Job ID = 14160663 SRX = SRX11322243 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2021-12-08T18:35:43 prefetch.2.10.7: 1) Downloading 'SRR15010070'... 2021-12-08T18:35:43 prefetch.2.10.7: Downloading via HTTPS... 2021-12-08T18:38:32 prefetch.2.10.7: HTTPS download succeed 2021-12-08T18:38:32 prefetch.2.10.7: 1) 'SRR15010070' was downloaded successfully 2021-12-08T18:38:32 prefetch.2.10.7: 'SRR15010070' has 0 unresolved dependencies Read 8727747 spots for SRR15010070/SRR15010070.sra Written 8727747 spots for SRR15010070/SRR15010070.sra fastq に変換しました。 bowtie でマッピング中... Your job 14160787 ("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: 00:05:10 8727747 reads; of these: 8727747 (100.00%) were unpaired; of these: 2670272 (30.60%) aligned 0 times 5344734 (61.24%) aligned exactly 1 time 712741 (8.17%) aligned >1 times 69.40% overall alignment rate Time searching: 00:05:10 Overall time: 00:05:10 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_sort_core] merging from 8 files... [bam_rmdupse_core] 996166 / 6057475 = 0.1645 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 03:47:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX11322243/SRX11322243.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX11322243/SRX11322243.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX11322243/SRX11322243.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX11322243/SRX11322243.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 03:47:07: #1 read tag files... INFO @ Thu, 09 Dec 2021 03:47:07: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 03:47:14: 1000000 INFO @ Thu, 09 Dec 2021 03:47:21: 2000000 INFO @ Thu, 09 Dec 2021 03:47:28: 3000000 INFO @ Thu, 09 Dec 2021 03:47:35: 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 03:47:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX11322243/SRX11322243.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX11322243/SRX11322243.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX11322243/SRX11322243.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX11322243/SRX11322243.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 03:47:37: #1 read tag files... INFO @ Thu, 09 Dec 2021 03:47:37: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 03:47:42: 5000000 INFO @ Thu, 09 Dec 2021 03:47:42: #1 tag size is determined as 151 bps INFO @ Thu, 09 Dec 2021 03:47:42: #1 tag size = 151 INFO @ Thu, 09 Dec 2021 03:47:42: #1 total tags in treatment: 5061309 INFO @ Thu, 09 Dec 2021 03:47:42: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 03:47:42: #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 03:47:42: #1 tags after filtering in treatment: 5061309 INFO @ Thu, 09 Dec 2021 03:47:42: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 03:47:42: #1 finished! INFO @ Thu, 09 Dec 2021 03:47:42: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 03:47:42: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 03:47:43: #2 number of paired peaks: 1830 INFO @ Thu, 09 Dec 2021 03:47:43: start model_add_line... INFO @ Thu, 09 Dec 2021 03:47:43: start X-correlation... INFO @ Thu, 09 Dec 2021 03:47:43: end of X-cor INFO @ Thu, 09 Dec 2021 03:47:43: #2 finished! INFO @ Thu, 09 Dec 2021 03:47:43: #2 predicted fragment length is 185 bps INFO @ Thu, 09 Dec 2021 03:47:43: #2 alternative fragment length(s) may be 185 bps INFO @ Thu, 09 Dec 2021 03:47:43: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX11322243/SRX11322243.05_model.r WARNING @ Thu, 09 Dec 2021 03:47:43: #2 Since the d (185) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Thu, 09 Dec 2021 03:47:43: #2 You may need to consider one of the other alternative d(s): 185 WARNING @ Thu, 09 Dec 2021 03:47:43: #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 03:47:43: #3 Call peaks... INFO @ Thu, 09 Dec 2021 03:47:43: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 03:47:44: 1000000 INFO @ Thu, 09 Dec 2021 03:47:52: 2000000 INFO @ Thu, 09 Dec 2021 03:47:55: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 03:47:59: 3000000 INFO @ Thu, 09 Dec 2021 03:48:00: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX11322243/SRX11322243.05_peaks.xls INFO @ Thu, 09 Dec 2021 03:48:00: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX11322243/SRX11322243.05_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 03:48:00: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX11322243/SRX11322243.05_summits.bed INFO @ Thu, 09 Dec 2021 03:48:00: Done! pass1 - making usageList (6 chroms): 0 millis pass2 - checking and writing primary data (2560 records, 4 fields): 4 millis CompletedMACS2peakCalling 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 03:48:06: 4000000 INFO @ Thu, 09 Dec 2021 03:48:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX11322243/SRX11322243.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX11322243/SRX11322243.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX11322243/SRX11322243.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX11322243/SRX11322243.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 03:48:07: #1 read tag files... INFO @ Thu, 09 Dec 2021 03:48:07: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 03:48:13: 5000000 INFO @ Thu, 09 Dec 2021 03:48:14: #1 tag size is determined as 151 bps INFO @ Thu, 09 Dec 2021 03:48:14: #1 tag size = 151 INFO @ Thu, 09 Dec 2021 03:48:14: #1 total tags in treatment: 5061309 INFO @ Thu, 09 Dec 2021 03:48:14: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 03:48:14: #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 03:48:14: #1 tags after filtering in treatment: 5061309 INFO @ Thu, 09 Dec 2021 03:48:14: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 03:48:14: #1 finished! INFO @ Thu, 09 Dec 2021 03:48:14: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 03:48:14: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 03:48:14: #2 number of paired peaks: 1830 INFO @ Thu, 09 Dec 2021 03:48:14: start model_add_line... INFO @ Thu, 09 Dec 2021 03:48:14: start X-correlation... INFO @ Thu, 09 Dec 2021 03:48:14: end of X-cor INFO @ Thu, 09 Dec 2021 03:48:14: #2 finished! INFO @ Thu, 09 Dec 2021 03:48:14: #2 predicted fragment length is 185 bps INFO @ Thu, 09 Dec 2021 03:48:14: #2 alternative fragment length(s) may be 185 bps INFO @ Thu, 09 Dec 2021 03:48:14: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX11322243/SRX11322243.10_model.r WARNING @ Thu, 09 Dec 2021 03:48:14: #2 Since the d (185) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Thu, 09 Dec 2021 03:48:14: #2 You may need to consider one of the other alternative d(s): 185 WARNING @ Thu, 09 Dec 2021 03:48:14: #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 03:48:14: #3 Call peaks... INFO @ Thu, 09 Dec 2021 03:48:14: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 03:48:14: 1000000 INFO @ Thu, 09 Dec 2021 03:48:22: 2000000 INFO @ Thu, 09 Dec 2021 03:48:26: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 03:48:29: 3000000 INFO @ Thu, 09 Dec 2021 03:48:31: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX11322243/SRX11322243.10_peaks.xls INFO @ Thu, 09 Dec 2021 03:48:31: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX11322243/SRX11322243.10_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 03:48:31: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX11322243/SRX11322243.10_summits.bed INFO @ Thu, 09 Dec 2021 03:48:31: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (1219 records, 4 fields): 2 millis CompletedMACS2peakCalling INFO @ Thu, 09 Dec 2021 03:48:36: 4000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 09 Dec 2021 03:48:43: 5000000 INFO @ Thu, 09 Dec 2021 03:48:43: #1 tag size is determined as 151 bps INFO @ Thu, 09 Dec 2021 03:48:43: #1 tag size = 151 INFO @ Thu, 09 Dec 2021 03:48:43: #1 total tags in treatment: 5061309 INFO @ Thu, 09 Dec 2021 03:48:43: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 03:48:43: #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 03:48:44: #1 tags after filtering in treatment: 5061309 INFO @ Thu, 09 Dec 2021 03:48:44: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 03:48:44: #1 finished! INFO @ Thu, 09 Dec 2021 03:48:44: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 03:48:44: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 03:48:44: #2 number of paired peaks: 1830 INFO @ Thu, 09 Dec 2021 03:48:44: start model_add_line... INFO @ Thu, 09 Dec 2021 03:48:44: start X-correlation... INFO @ Thu, 09 Dec 2021 03:48:44: end of X-cor INFO @ Thu, 09 Dec 2021 03:48:44: #2 finished! INFO @ Thu, 09 Dec 2021 03:48:44: #2 predicted fragment length is 185 bps INFO @ Thu, 09 Dec 2021 03:48:44: #2 alternative fragment length(s) may be 185 bps INFO @ Thu, 09 Dec 2021 03:48:44: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX11322243/SRX11322243.20_model.r WARNING @ Thu, 09 Dec 2021 03:48:44: #2 Since the d (185) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Thu, 09 Dec 2021 03:48:44: #2 You may need to consider one of the other alternative d(s): 185 WARNING @ Thu, 09 Dec 2021 03:48:44: #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 03:48:44: #3 Call peaks... INFO @ Thu, 09 Dec 2021 03:48:44: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Thu, 09 Dec 2021 03:48:56: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 03:49:02: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX11322243/SRX11322243.20_peaks.xls INFO @ Thu, 09 Dec 2021 03:49:02: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX11322243/SRX11322243.20_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 03:49:02: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX11322243/SRX11322243.20_summits.bed INFO @ Thu, 09 Dec 2021 03:49:02: Done! pass1 - making usageList (6 chroms): 0 millis pass2 - checking and writing primary data (436 records, 4 fields): 2 millis CompletedMACS2peakCalling