INFO @ 04 Jul 2024 22:38:29: [36 MB] # Command line: callpeak -t /tscc/projects/ps-epigen/users/kdang/ASAP/DASeq_broadCT/splitfrags_out/Oligodendrocyte.bed -f BED -n Oligodendrocyte -g hs --nomodel --shift -100 --extsize 200 --call-summits --outdir /tscc/projects/ps-epigen/users/kdang/ASAP/DASeq_broadCT/callpeak_out/ # ARGUMENTS LIST: # name = Oligodendrocyte # format = BED # ChIP-seq file = ['/tscc/projects/ps-epigen/users/kdang/ASAP/DASeq_broadCT/splitfrags_out/Oligodendrocyte.bed'] # control file = None # effective genome size = 2.91e+09 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 5.00e-02 # The maximum gap between significant sites is assigned as the read length/tag size. # The minimum length of peaks is assigned as the predicted fragment length "d". # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off # Searching for subpeak summits is on INFO @ 04 Jul 2024 22:38:29: [36 MB] #1 read tag files... INFO @ 04 Jul 2024 22:38:29: [36 MB] #1 read treatment tags... INFO @ 04 Jul 2024 22:38:37: [101 MB] 1000000 reads parsed INFO @ 04 Jul 2024 22:38:43: [105 MB] 2000000 reads parsed INFO @ 04 Jul 2024 22:38:50: [112 MB] 3000000 reads parsed INFO @ 04 Jul 2024 22:38:57: [118 MB] 4000000 reads parsed INFO @ 04 Jul 2024 22:39:03: [122 MB] 5000000 reads parsed INFO @ 04 Jul 2024 22:39:10: [128 MB] 6000000 reads parsed INFO @ 04 Jul 2024 22:39:16: [133 MB] 7000000 reads parsed INFO @ 04 Jul 2024 22:39:23: [141 MB] 8000000 reads parsed INFO @ 04 Jul 2024 22:39:29: [146 MB] 9000000 reads parsed INFO @ 04 Jul 2024 22:39:36: [153 MB] 10000000 reads parsed INFO @ 04 Jul 2024 22:39:42: [160 MB] 11000000 reads parsed INFO @ 04 Jul 2024 22:39:49: [167 MB] 12000000 reads parsed INFO @ 04 Jul 2024 22:39:55: [171 MB] 13000000 reads parsed INFO @ 04 Jul 2024 22:40:02: [179 MB] 14000000 reads parsed INFO @ 04 Jul 2024 22:40:08: [187 MB] 15000000 reads parsed INFO @ 04 Jul 2024 22:40:15: [196 MB] 16000000 reads parsed INFO @ 04 Jul 2024 22:40:21: [206 MB] 17000000 reads parsed INFO @ 04 Jul 2024 22:40:28: [206 MB] 18000000 reads parsed INFO @ 04 Jul 2024 22:40:34: [213 MB] 19000000 reads parsed INFO @ 04 Jul 2024 22:40:41: [213 MB] 20000000 reads parsed INFO @ 04 Jul 2024 22:40:47: [219 MB] 21000000 reads parsed INFO @ 04 Jul 2024 22:40:54: [219 MB] 22000000 reads parsed INFO @ 04 Jul 2024 22:41:00: [229 MB] 23000000 reads parsed INFO @ 04 Jul 2024 22:41:07: [230 MB] 24000000 reads parsed INFO @ 04 Jul 2024 22:41:13: [234 MB] 25000000 reads parsed INFO @ 04 Jul 2024 22:41:20: [242 MB] 26000000 reads parsed INFO @ 04 Jul 2024 22:41:26: [244 MB] 27000000 reads parsed INFO @ 04 Jul 2024 22:41:33: [249 MB] 28000000 reads parsed INFO @ 04 Jul 2024 22:41:39: [252 MB] 29000000 reads parsed INFO @ 04 Jul 2024 22:41:45: [260 MB] 30000000 reads parsed INFO @ 04 Jul 2024 22:41:52: [262 MB] 31000000 reads parsed INFO @ 04 Jul 2024 22:41:58: [264 MB] 32000000 reads parsed INFO @ 04 Jul 2024 22:42:04: [273 MB] 33000000 reads parsed INFO @ 04 Jul 2024 22:42:11: [281 MB] 34000000 reads parsed INFO @ 04 Jul 2024 22:42:17: [282 MB] 35000000 reads parsed INFO @ 04 Jul 2024 22:42:23: [284 MB] 36000000 reads parsed INFO @ 04 Jul 2024 22:42:30: [294 MB] 37000000 reads parsed INFO @ 04 Jul 2024 22:42:36: [294 MB] 38000000 reads parsed INFO @ 04 Jul 2024 22:42:43: [306 MB] 39000000 reads parsed INFO @ 04 Jul 2024 22:42:49: [306 MB] 40000000 reads parsed INFO @ 04 Jul 2024 22:42:55: [307 MB] 41000000 reads parsed INFO @ 04 Jul 2024 22:43:01: [318 MB] 42000000 reads parsed INFO @ 04 Jul 2024 22:43:08: [326 MB] 43000000 reads parsed INFO @ 04 Jul 2024 22:43:14: [327 MB] 44000000 reads parsed INFO @ 04 Jul 2024 22:43:20: [342 MB] 45000000 reads parsed INFO @ 04 Jul 2024 22:43:27: [344 MB] 46000000 reads parsed INFO @ 04 Jul 2024 22:43:33: [345 MB] 47000000 reads parsed INFO @ 04 Jul 2024 22:43:39: [345 MB] 48000000 reads parsed INFO @ 04 Jul 2024 22:43:46: [347 MB] 49000000 reads parsed INFO @ 04 Jul 2024 22:43:52: [347 MB] 50000000 reads parsed INFO @ 04 Jul 2024 22:43:58: [350 MB] 51000000 reads parsed INFO @ 04 Jul 2024 22:44:04: [364 MB] 52000000 reads parsed INFO @ 04 Jul 2024 22:44:11: [367 MB] 53000000 reads parsed INFO @ 04 Jul 2024 22:44:17: [368 MB] 54000000 reads parsed INFO @ 04 Jul 2024 22:44:23: [368 MB] 55000000 reads parsed INFO @ 04 Jul 2024 22:44:30: [370 MB] 56000000 reads parsed INFO @ 04 Jul 2024 22:44:36: [370 MB] 57000000 reads parsed INFO @ 04 Jul 2024 22:44:42: [382 MB] 58000000 reads parsed INFO @ 04 Jul 2024 22:44:49: [387 MB] 59000000 reads parsed INFO @ 04 Jul 2024 22:44:55: [401 MB] 60000000 reads parsed INFO @ 04 Jul 2024 22:45:01: [417 MB] 61000000 reads parsed INFO @ 04 Jul 2024 22:45:08: [420 MB] 62000000 reads parsed INFO @ 04 Jul 2024 22:45:14: [420 MB] 63000000 reads parsed INFO @ 04 Jul 2024 22:45:20: [421 MB] 64000000 reads parsed INFO @ 04 Jul 2024 22:45:27: [424 MB] 65000000 reads parsed INFO @ 04 Jul 2024 22:45:33: [426 MB] 66000000 reads parsed INFO @ 04 Jul 2024 22:45:39: [428 MB] 67000000 reads parsed INFO @ 04 Jul 2024 22:45:45: [430 MB] 68000000 reads parsed INFO @ 04 Jul 2024 22:45:52: [431 MB] 69000000 reads parsed INFO @ 04 Jul 2024 22:45:58: [434 MB] 70000000 reads parsed INFO @ 04 Jul 2024 22:46:04: [438 MB] 71000000 reads parsed INFO @ 04 Jul 2024 22:46:11: [442 MB] 72000000 reads parsed INFO @ 04 Jul 2024 22:46:17: [459 MB] 73000000 reads parsed INFO @ 04 Jul 2024 22:46:23: [461 MB] 74000000 reads parsed INFO @ 04 Jul 2024 22:46:30: [462 MB] 75000000 reads parsed INFO @ 04 Jul 2024 22:46:36: [466 MB] 76000000 reads parsed INFO @ 04 Jul 2024 22:46:42: [468 MB] 77000000 reads parsed INFO @ 04 Jul 2024 22:46:49: [469 MB] 78000000 reads parsed INFO @ 04 Jul 2024 22:46:55: [473 MB] 79000000 reads parsed INFO @ 04 Jul 2024 22:47:01: [476 MB] 80000000 reads parsed INFO @ 04 Jul 2024 22:47:06: [477 MB] #1 tag size is determined as 189 bps INFO @ 04 Jul 2024 22:47:06: [477 MB] #1 tag size = 189.0 INFO @ 04 Jul 2024 22:47:06: [477 MB] #1 total tags in treatment: 80142140 INFO @ 04 Jul 2024 22:47:06: [477 MB] #1 user defined the maximum tags... INFO @ 04 Jul 2024 22:47:06: [477 MB] #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ 04 Jul 2024 22:47:08: [477 MB] #1 tags after filtering in treatment: 43927989 INFO @ 04 Jul 2024 22:47:08: [477 MB] #1 Redundant rate of treatment: 0.45 INFO @ 04 Jul 2024 22:47:08: [477 MB] #1 finished! INFO @ 04 Jul 2024 22:47:08: [477 MB] #2 Build Peak Model... INFO @ 04 Jul 2024 22:47:08: [477 MB] #2 Skipped... INFO @ 04 Jul 2024 22:47:08: [477 MB] #2 Use 200 as fragment length INFO @ 04 Jul 2024 22:47:08: [477 MB] #2 Sequencing ends will be shifted towards 5' by 100 bp(s) INFO @ 04 Jul 2024 22:47:08: [477 MB] #3 Call peaks... INFO @ 04 Jul 2024 22:47:08: [477 MB] #3 Going to call summits inside each peak ... INFO @ 04 Jul 2024 22:47:08: [477 MB] #3 Pre-compute pvalue-qvalue table... INFO @ 04 Jul 2024 22:56:07: [1148 MB] #3 Call peaks for each chromosome... INFO @ 04 Jul 2024 23:01:37: [1148 MB] #4 Write output xls file... /tscc/projects/ps-epigen/users/kdang/ASAP/DASeq_broadCT/callpeak_out/Oligodendrocyte_peaks.xls INFO @ 04 Jul 2024 23:01:39: [1148 MB] #4 Write peak in narrowPeak format file... /tscc/projects/ps-epigen/users/kdang/ASAP/DASeq_broadCT/callpeak_out/Oligodendrocyte_peaks.narrowPeak INFO @ 04 Jul 2024 23:01:39: [1148 MB] #4 Write summits bed file... /tscc/projects/ps-epigen/users/kdang/ASAP/DASeq_broadCT/callpeak_out/Oligodendrocyte_summits.bed INFO @ 04 Jul 2024 23:01:40: [1148 MB] Done!