Job ID = 14172835 SRX = SRX7434120 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:00 Time loading forward index: 00:00:01 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:02:52 13144160 reads; of these: 13144160 (100.00%) were unpaired; of these: 2366900 (18.01%) aligned 0 times 8499534 (64.66%) aligned exactly 1 time 2277726 (17.33%) aligned >1 times 81.99% overall alignment rate Time searching: 00:02:53 Overall time: 00:02:53 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 1870 sequences. [bam_sort_core] merging from 8 files... [bam_rmdupse_core] 5240582 / 10777260 = 0.4863 in library ' ' BAM に変換しました。 Bed ファイルを作成中... WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 11 Dec 2021 17:10:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7434120/SRX7434120.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7434120/SRX7434120.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7434120/SRX7434120.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7434120/SRX7434120.bam'] # control file = None # effective genome size = 1.20e+08 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-05 # 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 INFO @ Sat, 11 Dec 2021 17:10:30: #1 read tag files... INFO @ Sat, 11 Dec 2021 17:10:30: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 17:10:35: 1000000 INFO @ Sat, 11 Dec 2021 17:10:41: 2000000 INFO @ Sat, 11 Dec 2021 17:10:46: 3000000 INFO @ Sat, 11 Dec 2021 17:10:52: 4000000 INFO @ Sat, 11 Dec 2021 17:10:57: 5000000 WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 11 Dec 2021 17:11:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7434120/SRX7434120.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7434120/SRX7434120.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7434120/SRX7434120.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7434120/SRX7434120.bam'] # control file = None # effective genome size = 1.20e+08 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-10 # 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 INFO @ Sat, 11 Dec 2021 17:11:00: #1 read tag files... INFO @ Sat, 11 Dec 2021 17:11:00: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 17:11:01: #1 tag size is determined as 51 bps INFO @ Sat, 11 Dec 2021 17:11:01: #1 tag size = 51 INFO @ Sat, 11 Dec 2021 17:11:01: #1 total tags in treatment: 5536678 INFO @ Sat, 11 Dec 2021 17:11:01: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 17:11:01: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 17:11:01: #1 tags after filtering in treatment: 5536522 INFO @ Sat, 11 Dec 2021 17:11:01: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 17:11:01: #1 finished! INFO @ Sat, 11 Dec 2021 17:11:01: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 17:11:01: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 17:11:02: #2 number of paired peaks: 2732 INFO @ Sat, 11 Dec 2021 17:11:02: start model_add_line... INFO @ Sat, 11 Dec 2021 17:11:02: start X-correlation... INFO @ Sat, 11 Dec 2021 17:11:02: end of X-cor INFO @ Sat, 11 Dec 2021 17:11:02: #2 finished! INFO @ Sat, 11 Dec 2021 17:11:02: #2 predicted fragment length is 242 bps INFO @ Sat, 11 Dec 2021 17:11:02: #2 alternative fragment length(s) may be 242 bps INFO @ Sat, 11 Dec 2021 17:11:02: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7434120/SRX7434120.05_model.r INFO @ Sat, 11 Dec 2021 17:11:02: #3 Call peaks... INFO @ Sat, 11 Dec 2021 17:11:02: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 17:11:07: 1000000 INFO @ Sat, 11 Dec 2021 17:11:13: 2000000 INFO @ Sat, 11 Dec 2021 17:11:16: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 17:11:20: 3000000 INFO @ Sat, 11 Dec 2021 17:11:23: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7434120/SRX7434120.05_peaks.xls INFO @ Sat, 11 Dec 2021 17:11:23: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7434120/SRX7434120.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 17:11:23: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7434120/SRX7434120.05_summits.bed INFO @ Sat, 11 Dec 2021 17:11:23: Done! pass1 - making usageList (623 chroms): 1 millis pass2 - checking and writing primary data (3926 records, 4 fields): 19 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 17:11:27: 4000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 11 Dec 2021 17:11:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7434120/SRX7434120.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7434120/SRX7434120.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7434120/SRX7434120.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7434120/SRX7434120.bam'] # control file = None # effective genome size = 1.20e+08 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-20 # 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 INFO @ Sat, 11 Dec 2021 17:11:30: #1 read tag files... INFO @ Sat, 11 Dec 2021 17:11:30: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 17:11:34: 5000000 INFO @ Sat, 11 Dec 2021 17:11:36: 1000000 INFO @ Sat, 11 Dec 2021 17:11:38: #1 tag size is determined as 51 bps INFO @ Sat, 11 Dec 2021 17:11:38: #1 tag size = 51 INFO @ Sat, 11 Dec 2021 17:11:38: #1 total tags in treatment: 5536678 INFO @ Sat, 11 Dec 2021 17:11:38: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 17:11:38: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 17:11:39: #1 tags after filtering in treatment: 5536522 INFO @ Sat, 11 Dec 2021 17:11:39: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 17:11:39: #1 finished! INFO @ Sat, 11 Dec 2021 17:11:39: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 17:11:39: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 17:11:39: #2 number of paired peaks: 2732 INFO @ Sat, 11 Dec 2021 17:11:39: start model_add_line... INFO @ Sat, 11 Dec 2021 17:11:39: start X-correlation... INFO @ Sat, 11 Dec 2021 17:11:39: end of X-cor INFO @ Sat, 11 Dec 2021 17:11:39: #2 finished! INFO @ Sat, 11 Dec 2021 17:11:39: #2 predicted fragment length is 242 bps INFO @ Sat, 11 Dec 2021 17:11:39: #2 alternative fragment length(s) may be 242 bps INFO @ Sat, 11 Dec 2021 17:11:39: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7434120/SRX7434120.10_model.r INFO @ Sat, 11 Dec 2021 17:11:39: #3 Call peaks... INFO @ Sat, 11 Dec 2021 17:11:39: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 17:11:43: 2000000 INFO @ Sat, 11 Dec 2021 17:11:48: 3000000 BedGraph に変換しました。 INFO @ Sat, 11 Dec 2021 17:11:53: #3 Call peaks for each chromosome... BigWig に変換中... INFO @ Sat, 11 Dec 2021 17:11:54: 4000000 INFO @ Sat, 11 Dec 2021 17:11:59: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7434120/SRX7434120.10_peaks.xls INFO @ Sat, 11 Dec 2021 17:11:59: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7434120/SRX7434120.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 17:11:59: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7434120/SRX7434120.10_summits.bed INFO @ Sat, 11 Dec 2021 17:11:59: Done! pass1 - making usageList (429 chroms): 1 millis pass2 - checking and writing primary data (2745 records, 4 fields): 14 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 17:12:00: 5000000 INFO @ Sat, 11 Dec 2021 17:12:03: #1 tag size is determined as 51 bps INFO @ Sat, 11 Dec 2021 17:12:03: #1 tag size = 51 INFO @ Sat, 11 Dec 2021 17:12:03: #1 total tags in treatment: 5536678 INFO @ Sat, 11 Dec 2021 17:12:03: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 17:12:03: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 17:12:03: #1 tags after filtering in treatment: 5536522 INFO @ Sat, 11 Dec 2021 17:12:03: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 17:12:03: #1 finished! INFO @ Sat, 11 Dec 2021 17:12:03: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 17:12:03: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 17:12:04: #2 number of paired peaks: 2732 INFO @ Sat, 11 Dec 2021 17:12:04: start model_add_line... INFO @ Sat, 11 Dec 2021 17:12:04: start X-correlation... INFO @ Sat, 11 Dec 2021 17:12:04: end of X-cor INFO @ Sat, 11 Dec 2021 17:12:04: #2 finished! INFO @ Sat, 11 Dec 2021 17:12:04: #2 predicted fragment length is 242 bps INFO @ Sat, 11 Dec 2021 17:12:04: #2 alternative fragment length(s) may be 242 bps INFO @ Sat, 11 Dec 2021 17:12:04: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7434120/SRX7434120.20_model.r INFO @ Sat, 11 Dec 2021 17:12:04: #3 Call peaks... INFO @ Sat, 11 Dec 2021 17:12:04: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 17:12:18: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 17:12:24: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7434120/SRX7434120.20_peaks.xls INFO @ Sat, 11 Dec 2021 17:12:24: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7434120/SRX7434120.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 17:12:24: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7434120/SRX7434120.20_summits.bed INFO @ Sat, 11 Dec 2021 17:12:24: Done! pass1 - making usageList (193 chroms): 1 millis pass2 - checking and writing primary data (1822 records, 4 fields): 8 millis CompletedMACS2peakCalling