Job ID = 12264790 SRX = SRX4082396 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 36359538 spots for SRR7164226/SRR7164226.sra Written 36359538 spots for SRR7164226/SRR7164226.sra Read 3850168 spots for SRR7164227/SRR7164227.sra Written 3850168 spots for SRR7164227/SRR7164227.sra Read 2593634 spots for SRR7164228/SRR7164228.sra Written 2593634 spots for SRR7164228/SRR7164228.sra fastq に変換しました。 bowtie でマッピング中... Your job 12265158 ("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: 00:08:16 42803340 reads; of these: 42803340 (100.00%) were unpaired; of these: 11591546 (27.08%) aligned 0 times 27600900 (64.48%) aligned exactly 1 time 3610894 (8.44%) aligned >1 times 72.92% overall alignment rate Time searching: 00:08:16 Overall time: 00:08:16 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] 18949631 / 31211794 = 0.6071 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 06:10:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX4082396/SRX4082396.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX4082396/SRX4082396.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX4082396/SRX4082396.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX4082396/SRX4082396.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 06:10:16: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:10:16: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:10:23: 1000000 INFO @ Sat, 03 Apr 2021 06:10:29: 2000000 INFO @ Sat, 03 Apr 2021 06:10:35: 3000000 INFO @ Sat, 03 Apr 2021 06:10:42: 4000000 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 06:10:46: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX4082396/SRX4082396.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX4082396/SRX4082396.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX4082396/SRX4082396.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX4082396/SRX4082396.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 06:10:46: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:10:46: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:10:48: 5000000 INFO @ Sat, 03 Apr 2021 06:10:53: 1000000 INFO @ Sat, 03 Apr 2021 06:10:56: 6000000 INFO @ Sat, 03 Apr 2021 06:11:00: 2000000 INFO @ Sat, 03 Apr 2021 06:11:02: 7000000 INFO @ Sat, 03 Apr 2021 06:11:06: 3000000 INFO @ Sat, 03 Apr 2021 06:11:09: 8000000 BedGraph に変換中... INFO @ Sat, 03 Apr 2021 06:11:14: 4000000 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 06:11:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX4082396/SRX4082396.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX4082396/SRX4082396.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX4082396/SRX4082396.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX4082396/SRX4082396.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 06:11:16: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:11:16: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:11:17: 9000000 INFO @ Sat, 03 Apr 2021 06:11:21: 5000000 INFO @ Sat, 03 Apr 2021 06:11:24: 10000000 INFO @ Sat, 03 Apr 2021 06:11:24: 1000000 INFO @ Sat, 03 Apr 2021 06:11:28: 6000000 INFO @ Sat, 03 Apr 2021 06:11:30: 11000000 INFO @ Sat, 03 Apr 2021 06:11:32: 2000000 INFO @ Sat, 03 Apr 2021 06:11:34: 7000000 INFO @ Sat, 03 Apr 2021 06:11:37: 12000000 INFO @ Sat, 03 Apr 2021 06:11:39: #1 tag size is determined as 47 bps INFO @ Sat, 03 Apr 2021 06:11:39: #1 tag size = 47 INFO @ Sat, 03 Apr 2021 06:11:39: #1 total tags in treatment: 12262163 INFO @ Sat, 03 Apr 2021 06:11:39: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:11:39: #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 06:11:39: #1 tags after filtering in treatment: 12262163 INFO @ Sat, 03 Apr 2021 06:11:39: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:11:39: #1 finished! INFO @ Sat, 03 Apr 2021 06:11:39: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:11:39: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:11:40: #2 number of paired peaks: 1482 INFO @ Sat, 03 Apr 2021 06:11:40: start model_add_line... INFO @ Sat, 03 Apr 2021 06:11:40: start X-correlation... INFO @ Sat, 03 Apr 2021 06:11:40: end of X-cor INFO @ Sat, 03 Apr 2021 06:11:40: #2 finished! INFO @ Sat, 03 Apr 2021 06:11:40: #2 predicted fragment length is 84 bps INFO @ Sat, 03 Apr 2021 06:11:40: #2 alternative fragment length(s) may be 84 bps INFO @ Sat, 03 Apr 2021 06:11:40: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX4082396/SRX4082396.05_model.r WARNING @ Sat, 03 Apr 2021 06:11:40: #2 Since the d (84) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:11:40: #2 You may need to consider one of the other alternative d(s): 84 WARNING @ Sat, 03 Apr 2021 06:11:40: #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 06:11:40: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:11:40: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:11:41: 8000000 INFO @ Sat, 03 Apr 2021 06:11:41: 3000000 INFO @ Sat, 03 Apr 2021 06:11:47: 9000000 INFO @ Sat, 03 Apr 2021 06:11:49: 4000000 INFO @ Sat, 03 Apr 2021 06:11:53: 10000000 INFO @ Sat, 03 Apr 2021 06:11:58: 5000000 INFO @ Sat, 03 Apr 2021 06:12:00: 11000000 INFO @ Sat, 03 Apr 2021 06:12:05: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:12:06: 6000000 INFO @ Sat, 03 Apr 2021 06:12:06: 12000000 INFO @ Sat, 03 Apr 2021 06:12:07: #1 tag size is determined as 47 bps INFO @ Sat, 03 Apr 2021 06:12:07: #1 tag size = 47 INFO @ Sat, 03 Apr 2021 06:12:07: #1 total tags in treatment: 12262163 INFO @ Sat, 03 Apr 2021 06:12:07: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:12:07: #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 06:12:08: #1 tags after filtering in treatment: 12262163 INFO @ Sat, 03 Apr 2021 06:12:08: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:12:08: #1 finished! INFO @ Sat, 03 Apr 2021 06:12:08: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:12:08: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:12:09: #2 number of paired peaks: 1482 INFO @ Sat, 03 Apr 2021 06:12:09: start model_add_line... INFO @ Sat, 03 Apr 2021 06:12:09: start X-correlation... INFO @ Sat, 03 Apr 2021 06:12:09: end of X-cor INFO @ Sat, 03 Apr 2021 06:12:09: #2 finished! INFO @ Sat, 03 Apr 2021 06:12:09: #2 predicted fragment length is 84 bps INFO @ Sat, 03 Apr 2021 06:12:09: #2 alternative fragment length(s) may be 84 bps INFO @ Sat, 03 Apr 2021 06:12:09: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX4082396/SRX4082396.10_model.r WARNING @ Sat, 03 Apr 2021 06:12:09: #2 Since the d (84) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:12:09: #2 You may need to consider one of the other alternative d(s): 84 WARNING @ Sat, 03 Apr 2021 06:12:09: #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 06:12:09: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:12:09: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:12:14: 7000000 INFO @ Sat, 03 Apr 2021 06:12:17: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX4082396/SRX4082396.05_peaks.xls INFO @ Sat, 03 Apr 2021 06:12:17: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX4082396/SRX4082396.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:12:17: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX4082396/SRX4082396.05_summits.bed INFO @ Sat, 03 Apr 2021 06:12:18: Done! pass1 - making usageList (7 chroms): 3 millis pass2 - checking and writing primary data (15977 records, 4 fields): 19 millis CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 06:12:22: 8000000 INFO @ Sat, 03 Apr 2021 06:12:30: 9000000 INFO @ Sat, 03 Apr 2021 06:12:33: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:12:37: 10000000 INFO @ Sat, 03 Apr 2021 06:12:43: 11000000 INFO @ Sat, 03 Apr 2021 06:12:45: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX4082396/SRX4082396.10_peaks.xls INFO @ Sat, 03 Apr 2021 06:12:46: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX4082396/SRX4082396.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:12:46: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX4082396/SRX4082396.10_summits.bed INFO @ Sat, 03 Apr 2021 06:12:46: Done! pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (10962 records, 4 fields): 14 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:12:50: 12000000 BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 06:12:52: #1 tag size is determined as 47 bps INFO @ Sat, 03 Apr 2021 06:12:52: #1 tag size = 47 INFO @ Sat, 03 Apr 2021 06:12:52: #1 total tags in treatment: 12262163 INFO @ Sat, 03 Apr 2021 06:12:52: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:12:52: #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 06:12:52: #1 tags after filtering in treatment: 12262163 INFO @ Sat, 03 Apr 2021 06:12:52: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:12:52: #1 finished! INFO @ Sat, 03 Apr 2021 06:12:52: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:12:52: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:12:53: #2 number of paired peaks: 1482 INFO @ Sat, 03 Apr 2021 06:12:53: start model_add_line... INFO @ Sat, 03 Apr 2021 06:12:53: start X-correlation... INFO @ Sat, 03 Apr 2021 06:12:53: end of X-cor INFO @ Sat, 03 Apr 2021 06:12:53: #2 finished! INFO @ Sat, 03 Apr 2021 06:12:53: #2 predicted fragment length is 84 bps INFO @ Sat, 03 Apr 2021 06:12:53: #2 alternative fragment length(s) may be 84 bps INFO @ Sat, 03 Apr 2021 06:12:53: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX4082396/SRX4082396.20_model.r WARNING @ Sat, 03 Apr 2021 06:12:53: #2 Since the d (84) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:12:53: #2 You may need to consider one of the other alternative d(s): 84 WARNING @ Sat, 03 Apr 2021 06:12:53: #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 06:12:53: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:12:53: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:13:17: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:13:29: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX4082396/SRX4082396.20_peaks.xls INFO @ Sat, 03 Apr 2021 06:13:29: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX4082396/SRX4082396.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:13:29: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX4082396/SRX4082396.20_summits.bed INFO @ Sat, 03 Apr 2021 06:13:29: Done! pass1 - making usageList (6 chroms): 2 millis pass2 - checking and writing primary data (5764 records, 4 fields): 8 millis CompletedMACS2peakCalling