Job ID = 12264788 SRX = SRX4082394 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 28902652 spots for SRR7164221/SRR7164221.sra Written 28902652 spots for SRR7164221/SRR7164221.sra Read 4934564 spots for SRR7164222/SRR7164222.sra Written 4934564 spots for SRR7164222/SRR7164222.sra Read 2835359 spots for SRR7164223/SRR7164223.sra Written 2835359 spots for SRR7164223/SRR7164223.sra fastq に変換しました。 bowtie でマッピング中... Your job 12265134 ("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: 00:07:58 36672575 reads; of these: 36672575 (100.00%) were unpaired; of these: 4602848 (12.55%) aligned 0 times 27934579 (76.17%) aligned exactly 1 time 4135148 (11.28%) aligned >1 times 87.45% overall alignment rate Time searching: 00:07:59 Overall time: 00:07:59 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] 18800600 / 32069727 = 0.5862 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 06:09:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX4082394/SRX4082394.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX4082394/SRX4082394.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX4082394/SRX4082394.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX4082394/SRX4082394.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 06:09:56: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:09:56: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:10:01: 1000000 INFO @ Sat, 03 Apr 2021 06:10:06: 2000000 INFO @ Sat, 03 Apr 2021 06:10:10: 3000000 INFO @ Sat, 03 Apr 2021 06:10:15: 4000000 INFO @ Sat, 03 Apr 2021 06:10:20: 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 06:10:25: 6000000 INFO @ Sat, 03 Apr 2021 06:10:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX4082394/SRX4082394.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX4082394/SRX4082394.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX4082394/SRX4082394.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX4082394/SRX4082394.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 06:10:26: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:10:26: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:10:30: 7000000 INFO @ Sat, 03 Apr 2021 06:10:32: 1000000 INFO @ Sat, 03 Apr 2021 06:10:35: 8000000 INFO @ Sat, 03 Apr 2021 06:10:37: 2000000 INFO @ Sat, 03 Apr 2021 06:10:40: 9000000 INFO @ Sat, 03 Apr 2021 06:10:43: 3000000 INFO @ Sat, 03 Apr 2021 06:10:46: 10000000 INFO @ Sat, 03 Apr 2021 06:10:49: 4000000 INFO @ Sat, 03 Apr 2021 06:10:52: 11000000 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 06:10:55: 5000000 INFO @ Sat, 03 Apr 2021 06:10:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX4082394/SRX4082394.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX4082394/SRX4082394.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX4082394/SRX4082394.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX4082394/SRX4082394.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 06:10:56: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:10:56: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:10:58: 12000000 INFO @ Sat, 03 Apr 2021 06:11:01: 6000000 INFO @ Sat, 03 Apr 2021 06:11:03: 1000000 INFO @ Sat, 03 Apr 2021 06:11:04: 13000000 INFO @ Sat, 03 Apr 2021 06:11:06: #1 tag size is determined as 48 bps INFO @ Sat, 03 Apr 2021 06:11:06: #1 tag size = 48 INFO @ Sat, 03 Apr 2021 06:11:06: #1 total tags in treatment: 13269127 INFO @ Sat, 03 Apr 2021 06:11:06: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:11:06: #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 06:11:06: #1 tags after filtering in treatment: 13269127 INFO @ Sat, 03 Apr 2021 06:11:06: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:11:06: #1 finished! INFO @ Sat, 03 Apr 2021 06:11:06: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:11:06: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:11:07: #2 number of paired peaks: 1108 INFO @ Sat, 03 Apr 2021 06:11:07: start model_add_line... INFO @ Sat, 03 Apr 2021 06:11:07: start X-correlation... INFO @ Sat, 03 Apr 2021 06:11:07: end of X-cor INFO @ Sat, 03 Apr 2021 06:11:07: #2 finished! INFO @ Sat, 03 Apr 2021 06:11:07: #2 predicted fragment length is 78 bps INFO @ Sat, 03 Apr 2021 06:11:07: #2 alternative fragment length(s) may be 78 bps INFO @ Sat, 03 Apr 2021 06:11:07: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX4082394/SRX4082394.05_model.r WARNING @ Sat, 03 Apr 2021 06:11:07: #2 Since the d (78) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:11:07: #2 You may need to consider one of the other alternative d(s): 78 WARNING @ Sat, 03 Apr 2021 06:11:07: #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 06:11:07: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:11:07: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:11:07: 7000000 INFO @ Sat, 03 Apr 2021 06:11:09: 2000000 INFO @ Sat, 03 Apr 2021 06:11:14: 8000000 INFO @ Sat, 03 Apr 2021 06:11:15: 3000000 INFO @ Sat, 03 Apr 2021 06:11:20: 9000000 INFO @ Sat, 03 Apr 2021 06:11:21: 4000000 INFO @ Sat, 03 Apr 2021 06:11:26: 10000000 INFO @ Sat, 03 Apr 2021 06:11:28: 5000000 INFO @ Sat, 03 Apr 2021 06:11:32: 11000000 INFO @ Sat, 03 Apr 2021 06:11:34: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:11:34: 6000000 INFO @ Sat, 03 Apr 2021 06:11:39: 12000000 INFO @ Sat, 03 Apr 2021 06:11:41: 7000000 INFO @ Sat, 03 Apr 2021 06:11:45: 13000000 INFO @ Sat, 03 Apr 2021 06:11:47: #1 tag size is determined as 48 bps INFO @ Sat, 03 Apr 2021 06:11:47: #1 tag size = 48 INFO @ Sat, 03 Apr 2021 06:11:47: #1 total tags in treatment: 13269127 INFO @ Sat, 03 Apr 2021 06:11:47: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:11:47: #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 06:11:47: #1 tags after filtering in treatment: 13269127 INFO @ Sat, 03 Apr 2021 06:11:47: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:11:47: #1 finished! INFO @ Sat, 03 Apr 2021 06:11:47: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:11:47: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:11:47: 8000000 INFO @ Sat, 03 Apr 2021 06:11:48: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX4082394/SRX4082394.05_peaks.xls INFO @ Sat, 03 Apr 2021 06:11:48: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX4082394/SRX4082394.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:11:48: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX4082394/SRX4082394.05_summits.bed INFO @ Sat, 03 Apr 2021 06:11:48: Done! INFO @ Sat, 03 Apr 2021 06:11:48: #2 number of paired peaks: 1108 INFO @ Sat, 03 Apr 2021 06:11:48: start model_add_line... INFO @ Sat, 03 Apr 2021 06:11:49: start X-correlation... INFO @ Sat, 03 Apr 2021 06:11:49: end of X-cor INFO @ Sat, 03 Apr 2021 06:11:49: #2 finished! INFO @ Sat, 03 Apr 2021 06:11:49: #2 predicted fragment length is 78 bps INFO @ Sat, 03 Apr 2021 06:11:49: #2 alternative fragment length(s) may be 78 bps INFO @ Sat, 03 Apr 2021 06:11:49: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX4082394/SRX4082394.10_model.r WARNING @ Sat, 03 Apr 2021 06:11:49: #2 Since the d (78) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:11:49: #2 You may need to consider one of the other alternative d(s): 78 WARNING @ Sat, 03 Apr 2021 06:11:49: #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 06:11:49: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:11:49: #3 Pre-compute pvalue-qvalue table... pass1 - making usageList (7 chroms): 3 millis pass2 - checking and writing primary data (16607 records, 4 fields): 27 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:11:54: 9000000 INFO @ Sat, 03 Apr 2021 06:12:00: 10000000 INFO @ Sat, 03 Apr 2021 06:12:06: 11000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 06:12:13: 12000000 INFO @ Sat, 03 Apr 2021 06:12:15: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:12:19: 13000000 INFO @ Sat, 03 Apr 2021 06:12:21: #1 tag size is determined as 48 bps INFO @ Sat, 03 Apr 2021 06:12:21: #1 tag size = 48 INFO @ Sat, 03 Apr 2021 06:12:21: #1 total tags in treatment: 13269127 INFO @ Sat, 03 Apr 2021 06:12:21: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:12:21: #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 06:12:21: #1 tags after filtering in treatment: 13269127 INFO @ Sat, 03 Apr 2021 06:12:21: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:12:21: #1 finished! INFO @ Sat, 03 Apr 2021 06:12:21: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:12:21: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:12:22: #2 number of paired peaks: 1108 INFO @ Sat, 03 Apr 2021 06:12:22: start model_add_line... INFO @ Sat, 03 Apr 2021 06:12:22: start X-correlation... INFO @ Sat, 03 Apr 2021 06:12:22: end of X-cor INFO @ Sat, 03 Apr 2021 06:12:22: #2 finished! INFO @ Sat, 03 Apr 2021 06:12:22: #2 predicted fragment length is 78 bps INFO @ Sat, 03 Apr 2021 06:12:22: #2 alternative fragment length(s) may be 78 bps INFO @ Sat, 03 Apr 2021 06:12:22: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX4082394/SRX4082394.20_model.r WARNING @ Sat, 03 Apr 2021 06:12:22: #2 Since the d (78) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:12:22: #2 You may need to consider one of the other alternative d(s): 78 WARNING @ Sat, 03 Apr 2021 06:12:22: #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 06:12:22: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:12:22: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:12:29: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX4082394/SRX4082394.10_peaks.xls INFO @ Sat, 03 Apr 2021 06:12:29: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX4082394/SRX4082394.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:12:29: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX4082394/SRX4082394.10_summits.bed INFO @ Sat, 03 Apr 2021 06:12:29: Done! pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (11287 records, 4 fields): 20 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 06:12:48: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:13:01: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX4082394/SRX4082394.20_peaks.xls INFO @ Sat, 03 Apr 2021 06:13:01: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX4082394/SRX4082394.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:13:01: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX4082394/SRX4082394.20_summits.bed INFO @ Sat, 03 Apr 2021 06:13:01: Done! pass1 - making usageList (6 chroms): 2 millis pass2 - checking and writing primary data (5528 records, 4 fields): 7 millis CompletedMACS2peakCalling