Job ID = 14160397 SRX = SRX8582553 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 26307578 spots for SRR12054114/SRR12054114.sra Written 26307578 spots for SRR12054114/SRR12054114.sra fastq に変換しました。 bowtie でマッピング中... Your job 14160529 ("srTce11") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:01 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:06:08 26307578 reads; of these: 26307578 (100.00%) were unpaired; of these: 664744 (2.53%) aligned 0 times 21254037 (80.79%) aligned exactly 1 time 4388797 (16.68%) aligned >1 times 97.47% overall alignment rate Time searching: 00:06:09 Overall time: 00:06:09 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 12 files... [bam_rmdupse_core] 6543732 / 25642834 = 0.2552 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 02:18:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8582553/SRX8582553.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8582553/SRX8582553.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8582553/SRX8582553.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8582553/SRX8582553.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 02:18:35: #1 read tag files... INFO @ Thu, 09 Dec 2021 02:18:35: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 02:18:41: 1000000 INFO @ Thu, 09 Dec 2021 02:18:47: 2000000 INFO @ Thu, 09 Dec 2021 02:18:53: 3000000 INFO @ Thu, 09 Dec 2021 02:18:58: 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 02:19:04: 5000000 INFO @ Thu, 09 Dec 2021 02:19:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8582553/SRX8582553.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8582553/SRX8582553.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8582553/SRX8582553.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8582553/SRX8582553.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 02:19:04: #1 read tag files... INFO @ Thu, 09 Dec 2021 02:19:04: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 02:19:10: 6000000 INFO @ Thu, 09 Dec 2021 02:19:12: 1000000 INFO @ Thu, 09 Dec 2021 02:19:17: 7000000 INFO @ Thu, 09 Dec 2021 02:19:19: 2000000 INFO @ Thu, 09 Dec 2021 02:19:23: 8000000 INFO @ Thu, 09 Dec 2021 02:19:26: 3000000 INFO @ Thu, 09 Dec 2021 02:19:30: 9000000 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 02:19:34: 4000000 INFO @ Thu, 09 Dec 2021 02:19:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8582553/SRX8582553.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8582553/SRX8582553.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8582553/SRX8582553.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8582553/SRX8582553.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 02:19:35: #1 read tag files... INFO @ Thu, 09 Dec 2021 02:19:35: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 02:19:36: 10000000 INFO @ Thu, 09 Dec 2021 02:19:41: 5000000 INFO @ Thu, 09 Dec 2021 02:19:42: 1000000 INFO @ Thu, 09 Dec 2021 02:19:43: 11000000 INFO @ Thu, 09 Dec 2021 02:19:48: 6000000 INFO @ Thu, 09 Dec 2021 02:19:49: 12000000 INFO @ Thu, 09 Dec 2021 02:19:50: 2000000 INFO @ Thu, 09 Dec 2021 02:19:56: 7000000 INFO @ Thu, 09 Dec 2021 02:19:56: 13000000 INFO @ Thu, 09 Dec 2021 02:19:57: 3000000 INFO @ Thu, 09 Dec 2021 02:20:03: 14000000 INFO @ Thu, 09 Dec 2021 02:20:03: 8000000 INFO @ Thu, 09 Dec 2021 02:20:04: 4000000 INFO @ Thu, 09 Dec 2021 02:20:09: 15000000 INFO @ Thu, 09 Dec 2021 02:20:11: 9000000 INFO @ Thu, 09 Dec 2021 02:20:12: 5000000 INFO @ Thu, 09 Dec 2021 02:20:16: 16000000 INFO @ Thu, 09 Dec 2021 02:20:18: 10000000 INFO @ Thu, 09 Dec 2021 02:20:19: 6000000 INFO @ Thu, 09 Dec 2021 02:20:22: 17000000 INFO @ Thu, 09 Dec 2021 02:20:25: 11000000 INFO @ Thu, 09 Dec 2021 02:20:27: 7000000 INFO @ Thu, 09 Dec 2021 02:20:29: 18000000 INFO @ Thu, 09 Dec 2021 02:20:32: 12000000 INFO @ Thu, 09 Dec 2021 02:20:34: 8000000 INFO @ Thu, 09 Dec 2021 02:20:35: 19000000 INFO @ Thu, 09 Dec 2021 02:20:36: #1 tag size is determined as 51 bps INFO @ Thu, 09 Dec 2021 02:20:36: #1 tag size = 51 INFO @ Thu, 09 Dec 2021 02:20:36: #1 total tags in treatment: 19099102 INFO @ Thu, 09 Dec 2021 02:20:36: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 02:20:36: #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 02:20:36: #1 tags after filtering in treatment: 19099102 INFO @ Thu, 09 Dec 2021 02:20:36: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 02:20:36: #1 finished! INFO @ Thu, 09 Dec 2021 02:20:36: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 02:20:36: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 02:20:38: #2 number of paired peaks: 240 WARNING @ Thu, 09 Dec 2021 02:20:38: Fewer paired peaks (240) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 240 pairs to build model! INFO @ Thu, 09 Dec 2021 02:20:38: start model_add_line... INFO @ Thu, 09 Dec 2021 02:20:38: start X-correlation... INFO @ Thu, 09 Dec 2021 02:20:38: end of X-cor INFO @ Thu, 09 Dec 2021 02:20:38: #2 finished! INFO @ Thu, 09 Dec 2021 02:20:38: #2 predicted fragment length is 1 bps INFO @ Thu, 09 Dec 2021 02:20:38: #2 alternative fragment length(s) may be 1,35,532,559 bps INFO @ Thu, 09 Dec 2021 02:20:38: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8582553/SRX8582553.05_model.r WARNING @ Thu, 09 Dec 2021 02:20:38: #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 02:20:38: #2 You may need to consider one of the other alternative d(s): 1,35,532,559 WARNING @ Thu, 09 Dec 2021 02:20:38: #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 02:20:38: #3 Call peaks... INFO @ Thu, 09 Dec 2021 02:20:38: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 02:20:40: 13000000 INFO @ Thu, 09 Dec 2021 02:20:41: 9000000 INFO @ Thu, 09 Dec 2021 02:20:47: 14000000 INFO @ Thu, 09 Dec 2021 02:20:48: 10000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 09 Dec 2021 02:20:54: 15000000 INFO @ Thu, 09 Dec 2021 02:20:55: 11000000 INFO @ Thu, 09 Dec 2021 02:21:01: 16000000 INFO @ Thu, 09 Dec 2021 02:21:03: 12000000 INFO @ Thu, 09 Dec 2021 02:21:07: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 02:21:09: 17000000 INFO @ Thu, 09 Dec 2021 02:21:10: 13000000 INFO @ Thu, 09 Dec 2021 02:21:16: 18000000 INFO @ Thu, 09 Dec 2021 02:21:17: 14000000 INFO @ Thu, 09 Dec 2021 02:21:21: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8582553/SRX8582553.05_peaks.xls INFO @ Thu, 09 Dec 2021 02:21:21: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8582553/SRX8582553.05_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 02:21:21: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8582553/SRX8582553.05_summits.bed INFO @ Thu, 09 Dec 2021 02:21:21: Done! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling INFO @ Thu, 09 Dec 2021 02:21:23: 19000000 INFO @ Thu, 09 Dec 2021 02:21:23: #1 tag size is determined as 51 bps INFO @ Thu, 09 Dec 2021 02:21:23: #1 tag size = 51 INFO @ Thu, 09 Dec 2021 02:21:23: #1 total tags in treatment: 19099102 INFO @ Thu, 09 Dec 2021 02:21:23: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 02:21:23: #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 02:21:24: #1 tags after filtering in treatment: 19099102 INFO @ Thu, 09 Dec 2021 02:21:24: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 02:21:24: #1 finished! INFO @ Thu, 09 Dec 2021 02:21:24: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 02:21:24: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 02:21:24: 15000000 INFO @ Thu, 09 Dec 2021 02:21:25: #2 number of paired peaks: 240 WARNING @ Thu, 09 Dec 2021 02:21:25: Fewer paired peaks (240) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 240 pairs to build model! INFO @ Thu, 09 Dec 2021 02:21:25: start model_add_line... INFO @ Thu, 09 Dec 2021 02:21:25: start X-correlation... INFO @ Thu, 09 Dec 2021 02:21:25: end of X-cor INFO @ Thu, 09 Dec 2021 02:21:25: #2 finished! INFO @ Thu, 09 Dec 2021 02:21:25: #2 predicted fragment length is 1 bps INFO @ Thu, 09 Dec 2021 02:21:25: #2 alternative fragment length(s) may be 1,35,532,559 bps INFO @ Thu, 09 Dec 2021 02:21:25: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8582553/SRX8582553.10_model.r WARNING @ Thu, 09 Dec 2021 02:21:25: #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 02:21:25: #2 You may need to consider one of the other alternative d(s): 1,35,532,559 WARNING @ Thu, 09 Dec 2021 02:21:25: #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 02:21:25: #3 Call peaks... INFO @ Thu, 09 Dec 2021 02:21:25: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 02:21:31: 16000000 BigWig に変換しました。 INFO @ Thu, 09 Dec 2021 02:21:38: 17000000 INFO @ Thu, 09 Dec 2021 02:21:44: 18000000 INFO @ Thu, 09 Dec 2021 02:21:51: 19000000 INFO @ Thu, 09 Dec 2021 02:21:52: #1 tag size is determined as 51 bps INFO @ Thu, 09 Dec 2021 02:21:52: #1 tag size = 51 INFO @ Thu, 09 Dec 2021 02:21:52: #1 total tags in treatment: 19099102 INFO @ Thu, 09 Dec 2021 02:21:52: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 02:21:52: #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 02:21:52: #1 tags after filtering in treatment: 19099102 INFO @ Thu, 09 Dec 2021 02:21:52: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 02:21:52: #1 finished! INFO @ Thu, 09 Dec 2021 02:21:52: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 02:21:52: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 02:21:53: #2 number of paired peaks: 240 WARNING @ Thu, 09 Dec 2021 02:21:53: Fewer paired peaks (240) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 240 pairs to build model! INFO @ Thu, 09 Dec 2021 02:21:53: start model_add_line... INFO @ Thu, 09 Dec 2021 02:21:53: start X-correlation... INFO @ Thu, 09 Dec 2021 02:21:53: end of X-cor INFO @ Thu, 09 Dec 2021 02:21:53: #2 finished! INFO @ Thu, 09 Dec 2021 02:21:53: #2 predicted fragment length is 1 bps INFO @ Thu, 09 Dec 2021 02:21:53: #2 alternative fragment length(s) may be 1,35,532,559 bps INFO @ Thu, 09 Dec 2021 02:21:53: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8582553/SRX8582553.20_model.r WARNING @ Thu, 09 Dec 2021 02:21:53: #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 02:21:53: #2 You may need to consider one of the other alternative d(s): 1,35,532,559 WARNING @ Thu, 09 Dec 2021 02:21:53: #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 02:21:53: #3 Call peaks... INFO @ Thu, 09 Dec 2021 02:21:53: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 02:21:54: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 02:22:07: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8582553/SRX8582553.10_peaks.xls INFO @ Thu, 09 Dec 2021 02:22:07: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8582553/SRX8582553.10_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 02:22:07: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8582553/SRX8582553.10_summits.bed INFO @ Thu, 09 Dec 2021 02:22:07: Done! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling INFO @ Thu, 09 Dec 2021 02:22:21: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 02:22:35: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8582553/SRX8582553.20_peaks.xls INFO @ Thu, 09 Dec 2021 02:22:35: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8582553/SRX8582553.20_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 02:22:35: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8582553/SRX8582553.20_summits.bed INFO @ Thu, 09 Dec 2021 02:22:35: Done! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling