Job ID = 12264796 SRX = SRX4082402 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 9321716 spots for SRR7164240/SRR7164240.sra Written 9321716 spots for SRR7164240/SRR7164240.sra Read 21753913 spots for SRR7164241/SRR7164241.sra Written 21753913 spots for SRR7164241/SRR7164241.sra Read 10680418 spots for SRR7164242/SRR7164242.sra Written 10680418 spots for SRR7164242/SRR7164242.sra Read 28114144 spots for SRR7164243/SRR7164243.sra Written 28114144 spots for SRR7164243/SRR7164243.sra Read 20752336 spots for SRR7164244/SRR7164244.sra Written 20752336 spots for SRR7164244/SRR7164244.sra Read 48549423 spots for SRR7164245/SRR7164245.sra Written 48549423 spots for SRR7164245/SRR7164245.sra Read 103443650 spots for SRR7164246/SRR7164246.sra Written 103443650 spots for SRR7164246/SRR7164246.sra Read 44529298 spots for SRR7164247/SRR7164247.sra Written 44529298 spots for SRR7164247/SRR7164247.sra fastq に変換しました。 bowtie でマッピング中... Your job 12265464 ("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: 00:26:28 287144898 reads; of these: 287144898 (100.00%) were unpaired; of these: 252722297 (88.01%) aligned 0 times 29932916 (10.42%) aligned exactly 1 time 4489685 (1.56%) aligned >1 times 11.99% overall alignment rate Time searching: 00:26:28 Overall time: 00:26:28 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] 21943584 / 34422601 = 0.6375 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 06:49:21: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX4082402/SRX4082402.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX4082402/SRX4082402.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX4082402/SRX4082402.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX4082402/SRX4082402.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 06:49:21: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:49:21: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:49:30: 1000000 INFO @ Sat, 03 Apr 2021 06:49:38: 2000000 INFO @ Sat, 03 Apr 2021 06:49:48: 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 06:49:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX4082402/SRX4082402.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX4082402/SRX4082402.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX4082402/SRX4082402.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX4082402/SRX4082402.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 06:49:51: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:49:51: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:49:55: 4000000 INFO @ Sat, 03 Apr 2021 06:50:01: 1000000 INFO @ Sat, 03 Apr 2021 06:50:04: 5000000 INFO @ Sat, 03 Apr 2021 06:50:11: 2000000 INFO @ Sat, 03 Apr 2021 06:50:13: 6000000 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 06:50:20: 3000000 INFO @ Sat, 03 Apr 2021 06:50:21: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX4082402/SRX4082402.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX4082402/SRX4082402.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX4082402/SRX4082402.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX4082402/SRX4082402.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 06:50:21: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:50:21: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:50:23: 7000000 INFO @ Sat, 03 Apr 2021 06:50:28: 1000000 INFO @ Sat, 03 Apr 2021 06:50:30: 4000000 INFO @ Sat, 03 Apr 2021 06:50:31: 8000000 INFO @ Sat, 03 Apr 2021 06:50:37: 2000000 INFO @ Sat, 03 Apr 2021 06:50:40: 9000000 INFO @ Sat, 03 Apr 2021 06:50:40: 5000000 INFO @ Sat, 03 Apr 2021 06:50:45: 3000000 INFO @ Sat, 03 Apr 2021 06:50:49: 10000000 INFO @ Sat, 03 Apr 2021 06:50:50: 6000000 INFO @ Sat, 03 Apr 2021 06:50:54: 4000000 INFO @ Sat, 03 Apr 2021 06:50:57: 11000000 INFO @ Sat, 03 Apr 2021 06:50:58: 7000000 INFO @ Sat, 03 Apr 2021 06:51:02: 5000000 INFO @ Sat, 03 Apr 2021 06:51:07: 12000000 INFO @ Sat, 03 Apr 2021 06:51:09: 8000000 INFO @ Sat, 03 Apr 2021 06:51:10: #1 tag size is determined as 46 bps INFO @ Sat, 03 Apr 2021 06:51:10: #1 tag size = 46 INFO @ Sat, 03 Apr 2021 06:51:10: #1 total tags in treatment: 12479017 INFO @ Sat, 03 Apr 2021 06:51:10: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:51:10: #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 06:51:10: #1 tags after filtering in treatment: 12479017 INFO @ Sat, 03 Apr 2021 06:51:10: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:51:10: #1 finished! INFO @ Sat, 03 Apr 2021 06:51:10: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:51:10: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:51:11: #2 number of paired peaks: 1074 INFO @ Sat, 03 Apr 2021 06:51:11: start model_add_line... INFO @ Sat, 03 Apr 2021 06:51:11: start X-correlation... INFO @ Sat, 03 Apr 2021 06:51:11: end of X-cor INFO @ Sat, 03 Apr 2021 06:51:11: #2 finished! INFO @ Sat, 03 Apr 2021 06:51:11: #2 predicted fragment length is 71 bps INFO @ Sat, 03 Apr 2021 06:51:11: #2 alternative fragment length(s) may be 71 bps INFO @ Sat, 03 Apr 2021 06:51:11: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX4082402/SRX4082402.05_model.r WARNING @ Sat, 03 Apr 2021 06:51:11: #2 Since the d (71) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:51:11: #2 You may need to consider one of the other alternative d(s): 71 WARNING @ Sat, 03 Apr 2021 06:51:11: #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 06:51:11: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:51:11: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:51:12: 6000000 INFO @ Sat, 03 Apr 2021 06:51:17: 9000000 INFO @ Sat, 03 Apr 2021 06:51:20: 7000000 INFO @ Sat, 03 Apr 2021 06:51:27: 10000000 INFO @ Sat, 03 Apr 2021 06:51:28: 8000000 INFO @ Sat, 03 Apr 2021 06:51:35: 11000000 INFO @ Sat, 03 Apr 2021 06:51:36: 9000000 INFO @ Sat, 03 Apr 2021 06:51:42: 12000000 INFO @ Sat, 03 Apr 2021 06:51:43: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:51:45: 10000000 INFO @ Sat, 03 Apr 2021 06:51:46: #1 tag size is determined as 46 bps INFO @ Sat, 03 Apr 2021 06:51:46: #1 tag size = 46 INFO @ Sat, 03 Apr 2021 06:51:46: #1 total tags in treatment: 12479017 INFO @ Sat, 03 Apr 2021 06:51:46: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:51:46: #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 06:51:46: #1 tags after filtering in treatment: 12479017 INFO @ Sat, 03 Apr 2021 06:51:46: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:51:46: #1 finished! INFO @ Sat, 03 Apr 2021 06:51:46: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:51:46: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:51:47: #2 number of paired peaks: 1074 INFO @ Sat, 03 Apr 2021 06:51:47: start model_add_line... INFO @ Sat, 03 Apr 2021 06:51:47: start X-correlation... INFO @ Sat, 03 Apr 2021 06:51:48: end of X-cor INFO @ Sat, 03 Apr 2021 06:51:48: #2 finished! INFO @ Sat, 03 Apr 2021 06:51:48: #2 predicted fragment length is 71 bps INFO @ Sat, 03 Apr 2021 06:51:48: #2 alternative fragment length(s) may be 71 bps INFO @ Sat, 03 Apr 2021 06:51:48: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX4082402/SRX4082402.10_model.r WARNING @ Sat, 03 Apr 2021 06:51:48: #2 Since the d (71) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:51:48: #2 You may need to consider one of the other alternative d(s): 71 WARNING @ Sat, 03 Apr 2021 06:51:48: #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 06:51:48: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:51:48: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:51:54: 11000000 INFO @ Sat, 03 Apr 2021 06:52:00: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX4082402/SRX4082402.05_peaks.xls INFO @ Sat, 03 Apr 2021 06:52:00: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX4082402/SRX4082402.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:52:00: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX4082402/SRX4082402.05_summits.bed INFO @ Sat, 03 Apr 2021 06:52:00: Done! pass1 - making usageList (7 chroms): 3 millis pass2 - checking and writing primary data (15658 records, 4 fields): 19 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:52:02: 12000000 INFO @ Sat, 03 Apr 2021 06:52:05: #1 tag size is determined as 46 bps INFO @ Sat, 03 Apr 2021 06:52:05: #1 tag size = 46 INFO @ Sat, 03 Apr 2021 06:52:05: #1 total tags in treatment: 12479017 INFO @ Sat, 03 Apr 2021 06:52:05: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:52:05: #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 06:52:05: #1 tags after filtering in treatment: 12479017 INFO @ Sat, 03 Apr 2021 06:52:05: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:52:05: #1 finished! INFO @ Sat, 03 Apr 2021 06:52:05: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:52:05: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:52:06: #2 number of paired peaks: 1074 INFO @ Sat, 03 Apr 2021 06:52:06: start model_add_line... INFO @ Sat, 03 Apr 2021 06:52:06: start X-correlation... INFO @ Sat, 03 Apr 2021 06:52:06: end of X-cor INFO @ Sat, 03 Apr 2021 06:52:06: #2 finished! INFO @ Sat, 03 Apr 2021 06:52:06: #2 predicted fragment length is 71 bps INFO @ Sat, 03 Apr 2021 06:52:06: #2 alternative fragment length(s) may be 71 bps INFO @ Sat, 03 Apr 2021 06:52:06: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX4082402/SRX4082402.20_model.r WARNING @ Sat, 03 Apr 2021 06:52:06: #2 Since the d (71) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:52:06: #2 You may need to consider one of the other alternative d(s): 71 WARNING @ Sat, 03 Apr 2021 06:52:06: #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 06:52:06: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:52:06: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:52:14: #3 Call peaks for each chromosome... BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 06:52:28: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX4082402/SRX4082402.10_peaks.xls INFO @ Sat, 03 Apr 2021 06:52:28: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX4082402/SRX4082402.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:52:28: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX4082402/SRX4082402.10_summits.bed INFO @ Sat, 03 Apr 2021 06:52:28: Done! pass1 - making usageList (6 chroms): 2 millis pass2 - checking and writing primary data (9780 records, 4 fields): 12 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:52:30: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:52:43: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX4082402/SRX4082402.20_peaks.xls INFO @ Sat, 03 Apr 2021 06:52:43: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX4082402/SRX4082402.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:52:43: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX4082402/SRX4082402.20_summits.bed INFO @ Sat, 03 Apr 2021 06:52:43: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (4499 records, 4 fields): 7 millis CompletedMACS2peakCalling BigWig に変換しました。