Job ID = 6458276 SRX = SRX5011037 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T12:21:37 prefetch.2.10.7: 1) Downloading 'SRR8191486'... 2020-06-21T12:21:37 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T12:23:13 prefetch.2.10.7: HTTPS download succeed 2020-06-21T12:23:13 prefetch.2.10.7: 'SRR8191486' is valid 2020-06-21T12:23:13 prefetch.2.10.7: 1) 'SRR8191486' was downloaded successfully 2020-06-21T12:23:13 prefetch.2.10.7: 'SRR8191486' has 0 unresolved dependencies Read 22183688 spots for SRR8191486/SRR8191486.sra Written 22183688 spots for SRR8191486/SRR8191486.sra fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:05:51 22183688 reads; of these: 22183688 (100.00%) were unpaired; of these: 1062802 (4.79%) aligned 0 times 16495544 (74.36%) aligned exactly 1 time 4625342 (20.85%) aligned >1 times 95.21% overall alignment rate Time searching: 00:05:51 Overall time: 00:05:51 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 1870 sequences. [bam_sort_core] merging from 12 files... [bam_rmdupse_core] 8068939 / 21120886 = 0.3820 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 @ Sun, 21 Jun 2020 21:33:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5011037/SRX5011037.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5011037/SRX5011037.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5011037/SRX5011037.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5011037/SRX5011037.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 @ Sun, 21 Jun 2020 21:33:58: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:33:58: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:34:03: 1000000 INFO @ Sun, 21 Jun 2020 21:34:09: 2000000 INFO @ Sun, 21 Jun 2020 21:34:14: 3000000 INFO @ Sun, 21 Jun 2020 21:34:20: 4000000 INFO @ Sun, 21 Jun 2020 21:34:25: 5000000 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 @ Sun, 21 Jun 2020 21:34:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5011037/SRX5011037.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5011037/SRX5011037.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5011037/SRX5011037.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5011037/SRX5011037.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 @ Sun, 21 Jun 2020 21:34:29: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:34:29: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:34:31: 6000000 INFO @ Sun, 21 Jun 2020 21:34:35: 1000000 INFO @ Sun, 21 Jun 2020 21:34:37: 7000000 INFO @ Sun, 21 Jun 2020 21:34:41: 2000000 INFO @ Sun, 21 Jun 2020 21:34:43: 8000000 INFO @ Sun, 21 Jun 2020 21:34:48: 3000000 INFO @ Sun, 21 Jun 2020 21:34:49: 9000000 INFO @ Sun, 21 Jun 2020 21:34:54: 4000000 INFO @ Sun, 21 Jun 2020 21:34:56: 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 @ Sun, 21 Jun 2020 21:34:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5011037/SRX5011037.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5011037/SRX5011037.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5011037/SRX5011037.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5011037/SRX5011037.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 @ Sun, 21 Jun 2020 21:34:58: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:34:58: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:35:00: 5000000 INFO @ Sun, 21 Jun 2020 21:35:02: 11000000 INFO @ Sun, 21 Jun 2020 21:35:04: 1000000 INFO @ Sun, 21 Jun 2020 21:35:07: 6000000 INFO @ Sun, 21 Jun 2020 21:35:09: 12000000 INFO @ Sun, 21 Jun 2020 21:35:10: 2000000 INFO @ Sun, 21 Jun 2020 21:35:13: 7000000 INFO @ Sun, 21 Jun 2020 21:35:15: 13000000 INFO @ Sun, 21 Jun 2020 21:35:15: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 21:35:15: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 21:35:15: #1 total tags in treatment: 13051947 INFO @ Sun, 21 Jun 2020 21:35:15: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:35:15: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 21 Jun 2020 21:35:16: #1 tags after filtering in treatment: 13051867 INFO @ Sun, 21 Jun 2020 21:35:16: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:35:16: #1 finished! INFO @ Sun, 21 Jun 2020 21:35:16: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:35:16: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:35:17: 3000000 INFO @ Sun, 21 Jun 2020 21:35:17: #2 number of paired peaks: 3808 INFO @ Sun, 21 Jun 2020 21:35:17: start model_add_line... INFO @ Sun, 21 Jun 2020 21:35:17: start X-correlation... INFO @ Sun, 21 Jun 2020 21:35:17: end of X-cor INFO @ Sun, 21 Jun 2020 21:35:17: #2 finished! INFO @ Sun, 21 Jun 2020 21:35:17: #2 predicted fragment length is 206 bps INFO @ Sun, 21 Jun 2020 21:35:17: #2 alternative fragment length(s) may be 206 bps INFO @ Sun, 21 Jun 2020 21:35:17: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5011037/SRX5011037.05_model.r INFO @ Sun, 21 Jun 2020 21:35:17: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:35:17: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:35:19: 8000000 INFO @ Sun, 21 Jun 2020 21:35:23: 4000000 INFO @ Sun, 21 Jun 2020 21:35:25: 9000000 INFO @ Sun, 21 Jun 2020 21:35:29: 5000000 INFO @ Sun, 21 Jun 2020 21:35:32: 10000000 INFO @ Sun, 21 Jun 2020 21:35:35: 6000000 INFO @ Sun, 21 Jun 2020 21:35:38: 11000000 INFO @ Sun, 21 Jun 2020 21:35:42: 7000000 INFO @ Sun, 21 Jun 2020 21:35:45: 12000000 INFO @ Sun, 21 Jun 2020 21:35:48: 8000000 INFO @ Sun, 21 Jun 2020 21:35:52: 13000000 INFO @ Sun, 21 Jun 2020 21:35:52: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 21:35:52: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 21:35:52: #1 total tags in treatment: 13051947 INFO @ Sun, 21 Jun 2020 21:35:52: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:35:52: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 21 Jun 2020 21:35:52: #1 tags after filtering in treatment: 13051867 INFO @ Sun, 21 Jun 2020 21:35:52: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:35:52: #1 finished! INFO @ Sun, 21 Jun 2020 21:35:52: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:35:52: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:35:54: #2 number of paired peaks: 3808 INFO @ Sun, 21 Jun 2020 21:35:54: start model_add_line... INFO @ Sun, 21 Jun 2020 21:35:54: start X-correlation... INFO @ Sun, 21 Jun 2020 21:35:54: end of X-cor INFO @ Sun, 21 Jun 2020 21:35:54: #2 finished! INFO @ Sun, 21 Jun 2020 21:35:54: #2 predicted fragment length is 206 bps INFO @ Sun, 21 Jun 2020 21:35:54: #2 alternative fragment length(s) may be 206 bps INFO @ Sun, 21 Jun 2020 21:35:54: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5011037/SRX5011037.10_model.r INFO @ Sun, 21 Jun 2020 21:35:54: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:35:54: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:35:54: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:35:54: 9000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 21:36:00: 10000000 INFO @ Sun, 21 Jun 2020 21:36:06: 11000000 INFO @ Sun, 21 Jun 2020 21:36:10: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5011037/SRX5011037.05_peaks.xls INFO @ Sun, 21 Jun 2020 21:36:10: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5011037/SRX5011037.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:36:10: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5011037/SRX5011037.05_summits.bed INFO @ Sun, 21 Jun 2020 21:36:11: Done! pass1 - making usageList (607 chroms): 2 millis pass2 - checking and writing primary data (13313 records, 4 fields): 30 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 21:36:12: 12000000 INFO @ Sun, 21 Jun 2020 21:36:18: 13000000 INFO @ Sun, 21 Jun 2020 21:36:18: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 21:36:18: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 21:36:18: #1 total tags in treatment: 13051947 INFO @ Sun, 21 Jun 2020 21:36:18: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:36:18: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 21 Jun 2020 21:36:19: #1 tags after filtering in treatment: 13051867 INFO @ Sun, 21 Jun 2020 21:36:19: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:36:19: #1 finished! INFO @ Sun, 21 Jun 2020 21:36:19: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:36:19: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:36:20: #2 number of paired peaks: 3808 INFO @ Sun, 21 Jun 2020 21:36:20: start model_add_line... INFO @ Sun, 21 Jun 2020 21:36:20: start X-correlation... INFO @ Sun, 21 Jun 2020 21:36:20: end of X-cor INFO @ Sun, 21 Jun 2020 21:36:20: #2 finished! INFO @ Sun, 21 Jun 2020 21:36:20: #2 predicted fragment length is 206 bps INFO @ Sun, 21 Jun 2020 21:36:20: #2 alternative fragment length(s) may be 206 bps INFO @ Sun, 21 Jun 2020 21:36:20: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5011037/SRX5011037.20_model.r INFO @ Sun, 21 Jun 2020 21:36:20: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:36:20: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 21:36:28: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:36:44: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5011037/SRX5011037.10_peaks.xls INFO @ Sun, 21 Jun 2020 21:36:44: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5011037/SRX5011037.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:36:44: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5011037/SRX5011037.10_summits.bed INFO @ Sun, 21 Jun 2020 21:36:44: Done! pass1 - making usageList (492 chroms): 2 millis pass2 - checking and writing primary data (9749 records, 4 fields): 23 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 21:36:56: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:37:12: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5011037/SRX5011037.20_peaks.xls INFO @ Sun, 21 Jun 2020 21:37:12: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5011037/SRX5011037.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:37:12: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5011037/SRX5011037.20_summits.bed INFO @ Sun, 21 Jun 2020 21:37:12: Done! pass1 - making usageList (356 chroms): 2 millis pass2 - checking and writing primary data (5922 records, 4 fields): 15 millis CompletedMACS2peakCalling