Job ID = 14160506 SRX = SRX8331152 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 87376107 spots for SRR11778465/SRR11778465.sra Written 87376107 spots for SRR11778465/SRR11778465.sra fastq に変換しました。 bowtie でマッピング中... Your job 14160721 ("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: 00:27:18 87376107 reads; of these: 87376107 (100.00%) were unpaired; of these: 863661 (0.99%) aligned 0 times 73134011 (83.70%) aligned exactly 1 time 13378435 (15.31%) aligned >1 times 99.01% overall alignment rate Time searching: 00:27:18 Overall time: 00:27:18 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 7 sequences. [bam_sort_core] merging from 36 files... [bam_rmdupse_core] 68864892 / 86512446 = 0.7960 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 03:40:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8331152/SRX8331152.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8331152/SRX8331152.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8331152/SRX8331152.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8331152/SRX8331152.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 03:40:37: #1 read tag files... INFO @ Thu, 09 Dec 2021 03:40:37: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 03:40:42: 1000000 INFO @ Thu, 09 Dec 2021 03:40:47: 2000000 INFO @ Thu, 09 Dec 2021 03:40:52: 3000000 INFO @ Thu, 09 Dec 2021 03:40:57: 4000000 INFO @ Thu, 09 Dec 2021 03:41:02: 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 @ Thu, 09 Dec 2021 03:41:07: 6000000 INFO @ Thu, 09 Dec 2021 03:41:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8331152/SRX8331152.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8331152/SRX8331152.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8331152/SRX8331152.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8331152/SRX8331152.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 03:41:07: #1 read tag files... INFO @ Thu, 09 Dec 2021 03:41:07: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 03:41:12: 7000000 INFO @ Thu, 09 Dec 2021 03:41:12: 1000000 INFO @ Thu, 09 Dec 2021 03:41:17: 8000000 INFO @ Thu, 09 Dec 2021 03:41:17: 2000000 INFO @ Thu, 09 Dec 2021 03:41:22: 9000000 INFO @ Thu, 09 Dec 2021 03:41:22: 3000000 INFO @ Thu, 09 Dec 2021 03:41:27: 10000000 INFO @ Thu, 09 Dec 2021 03:41:27: 4000000 INFO @ Thu, 09 Dec 2021 03:41:32: 11000000 INFO @ Thu, 09 Dec 2021 03:41:32: 5000000 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 03:41:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8331152/SRX8331152.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8331152/SRX8331152.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8331152/SRX8331152.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8331152/SRX8331152.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 03:41:37: #1 read tag files... INFO @ Thu, 09 Dec 2021 03:41:37: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 03:41:37: 12000000 INFO @ Thu, 09 Dec 2021 03:41:37: 6000000 INFO @ Thu, 09 Dec 2021 03:41:42: 13000000 INFO @ Thu, 09 Dec 2021 03:41:42: 1000000 INFO @ Thu, 09 Dec 2021 03:41:42: 7000000 INFO @ Thu, 09 Dec 2021 03:41:47: 14000000 INFO @ Thu, 09 Dec 2021 03:41:47: 2000000 INFO @ Thu, 09 Dec 2021 03:41:47: 8000000 INFO @ Thu, 09 Dec 2021 03:41:52: 15000000 INFO @ Thu, 09 Dec 2021 03:41:52: 3000000 INFO @ Thu, 09 Dec 2021 03:41:53: 9000000 INFO @ Thu, 09 Dec 2021 03:41:57: 16000000 INFO @ Thu, 09 Dec 2021 03:41:57: 4000000 INFO @ Thu, 09 Dec 2021 03:41:58: 10000000 INFO @ Thu, 09 Dec 2021 03:42:02: 17000000 INFO @ Thu, 09 Dec 2021 03:42:02: 5000000 INFO @ Thu, 09 Dec 2021 03:42:03: 11000000 INFO @ Thu, 09 Dec 2021 03:42:06: #1 tag size is determined as 72 bps INFO @ Thu, 09 Dec 2021 03:42:06: #1 tag size = 72 INFO @ Thu, 09 Dec 2021 03:42:06: #1 total tags in treatment: 17647554 INFO @ Thu, 09 Dec 2021 03:42:06: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 03:42:06: #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 03:42:06: #1 tags after filtering in treatment: 17647554 INFO @ Thu, 09 Dec 2021 03:42:06: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 03:42:06: #1 finished! INFO @ Thu, 09 Dec 2021 03:42:06: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 03:42:06: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 03:42:07: #2 number of paired peaks: 492 WARNING @ Thu, 09 Dec 2021 03:42:07: Fewer paired peaks (492) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 492 pairs to build model! INFO @ Thu, 09 Dec 2021 03:42:07: start model_add_line... INFO @ Thu, 09 Dec 2021 03:42:07: start X-correlation... INFO @ Thu, 09 Dec 2021 03:42:07: end of X-cor INFO @ Thu, 09 Dec 2021 03:42:07: #2 finished! INFO @ Thu, 09 Dec 2021 03:42:07: #2 predicted fragment length is 1 bps INFO @ Thu, 09 Dec 2021 03:42:07: #2 alternative fragment length(s) may be 1,25,41,571 bps INFO @ Thu, 09 Dec 2021 03:42:07: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8331152/SRX8331152.05_model.r WARNING @ Thu, 09 Dec 2021 03:42:07: #2 Since the d (1) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Thu, 09 Dec 2021 03:42:07: #2 You may need to consider one of the other alternative d(s): 1,25,41,571 WARNING @ Thu, 09 Dec 2021 03:42:07: #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 03:42:07: #3 Call peaks... INFO @ Thu, 09 Dec 2021 03:42:07: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 03:42:08: 6000000 INFO @ Thu, 09 Dec 2021 03:42:08: 12000000 INFO @ Thu, 09 Dec 2021 03:42:13: 7000000 INFO @ Thu, 09 Dec 2021 03:42:13: 13000000 INFO @ Thu, 09 Dec 2021 03:42:18: 8000000 INFO @ Thu, 09 Dec 2021 03:42:18: 14000000 INFO @ Thu, 09 Dec 2021 03:42:23: 9000000 INFO @ Thu, 09 Dec 2021 03:42:23: 15000000 INFO @ Thu, 09 Dec 2021 03:42:28: 10000000 INFO @ Thu, 09 Dec 2021 03:42:28: 16000000 INFO @ Thu, 09 Dec 2021 03:42:33: 11000000 INFO @ Thu, 09 Dec 2021 03:42:33: 17000000 INFO @ Thu, 09 Dec 2021 03:42:35: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 03:42:36: #1 tag size is determined as 72 bps INFO @ Thu, 09 Dec 2021 03:42:36: #1 tag size = 72 INFO @ Thu, 09 Dec 2021 03:42:36: #1 total tags in treatment: 17647554 INFO @ Thu, 09 Dec 2021 03:42:36: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 03:42:36: #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 03:42:37: #1 tags after filtering in treatment: 17647554 INFO @ Thu, 09 Dec 2021 03:42:37: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 03:42:37: #1 finished! INFO @ Thu, 09 Dec 2021 03:42:37: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 03:42:37: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 03:42:38: #2 number of paired peaks: 492 WARNING @ Thu, 09 Dec 2021 03:42:38: Fewer paired peaks (492) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 492 pairs to build model! INFO @ Thu, 09 Dec 2021 03:42:38: start model_add_line... INFO @ Thu, 09 Dec 2021 03:42:38: start X-correlation... INFO @ Thu, 09 Dec 2021 03:42:38: end of X-cor INFO @ Thu, 09 Dec 2021 03:42:38: #2 finished! INFO @ Thu, 09 Dec 2021 03:42:38: #2 predicted fragment length is 1 bps INFO @ Thu, 09 Dec 2021 03:42:38: #2 alternative fragment length(s) may be 1,25,41,571 bps INFO @ Thu, 09 Dec 2021 03:42:38: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8331152/SRX8331152.10_model.r WARNING @ Thu, 09 Dec 2021 03:42:38: #2 Since the d (1) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Thu, 09 Dec 2021 03:42:38: #2 You may need to consider one of the other alternative d(s): 1,25,41,571 WARNING @ Thu, 09 Dec 2021 03:42:38: #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 03:42:38: #3 Call peaks... INFO @ Thu, 09 Dec 2021 03:42:38: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 03:42:38: 12000000 INFO @ Thu, 09 Dec 2021 03:42:43: 13000000 INFO @ Thu, 09 Dec 2021 03:42:47: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8331152/SRX8331152.05_peaks.xls INFO @ Thu, 09 Dec 2021 03:42:47: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8331152/SRX8331152.05_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 03:42:47: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8331152/SRX8331152.05_summits.bed INFO @ Thu, 09 Dec 2021 03:42:47: Done! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling INFO @ Thu, 09 Dec 2021 03:42:48: 14000000 INFO @ Thu, 09 Dec 2021 03:42:53: 15000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 09 Dec 2021 03:42:58: 16000000 INFO @ Thu, 09 Dec 2021 03:43:03: 17000000 INFO @ Thu, 09 Dec 2021 03:43:06: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 03:43:06: #1 tag size is determined as 72 bps INFO @ Thu, 09 Dec 2021 03:43:06: #1 tag size = 72 INFO @ Thu, 09 Dec 2021 03:43:06: #1 total tags in treatment: 17647554 INFO @ Thu, 09 Dec 2021 03:43:06: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 03:43:06: #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 03:43:06: #1 tags after filtering in treatment: 17647554 INFO @ Thu, 09 Dec 2021 03:43:06: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 03:43:06: #1 finished! INFO @ Thu, 09 Dec 2021 03:43:06: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 03:43:06: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 03:43:07: #2 number of paired peaks: 492 WARNING @ Thu, 09 Dec 2021 03:43:07: Fewer paired peaks (492) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 492 pairs to build model! INFO @ Thu, 09 Dec 2021 03:43:07: start model_add_line... INFO @ Thu, 09 Dec 2021 03:43:08: start X-correlation... INFO @ Thu, 09 Dec 2021 03:43:08: end of X-cor INFO @ Thu, 09 Dec 2021 03:43:08: #2 finished! INFO @ Thu, 09 Dec 2021 03:43:08: #2 predicted fragment length is 1 bps INFO @ Thu, 09 Dec 2021 03:43:08: #2 alternative fragment length(s) may be 1,25,41,571 bps INFO @ Thu, 09 Dec 2021 03:43:08: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8331152/SRX8331152.20_model.r WARNING @ Thu, 09 Dec 2021 03:43:08: #2 Since the d (1) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Thu, 09 Dec 2021 03:43:08: #2 You may need to consider one of the other alternative d(s): 1,25,41,571 WARNING @ Thu, 09 Dec 2021 03:43:08: #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 03:43:08: #3 Call peaks... INFO @ Thu, 09 Dec 2021 03:43:08: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 03:43:18: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8331152/SRX8331152.10_peaks.xls INFO @ Thu, 09 Dec 2021 03:43:18: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8331152/SRX8331152.10_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 03:43:18: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8331152/SRX8331152.10_summits.bed INFO @ Thu, 09 Dec 2021 03:43:18: Done! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Thu, 09 Dec 2021 03:43:35: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 03:43:48: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8331152/SRX8331152.20_peaks.xls INFO @ Thu, 09 Dec 2021 03:43:48: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8331152/SRX8331152.20_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 03:43:48: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8331152/SRX8331152.20_summits.bed INFO @ Thu, 09 Dec 2021 03:43:48: Done! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling