Job ID = 12265299 SRX = SRX5010758 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 16827993 spots for SRR8191183/SRR8191183.sra Written 16827993 spots for SRR8191183/SRR8191183.sra fastq に変換しました。 bowtie でマッピング中... Your job 12265433 ("srTdm6") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:05:18 16827993 reads; of these: 16827993 (100.00%) were unpaired; of these: 568765 (3.38%) aligned 0 times 10321536 (61.34%) aligned exactly 1 time 5937692 (35.28%) aligned >1 times 96.62% overall alignment rate Time searching: 00:05:18 Overall time: 00:05:18 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 15 sequences. [bam_sort_core] merging from 8 files... [bam_rmdupse_core] 7828212 / 16259228 = 0.4815 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/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 06:38:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5010758/SRX5010758.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5010758/SRX5010758.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5010758/SRX5010758.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5010758/SRX5010758.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, 03 Apr 2021 06:38:04: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:38:04: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:38:11: 1000000 INFO @ Sat, 03 Apr 2021 06:38:18: 2000000 INFO @ Sat, 03 Apr 2021 06:38:25: 3000000 WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 06:38:33: 4000000 INFO @ Sat, 03 Apr 2021 06:38:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5010758/SRX5010758.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5010758/SRX5010758.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5010758/SRX5010758.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5010758/SRX5010758.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, 03 Apr 2021 06:38:33: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:38:33: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:38:40: 5000000 INFO @ Sat, 03 Apr 2021 06:38:41: 1000000 INFO @ Sat, 03 Apr 2021 06:38:47: 6000000 INFO @ Sat, 03 Apr 2021 06:38:48: 2000000 INFO @ Sat, 03 Apr 2021 06:38:55: 7000000 INFO @ Sat, 03 Apr 2021 06:38:56: 3000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 06:39:03: 8000000 INFO @ Sat, 03 Apr 2021 06:39:03: 4000000 INFO @ Sat, 03 Apr 2021 06:39:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5010758/SRX5010758.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5010758/SRX5010758.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5010758/SRX5010758.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5010758/SRX5010758.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, 03 Apr 2021 06:39:03: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:39:03: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:39:06: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:39:06: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:39:06: #1 total tags in treatment: 8431016 INFO @ Sat, 03 Apr 2021 06:39:06: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:39:06: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 06:39:06: #1 tags after filtering in treatment: 8431016 INFO @ Sat, 03 Apr 2021 06:39:06: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:39:06: #1 finished! INFO @ Sat, 03 Apr 2021 06:39:06: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:39:06: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:39:07: #2 number of paired peaks: 1884 INFO @ Sat, 03 Apr 2021 06:39:07: start model_add_line... INFO @ Sat, 03 Apr 2021 06:39:07: start X-correlation... INFO @ Sat, 03 Apr 2021 06:39:07: end of X-cor INFO @ Sat, 03 Apr 2021 06:39:07: #2 finished! INFO @ Sat, 03 Apr 2021 06:39:07: #2 predicted fragment length is 87 bps INFO @ Sat, 03 Apr 2021 06:39:07: #2 alternative fragment length(s) may be 87 bps INFO @ Sat, 03 Apr 2021 06:39:07: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX5010758/SRX5010758.05_model.r WARNING @ Sat, 03 Apr 2021 06:39:07: #2 Since the d (87) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:39:07: #2 You may need to consider one of the other alternative d(s): 87 WARNING @ Sat, 03 Apr 2021 06:39:07: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 03 Apr 2021 06:39:07: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:39:07: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:39:10: 1000000 INFO @ Sat, 03 Apr 2021 06:39:10: 5000000 INFO @ Sat, 03 Apr 2021 06:39:16: 2000000 INFO @ Sat, 03 Apr 2021 06:39:17: 6000000 INFO @ Sat, 03 Apr 2021 06:39:23: 3000000 INFO @ Sat, 03 Apr 2021 06:39:25: 7000000 INFO @ Sat, 03 Apr 2021 06:39:26: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:39:30: 4000000 INFO @ Sat, 03 Apr 2021 06:39:32: 8000000 INFO @ Sat, 03 Apr 2021 06:39:35: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:39:35: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:39:35: #1 total tags in treatment: 8431016 INFO @ Sat, 03 Apr 2021 06:39:35: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:39:35: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 06:39:35: #1 tags after filtering in treatment: 8431016 INFO @ Sat, 03 Apr 2021 06:39:35: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:39:35: #1 finished! INFO @ Sat, 03 Apr 2021 06:39:35: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:39:35: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:39:36: #2 number of paired peaks: 1884 INFO @ Sat, 03 Apr 2021 06:39:36: start model_add_line... INFO @ Sat, 03 Apr 2021 06:39:36: start X-correlation... INFO @ Sat, 03 Apr 2021 06:39:36: end of X-cor INFO @ Sat, 03 Apr 2021 06:39:36: #2 finished! INFO @ Sat, 03 Apr 2021 06:39:36: #2 predicted fragment length is 87 bps INFO @ Sat, 03 Apr 2021 06:39:36: #2 alternative fragment length(s) may be 87 bps INFO @ Sat, 03 Apr 2021 06:39:36: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX5010758/SRX5010758.10_model.r WARNING @ Sat, 03 Apr 2021 06:39:36: #2 Since the d (87) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:39:36: #2 You may need to consider one of the other alternative d(s): 87 WARNING @ Sat, 03 Apr 2021 06:39:36: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 03 Apr 2021 06:39:36: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:39:36: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:39:36: 5000000 INFO @ Sat, 03 Apr 2021 06:39:37: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX5010758/SRX5010758.05_peaks.xls INFO @ Sat, 03 Apr 2021 06:39:37: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX5010758/SRX5010758.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:39:37: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX5010758/SRX5010758.05_summits.bed INFO @ Sat, 03 Apr 2021 06:39:37: Done! pass1 - making usageList (15 chroms): 3 millis pass2 - checking and writing primary data (9363 records, 4 fields): 14 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:39:42: 6000000 INFO @ Sat, 03 Apr 2021 06:39:49: 7000000 INFO @ Sat, 03 Apr 2021 06:39:55: 8000000 INFO @ Sat, 03 Apr 2021 06:39:55: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:39:57: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:39:57: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:39:57: #1 total tags in treatment: 8431016 INFO @ Sat, 03 Apr 2021 06:39:57: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:39:57: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 06:39:58: #1 tags after filtering in treatment: 8431016 INFO @ Sat, 03 Apr 2021 06:39:58: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:39:58: #1 finished! INFO @ Sat, 03 Apr 2021 06:39:58: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:39:58: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:39:58: #2 number of paired peaks: 1884 INFO @ Sat, 03 Apr 2021 06:39:58: start model_add_line... INFO @ Sat, 03 Apr 2021 06:39:58: start X-correlation... INFO @ Sat, 03 Apr 2021 06:39:58: end of X-cor INFO @ Sat, 03 Apr 2021 06:39:58: #2 finished! INFO @ Sat, 03 Apr 2021 06:39:58: #2 predicted fragment length is 87 bps INFO @ Sat, 03 Apr 2021 06:39:58: #2 alternative fragment length(s) may be 87 bps INFO @ Sat, 03 Apr 2021 06:39:58: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX5010758/SRX5010758.20_model.r WARNING @ Sat, 03 Apr 2021 06:39:58: #2 Since the d (87) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:39:58: #2 You may need to consider one of the other alternative d(s): 87 WARNING @ Sat, 03 Apr 2021 06:39:58: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 03 Apr 2021 06:39:58: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:39:58: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:40:05: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX5010758/SRX5010758.10_peaks.xls INFO @ Sat, 03 Apr 2021 06:40:05: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX5010758/SRX5010758.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:40:05: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX5010758/SRX5010758.10_summits.bed INFO @ Sat, 03 Apr 2021 06:40:05: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (5540 records, 4 fields): 9 millis CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 06:40:16: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:40:25: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX5010758/SRX5010758.20_peaks.xls INFO @ Sat, 03 Apr 2021 06:40:25: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX5010758/SRX5010758.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:40:25: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX5010758/SRX5010758.20_summits.bed INFO @ Sat, 03 Apr 2021 06:40:25: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (2444 records, 4 fields): 56 millis CompletedMACS2peakCalling BigWig に変換しました。