Job ID = 14160662 SRX = SRX11322242 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2021-12-08T18:35:28 prefetch.2.10.7: 1) Downloading 'SRR15010069'... 2021-12-08T18:35:28 prefetch.2.10.7: Downloading via HTTPS... 2021-12-08T18:36:20 prefetch.2.10.7: HTTPS download succeed 2021-12-08T18:36:21 prefetch.2.10.7: 'SRR15010069' is valid 2021-12-08T18:36:21 prefetch.2.10.7: 1) 'SRR15010069' was downloaded successfully 2021-12-08T18:36:21 prefetch.2.10.7: 'SRR15010069' has 0 unresolved dependencies Read 8119087 spots for SRR15010069/SRR15010069.sra Written 8119087 spots for SRR15010069/SRR15010069.sra fastq に変換しました。 bowtie でマッピング中... Your job 14160781 ("srTce11") 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: 00:04:33 8119087 reads; of these: 8119087 (100.00%) were unpaired; of these: 2735795 (33.70%) aligned 0 times 4711750 (58.03%) aligned exactly 1 time 671542 (8.27%) aligned >1 times 66.30% overall alignment rate Time searching: 00:04:33 Overall time: 00:04:33 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 7 sequences. [bam_rmdupse_core] 766629 / 5383292 = 0.1424 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 @ Thu, 09 Dec 2021 03:44:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX11322242/SRX11322242.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX11322242/SRX11322242.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX11322242/SRX11322242.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX11322242/SRX11322242.bam'] # control file = None # effective genome size = 9.00e+07 # 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 @ Thu, 09 Dec 2021 03:44:06: #1 read tag files... INFO @ Thu, 09 Dec 2021 03:44:06: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 03:44:13: 1000000 INFO @ Thu, 09 Dec 2021 03:44:20: 2000000 INFO @ Thu, 09 Dec 2021 03:44:26: 3000000 INFO @ Thu, 09 Dec 2021 03:44:33: 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 @ Thu, 09 Dec 2021 03:44:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX11322242/SRX11322242.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX11322242/SRX11322242.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX11322242/SRX11322242.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX11322242/SRX11322242.bam'] # control file = None # effective genome size = 9.00e+07 # 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 @ Thu, 09 Dec 2021 03:44:36: #1 read tag files... INFO @ Thu, 09 Dec 2021 03:44:36: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 03:44:37: #1 tag size is determined as 151 bps INFO @ Thu, 09 Dec 2021 03:44:37: #1 tag size = 151 INFO @ Thu, 09 Dec 2021 03:44:37: #1 total tags in treatment: 4616663 INFO @ Thu, 09 Dec 2021 03:44:37: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 03:44:37: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 09 Dec 2021 03:44:37: #1 tags after filtering in treatment: 4616663 INFO @ Thu, 09 Dec 2021 03:44:37: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 03:44:37: #1 finished! INFO @ Thu, 09 Dec 2021 03:44:37: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 03:44:37: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 03:44:37: #2 number of paired peaks: 1409 INFO @ Thu, 09 Dec 2021 03:44:37: start model_add_line... INFO @ Thu, 09 Dec 2021 03:44:37: start X-correlation... INFO @ Thu, 09 Dec 2021 03:44:37: end of X-cor INFO @ Thu, 09 Dec 2021 03:44:37: #2 finished! INFO @ Thu, 09 Dec 2021 03:44:37: #2 predicted fragment length is 160 bps INFO @ Thu, 09 Dec 2021 03:44:37: #2 alternative fragment length(s) may be 160 bps INFO @ Thu, 09 Dec 2021 03:44:37: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX11322242/SRX11322242.05_model.r WARNING @ Thu, 09 Dec 2021 03:44:37: #2 Since the d (160) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Thu, 09 Dec 2021 03:44:37: #2 You may need to consider one of the other alternative d(s): 160 WARNING @ Thu, 09 Dec 2021 03:44:37: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Thu, 09 Dec 2021 03:44:37: #3 Call peaks... INFO @ Thu, 09 Dec 2021 03:44:37: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 03:44:45: 1000000 INFO @ Thu, 09 Dec 2021 03:44:48: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 03:44:52: 2000000 INFO @ Thu, 09 Dec 2021 03:44:53: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX11322242/SRX11322242.05_peaks.xls INFO @ Thu, 09 Dec 2021 03:44:53: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX11322242/SRX11322242.05_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 03:44:53: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX11322242/SRX11322242.05_summits.bed INFO @ Thu, 09 Dec 2021 03:44:53: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (1726 records, 4 fields): 3 millis CompletedMACS2peakCalling INFO @ Thu, 09 Dec 2021 03:45:00: 3000000 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 @ Thu, 09 Dec 2021 03:45:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX11322242/SRX11322242.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX11322242/SRX11322242.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX11322242/SRX11322242.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX11322242/SRX11322242.bam'] # control file = None # effective genome size = 9.00e+07 # 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 @ Thu, 09 Dec 2021 03:45:07: #1 read tag files... INFO @ Thu, 09 Dec 2021 03:45:07: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 03:45:08: 4000000 INFO @ Thu, 09 Dec 2021 03:45:13: #1 tag size is determined as 151 bps INFO @ Thu, 09 Dec 2021 03:45:13: #1 tag size = 151 INFO @ Thu, 09 Dec 2021 03:45:13: #1 total tags in treatment: 4616663 INFO @ Thu, 09 Dec 2021 03:45:13: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 03:45:13: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 09 Dec 2021 03:45:13: #1 tags after filtering in treatment: 4616663 INFO @ Thu, 09 Dec 2021 03:45:13: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 03:45:13: #1 finished! INFO @ Thu, 09 Dec 2021 03:45:13: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 03:45:13: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 03:45:14: #2 number of paired peaks: 1409 INFO @ Thu, 09 Dec 2021 03:45:14: start model_add_line... INFO @ Thu, 09 Dec 2021 03:45:14: start X-correlation... INFO @ Thu, 09 Dec 2021 03:45:14: end of X-cor INFO @ Thu, 09 Dec 2021 03:45:14: #2 finished! INFO @ Thu, 09 Dec 2021 03:45:14: #2 predicted fragment length is 160 bps INFO @ Thu, 09 Dec 2021 03:45:14: #2 alternative fragment length(s) may be 160 bps INFO @ Thu, 09 Dec 2021 03:45:14: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX11322242/SRX11322242.10_model.r WARNING @ Thu, 09 Dec 2021 03:45:14: #2 Since the d (160) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Thu, 09 Dec 2021 03:45:14: #2 You may need to consider one of the other alternative d(s): 160 WARNING @ Thu, 09 Dec 2021 03:45:14: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Thu, 09 Dec 2021 03:45:14: #3 Call peaks... INFO @ Thu, 09 Dec 2021 03:45:14: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 03:45:15: 1000000 INFO @ Thu, 09 Dec 2021 03:45:22: 2000000 INFO @ Thu, 09 Dec 2021 03:45:24: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 03:45:29: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX11322242/SRX11322242.10_peaks.xls INFO @ Thu, 09 Dec 2021 03:45:29: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX11322242/SRX11322242.10_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 03:45:29: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX11322242/SRX11322242.10_summits.bed INFO @ Thu, 09 Dec 2021 03:45:29: Done! pass1 - making usageList (6 chroms): 0 millis pass2 - checking and writing primary data (762 records, 4 fields): 3 millis CompletedMACS2peakCalling INFO @ Thu, 09 Dec 2021 03:45:30: 3000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 09 Dec 2021 03:45:38: 4000000 INFO @ Thu, 09 Dec 2021 03:45:43: #1 tag size is determined as 151 bps INFO @ Thu, 09 Dec 2021 03:45:43: #1 tag size = 151 INFO @ Thu, 09 Dec 2021 03:45:43: #1 total tags in treatment: 4616663 INFO @ Thu, 09 Dec 2021 03:45:43: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 03:45:43: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 09 Dec 2021 03:45:43: #1 tags after filtering in treatment: 4616663 INFO @ Thu, 09 Dec 2021 03:45:43: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 03:45:43: #1 finished! INFO @ Thu, 09 Dec 2021 03:45:43: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 03:45:43: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 03:45:43: #2 number of paired peaks: 1409 INFO @ Thu, 09 Dec 2021 03:45:43: start model_add_line... INFO @ Thu, 09 Dec 2021 03:45:43: start X-correlation... INFO @ Thu, 09 Dec 2021 03:45:43: end of X-cor INFO @ Thu, 09 Dec 2021 03:45:43: #2 finished! INFO @ Thu, 09 Dec 2021 03:45:43: #2 predicted fragment length is 160 bps INFO @ Thu, 09 Dec 2021 03:45:43: #2 alternative fragment length(s) may be 160 bps INFO @ Thu, 09 Dec 2021 03:45:43: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX11322242/SRX11322242.20_model.r WARNING @ Thu, 09 Dec 2021 03:45:43: #2 Since the d (160) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Thu, 09 Dec 2021 03:45:43: #2 You may need to consider one of the other alternative d(s): 160 WARNING @ Thu, 09 Dec 2021 03:45:43: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Thu, 09 Dec 2021 03:45:43: #3 Call peaks... INFO @ Thu, 09 Dec 2021 03:45:43: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Thu, 09 Dec 2021 03:45:54: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 03:45:59: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX11322242/SRX11322242.20_peaks.xls INFO @ Thu, 09 Dec 2021 03:45:59: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX11322242/SRX11322242.20_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 03:45:59: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX11322242/SRX11322242.20_summits.bed INFO @ Thu, 09 Dec 2021 03:45:59: Done! pass1 - making usageList (6 chroms): 0 millis pass2 - checking and writing primary data (305 records, 4 fields): 2 millis CompletedMACS2peakCalling