Job ID = 14167130 SRX = SRX11016834 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2021-12-10T01:16:31 prefetch.2.10.7: 1) Downloading 'SRR14678414'... 2021-12-10T01:16:31 prefetch.2.10.7: Downloading via HTTPS... 2021-12-10T01:17:15 prefetch.2.10.7: HTTPS download succeed 2021-12-10T01:17:15 prefetch.2.10.7: 1) 'SRR14678414' was downloaded successfully 2021-12-10T01:17:15 prefetch.2.10.7: 'SRR14678414' has 0 unresolved dependencies Read 22874332 spots for SRR14678414/SRR14678414.sra Written 22874332 spots for SRR14678414/SRR14678414.sra fastq に変換しました。 bowtie でマッピング中... Your job 14167591 ("srTdm6") 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: 00:08:10 22874332 reads; of these: 22874332 (100.00%) were unpaired; of these: 1452493 (6.35%) aligned 0 times 18803011 (82.20%) aligned exactly 1 time 2618828 (11.45%) aligned >1 times 93.65% overall alignment rate Time searching: 00:08:10 Overall time: 00:08:10 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 15 sequences. [bam_sort_core] merging from 12 files... [bam_rmdupse_core] 12242950 / 21421839 = 0.5715 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/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Fri, 10 Dec 2021 10:31:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX11016834/SRX11016834.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX11016834/SRX11016834.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX11016834/SRX11016834.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX11016834/SRX11016834.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Fri, 10 Dec 2021 10:31:26: #1 read tag files... INFO @ Fri, 10 Dec 2021 10:31:26: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 10:31:33: 1000000 INFO @ Fri, 10 Dec 2021 10:31:41: 2000000 INFO @ Fri, 10 Dec 2021 10:31:48: 3000000 WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Fri, 10 Dec 2021 10:31:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX11016834/SRX11016834.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX11016834/SRX11016834.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX11016834/SRX11016834.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX11016834/SRX11016834.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Fri, 10 Dec 2021 10:31:56: #1 read tag files... INFO @ Fri, 10 Dec 2021 10:31:56: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 10:31:56: 4000000 INFO @ Fri, 10 Dec 2021 10:32:04: 1000000 INFO @ Fri, 10 Dec 2021 10:32:05: 5000000 INFO @ Fri, 10 Dec 2021 10:32:13: 2000000 INFO @ Fri, 10 Dec 2021 10:32:13: 6000000 INFO @ Fri, 10 Dec 2021 10:32:21: 7000000 INFO @ Fri, 10 Dec 2021 10:32:21: 3000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Fri, 10 Dec 2021 10:32:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX11016834/SRX11016834.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX11016834/SRX11016834.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX11016834/SRX11016834.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX11016834/SRX11016834.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Fri, 10 Dec 2021 10:32:26: #1 read tag files... INFO @ Fri, 10 Dec 2021 10:32:26: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 10:32:29: 8000000 INFO @ Fri, 10 Dec 2021 10:32:30: 4000000 INFO @ Fri, 10 Dec 2021 10:32:32: 1000000 INFO @ Fri, 10 Dec 2021 10:32:37: 9000000 INFO @ Fri, 10 Dec 2021 10:32:38: 5000000 INFO @ Fri, 10 Dec 2021 10:32:38: #1 tag size is determined as 76 bps INFO @ Fri, 10 Dec 2021 10:32:38: #1 tag size = 76 INFO @ Fri, 10 Dec 2021 10:32:38: #1 total tags in treatment: 9178889 INFO @ Fri, 10 Dec 2021 10:32:38: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 10:32:38: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Dec 2021 10:32:38: #1 tags after filtering in treatment: 9178889 INFO @ Fri, 10 Dec 2021 10:32:38: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 10:32:38: #1 finished! INFO @ Fri, 10 Dec 2021 10:32:38: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 10:32:38: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 10:32:39: 2000000 INFO @ Fri, 10 Dec 2021 10:32:39: #2 number of paired peaks: 2917 INFO @ Fri, 10 Dec 2021 10:32:39: start model_add_line... INFO @ Fri, 10 Dec 2021 10:32:39: start X-correlation... INFO @ Fri, 10 Dec 2021 10:32:39: end of X-cor INFO @ Fri, 10 Dec 2021 10:32:39: #2 finished! INFO @ Fri, 10 Dec 2021 10:32:39: #2 predicted fragment length is 226 bps INFO @ Fri, 10 Dec 2021 10:32:39: #2 alternative fragment length(s) may be 226 bps INFO @ Fri, 10 Dec 2021 10:32:39: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX11016834/SRX11016834.05_model.r INFO @ Fri, 10 Dec 2021 10:32:39: #3 Call peaks... INFO @ Fri, 10 Dec 2021 10:32:39: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 10:32:45: 3000000 INFO @ Fri, 10 Dec 2021 10:32:46: 6000000 INFO @ Fri, 10 Dec 2021 10:32:52: 4000000 INFO @ Fri, 10 Dec 2021 10:32:54: 7000000 INFO @ Fri, 10 Dec 2021 10:32:58: 5000000 INFO @ Fri, 10 Dec 2021 10:33:02: 8000000 INFO @ Fri, 10 Dec 2021 10:33:05: 6000000 INFO @ Fri, 10 Dec 2021 10:33:08: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 10:33:10: 9000000 INFO @ Fri, 10 Dec 2021 10:33:11: #1 tag size is determined as 76 bps INFO @ Fri, 10 Dec 2021 10:33:11: #1 tag size = 76 INFO @ Fri, 10 Dec 2021 10:33:11: #1 total tags in treatment: 9178889 INFO @ Fri, 10 Dec 2021 10:33:11: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 10:33:11: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Dec 2021 10:33:11: #1 tags after filtering in treatment: 9178889 INFO @ Fri, 10 Dec 2021 10:33:11: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 10:33:11: #1 finished! INFO @ Fri, 10 Dec 2021 10:33:11: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 10:33:11: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 10:33:12: 7000000 INFO @ Fri, 10 Dec 2021 10:33:12: #2 number of paired peaks: 2917 INFO @ Fri, 10 Dec 2021 10:33:12: start model_add_line... INFO @ Fri, 10 Dec 2021 10:33:12: start X-correlation... INFO @ Fri, 10 Dec 2021 10:33:12: end of X-cor INFO @ Fri, 10 Dec 2021 10:33:12: #2 finished! INFO @ Fri, 10 Dec 2021 10:33:12: #2 predicted fragment length is 226 bps INFO @ Fri, 10 Dec 2021 10:33:12: #2 alternative fragment length(s) may be 226 bps INFO @ Fri, 10 Dec 2021 10:33:12: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX11016834/SRX11016834.10_model.r INFO @ Fri, 10 Dec 2021 10:33:12: #3 Call peaks... INFO @ Fri, 10 Dec 2021 10:33:12: #3 Pre-compute pvalue-qvalue table... BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 10 Dec 2021 10:33:18: 8000000 INFO @ Fri, 10 Dec 2021 10:33:23: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX11016834/SRX11016834.05_peaks.xls INFO @ Fri, 10 Dec 2021 10:33:23: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX11016834/SRX11016834.05_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 10:33:23: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX11016834/SRX11016834.05_summits.bed INFO @ Fri, 10 Dec 2021 10:33:23: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (7191 records, 4 fields): 9 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 10:33:24: 9000000 INFO @ Fri, 10 Dec 2021 10:33:25: #1 tag size is determined as 76 bps INFO @ Fri, 10 Dec 2021 10:33:25: #1 tag size = 76 INFO @ Fri, 10 Dec 2021 10:33:25: #1 total tags in treatment: 9178889 INFO @ Fri, 10 Dec 2021 10:33:25: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 10:33:25: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Dec 2021 10:33:25: #1 tags after filtering in treatment: 9178889 INFO @ Fri, 10 Dec 2021 10:33:25: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 10:33:25: #1 finished! INFO @ Fri, 10 Dec 2021 10:33:25: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 10:33:25: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 10:33:26: #2 number of paired peaks: 2917 INFO @ Fri, 10 Dec 2021 10:33:26: start model_add_line... INFO @ Fri, 10 Dec 2021 10:33:26: start X-correlation... INFO @ Fri, 10 Dec 2021 10:33:26: end of X-cor INFO @ Fri, 10 Dec 2021 10:33:26: #2 finished! INFO @ Fri, 10 Dec 2021 10:33:26: #2 predicted fragment length is 226 bps INFO @ Fri, 10 Dec 2021 10:33:26: #2 alternative fragment length(s) may be 226 bps INFO @ Fri, 10 Dec 2021 10:33:26: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX11016834/SRX11016834.20_model.r INFO @ Fri, 10 Dec 2021 10:33:26: #3 Call peaks... INFO @ Fri, 10 Dec 2021 10:33:26: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Fri, 10 Dec 2021 10:33:42: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 10:33:51: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 10:33:56: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX11016834/SRX11016834.10_peaks.xls INFO @ Fri, 10 Dec 2021 10:33:56: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX11016834/SRX11016834.10_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 10:33:56: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX11016834/SRX11016834.10_summits.bed INFO @ Fri, 10 Dec 2021 10:33:56: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (4739 records, 4 fields): 6 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 10:34:03: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX11016834/SRX11016834.20_peaks.xls INFO @ Fri, 10 Dec 2021 10:34:03: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX11016834/SRX11016834.20_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 10:34:03: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX11016834/SRX11016834.20_summits.bed INFO @ Fri, 10 Dec 2021 10:34:03: Done! pass1 - making usageList (13 chroms): 1 millis pass2 - checking and writing primary data (2381 records, 4 fields): 4 millis CompletedMACS2peakCalling