Job ID = 14171126 SRX = SRX9434472 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: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:11:50 29420491 reads; of these: 29420491 (100.00%) were unpaired; of these: 693223 (2.36%) aligned 0 times 8485525 (28.84%) aligned exactly 1 time 20241743 (68.80%) aligned >1 times 97.64% overall alignment rate Time searching: 00:11:50 Overall time: 00:11:50 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 12 files... [bam_rmdupse_core] 12061397 / 28727268 = 0.4199 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 09:58:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX9434472/SRX9434472.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX9434472/SRX9434472.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX9434472/SRX9434472.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX9434472/SRX9434472.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 09:58:15: #1 read tag files... INFO @ Sat, 11 Dec 2021 09:58:15: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 09:58:21: 1000000 INFO @ Sat, 11 Dec 2021 09:58:26: 2000000 INFO @ Sat, 11 Dec 2021 09:58:32: 3000000 INFO @ Sat, 11 Dec 2021 09:58:38: 4000000 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 09:58:44: 5000000 INFO @ Sat, 11 Dec 2021 09:58:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX9434472/SRX9434472.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX9434472/SRX9434472.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX9434472/SRX9434472.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX9434472/SRX9434472.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 09:58:45: #1 read tag files... INFO @ Sat, 11 Dec 2021 09:58:45: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 09:58:50: 6000000 INFO @ Sat, 11 Dec 2021 09:58:51: 1000000 INFO @ Sat, 11 Dec 2021 09:58:56: 7000000 INFO @ Sat, 11 Dec 2021 09:58:58: 2000000 INFO @ Sat, 11 Dec 2021 09:59:02: 8000000 INFO @ Sat, 11 Dec 2021 09:59:04: 3000000 INFO @ Sat, 11 Dec 2021 09:59:08: 9000000 INFO @ Sat, 11 Dec 2021 09:59:11: 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 09:59:15: 10000000 INFO @ Sat, 11 Dec 2021 09:59:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX9434472/SRX9434472.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX9434472/SRX9434472.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX9434472/SRX9434472.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX9434472/SRX9434472.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 09:59:15: #1 read tag files... INFO @ Sat, 11 Dec 2021 09:59:15: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 09:59:18: 5000000 INFO @ Sat, 11 Dec 2021 09:59:21: 11000000 INFO @ Sat, 11 Dec 2021 09:59:22: 1000000 INFO @ Sat, 11 Dec 2021 09:59:24: 6000000 INFO @ Sat, 11 Dec 2021 09:59:28: 2000000 INFO @ Sat, 11 Dec 2021 09:59:29: 12000000 INFO @ Sat, 11 Dec 2021 09:59:31: 7000000 INFO @ Sat, 11 Dec 2021 09:59:35: 3000000 INFO @ Sat, 11 Dec 2021 09:59:36: 13000000 INFO @ Sat, 11 Dec 2021 09:59:38: 8000000 INFO @ Sat, 11 Dec 2021 09:59:42: 4000000 INFO @ Sat, 11 Dec 2021 09:59:43: 14000000 INFO @ Sat, 11 Dec 2021 09:59:44: 9000000 INFO @ Sat, 11 Dec 2021 09:59:48: 5000000 INFO @ Sat, 11 Dec 2021 09:59:49: 15000000 INFO @ Sat, 11 Dec 2021 09:59:51: 10000000 INFO @ Sat, 11 Dec 2021 09:59:55: 6000000 INFO @ Sat, 11 Dec 2021 09:59:57: 16000000 INFO @ Sat, 11 Dec 2021 09:59:58: 11000000 INFO @ Sat, 11 Dec 2021 10:00:01: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 10:00:01: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 10:00:01: #1 total tags in treatment: 16665871 INFO @ Sat, 11 Dec 2021 10:00:01: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 10:00:01: #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 10:00:02: 7000000 INFO @ Sat, 11 Dec 2021 10:00:02: #1 tags after filtering in treatment: 16665817 INFO @ Sat, 11 Dec 2021 10:00:02: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 10:00:02: #1 finished! INFO @ Sat, 11 Dec 2021 10:00:02: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 10:00:02: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 10:00:04: #2 number of paired peaks: 6780 INFO @ Sat, 11 Dec 2021 10:00:04: start model_add_line... INFO @ Sat, 11 Dec 2021 10:00:04: start X-correlation... INFO @ Sat, 11 Dec 2021 10:00:04: end of X-cor INFO @ Sat, 11 Dec 2021 10:00:04: #2 finished! INFO @ Sat, 11 Dec 2021 10:00:04: #2 predicted fragment length is 58 bps INFO @ Sat, 11 Dec 2021 10:00:04: #2 alternative fragment length(s) may be 2,58 bps INFO @ Sat, 11 Dec 2021 10:00:04: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX9434472/SRX9434472.05_model.r WARNING @ Sat, 11 Dec 2021 10:00:04: #2 Since the d (58) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 11 Dec 2021 10:00:04: #2 You may need to consider one of the other alternative d(s): 2,58 WARNING @ Sat, 11 Dec 2021 10:00:04: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 11 Dec 2021 10:00:04: #3 Call peaks... INFO @ Sat, 11 Dec 2021 10:00:04: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 10:00:05: 12000000 INFO @ Sat, 11 Dec 2021 10:00:07: 8000000 INFO @ Sat, 11 Dec 2021 10:00:11: 13000000 INFO @ Sat, 11 Dec 2021 10:00:14: 9000000 INFO @ Sat, 11 Dec 2021 10:00:17: 14000000 INFO @ Sat, 11 Dec 2021 10:00:20: 10000000 INFO @ Sat, 11 Dec 2021 10:00:23: 15000000 INFO @ Sat, 11 Dec 2021 10:00:26: 11000000 INFO @ Sat, 11 Dec 2021 10:00:30: 16000000 INFO @ Sat, 11 Dec 2021 10:00:33: 12000000 INFO @ Sat, 11 Dec 2021 10:00:34: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 10:00:34: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 10:00:34: #1 total tags in treatment: 16665871 INFO @ Sat, 11 Dec 2021 10:00:34: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 10:00:34: #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 10:00:35: #1 tags after filtering in treatment: 16665817 INFO @ Sat, 11 Dec 2021 10:00:35: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 10:00:35: #1 finished! INFO @ Sat, 11 Dec 2021 10:00:35: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 10:00:35: #2 looking for paired plus/minus strand peaks... BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 10:00:37: #2 number of paired peaks: 6780 INFO @ Sat, 11 Dec 2021 10:00:37: start model_add_line... INFO @ Sat, 11 Dec 2021 10:00:37: start X-correlation... INFO @ Sat, 11 Dec 2021 10:00:37: end of X-cor INFO @ Sat, 11 Dec 2021 10:00:37: #2 finished! INFO @ Sat, 11 Dec 2021 10:00:37: #2 predicted fragment length is 58 bps INFO @ Sat, 11 Dec 2021 10:00:37: #2 alternative fragment length(s) may be 2,58 bps INFO @ Sat, 11 Dec 2021 10:00:37: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX9434472/SRX9434472.10_model.r WARNING @ Sat, 11 Dec 2021 10:00:37: #2 Since the d (58) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 11 Dec 2021 10:00:37: #2 You may need to consider one of the other alternative d(s): 2,58 WARNING @ Sat, 11 Dec 2021 10:00:37: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 11 Dec 2021 10:00:37: #3 Call peaks... INFO @ Sat, 11 Dec 2021 10:00:37: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 10:00:38: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 10:00:39: 13000000 INFO @ Sat, 11 Dec 2021 10:00:45: 14000000 INFO @ Sat, 11 Dec 2021 10:00:50: 15000000 INFO @ Sat, 11 Dec 2021 10:00:55: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX9434472/SRX9434472.05_peaks.xls INFO @ Sat, 11 Dec 2021 10:00:56: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX9434472/SRX9434472.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 10:00:56: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX9434472/SRX9434472.05_summits.bed INFO @ Sat, 11 Dec 2021 10:00:56: Done! INFO @ Sat, 11 Dec 2021 10:00:56: 16000000 pass1 - making usageList (1156 chroms): 3 millis pass2 - checking and writing primary data (9081 records, 4 fields): 138 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 10:01:00: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 10:01:00: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 10:01:00: #1 total tags in treatment: 16665871 INFO @ Sat, 11 Dec 2021 10:01:00: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 10:01:00: #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 10:01:01: #1 tags after filtering in treatment: 16665817 INFO @ Sat, 11 Dec 2021 10:01:01: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 10:01:01: #1 finished! INFO @ Sat, 11 Dec 2021 10:01:01: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 10:01:01: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 10:01:03: #2 number of paired peaks: 6780 INFO @ Sat, 11 Dec 2021 10:01:03: start model_add_line... INFO @ Sat, 11 Dec 2021 10:01:03: start X-correlation... INFO @ Sat, 11 Dec 2021 10:01:03: end of X-cor INFO @ Sat, 11 Dec 2021 10:01:03: #2 finished! INFO @ Sat, 11 Dec 2021 10:01:03: #2 predicted fragment length is 58 bps INFO @ Sat, 11 Dec 2021 10:01:03: #2 alternative fragment length(s) may be 2,58 bps INFO @ Sat, 11 Dec 2021 10:01:03: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX9434472/SRX9434472.20_model.r WARNING @ Sat, 11 Dec 2021 10:01:03: #2 Since the d (58) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 11 Dec 2021 10:01:03: #2 You may need to consider one of the other alternative d(s): 2,58 WARNING @ Sat, 11 Dec 2021 10:01:03: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 11 Dec 2021 10:01:03: #3 Call peaks... INFO @ Sat, 11 Dec 2021 10:01:03: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 10:01:10: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 10:01:26: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX9434472/SRX9434472.10_peaks.xls INFO @ Sat, 11 Dec 2021 10:01:26: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX9434472/SRX9434472.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 10:01:27: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX9434472/SRX9434472.10_summits.bed INFO @ Sat, 11 Dec 2021 10:01:27: Done! pass1 - making usageList (1029 chroms): 2 millis pass2 - checking and writing primary data (4437 records, 4 fields): 140 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 10:01:36: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 10:01:53: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX9434472/SRX9434472.20_peaks.xls INFO @ Sat, 11 Dec 2021 10:01:53: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX9434472/SRX9434472.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 10:01:53: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX9434472/SRX9434472.20_summits.bed INFO @ Sat, 11 Dec 2021 10:01:53: Done! pass1 - making usageList (811 chroms): 2 millis pass2 - checking and writing primary data (2736 records, 4 fields): 53 millis CompletedMACS2peakCalling