INFO  @ 20 Dec 2024 06:18:18: [31 MB] 
# Command line: callpeak -t 2_celltype_fragments/pseudorep2/C16_sorted.tsv -f BED -n C16_pseudoreplicate2 -g hs --outdir 3_peaks -p 0.01 --shift -75 --extsize 150 --nomodel -B --SPMR --keep-dup all --call-summits
# ARGUMENTS LIST:
# name = C16_pseudoreplicate2
# format = BED
# ChIP-seq file = ['2_celltype_fragments/pseudorep2/C16_sorted.tsv']
# control file = None
# effective genome size = 2.91e+09
# band width = 300
# model fold = [5, 50]
# pvalue cutoff = 1.00e-02
# qvalue will not be calculated and reported as -1 in the final output.
# 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
# MACS will save fragment pileup signal per million reads
 
INFO  @ 20 Dec 2024 06:18:18: [31 MB] #1 read tag files... 
INFO  @ 20 Dec 2024 06:18:18: [31 MB] #1 read treatment tags... 
INFO  @ 20 Dec 2024 06:18:20: [97 MB]  1000000 reads parsed 
INFO  @ 20 Dec 2024 06:18:22: [102 MB]  2000000 reads parsed 
INFO  @ 20 Dec 2024 06:18:24: [108 MB]  3000000 reads parsed 
INFO  @ 20 Dec 2024 06:18:26: [113 MB]  4000000 reads parsed 
INFO  @ 20 Dec 2024 06:18:28: [118 MB]  5000000 reads parsed 
INFO  @ 20 Dec 2024 06:18:30: [123 MB]  6000000 reads parsed 
INFO  @ 20 Dec 2024 06:18:31: [128 MB]  7000000 reads parsed 
INFO  @ 20 Dec 2024 06:18:32: [129 MB] #1 tag size is determined as 1 bps 
INFO  @ 20 Dec 2024 06:18:32: [129 MB] #1 tag size = 1.0 
INFO  @ 20 Dec 2024 06:18:32: [129 MB] #1  total tags in treatment: 7238664 
INFO  @ 20 Dec 2024 06:18:32: [129 MB] #1 finished! 
INFO  @ 20 Dec 2024 06:18:32: [129 MB] #2 Build Peak Model... 
INFO  @ 20 Dec 2024 06:18:32: [129 MB] #2 Skipped... 
INFO  @ 20 Dec 2024 06:18:32: [129 MB] #2 Use 150 as fragment length 
INFO  @ 20 Dec 2024 06:18:32: [129 MB] #2 Sequencing ends will be shifted towards 5' by 75 bp(s) 
INFO  @ 20 Dec 2024 06:18:32: [129 MB] #3 Call peaks... 
INFO  @ 20 Dec 2024 06:18:32: [129 MB] #3 Going to call summits inside each peak ... 
INFO  @ 20 Dec 2024 06:18:32: [129 MB] #3 Call peaks with given -log10pvalue cutoff: 2.00000 ... 
INFO  @ 20 Dec 2024 06:18:32: [129 MB] #3 Pre-compute pvalue-qvalue table... 
INFO  @ 20 Dec 2024 06:18:41: [242 MB] #3 In the peak calling step, the following will be performed simultaneously: 
INFO  @ 20 Dec 2024 06:18:41: [242 MB] #3   Write bedGraph files for treatment pileup (after scaling if necessary)... C16_pseudoreplicate2_treat_pileup.bdg 
INFO  @ 20 Dec 2024 06:18:41: [242 MB] #3   Write bedGraph files for control lambda (after scaling if necessary)... C16_pseudoreplicate2_control_lambda.bdg 
INFO  @ 20 Dec 2024 06:18:41: [242 MB] #3   --SPMR is requested, so pileup will be normalized by sequencing depth in million reads. 
INFO  @ 20 Dec 2024 06:18:41: [242 MB] #3 Call peaks for each chromosome... 
INFO  @ 20 Dec 2024 06:19:18: [242 MB] #4 Write output xls file... 3_peaks/C16_pseudoreplicate2_peaks.xls 
INFO  @ 20 Dec 2024 06:19:19: [242 MB] #4 Write peak in narrowPeak format file... 3_peaks/C16_pseudoreplicate2_peaks.narrowPeak 
INFO  @ 20 Dec 2024 06:19:20: [242 MB] #4 Write summits bed file... 3_peaks/C16_pseudoreplicate2_summits.bed 
INFO  @ 20 Dec 2024 06:19:20: [242 MB] Done!