Job ID = 14160527 SRX = SRX8331160 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 39676651 spots for SRR11778473/SRR11778473.sra Written 39676651 spots for SRR11778473/SRR11778473.sra fastq に変換しました。 bowtie でマッピング中... Your job 14160679 ("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: 00:11:48 39676651 reads; of these: 39676651 (100.00%) were unpaired; of these: 166063 (0.42%) aligned 0 times 33489166 (84.41%) aligned exactly 1 time 6021422 (15.18%) aligned >1 times 99.58% overall alignment rate Time searching: 00:11:48 Overall time: 00:11:48 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 20 files... [bam_rmdupse_core] 15330117 / 39510588 = 0.3880 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 03:21:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8331160/SRX8331160.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8331160/SRX8331160.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8331160/SRX8331160.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8331160/SRX8331160.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 03:21:23: #1 read tag files... INFO @ Thu, 09 Dec 2021 03:21:23: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 03:21:29: 1000000 INFO @ Thu, 09 Dec 2021 03:21:34: 2000000 INFO @ Thu, 09 Dec 2021 03:21:39: 3000000 INFO @ Thu, 09 Dec 2021 03:21:44: 4000000 INFO @ Thu, 09 Dec 2021 03:21:49: 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 03:21:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8331160/SRX8331160.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8331160/SRX8331160.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8331160/SRX8331160.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8331160/SRX8331160.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 03:21:53: #1 read tag files... INFO @ Thu, 09 Dec 2021 03:21:53: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 03:21:53: 6000000 INFO @ Thu, 09 Dec 2021 03:21:58: 7000000 INFO @ Thu, 09 Dec 2021 03:21:59: 1000000 INFO @ Thu, 09 Dec 2021 03:22:03: 8000000 INFO @ Thu, 09 Dec 2021 03:22:05: 2000000 INFO @ Thu, 09 Dec 2021 03:22:08: 9000000 INFO @ Thu, 09 Dec 2021 03:22:10: 3000000 INFO @ Thu, 09 Dec 2021 03:22:13: 10000000 INFO @ Thu, 09 Dec 2021 03:22:16: 4000000 INFO @ Thu, 09 Dec 2021 03:22:18: 11000000 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 03:22:22: 5000000 INFO @ Thu, 09 Dec 2021 03:22:23: 12000000 INFO @ Thu, 09 Dec 2021 03:22:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8331160/SRX8331160.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8331160/SRX8331160.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8331160/SRX8331160.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8331160/SRX8331160.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 03:22:23: #1 read tag files... INFO @ Thu, 09 Dec 2021 03:22:23: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 03:22:28: 13000000 INFO @ Thu, 09 Dec 2021 03:22:28: 6000000 INFO @ Thu, 09 Dec 2021 03:22:28: 1000000 INFO @ Thu, 09 Dec 2021 03:22:32: 14000000 INFO @ Thu, 09 Dec 2021 03:22:33: 2000000 INFO @ Thu, 09 Dec 2021 03:22:34: 7000000 INFO @ Thu, 09 Dec 2021 03:22:37: 15000000 INFO @ Thu, 09 Dec 2021 03:22:38: 3000000 INFO @ Thu, 09 Dec 2021 03:22:40: 8000000 INFO @ Thu, 09 Dec 2021 03:22:42: 16000000 INFO @ Thu, 09 Dec 2021 03:22:43: 4000000 INFO @ Thu, 09 Dec 2021 03:22:45: 9000000 INFO @ Thu, 09 Dec 2021 03:22:47: 17000000 INFO @ Thu, 09 Dec 2021 03:22:48: 5000000 INFO @ Thu, 09 Dec 2021 03:22:51: 10000000 INFO @ Thu, 09 Dec 2021 03:22:52: 18000000 INFO @ Thu, 09 Dec 2021 03:22:53: 6000000 INFO @ Thu, 09 Dec 2021 03:22:57: 19000000 INFO @ Thu, 09 Dec 2021 03:22:57: 11000000 INFO @ Thu, 09 Dec 2021 03:22:58: 7000000 INFO @ Thu, 09 Dec 2021 03:23:01: 20000000 INFO @ Thu, 09 Dec 2021 03:23:02: 12000000 INFO @ Thu, 09 Dec 2021 03:23:03: 8000000 INFO @ Thu, 09 Dec 2021 03:23:06: 21000000 INFO @ Thu, 09 Dec 2021 03:23:08: 9000000 INFO @ Thu, 09 Dec 2021 03:23:08: 13000000 INFO @ Thu, 09 Dec 2021 03:23:11: 22000000 INFO @ Thu, 09 Dec 2021 03:23:12: 10000000 INFO @ Thu, 09 Dec 2021 03:23:14: 14000000 INFO @ Thu, 09 Dec 2021 03:23:16: 23000000 INFO @ Thu, 09 Dec 2021 03:23:17: 11000000 INFO @ Thu, 09 Dec 2021 03:23:19: 15000000 INFO @ Thu, 09 Dec 2021 03:23:21: 24000000 INFO @ Thu, 09 Dec 2021 03:23:22: #1 tag size is determined as 74 bps INFO @ Thu, 09 Dec 2021 03:23:22: #1 tag size = 74 INFO @ Thu, 09 Dec 2021 03:23:22: #1 total tags in treatment: 24180471 INFO @ Thu, 09 Dec 2021 03:23:22: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 03:23:22: #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 03:23:22: 12000000 INFO @ Thu, 09 Dec 2021 03:23:22: #1 tags after filtering in treatment: 24180471 INFO @ Thu, 09 Dec 2021 03:23:22: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 03:23:22: #1 finished! INFO @ Thu, 09 Dec 2021 03:23:22: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 03:23:22: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 03:23:24: #2 number of paired peaks: 135 WARNING @ Thu, 09 Dec 2021 03:23:24: Fewer paired peaks (135) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 135 pairs to build model! INFO @ Thu, 09 Dec 2021 03:23:24: start model_add_line... INFO @ Thu, 09 Dec 2021 03:23:24: start X-correlation... INFO @ Thu, 09 Dec 2021 03:23:24: end of X-cor INFO @ Thu, 09 Dec 2021 03:23:24: #2 finished! INFO @ Thu, 09 Dec 2021 03:23:24: #2 predicted fragment length is 1 bps INFO @ Thu, 09 Dec 2021 03:23:24: #2 alternative fragment length(s) may be 1,34,65,567,589 bps INFO @ Thu, 09 Dec 2021 03:23:24: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8331160/SRX8331160.05_model.r WARNING @ Thu, 09 Dec 2021 03:23:24: #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 03:23:24: #2 You may need to consider one of the other alternative d(s): 1,34,65,567,589 WARNING @ Thu, 09 Dec 2021 03:23:24: #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 03:23:24: #3 Call peaks... INFO @ Thu, 09 Dec 2021 03:23:24: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 03:23:25: 16000000 INFO @ Thu, 09 Dec 2021 03:23:27: 13000000 INFO @ Thu, 09 Dec 2021 03:23:31: 17000000 INFO @ Thu, 09 Dec 2021 03:23:32: 14000000 INFO @ Thu, 09 Dec 2021 03:23:36: 18000000 INFO @ Thu, 09 Dec 2021 03:23:37: 15000000 INFO @ Thu, 09 Dec 2021 03:23:42: 16000000 INFO @ Thu, 09 Dec 2021 03:23:42: 19000000 INFO @ Thu, 09 Dec 2021 03:23:46: 17000000 INFO @ Thu, 09 Dec 2021 03:23:48: 20000000 INFO @ Thu, 09 Dec 2021 03:23:51: 18000000 INFO @ Thu, 09 Dec 2021 03:23:53: 21000000 INFO @ Thu, 09 Dec 2021 03:23:56: 19000000 INFO @ Thu, 09 Dec 2021 03:23:56: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 03:23:59: 22000000 INFO @ Thu, 09 Dec 2021 03:24:01: 20000000 INFO @ Thu, 09 Dec 2021 03:24:05: 23000000 INFO @ Thu, 09 Dec 2021 03:24:06: 21000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 09 Dec 2021 03:24:10: 24000000 INFO @ Thu, 09 Dec 2021 03:24:11: 22000000 INFO @ Thu, 09 Dec 2021 03:24:12: #1 tag size is determined as 74 bps INFO @ Thu, 09 Dec 2021 03:24:12: #1 tag size = 74 INFO @ Thu, 09 Dec 2021 03:24:12: #1 total tags in treatment: 24180471 INFO @ Thu, 09 Dec 2021 03:24:12: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 03:24:12: #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 03:24:12: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8331160/SRX8331160.05_peaks.xls INFO @ Thu, 09 Dec 2021 03:24:12: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8331160/SRX8331160.05_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 03:24:12: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8331160/SRX8331160.05_summits.bed INFO @ Thu, 09 Dec 2021 03:24:12: Done! INFO @ Thu, 09 Dec 2021 03:24:12: #1 tags after filtering in treatment: 24180471 INFO @ Thu, 09 Dec 2021 03:24:12: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 03:24:12: #1 finished! INFO @ Thu, 09 Dec 2021 03:24:12: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 03:24:12: #2 looking for paired plus/minus strand peaks... pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling INFO @ Thu, 09 Dec 2021 03:24:13: #2 number of paired peaks: 135 WARNING @ Thu, 09 Dec 2021 03:24:13: Fewer paired peaks (135) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 135 pairs to build model! INFO @ Thu, 09 Dec 2021 03:24:13: start model_add_line... INFO @ Thu, 09 Dec 2021 03:24:14: start X-correlation... INFO @ Thu, 09 Dec 2021 03:24:14: end of X-cor INFO @ Thu, 09 Dec 2021 03:24:14: #2 finished! INFO @ Thu, 09 Dec 2021 03:24:14: #2 predicted fragment length is 1 bps INFO @ Thu, 09 Dec 2021 03:24:14: #2 alternative fragment length(s) may be 1,34,65,567,589 bps INFO @ Thu, 09 Dec 2021 03:24:14: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8331160/SRX8331160.10_model.r WARNING @ Thu, 09 Dec 2021 03:24:14: #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 03:24:14: #2 You may need to consider one of the other alternative d(s): 1,34,65,567,589 WARNING @ Thu, 09 Dec 2021 03:24:14: #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 03:24:14: #3 Call peaks... INFO @ Thu, 09 Dec 2021 03:24:14: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 03:24:15: 23000000 INFO @ Thu, 09 Dec 2021 03:24:20: 24000000 INFO @ Thu, 09 Dec 2021 03:24:21: #1 tag size is determined as 74 bps INFO @ Thu, 09 Dec 2021 03:24:21: #1 tag size = 74 INFO @ Thu, 09 Dec 2021 03:24:21: #1 total tags in treatment: 24180471 INFO @ Thu, 09 Dec 2021 03:24:21: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 03:24:21: #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 03:24:22: #1 tags after filtering in treatment: 24180471 INFO @ Thu, 09 Dec 2021 03:24:22: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 03:24:22: #1 finished! INFO @ Thu, 09 Dec 2021 03:24:22: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 03:24:22: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 03:24:23: #2 number of paired peaks: 135 WARNING @ Thu, 09 Dec 2021 03:24:23: Fewer paired peaks (135) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 135 pairs to build model! INFO @ Thu, 09 Dec 2021 03:24:23: start model_add_line... INFO @ Thu, 09 Dec 2021 03:24:23: start X-correlation... INFO @ Thu, 09 Dec 2021 03:24:23: end of X-cor INFO @ Thu, 09 Dec 2021 03:24:23: #2 finished! INFO @ Thu, 09 Dec 2021 03:24:23: #2 predicted fragment length is 1 bps INFO @ Thu, 09 Dec 2021 03:24:23: #2 alternative fragment length(s) may be 1,34,65,567,589 bps INFO @ Thu, 09 Dec 2021 03:24:23: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8331160/SRX8331160.20_model.r WARNING @ Thu, 09 Dec 2021 03:24:23: #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 03:24:23: #2 You may need to consider one of the other alternative d(s): 1,34,65,567,589 WARNING @ Thu, 09 Dec 2021 03:24:23: #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 03:24:23: #3 Call peaks... INFO @ Thu, 09 Dec 2021 03:24:23: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 03:24:48: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Thu, 09 Dec 2021 03:24:57: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 03:25:05: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8331160/SRX8331160.10_peaks.xls INFO @ Thu, 09 Dec 2021 03:25:05: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8331160/SRX8331160.10_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 03:25:05: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8331160/SRX8331160.10_summits.bed INFO @ Thu, 09 Dec 2021 03:25:05: Done! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling INFO @ Thu, 09 Dec 2021 03:25:13: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8331160/SRX8331160.20_peaks.xls INFO @ Thu, 09 Dec 2021 03:25:13: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8331160/SRX8331160.20_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 03:25:13: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8331160/SRX8331160.20_summits.bed INFO @ Thu, 09 Dec 2021 03:25:13: Done! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling