Job ID = 12265139 SRX = SRX7246257 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: 00:08:38 40258548 reads; of these: 40258548 (100.00%) were unpaired; of these: 1393739 (3.46%) aligned 0 times 34396468 (85.44%) aligned exactly 1 time 4468341 (11.10%) aligned >1 times 96.54% overall alignment rate Time searching: 00:08:38 Overall time: 00:08:38 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 16 files... [bam_rmdupse_core] 27685752 / 38864809 = 0.7124 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 06:25:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX7246257/SRX7246257.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX7246257/SRX7246257.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX7246257/SRX7246257.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX7246257/SRX7246257.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 06:25:07: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:25:07: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:25:12: 1000000 INFO @ Sat, 03 Apr 2021 06:25:18: 2000000 INFO @ Sat, 03 Apr 2021 06:25:23: 3000000 INFO @ Sat, 03 Apr 2021 06:25:29: 4000000 INFO @ Sat, 03 Apr 2021 06:25:34: 5000000 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 06:25:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX7246257/SRX7246257.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX7246257/SRX7246257.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX7246257/SRX7246257.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX7246257/SRX7246257.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 06:25:37: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:25:37: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:25:40: 6000000 INFO @ Sat, 03 Apr 2021 06:25:43: 1000000 INFO @ Sat, 03 Apr 2021 06:25:46: 7000000 INFO @ Sat, 03 Apr 2021 06:25:49: 2000000 INFO @ Sat, 03 Apr 2021 06:25:53: 8000000 INFO @ Sat, 03 Apr 2021 06:25:56: 3000000 INFO @ Sat, 03 Apr 2021 06:25:59: 9000000 INFO @ Sat, 03 Apr 2021 06:26:02: 4000000 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 06:26:05: 10000000 INFO @ Sat, 03 Apr 2021 06:26:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX7246257/SRX7246257.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX7246257/SRX7246257.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX7246257/SRX7246257.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX7246257/SRX7246257.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 06:26:07: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:26:07: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:26:08: 5000000 INFO @ Sat, 03 Apr 2021 06:26:12: 11000000 INFO @ Sat, 03 Apr 2021 06:26:13: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:26:13: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:26:13: #1 total tags in treatment: 11179057 INFO @ Sat, 03 Apr 2021 06:26:13: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:26:13: #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 06:26:13: #1 tags after filtering in treatment: 11179057 INFO @ Sat, 03 Apr 2021 06:26:13: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:26:13: #1 finished! INFO @ Sat, 03 Apr 2021 06:26:13: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:26:13: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:26:14: 1000000 INFO @ Sat, 03 Apr 2021 06:26:14: #2 number of paired peaks: 1647 INFO @ Sat, 03 Apr 2021 06:26:14: start model_add_line... INFO @ Sat, 03 Apr 2021 06:26:14: start X-correlation... INFO @ Sat, 03 Apr 2021 06:26:14: end of X-cor INFO @ Sat, 03 Apr 2021 06:26:14: #2 finished! INFO @ Sat, 03 Apr 2021 06:26:14: #2 predicted fragment length is 97 bps INFO @ Sat, 03 Apr 2021 06:26:14: #2 alternative fragment length(s) may be 97 bps INFO @ Sat, 03 Apr 2021 06:26:14: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX7246257/SRX7246257.05_model.r WARNING @ Sat, 03 Apr 2021 06:26:14: #2 Since the d (97) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:26:14: #2 You may need to consider one of the other alternative d(s): 97 WARNING @ Sat, 03 Apr 2021 06:26:14: #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 06:26:14: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:26:14: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:26:15: 6000000 INFO @ Sat, 03 Apr 2021 06:26:20: 2000000 INFO @ Sat, 03 Apr 2021 06:26:22: 7000000 INFO @ Sat, 03 Apr 2021 06:26:27: 3000000 INFO @ Sat, 03 Apr 2021 06:26:28: 8000000 INFO @ Sat, 03 Apr 2021 06:26:34: 4000000 INFO @ Sat, 03 Apr 2021 06:26:35: 9000000 INFO @ Sat, 03 Apr 2021 06:26:40: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:26:41: 10000000 INFO @ Sat, 03 Apr 2021 06:26:41: 5000000 INFO @ Sat, 03 Apr 2021 06:26:48: 11000000 INFO @ Sat, 03 Apr 2021 06:26:48: 6000000 INFO @ Sat, 03 Apr 2021 06:26:49: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:26:49: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:26:49: #1 total tags in treatment: 11179057 INFO @ Sat, 03 Apr 2021 06:26:49: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:26:49: #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 06:26:49: #1 tags after filtering in treatment: 11179057 INFO @ Sat, 03 Apr 2021 06:26:49: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:26:49: #1 finished! INFO @ Sat, 03 Apr 2021 06:26:49: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:26:49: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:26:50: #2 number of paired peaks: 1647 INFO @ Sat, 03 Apr 2021 06:26:50: start model_add_line... INFO @ Sat, 03 Apr 2021 06:26:50: start X-correlation... INFO @ Sat, 03 Apr 2021 06:26:50: end of X-cor INFO @ Sat, 03 Apr 2021 06:26:50: #2 finished! INFO @ Sat, 03 Apr 2021 06:26:50: #2 predicted fragment length is 97 bps INFO @ Sat, 03 Apr 2021 06:26:50: #2 alternative fragment length(s) may be 97 bps INFO @ Sat, 03 Apr 2021 06:26:50: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX7246257/SRX7246257.10_model.r WARNING @ Sat, 03 Apr 2021 06:26:50: #2 Since the d (97) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:26:50: #2 You may need to consider one of the other alternative d(s): 97 WARNING @ Sat, 03 Apr 2021 06:26:50: #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 06:26:50: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:26:50: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:26:54: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX7246257/SRX7246257.05_peaks.xls INFO @ Sat, 03 Apr 2021 06:26:54: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX7246257/SRX7246257.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:26:54: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX7246257/SRX7246257.05_summits.bed INFO @ Sat, 03 Apr 2021 06:26:55: Done! pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (10987 records, 4 fields): 12 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:26:55: 7000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 06:27:01: 8000000 INFO @ Sat, 03 Apr 2021 06:27:08: 9000000 INFO @ Sat, 03 Apr 2021 06:27:14: 10000000 INFO @ Sat, 03 Apr 2021 06:27:14: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:27:21: 11000000 BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 06:27:22: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:27:22: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:27:22: #1 total tags in treatment: 11179057 INFO @ Sat, 03 Apr 2021 06:27:22: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:27:22: #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 06:27:22: #1 tags after filtering in treatment: 11179057 INFO @ Sat, 03 Apr 2021 06:27:22: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:27:22: #1 finished! INFO @ Sat, 03 Apr 2021 06:27:22: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:27:22: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:27:23: #2 number of paired peaks: 1647 INFO @ Sat, 03 Apr 2021 06:27:23: start model_add_line... INFO @ Sat, 03 Apr 2021 06:27:23: start X-correlation... INFO @ Sat, 03 Apr 2021 06:27:23: end of X-cor INFO @ Sat, 03 Apr 2021 06:27:23: #2 finished! INFO @ Sat, 03 Apr 2021 06:27:23: #2 predicted fragment length is 97 bps INFO @ Sat, 03 Apr 2021 06:27:23: #2 alternative fragment length(s) may be 97 bps INFO @ Sat, 03 Apr 2021 06:27:23: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX7246257/SRX7246257.20_model.r WARNING @ Sat, 03 Apr 2021 06:27:23: #2 Since the d (97) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:27:23: #2 You may need to consider one of the other alternative d(s): 97 WARNING @ Sat, 03 Apr 2021 06:27:23: #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 06:27:23: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:27:23: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:27:27: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX7246257/SRX7246257.10_peaks.xls INFO @ Sat, 03 Apr 2021 06:27:27: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX7246257/SRX7246257.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:27:27: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX7246257/SRX7246257.10_summits.bed INFO @ Sat, 03 Apr 2021 06:27:27: Done! pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (8014 records, 4 fields): 10 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:27:49: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:28:03: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX7246257/SRX7246257.20_peaks.xls INFO @ Sat, 03 Apr 2021 06:28:03: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX7246257/SRX7246257.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:28:03: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX7246257/SRX7246257.20_summits.bed INFO @ Sat, 03 Apr 2021 06:28:03: Done! pass1 - making usageList (6 chroms): 2 millis pass2 - checking and writing primary data (4827 records, 4 fields): 6 millis CompletedMACS2peakCalling