Job ID = 12265106 SRX = SRX4082400 Genome = ce11 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:05:31 58396210 reads; of these: 58396210 (100.00%) were unpaired; of these: 48769726 (83.52%) aligned 0 times 8498296 (14.55%) aligned exactly 1 time 1128188 (1.93%) aligned >1 times 16.48% overall alignment rate Time searching: 00:05:31 Overall time: 00:05:31 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] 4031744 / 9626484 = 0.4188 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/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 06:16:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX4082400/SRX4082400.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX4082400/SRX4082400.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX4082400/SRX4082400.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX4082400/SRX4082400.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 @ Sat, 03 Apr 2021 06:16:42: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:16:42: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:16:49: 1000000 INFO @ Sat, 03 Apr 2021 06:16:56: 2000000 INFO @ Sat, 03 Apr 2021 06:17:04: 3000000 WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 06:17:10: 4000000 INFO @ Sat, 03 Apr 2021 06:17:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX4082400/SRX4082400.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX4082400/SRX4082400.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX4082400/SRX4082400.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX4082400/SRX4082400.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 @ Sat, 03 Apr 2021 06:17:11: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:17:11: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:17:17: 5000000 INFO @ Sat, 03 Apr 2021 06:17:18: 1000000 INFO @ Sat, 03 Apr 2021 06:17:22: #1 tag size is determined as 47 bps INFO @ Sat, 03 Apr 2021 06:17:22: #1 tag size = 47 INFO @ Sat, 03 Apr 2021 06:17:22: #1 total tags in treatment: 5594740 INFO @ Sat, 03 Apr 2021 06:17:22: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:17:22: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 06:17:22: #1 tags after filtering in treatment: 5594740 INFO @ Sat, 03 Apr 2021 06:17:22: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:17:22: #1 finished! INFO @ Sat, 03 Apr 2021 06:17:22: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:17:22: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:17:23: #2 number of paired peaks: 2800 INFO @ Sat, 03 Apr 2021 06:17:23: start model_add_line... INFO @ Sat, 03 Apr 2021 06:17:23: start X-correlation... INFO @ Sat, 03 Apr 2021 06:17:23: end of X-cor INFO @ Sat, 03 Apr 2021 06:17:23: #2 finished! INFO @ Sat, 03 Apr 2021 06:17:23: #2 predicted fragment length is 68 bps INFO @ Sat, 03 Apr 2021 06:17:23: #2 alternative fragment length(s) may be 68 bps INFO @ Sat, 03 Apr 2021 06:17:23: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX4082400/SRX4082400.05_model.r WARNING @ Sat, 03 Apr 2021 06:17:23: #2 Since the d (68) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:17:23: #2 You may need to consider one of the other alternative d(s): 68 WARNING @ Sat, 03 Apr 2021 06:17:23: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 03 Apr 2021 06:17:23: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:17:23: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:17:25: 2000000 INFO @ Sat, 03 Apr 2021 06:17:32: 3000000 INFO @ Sat, 03 Apr 2021 06:17:35: #3 Call peaks for each chromosome... BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 06:17:38: 4000000 INFO @ Sat, 03 Apr 2021 06:17:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX4082400/SRX4082400.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX4082400/SRX4082400.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX4082400/SRX4082400.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX4082400/SRX4082400.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 @ Sat, 03 Apr 2021 06:17:42: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:17:42: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:17:45: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX4082400/SRX4082400.05_peaks.xls INFO @ Sat, 03 Apr 2021 06:17:45: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX4082400/SRX4082400.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:17:45: 5000000 INFO @ Sat, 03 Apr 2021 06:17:45: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX4082400/SRX4082400.05_summits.bed INFO @ Sat, 03 Apr 2021 06:17:45: Done! pass1 - making usageList (7 chroms): 4 millis pass2 - checking and writing primary data (12471 records, 4 fields): 26 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:17:51: 1000000 INFO @ Sat, 03 Apr 2021 06:17:51: #1 tag size is determined as 47 bps INFO @ Sat, 03 Apr 2021 06:17:51: #1 tag size = 47 INFO @ Sat, 03 Apr 2021 06:17:51: #1 total tags in treatment: 5594740 INFO @ Sat, 03 Apr 2021 06:17:51: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:17:51: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 06:17:51: #1 tags after filtering in treatment: 5594740 INFO @ Sat, 03 Apr 2021 06:17:51: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:17:51: #1 finished! INFO @ Sat, 03 Apr 2021 06:17:51: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:17:51: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:17:51: #2 number of paired peaks: 2800 INFO @ Sat, 03 Apr 2021 06:17:51: start model_add_line... INFO @ Sat, 03 Apr 2021 06:17:51: start X-correlation... INFO @ Sat, 03 Apr 2021 06:17:51: end of X-cor INFO @ Sat, 03 Apr 2021 06:17:51: #2 finished! INFO @ Sat, 03 Apr 2021 06:17:51: #2 predicted fragment length is 68 bps INFO @ Sat, 03 Apr 2021 06:17:51: #2 alternative fragment length(s) may be 68 bps INFO @ Sat, 03 Apr 2021 06:17:51: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX4082400/SRX4082400.10_model.r WARNING @ Sat, 03 Apr 2021 06:17:51: #2 Since the d (68) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:17:51: #2 You may need to consider one of the other alternative d(s): 68 WARNING @ Sat, 03 Apr 2021 06:17:51: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 03 Apr 2021 06:17:51: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:17:51: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:17:57: 2000000 INFO @ Sat, 03 Apr 2021 06:18:05: 3000000 INFO @ Sat, 03 Apr 2021 06:18:07: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:18:12: 4000000 INFO @ Sat, 03 Apr 2021 06:18:15: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX4082400/SRX4082400.10_peaks.xls INFO @ Sat, 03 Apr 2021 06:18:15: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX4082400/SRX4082400.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:18:15: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX4082400/SRX4082400.10_summits.bed INFO @ Sat, 03 Apr 2021 06:18:15: Done! pass1 - making usageList (6 chroms): 3 millis pass2 - checking and writing primary data (8024 records, 4 fields): 19 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:18:21: 5000000 INFO @ Sat, 03 Apr 2021 06:18:25: #1 tag size is determined as 47 bps INFO @ Sat, 03 Apr 2021 06:18:25: #1 tag size = 47 INFO @ Sat, 03 Apr 2021 06:18:25: #1 total tags in treatment: 5594740 INFO @ Sat, 03 Apr 2021 06:18:25: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:18:25: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 06:18:25: #1 tags after filtering in treatment: 5594740 INFO @ Sat, 03 Apr 2021 06:18:25: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:18:25: #1 finished! INFO @ Sat, 03 Apr 2021 06:18:25: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:18:25: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:18:26: #2 number of paired peaks: 2800 INFO @ Sat, 03 Apr 2021 06:18:26: start model_add_line... INFO @ Sat, 03 Apr 2021 06:18:26: start X-correlation... INFO @ Sat, 03 Apr 2021 06:18:26: end of X-cor INFO @ Sat, 03 Apr 2021 06:18:26: #2 finished! INFO @ Sat, 03 Apr 2021 06:18:26: #2 predicted fragment length is 68 bps INFO @ Sat, 03 Apr 2021 06:18:26: #2 alternative fragment length(s) may be 68 bps INFO @ Sat, 03 Apr 2021 06:18:26: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX4082400/SRX4082400.20_model.r WARNING @ Sat, 03 Apr 2021 06:18:26: #2 Since the d (68) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:18:26: #2 You may need to consider one of the other alternative d(s): 68 WARNING @ Sat, 03 Apr 2021 06:18:26: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 03 Apr 2021 06:18:26: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:18:26: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:18:41: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:18:48: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX4082400/SRX4082400.20_peaks.xls INFO @ Sat, 03 Apr 2021 06:18:49: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX4082400/SRX4082400.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:18:49: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX4082400/SRX4082400.20_summits.bed INFO @ Sat, 03 Apr 2021 06:18:49: Done! pass1 - making usageList (6 chroms): 4 millis pass2 - checking and writing primary data (3936 records, 4 fields): 8 millis CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。