2023-12-05 14:47:34,962 - INFO - Finished processing chromosome scaffold_87
2023-12-05 14:47:34,964 - INFO - Finished processing chromosome scaffold_90
2023-12-05 14:47:34,965 - INFO - Finished processing chromosome scaffold_89
2023-12-05 14:47:34,972 - INFO - Processing chromosome scaffold_94
2023-12-05 14:47:34,972 - INFO - Finished processing chromosome scaffold_91
2023-12-05 14:47:34,974 - INFO - Finished processing chromosome scaffold_92
2023-12-05 14:47:34,980 - INFO - Processing chromosome scaffold_95
2023-12-05 14:47:34,981 - INFO - Finished processing chromosome scaffold_93
2023-12-05 14:47:34,991 - INFO - Processing chromosome scaffold_100
2023-12-05 14:47:34,993 - INFO - Processing chromosome scaffold_96
2023-12-05 14:47:35,004 - INFO - Processing chromosome scaffold_97
2023-12-05 14:47:35,008 - INFO - Processing chromosome scaffold_98
2023-12-05 14:47:35,009 - INFO - Finished processing chromosome scaffold_94
2023-12-05 14:47:35,014 - INFO - Processing chromosome scaffold_99
2023-12-05 14:47:35,015 - INFO - Finished processing chromosome scaffold_95
2023-12-05 14:47:35,019 - INFO - Processing chromosome scaffold_101
2023-12-05 14:47:35,021 - INFO - Processing chromosome scaffold_102
2023-12-05 14:47:35,022 - INFO - Finished processing chromosome scaffold_100
2023-12-05 14:47:35,023 - INFO - Finished processing chromosome scaffold_96
2023-12-05 14:47:35,026 - INFO - Processing chromosome scaffold_103
2023-12-05 14:47:35,028 - INFO - Processing chromosome scaffold_104
2023-12-05 14:47:35,029 - INFO - Processing chromosome scaffold_105
2023-12-05 14:47:35,031 - INFO - Processing chromosome scaffold_106
2023-12-05 14:47:35,032 - INFO - Finished processing chromosome scaffold_97
2023-12-05 14:47:35,034 - INFO - Processing chromosome scaffold_107
2023-12-05 14:47:35,037 - INFO - Finished processing chromosome scaffold_98
2023-12-05 14:47:35,041 - INFO - Processing chromosome scaffold_108
2023-12-05 14:47:35,042 - INFO - Finished processing chromosome scaffold_99
2023-12-05 14:47:35,047 - INFO - Processing chromosome scaffold_109
2023-12-05 14:47:35,048 - INFO - Finished processing chromosome scaffold_101
2023-12-05 14:47:35,050 - INFO - Finished processing chromosome scaffold_102
2023-12-05 14:47:35,054 - INFO - Finished processing chromosome scaffold_103
2023-12-05 14:47:35,056 - INFO - Finished processing chromosome scaffold_104
2023-12-05 14:47:35,058 - INFO - Finished processing chromosome scaffold_105
2023-12-05 14:47:35,060 - INFO - Finished processing chromosome scaffold_106
2023-12-05 14:47:35,063 - INFO - Finished processing chromosome scaffold_107
2023-12-05 14:47:35,067 - INFO - Processing chromosome scaffold_110
2023-12-05 14:47:35,071 - INFO - Finished processing chromosome scaffold_108
2023-12-05 14:47:35,075 - INFO - Processing chromosome scaffold_111
2023-12-05 14:47:35,077 - INFO - Finished processing chromosome scaffold_109
2023-12-05 14:47:35,083 - INFO - Processing chromosome scaffold_112
2023-12-05 14:47:35,088 - INFO - Processing chromosome scaffold_113
2023-12-05 14:47:35,098 - INFO - Processing chromosome scaffold_114
2023-12-05 14:47:35,100 - INFO - Finished processing chromosome scaffold_110
2023-12-05 14:47:35,105 - INFO - Processing chromosome scaffold_115
2023-12-05 14:47:35,109 - INFO - Processing chromosome scaffold_116
2023-12-05 14:47:35,110 - INFO - Finished processing chromosome scaffold_111
2023-12-05 14:47:35,114 - INFO - Processing chromosome scaffold_117
2023-12-05 14:47:35,116 - INFO - Processing chromosome scaffold_118
2023-12-05 14:47:35,118 - INFO - Processing chromosome scaffold_119
2023-12-05 14:47:35,119 - INFO - Finished processing chromosome scaffold_112
2023-12-05 14:47:35,121 - INFO - Finished processing chromosome scaffold_113
2023-12-05 14:47:35,123 - INFO - Processing chromosome scaffold_120
2023-12-05 14:47:35,125 - INFO - Processing chromosome scaffold_121
2023-12-05 14:47:35,127 - INFO - Processing chromosome scaffold_122
2023-12-05 14:47:35,131 - INFO - Finished processing chromosome scaffold_114
2023-12-05 14:47:35,131 - INFO - Processing chromosome scaffold_123
2023-12-05 14:47:35,134 - INFO - Processing chromosome scaffold_124
2023-12-05 14:47:35,135 - INFO - Finished processing chromosome scaffold_115
2023-12-05 14:47:35,137 - INFO - Finished processing chromosome scaffold_116
2023-12-05 14:47:35,141 - INFO - Processing chromosome scaffold_125
2023-12-05 14:47:35,143 - INFO - Finished processing chromosome scaffold_117
2023-12-05 14:47:35,144 - INFO - Finished processing chromosome scaffold_118
2023-12-05 14:47:35,146 - INFO - Finished processing chromosome scaffold_119
2023-12-05 14:47:35,150 - INFO - Finished processing chromosome scaffold_120
2023-12-05 14:47:35,153 - INFO - Finished processing chromosome scaffold_121
2023-12-05 14:47:35,155 - INFO - Finished processing chromosome scaffold_122
2023-12-05 14:47:35,157 - INFO - Processing chromosome scaffold_126
2023-12-05 14:47:35,160 - INFO - Finished processing chromosome scaffold_123
2023-12-05 14:47:35,162 - INFO - Finished processing chromosome scaffold_124
2023-12-05 14:47:35,170 - INFO - Processing chromosome scaffold_127
2023-12-05 14:47:35,171 - INFO - Finished processing chromosome scaffold_125
2023-12-05 14:47:35,180 - INFO - Processing chromosome scaffold_128
2023-12-05 14:47:35,188 - INFO - Processing chromosome scaffold_129
2023-12-05 14:47:35,189 - INFO - Finished processing chromosome scaffold_126
2023-12-05 14:47:35,198 - INFO - Processing chromosome scaffold_130
2023-12-05 14:47:35,200 - INFO - Processing chromosome scaffold_132
2023-12-05 14:47:35,202 - INFO - Processing chromosome scaffold_131
2023-12-05 14:47:35,206 - INFO - Finished processing chromosome scaffold_127
2023-12-05 14:47:35,208 - INFO - Processing chromosome scaffold_133
2023-12-05 14:47:35,209 - INFO - Processing chromosome scaffold_134
2023-12-05 14:47:35,211 - INFO - Processing chromosome scaffold_135
2023-12-05 14:47:35,213 - INFO - Processing chromosome scaffold_136
2023-12-05 14:47:35,214 - INFO - Finished processing chromosome scaffold_128
2023-12-05 14:47:35,217 - INFO - Processing chromosome scaffold_137
2023-12-05 14:47:35,219 - INFO - Processing chromosome scaffold_138
2023-12-05 14:47:35,220 - INFO - Finished processing chromosome scaffold_129
2023-12-05 14:47:35,225 - INFO - Processing chromosome scaffold_139
2023-12-05 14:47:35,227 - INFO - Processing chromosome scaffold_140
2023-12-05 14:47:35,228 - INFO - Finished processing chromosome scaffold_130
2023-12-05 14:47:35,230 - INFO - Finished processing chromosome scaffold_139
2023-12-05 14:47:35,232 - INFO - Finished processing chromosome scaffold_132
2023-12-05 14:47:35,233 - INFO - Finished processing chromosome scaffold_131
2023-12-05 14:47:35,238 - INFO - Processing chromosome scaffold_141
2023-12-05 14:47:35,238 - INFO - Finished processing chromosome scaffold_133
2023-12-05 14:47:35,240 - INFO - Finished processing chromosome scaffold_134
2023-12-05 14:47:35,241 - INFO - Finished processing chromosome scaffold_135
2023-12-05 14:47:35,244 - INFO - Finished processing chromosome scaffold_136
2023-12-05 14:47:35,246 - INFO - Finished processing chromosome scaffold_137
2023-12-05 14:47:35,249 - INFO - Finished processing chromosome scaffold_138
2023-12-05 14:47:35,253 - INFO - Processing chromosome scaffold_142
2023-12-05 14:47:35,256 - INFO - Finished processing chromosome scaffold_140
2023-12-05 14:47:35,267 - INFO - Processing chromosome scaffold_143
2023-12-05 14:47:35,272 - INFO - Finished processing chromosome scaffold_141
2023-12-05 14:47:35,282 - INFO - Processing chromosome scaffold_144
2023-12-05 14:47:35,287 - INFO - Processing chromosome scaffold_145
2023-12-05 14:47:35,289 - INFO - Finished processing chromosome scaffold_142
2023-12-05 14:47:35,294 - INFO - Processing chromosome scaffold_146
2023-12-05 14:47:35,296 - INFO - Processing chromosome scaffold_147
2023-12-05 14:47:35,298 - INFO - Processing chromosome scaffold_148
2023-12-05 14:47:35,300 - INFO - Processing chromosome scaffold_149
2023-12-05 14:47:35,301 - INFO - Finished processing chromosome scaffold_143
2023-12-05 14:47:35,306 - INFO - Processing chromosome scaffold_150
2023-12-05 14:47:35,307 - INFO - Processing chromosome scaffold_151
2023-12-05 14:47:35,309 - INFO - Processing chromosome scaffold_153
2023-12-05 14:47:35,311 - INFO - Processing chromosome scaffold_152
2023-12-05 14:47:35,313 - INFO - Processing chromosome scaffold_154
2023-12-05 14:47:35,314 - INFO - Finished processing chromosome scaffold_144
2023-12-05 14:47:35,316 - INFO - Processing chromosome scaffold_155
2023-12-05 14:47:35,317 - INFO - Finished processing chromosome scaffold_145
2023-12-05 14:47:35,322 - INFO - Processing chromosome scaffold_156
2023-12-05 14:47:35,324 - INFO - Finished processing chromosome scaffold_146
2023-12-05 14:47:35,325 - INFO - Finished processing chromosome scaffold_147
2023-12-05 14:47:35,327 - INFO - Finished processing chromosome scaffold_148
2023-12-05 14:47:35,329 - INFO - Finished processing chromosome scaffold_149
2023-12-05 14:47:35,334 - INFO - Processing chromosome scaffold_157
2023-12-05 14:47:35,335 - INFO - Finished processing chromosome scaffold_150
2023-12-05 14:47:35,336 - INFO - Finished processing chromosome scaffold_151
2023-12-05 14:47:35,339 - INFO - Finished processing chromosome scaffold_153
2023-12-05 14:47:35,340 - INFO - Finished processing chromosome scaffold_152
2023-12-05 14:47:35,342 - INFO - Finished processing chromosome scaffold_154
2023-12-05 14:47:35,346 - INFO - Finished processing chromosome scaffold_155
2023-12-05 14:47:35,352 - INFO - Processing chromosome scaffold_158
2023-12-05 14:47:35,352 - INFO - Finished processing chromosome scaffold_156
2023-12-05 14:47:35,365 - INFO - Processing chromosome scaffold_159
2023-12-05 14:47:35,367 - INFO - Finished processing chromosome scaffold_157
2023-12-05 14:47:35,378 - INFO - Processing chromosome scaffold_160
2023-12-05 14:47:35,383 - INFO - Processing chromosome scaffold_161
2023-12-05 14:47:35,384 - INFO - Finished processing chromosome scaffold_158
2023-12-05 14:47:35,387 - INFO - Processing chromosome scaffold_162
2023-12-05 14:47:35,390 - INFO - Processing chromosome scaffold_163
2023-12-05 14:47:35,393 - INFO - Finished processing chromosome scaffold_159
2023-12-05 14:47:35,395 - INFO - Finished processing chromosome scaffold_160
2023-12-05 14:47:35,397 - INFO - Finished processing chromosome scaffold_161
2023-12-05 14:47:35,400 - INFO - Finished processing chromosome scaffold_162
2023-12-05 14:47:35,402 - INFO - Finished processing chromosome scaffold_163
2023-12-05 14:47:35,445 - INFO - Resolving multimappers
2023-12-05 14:47:35,917 - INFO - Finishing read assignment, total assignments 888, polyA percentage 0.0
2023-12-05 14:47:35,917 - INFO - Read assignments files saved to out_mini_default/OUT/aux/OUT.save*. 
2023-12-05 14:47:35,917 - INFO - To keep these intermediate files for debug purposes use --keep_tmp flag
2023-12-05 14:47:35,918 - INFO - Total alignments processed: 888, polyA tail detected in 0 (0.0%)
2023-12-05 14:47:35,919 - INFO - Processing assigned reads OUT
2023-12-05 14:47:35,994 - INFO - Processing chromosome scaffold_1
2023-12-05 14:47:35,996 - INFO - Processing chromosome scaffold_3
2023-12-05 14:47:35,997 - INFO - Processing chromosome scaffold_4
2023-12-05 14:47:35,999 - INFO - Processing chromosome scaffold_5
2023-12-05 14:47:36,000 - INFO - Processing chromosome scaffold_6
2023-12-05 14:47:36,001 - INFO - Processing chromosome scaffold_7
2023-12-05 14:47:36,002 - INFO - Processing chromosome scaffold_8
2023-12-05 14:47:36,004 - INFO - Processing chromosome scaffold_9
2023-12-05 14:47:36,005 - INFO - Processing chromosome scaffold_10
2023-12-05 14:47:36,006 - INFO - Processing chromosome scaffold_2
2023-12-05 14:47:36,019 - INFO - Processing chromosome scaffold_11
2023-12-05 14:47:36,021 - INFO - Processing chromosome scaffold_13
2023-12-05 14:47:36,022 - INFO - Processing chromosome scaffold_12
2023-12-05 14:47:36,028 - INFO - Processing chromosome scaffold_14
2023-12-05 14:47:36,031 - INFO - Processing chromosome scaffold_15
2023-12-05 14:47:36,032 - INFO - Processing chromosome scaffold_16
2023-12-05 14:47:36,036 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_4
2023-12-05 14:47:36,043 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_10
2023-12-05 14:47:36,050 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_7
2023-12-05 14:47:36,057 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_8
2023-12-05 14:47:36,063 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_6
2023-12-05 14:47:36,070 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_5
2023-12-05 14:47:36,076 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_9
2023-12-05 14:47:36,083 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_3
2023-12-05 14:47:36,089 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_2
2023-12-05 14:47:36,095 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_1
2023-12-05 14:47:36,185 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_11
2023-12-05 14:47:36,217 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_13
2023-12-05 14:47:36,224 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_12
2023-12-05 14:47:36,230 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_16
2023-12-05 14:47:36,237 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_14
2023-12-05 14:47:36,243 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_15
2023-12-05 14:47:36,258 - INFO - Finished processing chromosome scaffold_10
2023-12-05 14:47:36,259 - INFO - Finished processing chromosome scaffold_3
2023-12-05 14:47:36,261 - INFO - Finished processing chromosome scaffold_4
2023-12-05 14:47:36,263 - INFO - Processing chromosome scaffold_17
2023-12-05 14:47:36,267 - INFO - Finished processing chromosome scaffold_8
2023-12-05 14:47:36,269 - INFO - Processing chromosome scaffold_18
2023-12-05 14:47:36,271 - INFO - Finished processing chromosome scaffold_7
2023-12-05 14:47:36,272 - INFO - Processing chromosome scaffold_19
2023-12-05 14:47:36,276 - INFO - Finished processing chromosome scaffold_6
2023-12-05 14:47:36,278 - INFO - Finished processing chromosome scaffold_9
2023-12-05 14:47:36,280 - INFO - Finished processing chromosome scaffold_5
2023-12-05 14:47:36,281 - INFO - Processing chromosome scaffold_20
2023-12-05 14:47:36,283 - INFO - Finished processing chromosome scaffold_11
2023-12-05 14:47:36,286 - INFO - Finished processing chromosome scaffold_2
2023-12-05 14:47:36,287 - INFO - Processing chromosome scaffold_21
2023-12-05 14:47:36,289 - INFO - Processing chromosome scaffold_22
2023-12-05 14:47:36,292 - INFO - Finished processing chromosome scaffold_13
2023-12-05 14:47:36,295 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_17
2023-12-05 14:47:36,296 - INFO - Finished processing chromosome scaffold_1
2023-12-05 14:47:36,297 - INFO - Processing chromosome scaffold_23
2023-12-05 14:47:36,299 - INFO - Finished processing chromosome scaffold_12
2023-12-05 14:47:36,302 - INFO - Processing chromosome scaffold_24
2023-12-05 14:47:36,303 - INFO - Finished processing chromosome scaffold_16
2023-12-05 14:47:36,304 - INFO - Processing chromosome scaffold_25
2023-12-05 14:47:36,306 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_18
2023-12-05 14:47:36,308 - INFO - Finished processing chromosome scaffold_14
2023-12-05 14:47:36,312 - INFO - Processing chromosome scaffold_26
2023-12-05 14:47:36,312 - INFO - Finished processing chromosome scaffold_15
2023-12-05 14:47:36,313 - INFO - Processing chromosome scaffold_27
2023-12-05 14:47:36,317 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_19
2023-12-05 14:47:36,321 - INFO - Processing chromosome scaffold_28
2023-12-05 14:47:36,322 - INFO - Processing chromosome scaffold_29
2023-12-05 14:47:36,326 - INFO - Processing chromosome scaffold_30
2023-12-05 14:47:36,327 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_20
2023-12-05 14:47:36,329 - INFO - Processing chromosome scaffold_31
2023-12-05 14:47:36,331 - INFO - Processing chromosome scaffold_32
2023-12-05 14:47:36,335 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_21
2023-12-05 14:47:36,342 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_22
2023-12-05 14:47:36,348 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_23
2023-12-05 14:47:36,355 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_24
2023-12-05 14:47:36,362 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_25
2023-12-05 14:47:36,369 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_26
2023-12-05 14:47:36,376 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_27
2023-12-05 14:47:36,383 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_28
2023-12-05 14:47:36,390 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_29
2023-12-05 14:47:36,397 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_30
2023-12-05 14:47:36,405 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_31
2023-12-05 14:47:36,411 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_32
2023-12-05 14:47:36,424 - INFO - Finished processing chromosome scaffold_17
2023-12-05 14:47:36,425 - INFO - Finished processing chromosome scaffold_18
2023-12-05 14:47:36,429 - INFO - Finished processing chromosome scaffold_20
2023-12-05 14:47:36,430 - INFO - Processing chromosome scaffold_33
2023-12-05 14:47:36,433 - INFO - Processing chromosome scaffold_34
2023-12-05 14:47:36,435 - INFO - Finished processing chromosome scaffold_19
2023-12-05 14:47:36,437 - INFO - Finished processing chromosome scaffold_21
2023-12-05 14:47:36,439 - INFO - Processing chromosome scaffold_35
2023-12-05 14:47:36,440 - INFO - Processing chromosome scaffold_36
2023-12-05 14:47:36,443 - INFO - Finished processing chromosome scaffold_22
2023-12-05 14:47:36,445 - INFO - Finished processing chromosome scaffold_24
2023-12-05 14:47:36,447 - INFO - Finished processing chromosome scaffold_23
2023-12-05 14:47:36,448 - INFO - Processing chromosome scaffold_37
2023-12-05 14:47:36,451 - INFO - Finished processing chromosome scaffold_25
2023-12-05 14:47:36,452 - INFO - Finished processing chromosome scaffold_26
2023-12-05 14:47:36,455 - INFO - Finished processing chromosome scaffold_27
2023-12-05 14:47:36,456 - INFO - Processing chromosome NC_001637.1
2023-12-05 14:47:36,458 - INFO - Finished processing chromosome scaffold_28
2023-12-05 14:47:36,461 - INFO - Processing chromosome scaffold_38
2023-12-05 14:47:36,461 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_33
2023-12-05 14:47:36,463 - INFO - Processing chromosome scaffold_39
2023-12-05 14:47:36,465 - INFO - Finished processing chromosome scaffold_29
2023-12-05 14:47:36,468 - INFO - Finished processing chromosome scaffold_31
2023-12-05 14:47:36,471 - INFO - Finished processing chromosome scaffold_30
2023-12-05 14:47:36,471 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_34
2023-12-05 14:47:36,473 - INFO - Processing chromosome scaffold_40
2023-12-05 14:47:36,475 - INFO - Processing chromosome scaffold_41
2023-12-05 14:47:36,475 - INFO - Finished processing chromosome scaffold_32
2023-12-05 14:47:36,480 - INFO - Processing chromosome scaffold_42
2023-12-05 14:47:36,481 - INFO - Processing chromosome scaffold_43
2023-12-05 14:47:36,482 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_36
2023-12-05 14:47:36,486 - INFO - Processing chromosome scaffold_44
2023-12-05 14:47:36,489 - INFO - Processing chromosome scaffold_45
2023-12-05 14:47:36,489 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_35
2023-12-05 14:47:36,490 - INFO - Processing chromosome scaffold_46
2023-12-05 14:47:36,496 - INFO - Processing chromosome scaffold_47
2023-12-05 14:47:36,497 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_37
2023-12-05 14:47:36,504 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_NC_001637.1
2023-12-05 14:47:36,511 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_39
2023-12-05 14:47:36,517 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_38
2023-12-05 14:47:36,524 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_40
2023-12-05 14:47:36,530 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_41
2023-12-05 14:47:36,537 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_42
2023-12-05 14:47:36,544 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_43
2023-12-05 14:47:36,551 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_44
2023-12-05 14:47:36,558 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_45
2023-12-05 14:47:36,564 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_46
2023-12-05 14:47:36,572 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_47
2023-12-05 14:47:36,583 - INFO - Finished processing chromosome scaffold_33
2023-12-05 14:47:36,586 - INFO - Finished processing chromosome scaffold_36
2023-12-05 14:47:36,588 - INFO - Processing chromosome scaffold_48
2023-12-05 14:47:36,590 - INFO - Finished processing chromosome scaffold_35
2023-12-05 14:47:36,591 - INFO - Finished processing chromosome scaffold_34
2023-12-05 14:47:36,593 - INFO - Processing chromosome scaffold_49
2023-12-05 14:47:36,595 - INFO - Finished processing chromosome scaffold_37
2023-12-05 14:47:36,596 - INFO - Finished processing chromosome NC_001637.1
2023-12-05 14:47:36,598 - INFO - Processing chromosome scaffold_50
2023-12-05 14:47:36,599 - INFO - Finished processing chromosome scaffold_39
2023-12-05 14:47:36,601 - INFO - Processing chromosome scaffold_51
2023-12-05 14:47:36,603 - INFO - Finished processing chromosome scaffold_41
2023-12-05 14:47:36,605 - INFO - Processing chromosome scaffold_52
2023-12-05 14:47:36,607 - INFO - Finished processing chromosome scaffold_38
2023-12-05 14:47:36,608 - INFO - Processing chromosome scaffold_53
2023-12-05 14:47:36,610 - INFO - Finished processing chromosome scaffold_40
2023-12-05 14:47:36,613 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_51
2023-12-05 14:47:36,614 - INFO - Finished processing chromosome scaffold_42
2023-12-05 14:47:36,615 - INFO - Processing chromosome scaffold_54
2023-12-05 14:47:36,619 - INFO - Finished processing chromosome scaffold_43
2023-12-05 14:47:36,620 - INFO - Processing chromosome scaffold_55
2023-12-05 14:47:36,622 - INFO - Finished processing chromosome scaffold_45
2023-12-05 14:47:36,624 - INFO - Processing chromosome scaffold_56
2023-12-05 14:47:36,626 - INFO - Processing chromosome scaffold_57
2023-12-05 14:47:36,628 - INFO - Processing chromosome scaffold_58
2023-12-05 14:47:36,631 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_48
2023-12-05 14:47:36,634 - INFO - Processing chromosome scaffold_59
2023-12-05 14:47:36,638 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_49
2023-12-05 14:47:36,638 - INFO - Finished processing chromosome scaffold_46
2023-12-05 14:47:36,641 - INFO - Processing chromosome scaffold_60
2023-12-05 14:47:36,642 - INFO - Finished processing chromosome scaffold_44
2023-12-05 14:47:36,643 - INFO - Finished processing chromosome scaffold_47
2023-12-05 14:47:36,645 - INFO - Processing chromosome scaffold_61
2023-12-05 14:47:36,646 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_50
2023-12-05 14:47:36,646 - INFO - Processing chromosome scaffold_62
2023-12-05 14:47:36,652 - INFO - Processing chromosome scaffold_63
2023-12-05 14:47:36,654 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_52
2023-12-05 14:47:36,661 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_53
2023-12-05 14:47:36,667 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_54
2023-12-05 14:47:36,674 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_55
2023-12-05 14:47:36,680 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_56
2023-12-05 14:47:36,686 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_57
2023-12-05 14:47:36,693 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_58
2023-12-05 14:47:36,701 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_59
2023-12-05 14:47:36,707 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_60
2023-12-05 14:47:36,714 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_62
2023-12-05 14:47:36,721 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_61
2023-12-05 14:47:36,728 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_63
2023-12-05 14:47:36,740 - INFO - Finished processing chromosome scaffold_51
2023-12-05 14:47:36,742 - INFO - Finished processing chromosome scaffold_48
2023-12-05 14:47:36,743 - INFO - Finished processing chromosome scaffold_49
2023-12-05 14:47:36,745 - INFO - Processing chromosome scaffold_64
2023-12-05 14:47:36,747 - INFO - Finished processing chromosome scaffold_50
2023-12-05 14:47:36,749 - INFO - Processing chromosome scaffold_65
2023-12-05 14:47:36,751 - INFO - Processing chromosome scaffold_66
2023-12-05 14:47:36,751 - INFO - Finished processing chromosome scaffold_52
2023-12-05 14:47:36,756 - INFO - Finished processing chromosome scaffold_53
2023-12-05 14:47:36,757 - INFO - Processing chromosome scaffold_67
2023-12-05 14:47:36,757 - INFO - Finished processing chromosome scaffold_54
2023-12-05 14:47:36,762 - INFO - Processing chromosome scaffold_68
2023-12-05 14:47:36,762 - INFO - Finished processing chromosome scaffold_55
2023-12-05 14:47:36,764 - INFO - Finished processing chromosome scaffold_56
2023-12-05 14:47:36,767 - INFO - Processing chromosome scaffold_69
2023-12-05 14:47:36,768 - INFO - Finished processing chromosome scaffold_57
2023-12-05 14:47:36,769 - INFO - Finished processing chromosome scaffold_58
2023-12-05 14:47:36,770 - INFO - Processing chromosome scaffold_70
2023-12-05 14:47:36,774 - INFO - Finished processing chromosome scaffold_60
2023-12-05 14:47:36,775 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_64
2023-12-05 14:47:36,777 - INFO - Processing chromosome scaffold_71
2023-12-05 14:47:36,777 - INFO - Finished processing chromosome scaffold_59
2023-12-05 14:47:36,778 - INFO - Finished processing chromosome scaffold_61
2023-12-05 14:47:36,779 - INFO - Processing chromosome scaffold_72
2023-12-05 14:47:36,782 - INFO - Processing chromosome scaffold_73
2023-12-05 14:47:36,786 - INFO - Processing chromosome scaffold_74
2023-12-05 14:47:36,787 - INFO - Finished processing chromosome scaffold_62
2023-12-05 14:47:36,787 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_65
2023-12-05 14:47:36,788 - INFO - Finished processing chromosome scaffold_63
2023-12-05 14:47:36,790 - INFO - Processing chromosome scaffold_75
2023-12-05 14:47:36,792 - INFO - Processing chromosome scaffold_76
2023-12-05 14:47:36,796 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_66
2023-12-05 14:47:36,797 - INFO - Processing chromosome scaffold_77
2023-12-05 14:47:36,799 - INFO - Processing chromosome scaffold_78
2023-12-05 14:47:36,803 - INFO - Processing chromosome scaffold_79
2023-12-05 14:47:36,804 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_67
2023-12-05 14:47:36,811 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_68
2023-12-05 14:47:36,818 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_69
2023-12-05 14:47:36,825 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_70
2023-12-05 14:47:36,831 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_71
2023-12-05 14:47:36,838 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_72
2023-12-05 14:47:36,844 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_73
2023-12-05 14:47:36,851 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_74
2023-12-05 14:47:36,858 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_75
2023-12-05 14:47:36,865 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_76
2023-12-05 14:47:36,872 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_77
2023-12-05 14:47:36,879 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_78
2023-12-05 14:47:36,886 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_79
2023-12-05 14:47:36,896 - INFO - Finished processing chromosome scaffold_64
2023-12-05 14:47:36,900 - INFO - Processing chromosome scaffold_80
2023-12-05 14:47:36,901 - INFO - Finished processing chromosome scaffold_65
2023-12-05 14:47:36,902 - INFO - Finished processing chromosome scaffold_73
2023-12-05 14:47:36,905 - INFO - Finished processing chromosome scaffold_66
2023-12-05 14:47:36,907 - INFO - Processing chromosome scaffold_81
2023-12-05 14:47:36,909 - INFO - Finished processing chromosome scaffold_68
2023-12-05 14:47:36,912 - INFO - Processing chromosome scaffold_82
2023-12-05 14:47:36,913 - INFO - Finished processing chromosome scaffold_67
2023-12-05 14:47:36,914 - INFO - Processing chromosome scaffold_83
2023-12-05 14:47:36,916 - INFO - Finished processing chromosome scaffold_69
2023-12-05 14:47:36,919 - INFO - Finished processing chromosome scaffold_71
2023-12-05 14:47:36,922 - INFO - Finished processing chromosome scaffold_70
2023-12-05 14:47:36,924 - INFO - Processing chromosome scaffold_84
2023-12-05 14:47:36,924 - INFO - Finished processing chromosome scaffold_72
2023-12-05 14:47:36,925 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_83
2023-12-05 14:47:36,927 - INFO - Finished processing chromosome scaffold_74
2023-12-05 14:47:36,928 - INFO - Processing chromosome scaffold_85
2023-12-05 14:47:36,930 - INFO - Finished processing chromosome scaffold_76
2023-12-05 14:47:36,931 - INFO - Processing chromosome scaffold_86
2023-12-05 14:47:36,935 - INFO - Finished processing chromosome scaffold_75
2023-12-05 14:47:36,936 - INFO - Processing chromosome scaffold_87
2023-12-05 14:47:36,938 - INFO - Finished processing chromosome scaffold_77
2023-12-05 14:47:36,938 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_80
2023-12-05 14:47:36,940 - INFO - Processing chromosome scaffold_88
2023-12-05 14:47:36,942 - INFO - Processing chromosome scaffold_89
2023-12-05 14:47:36,946 - INFO - Processing chromosome scaffold_90
2023-12-05 14:47:36,948 - INFO - Finished processing chromosome scaffold_78
2023-12-05 14:47:36,949 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_81
2023-12-05 14:47:36,951 - INFO - Processing chromosome scaffold_91
2023-12-05 14:47:36,955 - INFO - Processing chromosome scaffold_92
2023-12-05 14:47:36,956 - INFO - Finished processing chromosome scaffold_79
2023-12-05 14:47:36,957 - INFO - Processing chromosome scaffold_93
2023-12-05 14:47:36,959 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_90
2023-12-05 14:47:36,962 - INFO - Processing chromosome scaffold_94
2023-12-05 14:47:36,966 - INFO - Processing chromosome scaffold_95
2023-12-05 14:47:36,968 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_92
2023-12-05 14:47:36,975 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_82
2023-12-05 14:47:36,982 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_84
2023-12-05 14:47:36,989 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_85
2023-12-05 14:47:36,995 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_86
2023-12-05 14:47:37,002 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_87
2023-12-05 14:47:37,008 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_89
2023-12-05 14:47:37,014 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_88
2023-12-05 14:47:37,024 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_91
2023-12-05 14:47:37,031 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_93
2023-12-05 14:47:37,039 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_94
2023-12-05 14:47:37,046 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_95
2023-12-05 14:47:37,056 - INFO - Finished processing chromosome scaffold_83
2023-12-05 14:47:37,061 - INFO - Finished processing chromosome scaffold_80
2023-12-05 14:47:37,062 - INFO - Finished processing chromosome scaffold_81
2023-12-05 14:47:37,065 - INFO - Processing chromosome scaffold_96
2023-12-05 14:47:37,065 - INFO - Finished processing chromosome scaffold_90
2023-12-05 14:47:37,067 - INFO - Finished processing chromosome scaffold_92
2023-12-05 14:47:37,069 - INFO - Processing chromosome scaffold_97
2023-12-05 14:47:37,071 - INFO - Processing chromosome scaffold_98
2023-12-05 14:47:37,073 - INFO - Finished processing chromosome scaffold_82
2023-12-05 14:47:37,075 - INFO - Processing chromosome scaffold_99
2023-12-05 14:47:37,077 - INFO - Finished processing chromosome scaffold_85
2023-12-05 14:47:37,078 - INFO - Processing chromosome scaffold_100
2023-12-05 14:47:37,081 - INFO - Finished processing chromosome scaffold_86
2023-12-05 14:47:37,082 - INFO - Finished processing chromosome scaffold_84
2023-12-05 14:47:37,084 - INFO - Finished processing chromosome scaffold_87
2023-12-05 14:47:37,086 - INFO - Finished processing chromosome scaffold_89
2023-12-05 14:47:37,087 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_99
2023-12-05 14:47:37,087 - INFO - Processing chromosome scaffold_101
2023-12-05 14:47:37,089 - INFO - Finished processing chromosome scaffold_88
2023-12-05 14:47:37,091 - INFO - Processing chromosome scaffold_102
2023-12-05 14:47:37,092 - INFO - Finished processing chromosome scaffold_91
2023-12-05 14:47:37,095 - INFO - Finished processing chromosome scaffold_93
2023-12-05 14:47:37,097 - INFO - Processing chromosome scaffold_103
2023-12-05 14:47:37,098 - INFO - Processing chromosome scaffold_104
2023-12-05 14:47:37,100 - INFO - Processing chromosome scaffold_105
2023-12-05 14:47:37,102 - INFO - Processing chromosome scaffold_106
2023-12-05 14:47:37,105 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_96
2023-12-05 14:47:37,110 - INFO - Processing chromosome scaffold_107
2023-12-05 14:47:37,112 - INFO - Processing chromosome scaffold_108
2023-12-05 14:47:37,113 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_98
2023-12-05 14:47:37,114 - INFO - Finished processing chromosome scaffold_94
2023-12-05 14:47:37,118 - INFO - Finished processing chromosome scaffold_95
2023-12-05 14:47:37,119 - INFO - Processing chromosome scaffold_109
2023-12-05 14:47:37,122 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_97
2023-12-05 14:47:37,123 - INFO - Processing chromosome scaffold_110
2023-12-05 14:47:37,127 - INFO - Processing chromosome scaffold_111
2023-12-05 14:47:37,129 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_100
2023-12-05 14:47:37,136 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_101
2023-12-05 14:47:37,142 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_102
2023-12-05 14:47:37,149 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_106
2023-12-05 14:47:37,155 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_104
2023-12-05 14:47:37,162 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_103
2023-12-05 14:47:37,168 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_105
2023-12-05 14:47:37,175 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_107
2023-12-05 14:47:37,181 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_108
2023-12-05 14:47:37,188 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_109
2023-12-05 14:47:37,195 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_110
2023-12-05 14:47:37,203 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_111
2023-12-05 14:47:37,214 - INFO - Finished processing chromosome scaffold_99
2023-12-05 14:47:37,217 - INFO - Finished processing chromosome scaffold_102
2023-12-05 14:47:37,220 - INFO - Finished processing chromosome scaffold_96
2023-12-05 14:47:37,221 - INFO - Processing chromosome scaffold_112
2023-12-05 14:47:37,223 - INFO - Finished processing chromosome scaffold_98
2023-12-05 14:47:37,225 - INFO - Processing chromosome scaffold_113
2023-12-05 14:47:37,226 - INFO - Finished processing chromosome scaffold_97
2023-12-05 14:47:37,227 - INFO - Processing chromosome scaffold_114
2023-12-05 14:47:37,231 - INFO - Finished processing chromosome scaffold_100
2023-12-05 14:47:37,233 - INFO - Processing chromosome scaffold_115
2023-12-05 14:47:37,235 - INFO - Finished processing chromosome scaffold_101
2023-12-05 14:47:37,237 - INFO - Finished processing chromosome scaffold_106
2023-12-05 14:47:37,238 - INFO - Finished processing chromosome scaffold_107
2023-12-05 14:47:37,240 - INFO - Finished processing chromosome scaffold_104
2023-12-05 14:47:37,242 - INFO - Processing chromosome scaffold_116
2023-12-05 14:47:37,243 - INFO - Finished processing chromosome scaffold_103
2023-12-05 14:47:37,247 - INFO - Processing chromosome scaffold_117
2023-12-05 14:47:37,248 - INFO - Finished processing chromosome scaffold_105
2023-12-05 14:47:37,250 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_112
2023-12-05 14:47:37,251 - INFO - Processing chromosome scaffold_118
2023-12-05 14:47:37,253 - INFO - Processing chromosome scaffold_119
2023-12-05 14:47:37,257 - INFO - Processing chromosome scaffold_120
2023-12-05 14:47:37,258 - INFO - Finished processing chromosome scaffold_108
2023-12-05 14:47:37,259 - INFO - Finished processing chromosome scaffold_109
2023-12-05 14:47:37,261 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_113
2023-12-05 14:47:37,261 - INFO - Finished processing chromosome scaffold_110
2023-12-05 14:47:37,262 - INFO - Processing chromosome scaffold_121
2023-12-05 14:47:37,264 - INFO - Processing chromosome scaffold_122
2023-12-05 14:47:37,267 - INFO - Finished processing chromosome scaffold_111
2023-12-05 14:47:37,269 - INFO - Processing chromosome scaffold_123
2023-12-05 14:47:37,270 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_114
2023-12-05 14:47:37,272 - INFO - Processing chromosome scaffold_124
2023-12-05 14:47:37,274 - INFO - Processing chromosome scaffold_125
2023-12-05 14:47:37,279 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_115
2023-12-05 14:47:37,280 - INFO - Processing chromosome scaffold_126
2023-12-05 14:47:37,284 - INFO - Processing chromosome scaffold_127
2023-12-05 14:47:37,286 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_116
2023-12-05 14:47:37,292 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_117
2023-12-05 14:47:37,298 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_119
2023-12-05 14:47:37,305 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_118
2023-12-05 14:47:37,311 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_120
2023-12-05 14:47:37,317 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_121
2023-12-05 14:47:37,324 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_122
2023-12-05 14:47:37,330 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_123
2023-12-05 14:47:37,336 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_124
2023-12-05 14:47:37,343 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_125
2023-12-05 14:47:37,350 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_126
2023-12-05 14:47:37,356 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_127
2023-12-05 14:47:37,366 - INFO - Finished processing chromosome scaffold_112
2023-12-05 14:47:37,369 - INFO - Finished processing chromosome scaffold_114
2023-12-05 14:47:37,371 - INFO - Processing chromosome scaffold_128
2023-12-05 14:47:37,372 - INFO - Finished processing chromosome scaffold_113
2023-12-05 14:47:37,373 - INFO - Processing chromosome scaffold_129
2023-12-05 14:47:37,376 - INFO - Finished processing chromosome scaffold_115
2023-12-05 14:47:37,380 - INFO - Processing chromosome scaffold_130
2023-12-05 14:47:37,380 - INFO - Finished processing chromosome scaffold_116
2023-12-05 14:47:37,382 - INFO - Finished processing chromosome scaffold_117
2023-12-05 14:47:37,384 - INFO - Processing chromosome scaffold_131
2023-12-05 14:47:37,385 - INFO - Finished processing chromosome scaffold_119
2023-12-05 14:47:37,388 - INFO - Finished processing chromosome scaffold_118
2023-12-05 14:47:37,390 - INFO - Processing chromosome scaffold_132
2023-12-05 14:47:37,391 - INFO - Finished processing chromosome scaffold_120
2023-12-05 14:47:37,394 - INFO - Processing chromosome scaffold_133
2023-12-05 14:47:37,396 - INFO - Finished processing chromosome scaffold_122
2023-12-05 14:47:37,397 - INFO - Processing chromosome scaffold_134
2023-12-05 14:47:37,399 - INFO - Finished processing chromosome scaffold_121
2023-12-05 14:47:37,402 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_128
2023-12-05 14:47:37,404 - INFO - Processing chromosome scaffold_135
2023-12-05 14:47:37,404 - INFO - Finished processing chromosome scaffold_123
2023-12-05 14:47:37,405 - INFO - Finished processing chromosome scaffold_124
2023-12-05 14:47:37,407 - INFO - Finished processing chromosome scaffold_125
2023-12-05 14:47:37,408 - INFO - Processing chromosome scaffold_136
2023-12-05 14:47:37,411 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_129
2023-12-05 14:47:37,412 - INFO - Finished processing chromosome scaffold_126
2023-12-05 14:47:37,415 - INFO - Finished processing chromosome scaffold_127
2023-12-05 14:47:37,415 - INFO - Processing chromosome scaffold_137
2023-12-05 14:47:37,416 - INFO - Processing chromosome scaffold_138
2023-12-05 14:47:37,420 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_130
2023-12-05 14:47:37,421 - INFO - Processing chromosome scaffold_139
2023-12-05 14:47:37,423 - INFO - Processing chromosome scaffold_140
2023-12-05 14:47:37,426 - INFO - Processing chromosome scaffold_141
2023-12-05 14:47:37,429 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_131
2023-12-05 14:47:37,432 - INFO - Processing chromosome scaffold_142
2023-12-05 14:47:37,434 - INFO - Processing chromosome scaffold_143
2023-12-05 14:47:37,437 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_132
2023-12-05 14:47:37,444 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_133
2023-12-05 14:47:37,451 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_134
2023-12-05 14:47:37,457 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_135
2023-12-05 14:47:37,464 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_136
2023-12-05 14:47:37,471 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_137
2023-12-05 14:47:37,477 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_138
2023-12-05 14:47:37,484 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_139
2023-12-05 14:47:37,491 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_141
2023-12-05 14:47:37,498 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_140
2023-12-05 14:47:37,505 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_142
2023-12-05 14:47:37,511 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_143
2023-12-05 14:47:37,521 - INFO - Finished processing chromosome scaffold_128
2023-12-05 14:47:37,525 - INFO - Finished processing chromosome scaffold_129
2023-12-05 14:47:37,527 - INFO - Processing chromosome scaffold_144
2023-12-05 14:47:37,527 - INFO - Finished processing chromosome scaffold_130
2023-12-05 14:47:37,530 - INFO - Finished processing chromosome scaffold_139
2023-12-05 14:47:37,532 - INFO - Processing chromosome scaffold_145
2023-12-05 14:47:37,534 - INFO - Finished processing chromosome scaffold_132
2023-12-05 14:47:37,535 - INFO - Processing chromosome scaffold_146
2023-12-05 14:47:37,539 - INFO - Processing chromosome scaffold_147
2023-12-05 14:47:37,540 - INFO - Finished processing chromosome scaffold_131
2023-12-05 14:47:37,542 - INFO - Finished processing chromosome scaffold_134
2023-12-05 14:47:37,543 - INFO - Processing chromosome scaffold_148
2023-12-05 14:47:37,545 - INFO - Finished processing chromosome scaffold_133
2023-12-05 14:47:37,549 - INFO - Finished processing chromosome scaffold_136
2023-12-05 14:47:37,551 - INFO - Finished processing chromosome scaffold_135
2023-12-05 14:47:37,552 - INFO - Processing chromosome scaffold_149
2023-12-05 14:47:37,555 - INFO - Finished processing chromosome scaffold_137
2023-12-05 14:47:37,557 - INFO - Processing chromosome scaffold_150
2023-12-05 14:47:37,558 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_144
2023-12-05 14:47:37,559 - INFO - Finished processing chromosome scaffold_138
2023-12-05 14:47:37,560 - INFO - Processing chromosome scaffold_151
2023-12-05 14:47:37,562 - INFO - Finished processing chromosome scaffold_141
2023-12-05 14:47:37,563 - INFO - Processing chromosome scaffold_152
2023-12-05 14:47:37,567 - INFO - Finished processing chromosome scaffold_140
2023-12-05 14:47:37,568 - INFO - Processing chromosome scaffold_153
2023-12-05 14:47:37,570 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_145
2023-12-05 14:47:37,571 - INFO - Finished processing chromosome scaffold_142
2023-12-05 14:47:37,572 - INFO - Processing chromosome scaffold_154
2023-12-05 14:47:37,574 - INFO - Processing chromosome scaffold_155
2023-12-05 14:47:37,579 - INFO - Processing chromosome scaffold_156
2023-12-05 14:47:37,579 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_146
2023-12-05 14:47:37,581 - INFO - Finished processing chromosome scaffold_143
2023-12-05 14:47:37,582 - INFO - Processing chromosome scaffold_157
2023-12-05 14:47:37,586 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_147
2023-12-05 14:47:37,587 - INFO - Processing chromosome scaffold_158
2023-12-05 14:47:37,591 - INFO - Processing chromosome scaffold_159
2023-12-05 14:47:37,594 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_148
2023-12-05 14:47:37,602 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_149
2023-12-05 14:47:37,608 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_150
2023-12-05 14:47:37,615 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_151
2023-12-05 14:47:37,622 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_152
2023-12-05 14:47:37,628 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_153
2023-12-05 14:47:37,634 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_154
2023-12-05 14:47:37,641 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_155
2023-12-05 14:47:37,648 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_156
2023-12-05 14:47:37,655 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_157
2023-12-05 14:47:37,662 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_158
2023-12-05 14:47:37,671 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_159
2023-12-05 14:47:37,681 - INFO - Finished processing chromosome scaffold_144
2023-12-05 14:47:37,685 - INFO - Finished processing chromosome scaffold_145
2023-12-05 14:47:37,686 - INFO - Processing chromosome scaffold_160
2023-12-05 14:47:37,688 - INFO - Finished processing chromosome scaffold_146
2023-12-05 14:47:37,690 - INFO - Finished processing chromosome scaffold_147
2023-12-05 14:47:37,692 - INFO - Processing chromosome scaffold_161
2023-12-05 14:47:37,694 - INFO - Finished processing chromosome scaffold_148
2023-12-05 14:47:37,696 - INFO - Processing chromosome scaffold_162
2023-12-05 14:47:37,698 - INFO - Finished processing chromosome scaffold_149
2023-12-05 14:47:37,699 - INFO - Processing chromosome scaffold_163
2023-12-05 14:47:37,702 - INFO - Finished processing chromosome scaffold_150
2023-12-05 14:47:37,704 - INFO - Finished processing chromosome scaffold_151
2023-12-05 14:47:37,707 - INFO - Finished processing chromosome scaffold_152
2023-12-05 14:47:37,709 - INFO - Finished processing chromosome scaffold_153
2023-12-05 14:47:37,712 - INFO - Finished processing chromosome scaffold_154
2023-12-05 14:47:37,714 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_160
2023-12-05 14:47:37,715 - INFO - Finished processing chromosome scaffold_155
2023-12-05 14:47:37,718 - INFO - Finished processing chromosome scaffold_156
2023-12-05 14:47:37,720 - INFO - Finished processing chromosome scaffold_157
2023-12-05 14:47:37,721 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_161
2023-12-05 14:47:37,723 - INFO - Finished processing chromosome scaffold_158
2023-12-05 14:47:37,728 - INFO - Finished processing chromosome scaffold_159
2023-12-05 14:47:37,728 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_162
2023-12-05 14:47:37,735 - INFO - Loading read assignments from out_mini_default/OUT/aux/OUT.save_scaffold_163
2023-12-05 14:47:37,747 - INFO - Finished processing chromosome scaffold_160
2023-12-05 14:47:37,749 - INFO - Finished processing chromosome scaffold_161
2023-12-05 14:47:37,755 - INFO - Finished processing chromosome scaffold_162
2023-12-05 14:47:37,755 - INFO - Finished processing chromosome scaffold_163
2023-12-05 14:47:39,213 - INFO - Transcript model file out_mini_default/OUT/OUT.transcript_models.gtf
2023-12-05 14:47:39,214 - INFO - Transcript model statistics
2023-12-05 14:47:39,214 - INFO - novel_not_in_catalog: 12
2023-12-05 14:47:39,652 - INFO - Read assignment statistics
2023-12-05 14:47:39,652 - INFO - intergenic: 888
2023-12-05 14:47:41,472 - INFO - Processed sample OUT
2023-12-05 14:47:41,472 - INFO - Processed 1 sample
2023-12-05 14:47:41,472 - INFO -  === IsoQuant pipeline finished ===