Job ID = 6457506 SRX = SRX4664660 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T11:52:18 prefetch.2.10.7: 1) Downloading 'SRR7813087'... 2020-06-21T11:52:18 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T11:57:42 prefetch.2.10.7: HTTPS download succeed 2020-06-21T11:57:42 prefetch.2.10.7: 1) 'SRR7813087' was downloaded successfully Read 29186201 spots for SRR7813087/SRR7813087.sra Written 29186201 spots for SRR7813087/SRR7813087.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: 00:08:57 29186201 reads; of these: 29186201 (100.00%) were unpaired; of these: 1153663 (3.95%) aligned 0 times 18578188 (63.65%) aligned exactly 1 time 9454350 (32.39%) aligned >1 times 96.05% overall alignment rate Time searching: 00:08:57 Overall time: 00:08:57 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] 8101960 / 28032538 = 0.2890 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 21:14:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4664660/SRX4664660.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4664660/SRX4664660.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4664660/SRX4664660.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4664660/SRX4664660.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 21:14:02: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:14:02: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:14:08: 1000000 INFO @ Sun, 21 Jun 2020 21:14:13: 2000000 INFO @ Sun, 21 Jun 2020 21:14:19: 3000000 INFO @ Sun, 21 Jun 2020 21:14:24: 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 @ Sun, 21 Jun 2020 21:14:30: 5000000 INFO @ Sun, 21 Jun 2020 21:14:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4664660/SRX4664660.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4664660/SRX4664660.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4664660/SRX4664660.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4664660/SRX4664660.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 21:14:32: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:14:32: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:14:35: 6000000 INFO @ Sun, 21 Jun 2020 21:14:37: 1000000 INFO @ Sun, 21 Jun 2020 21:14:41: 7000000 INFO @ Sun, 21 Jun 2020 21:14:43: 2000000 INFO @ Sun, 21 Jun 2020 21:14:47: 8000000 INFO @ Sun, 21 Jun 2020 21:14:48: 3000000 INFO @ Sun, 21 Jun 2020 21:14:52: 9000000 INFO @ Sun, 21 Jun 2020 21:14:54: 4000000 INFO @ Sun, 21 Jun 2020 21:14:58: 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 21:15:00: 5000000 INFO @ Sun, 21 Jun 2020 21:15:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4664660/SRX4664660.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4664660/SRX4664660.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4664660/SRX4664660.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4664660/SRX4664660.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 21:15:02: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:15:02: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:15:04: 11000000 INFO @ Sun, 21 Jun 2020 21:15:05: 6000000 INFO @ Sun, 21 Jun 2020 21:15:07: 1000000 INFO @ Sun, 21 Jun 2020 21:15:10: 12000000 INFO @ Sun, 21 Jun 2020 21:15:11: 7000000 INFO @ Sun, 21 Jun 2020 21:15:13: 2000000 INFO @ Sun, 21 Jun 2020 21:15:15: 13000000 INFO @ Sun, 21 Jun 2020 21:15:17: 8000000 INFO @ Sun, 21 Jun 2020 21:15:19: 3000000 INFO @ Sun, 21 Jun 2020 21:15:21: 14000000 INFO @ Sun, 21 Jun 2020 21:15:22: 9000000 INFO @ Sun, 21 Jun 2020 21:15:24: 4000000 INFO @ Sun, 21 Jun 2020 21:15:26: 15000000 INFO @ Sun, 21 Jun 2020 21:15:28: 10000000 INFO @ Sun, 21 Jun 2020 21:15:30: 5000000 INFO @ Sun, 21 Jun 2020 21:15:32: 16000000 INFO @ Sun, 21 Jun 2020 21:15:34: 11000000 INFO @ Sun, 21 Jun 2020 21:15:35: 6000000 INFO @ Sun, 21 Jun 2020 21:15:38: 17000000 INFO @ Sun, 21 Jun 2020 21:15:39: 12000000 INFO @ Sun, 21 Jun 2020 21:15:41: 7000000 INFO @ Sun, 21 Jun 2020 21:15:43: 18000000 INFO @ Sun, 21 Jun 2020 21:15:45: 13000000 INFO @ Sun, 21 Jun 2020 21:15:47: 8000000 INFO @ Sun, 21 Jun 2020 21:15:49: 19000000 INFO @ Sun, 21 Jun 2020 21:15:50: 14000000 INFO @ Sun, 21 Jun 2020 21:15:52: 9000000 INFO @ Sun, 21 Jun 2020 21:15:54: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 21:15:54: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 21:15:54: #1 total tags in treatment: 19930578 INFO @ Sun, 21 Jun 2020 21:15:54: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:15:54: #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 21:15:55: #1 tags after filtering in treatment: 19930517 INFO @ Sun, 21 Jun 2020 21:15:55: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:15:55: #1 finished! INFO @ Sun, 21 Jun 2020 21:15:55: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:15:55: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:15:56: 15000000 INFO @ Sun, 21 Jun 2020 21:15:57: #2 number of paired peaks: 1807 INFO @ Sun, 21 Jun 2020 21:15:57: start model_add_line... INFO @ Sun, 21 Jun 2020 21:15:57: start X-correlation... INFO @ Sun, 21 Jun 2020 21:15:57: end of X-cor INFO @ Sun, 21 Jun 2020 21:15:57: #2 finished! INFO @ Sun, 21 Jun 2020 21:15:57: #2 predicted fragment length is 168 bps INFO @ Sun, 21 Jun 2020 21:15:57: #2 alternative fragment length(s) may be 3,152,168 bps INFO @ Sun, 21 Jun 2020 21:15:57: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX4664660/SRX4664660.05_model.r INFO @ Sun, 21 Jun 2020 21:15:57: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:15:57: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:15:58: 10000000 INFO @ Sun, 21 Jun 2020 21:16:01: 16000000 INFO @ Sun, 21 Jun 2020 21:16:03: 11000000 INFO @ Sun, 21 Jun 2020 21:16:07: 17000000 INFO @ Sun, 21 Jun 2020 21:16:09: 12000000 INFO @ Sun, 21 Jun 2020 21:16:12: 18000000 INFO @ Sun, 21 Jun 2020 21:16:14: 13000000 INFO @ Sun, 21 Jun 2020 21:16:18: 19000000 INFO @ Sun, 21 Jun 2020 21:16:19: 14000000 INFO @ Sun, 21 Jun 2020 21:16:23: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 21:16:23: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 21:16:23: #1 total tags in treatment: 19930578 INFO @ Sun, 21 Jun 2020 21:16:23: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:16:23: #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 21:16:24: #1 tags after filtering in treatment: 19930517 INFO @ Sun, 21 Jun 2020 21:16:24: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:16:24: #1 finished! INFO @ Sun, 21 Jun 2020 21:16:24: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:16:24: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:16:25: 15000000 INFO @ Sun, 21 Jun 2020 21:16:25: #2 number of paired peaks: 1807 INFO @ Sun, 21 Jun 2020 21:16:25: start model_add_line... INFO @ Sun, 21 Jun 2020 21:16:25: start X-correlation... INFO @ Sun, 21 Jun 2020 21:16:25: end of X-cor INFO @ Sun, 21 Jun 2020 21:16:25: #2 finished! INFO @ Sun, 21 Jun 2020 21:16:25: #2 predicted fragment length is 168 bps INFO @ Sun, 21 Jun 2020 21:16:25: #2 alternative fragment length(s) may be 3,152,168 bps INFO @ Sun, 21 Jun 2020 21:16:25: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX4664660/SRX4664660.10_model.r INFO @ Sun, 21 Jun 2020 21:16:25: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:16:25: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:16:30: 16000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 21:16:36: 17000000 INFO @ Sun, 21 Jun 2020 21:16:41: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:16:41: 18000000 INFO @ Sun, 21 Jun 2020 21:16:46: 19000000 INFO @ Sun, 21 Jun 2020 21:16:52: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 21:16:52: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 21:16:52: #1 total tags in treatment: 19930578 INFO @ Sun, 21 Jun 2020 21:16:52: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:16:52: #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 21:16:52: #1 tags after filtering in treatment: 19930517 INFO @ Sun, 21 Jun 2020 21:16:52: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:16:52: #1 finished! INFO @ Sun, 21 Jun 2020 21:16:52: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:16:52: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:16:54: #2 number of paired peaks: 1807 INFO @ Sun, 21 Jun 2020 21:16:54: start model_add_line... INFO @ Sun, 21 Jun 2020 21:16:54: start X-correlation... INFO @ Sun, 21 Jun 2020 21:16:54: end of X-cor INFO @ Sun, 21 Jun 2020 21:16:54: #2 finished! INFO @ Sun, 21 Jun 2020 21:16:54: #2 predicted fragment length is 168 bps INFO @ Sun, 21 Jun 2020 21:16:54: #2 alternative fragment length(s) may be 3,152,168 bps INFO @ Sun, 21 Jun 2020 21:16:54: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX4664660/SRX4664660.20_model.r INFO @ Sun, 21 Jun 2020 21:16:54: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:16:54: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:17:03: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX4664660/SRX4664660.05_peaks.xls INFO @ Sun, 21 Jun 2020 21:17:03: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX4664660/SRX4664660.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:17:03: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX4664660/SRX4664660.05_summits.bed INFO @ Sun, 21 Jun 2020 21:17:03: Done! pass1 - making usageList (699 chroms): 2 millis pass2 - checking and writing primary data (4377 records, 4 fields): 23 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 21:17:11: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 21:17:33: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX4664660/SRX4664660.10_peaks.xls INFO @ Sun, 21 Jun 2020 21:17:33: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX4664660/SRX4664660.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:17:33: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX4664660/SRX4664660.10_summits.bed INFO @ Sun, 21 Jun 2020 21:17:33: Done! pass1 - making usageList (611 chroms): 1 millis pass2 - checking and writing primary data (2750 records, 4 fields): 19 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 21:17:40: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:18:01: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX4664660/SRX4664660.20_peaks.xls INFO @ Sun, 21 Jun 2020 21:18:01: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX4664660/SRX4664660.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:18:01: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX4664660/SRX4664660.20_summits.bed INFO @ Sun, 21 Jun 2020 21:18:01: Done! pass1 - making usageList (501 chroms): 1 millis pass2 - checking and writing primary data (1608 records, 4 fields): 15 millis CompletedMACS2peakCalling