Job ID = 10165718 SRX = SRX8832079 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 15447502 spots for SRR12332037/SRR12332037.sra Written 15447502 spots for SRR12332037/SRR12332037.sra fastq に変換しました。 bowtie でマッピング中... Your job 10165919 ("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: 00:03:14 15447502 reads; of these: 15447502 (100.00%) were unpaired; of these: 1530055 (9.90%) aligned 0 times 11451993 (74.13%) aligned exactly 1 time 2465454 (15.96%) aligned >1 times 90.10% overall alignment rate Time searching: 00:03:14 Overall time: 00:03:14 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 8 files... [bam_rmdupse_core] 3544109 / 13917447 = 0.2547 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/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Thu, 08 Oct 2020 19:46:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832079/SRX8832079.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832079/SRX8832079.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832079/SRX8832079.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832079/SRX8832079.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 @ Thu, 08 Oct 2020 19:46:08: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:46:08: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:46:13: 1000000 INFO @ Thu, 08 Oct 2020 19:46:19: 2000000 INFO @ Thu, 08 Oct 2020 19:46:24: 3000000 INFO @ Thu, 08 Oct 2020 19:46:30: 4000000 WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Thu, 08 Oct 2020 19:46:35: 5000000 INFO @ Thu, 08 Oct 2020 19:46:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832079/SRX8832079.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832079/SRX8832079.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832079/SRX8832079.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832079/SRX8832079.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 @ Thu, 08 Oct 2020 19:46:38: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:46:38: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:46:41: 6000000 INFO @ Thu, 08 Oct 2020 19:46:43: 1000000 INFO @ Thu, 08 Oct 2020 19:46:47: 7000000 INFO @ Thu, 08 Oct 2020 19:46:49: 2000000 INFO @ Thu, 08 Oct 2020 19:46:52: 8000000 INFO @ Thu, 08 Oct 2020 19:46:54: 3000000 INFO @ Thu, 08 Oct 2020 19:46:58: 9000000 INFO @ Thu, 08 Oct 2020 19:46:59: 4000000 INFO @ Thu, 08 Oct 2020 19:47:04: 10000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Thu, 08 Oct 2020 19:47:04: 5000000 INFO @ Thu, 08 Oct 2020 19:47:06: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 19:47:06: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 19:47:06: #1 total tags in treatment: 10373338 INFO @ Thu, 08 Oct 2020 19:47:06: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:47:06: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 08 Oct 2020 19:47:06: #1 tags after filtering in treatment: 10373338 INFO @ Thu, 08 Oct 2020 19:47:06: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:47:06: #1 finished! INFO @ Thu, 08 Oct 2020 19:47:06: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:47:06: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:47:07: #2 number of paired peaks: 2283 INFO @ Thu, 08 Oct 2020 19:47:07: start model_add_line... INFO @ Thu, 08 Oct 2020 19:47:07: start X-correlation... INFO @ Thu, 08 Oct 2020 19:47:07: end of X-cor INFO @ Thu, 08 Oct 2020 19:47:07: #2 finished! INFO @ Thu, 08 Oct 2020 19:47:07: #2 predicted fragment length is 153 bps INFO @ Thu, 08 Oct 2020 19:47:07: #2 alternative fragment length(s) may be 153 bps INFO @ Thu, 08 Oct 2020 19:47:07: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832079/SRX8832079.05_model.r INFO @ Thu, 08 Oct 2020 19:47:07: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:47:07: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 19:47:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832079/SRX8832079.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832079/SRX8832079.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832079/SRX8832079.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832079/SRX8832079.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 @ Thu, 08 Oct 2020 19:47:08: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:47:08: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:47:10: 6000000 INFO @ Thu, 08 Oct 2020 19:47:13: 1000000 INFO @ Thu, 08 Oct 2020 19:47:15: 7000000 INFO @ Thu, 08 Oct 2020 19:47:18: 2000000 INFO @ Thu, 08 Oct 2020 19:47:20: 8000000 INFO @ Thu, 08 Oct 2020 19:47:24: 3000000 INFO @ Thu, 08 Oct 2020 19:47:25: 9000000 INFO @ Thu, 08 Oct 2020 19:47:29: 4000000 INFO @ Thu, 08 Oct 2020 19:47:30: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 19:47:30: 10000000 INFO @ Thu, 08 Oct 2020 19:47:32: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 19:47:32: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 19:47:32: #1 total tags in treatment: 10373338 INFO @ Thu, 08 Oct 2020 19:47:32: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:47:32: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 08 Oct 2020 19:47:32: #1 tags after filtering in treatment: 10373338 INFO @ Thu, 08 Oct 2020 19:47:32: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:47:32: #1 finished! INFO @ Thu, 08 Oct 2020 19:47:32: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:47:32: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:47:33: #2 number of paired peaks: 2283 INFO @ Thu, 08 Oct 2020 19:47:33: start model_add_line... INFO @ Thu, 08 Oct 2020 19:47:33: start X-correlation... INFO @ Thu, 08 Oct 2020 19:47:33: end of X-cor INFO @ Thu, 08 Oct 2020 19:47:33: #2 finished! INFO @ Thu, 08 Oct 2020 19:47:33: #2 predicted fragment length is 153 bps INFO @ Thu, 08 Oct 2020 19:47:33: #2 alternative fragment length(s) may be 153 bps INFO @ Thu, 08 Oct 2020 19:47:33: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832079/SRX8832079.10_model.r INFO @ Thu, 08 Oct 2020 19:47:33: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:47:33: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 19:47:34: 5000000 INFO @ Thu, 08 Oct 2020 19:47:39: 6000000 INFO @ Thu, 08 Oct 2020 19:47:41: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832079/SRX8832079.05_peaks.xls INFO @ Thu, 08 Oct 2020 19:47:41: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832079/SRX8832079.05_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:47:42: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832079/SRX8832079.05_summits.bed INFO @ Thu, 08 Oct 2020 19:47:42: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (7524 records, 4 fields): 9 millis CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 19:47:44: 7000000 INFO @ Thu, 08 Oct 2020 19:47:49: 8000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 08 Oct 2020 19:47:54: 9000000 INFO @ Thu, 08 Oct 2020 19:47:57: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 19:47:59: 10000000 INFO @ Thu, 08 Oct 2020 19:48:01: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 19:48:01: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 19:48:01: #1 total tags in treatment: 10373338 INFO @ Thu, 08 Oct 2020 19:48:01: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:48:01: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 08 Oct 2020 19:48:01: #1 tags after filtering in treatment: 10373338 INFO @ Thu, 08 Oct 2020 19:48:01: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:48:01: #1 finished! INFO @ Thu, 08 Oct 2020 19:48:01: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:48:01: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:48:02: #2 number of paired peaks: 2283 INFO @ Thu, 08 Oct 2020 19:48:02: start model_add_line... INFO @ Thu, 08 Oct 2020 19:48:02: start X-correlation... INFO @ Thu, 08 Oct 2020 19:48:02: end of X-cor INFO @ Thu, 08 Oct 2020 19:48:02: #2 finished! INFO @ Thu, 08 Oct 2020 19:48:02: #2 predicted fragment length is 153 bps INFO @ Thu, 08 Oct 2020 19:48:02: #2 alternative fragment length(s) may be 153 bps INFO @ Thu, 08 Oct 2020 19:48:02: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832079/SRX8832079.20_model.r INFO @ Thu, 08 Oct 2020 19:48:02: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:48:02: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 19:48:09: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832079/SRX8832079.10_peaks.xls INFO @ Thu, 08 Oct 2020 19:48:09: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832079/SRX8832079.10_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:48:09: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832079/SRX8832079.10_summits.bed INFO @ Thu, 08 Oct 2020 19:48:09: Done! pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (6027 records, 4 fields): 7 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Thu, 08 Oct 2020 19:48:28: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 19:48:40: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832079/SRX8832079.20_peaks.xls INFO @ Thu, 08 Oct 2020 19:48:40: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832079/SRX8832079.20_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:48:40: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832079/SRX8832079.20_summits.bed INFO @ Thu, 08 Oct 2020 19:48:40: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (4527 records, 4 fields): 6 millis CompletedMACS2peakCalling