Job ID = 6456789 SRX = SRX3981683 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T11:03:16 prefetch.2.10.7: 1) Downloading 'SRR7050433'... 2020-06-21T11:03:16 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T11:04:30 prefetch.2.10.7: HTTPS download succeed 2020-06-21T11:04:31 prefetch.2.10.7: 'SRR7050433' is valid 2020-06-21T11:04:31 prefetch.2.10.7: 1) 'SRR7050433' was downloaded successfully 2020-06-21T11:04:31 prefetch.2.10.7: 'SRR7050433' has 0 unresolved dependencies Read 13251358 spots for SRR7050433/SRR7050433.sra Written 13251358 spots for SRR7050433/SRR7050433.sra 2020-06-21T11:05:22 prefetch.2.10.7: 1) Downloading 'SRR7050434'... 2020-06-21T11:05:22 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T11:06:37 prefetch.2.10.7: HTTPS download succeed 2020-06-21T11:06:37 prefetch.2.10.7: 'SRR7050434' is valid 2020-06-21T11:06:37 prefetch.2.10.7: 1) 'SRR7050434' was downloaded successfully 2020-06-21T11:06:37 prefetch.2.10.7: 'SRR7050434' has 0 unresolved dependencies Read 13268248 spots for SRR7050434/SRR7050434.sra Written 13268248 spots for SRR7050434/SRR7050434.sra 2020-06-21T11:07:28 prefetch.2.10.7: 1) Downloading 'SRR7050435'... 2020-06-21T11:07:28 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T11:08:34 prefetch.2.10.7: HTTPS download succeed 2020-06-21T11:08:35 prefetch.2.10.7: 'SRR7050435' is valid 2020-06-21T11:08:35 prefetch.2.10.7: 1) 'SRR7050435' was downloaded successfully 2020-06-21T11:08:35 prefetch.2.10.7: 'SRR7050435' has 0 unresolved dependencies Read 13176365 spots for SRR7050435/SRR7050435.sra Written 13176365 spots for SRR7050435/SRR7050435.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: 00:08:29 39695971 reads; of these: 39695971 (100.00%) were unpaired; of these: 2367758 (5.96%) aligned 0 times 31915564 (80.40%) aligned exactly 1 time 5412649 (13.64%) aligned >1 times 94.04% overall alignment rate Time searching: 00:08:29 Overall time: 00:08:29 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 16 files... [bam_rmdupse_core] 7977353 / 37328213 = 0.2137 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 20:25:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3981683/SRX3981683.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3981683/SRX3981683.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3981683/SRX3981683.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3981683/SRX3981683.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 20:25:19: #1 read tag files... INFO @ Sun, 21 Jun 2020 20:25:19: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 20:25:23: 1000000 INFO @ Sun, 21 Jun 2020 20:25:28: 2000000 INFO @ Sun, 21 Jun 2020 20:25:33: 3000000 INFO @ Sun, 21 Jun 2020 20:25:37: 4000000 INFO @ Sun, 21 Jun 2020 20:25:42: 5000000 INFO @ Sun, 21 Jun 2020 20:25:47: 6000000 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 20:25:49: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3981683/SRX3981683.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3981683/SRX3981683.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3981683/SRX3981683.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3981683/SRX3981683.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 20:25:49: #1 read tag files... INFO @ Sun, 21 Jun 2020 20:25:49: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 20:25:51: 7000000 INFO @ Sun, 21 Jun 2020 20:25:54: 1000000 INFO @ Sun, 21 Jun 2020 20:25:56: 8000000 INFO @ Sun, 21 Jun 2020 20:25:58: 2000000 INFO @ Sun, 21 Jun 2020 20:26:01: 9000000 INFO @ Sun, 21 Jun 2020 20:26:03: 3000000 INFO @ Sun, 21 Jun 2020 20:26:05: 10000000 INFO @ Sun, 21 Jun 2020 20:26:08: 4000000 INFO @ Sun, 21 Jun 2020 20:26:10: 11000000 INFO @ Sun, 21 Jun 2020 20:26:13: 5000000 INFO @ Sun, 21 Jun 2020 20:26:15: 12000000 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 20:26:18: 6000000 INFO @ Sun, 21 Jun 2020 20:26:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3981683/SRX3981683.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3981683/SRX3981683.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3981683/SRX3981683.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3981683/SRX3981683.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 20:26:19: #1 read tag files... INFO @ Sun, 21 Jun 2020 20:26:19: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 20:26:19: 13000000 INFO @ Sun, 21 Jun 2020 20:26:22: 7000000 INFO @ Sun, 21 Jun 2020 20:26:23: 1000000 INFO @ Sun, 21 Jun 2020 20:26:24: 14000000 INFO @ Sun, 21 Jun 2020 20:26:27: 8000000 INFO @ Sun, 21 Jun 2020 20:26:28: 2000000 INFO @ Sun, 21 Jun 2020 20:26:29: 15000000 INFO @ Sun, 21 Jun 2020 20:26:32: 9000000 INFO @ Sun, 21 Jun 2020 20:26:33: 3000000 INFO @ Sun, 21 Jun 2020 20:26:34: 16000000 INFO @ Sun, 21 Jun 2020 20:26:37: 10000000 INFO @ Sun, 21 Jun 2020 20:26:38: 4000000 INFO @ Sun, 21 Jun 2020 20:26:38: 17000000 INFO @ Sun, 21 Jun 2020 20:26:42: 11000000 INFO @ Sun, 21 Jun 2020 20:26:43: 5000000 INFO @ Sun, 21 Jun 2020 20:26:43: 18000000 INFO @ Sun, 21 Jun 2020 20:26:47: 12000000 INFO @ Sun, 21 Jun 2020 20:26:47: 6000000 INFO @ Sun, 21 Jun 2020 20:26:48: 19000000 INFO @ Sun, 21 Jun 2020 20:26:51: 13000000 INFO @ Sun, 21 Jun 2020 20:26:52: 7000000 INFO @ Sun, 21 Jun 2020 20:26:53: 20000000 INFO @ Sun, 21 Jun 2020 20:26:56: 14000000 INFO @ Sun, 21 Jun 2020 20:26:57: 8000000 INFO @ Sun, 21 Jun 2020 20:26:57: 21000000 INFO @ Sun, 21 Jun 2020 20:27:01: 15000000 INFO @ Sun, 21 Jun 2020 20:27:01: 9000000 INFO @ Sun, 21 Jun 2020 20:27:02: 22000000 INFO @ Sun, 21 Jun 2020 20:27:06: 16000000 INFO @ Sun, 21 Jun 2020 20:27:06: 10000000 INFO @ Sun, 21 Jun 2020 20:27:07: 23000000 INFO @ Sun, 21 Jun 2020 20:27:11: 11000000 INFO @ Sun, 21 Jun 2020 20:27:11: 17000000 INFO @ Sun, 21 Jun 2020 20:27:11: 24000000 INFO @ Sun, 21 Jun 2020 20:27:16: 12000000 INFO @ Sun, 21 Jun 2020 20:27:16: 18000000 INFO @ Sun, 21 Jun 2020 20:27:16: 25000000 INFO @ Sun, 21 Jun 2020 20:27:20: 13000000 INFO @ Sun, 21 Jun 2020 20:27:20: 19000000 INFO @ Sun, 21 Jun 2020 20:27:21: 26000000 INFO @ Sun, 21 Jun 2020 20:27:25: 14000000 INFO @ Sun, 21 Jun 2020 20:27:25: 20000000 INFO @ Sun, 21 Jun 2020 20:27:26: 27000000 INFO @ Sun, 21 Jun 2020 20:27:30: 15000000 INFO @ Sun, 21 Jun 2020 20:27:30: 21000000 INFO @ Sun, 21 Jun 2020 20:27:30: 28000000 INFO @ Sun, 21 Jun 2020 20:27:34: 16000000 INFO @ Sun, 21 Jun 2020 20:27:35: 22000000 INFO @ Sun, 21 Jun 2020 20:27:35: 29000000 INFO @ Sun, 21 Jun 2020 20:27:37: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 20:27:37: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 20:27:37: #1 total tags in treatment: 29350860 INFO @ Sun, 21 Jun 2020 20:27:37: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 20:27:37: #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 20:27:38: #1 tags after filtering in treatment: 29350787 INFO @ Sun, 21 Jun 2020 20:27:38: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 20:27:38: #1 finished! INFO @ Sun, 21 Jun 2020 20:27:38: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 20:27:38: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 20:27:39: 17000000 INFO @ Sun, 21 Jun 2020 20:27:39: 23000000 INFO @ Sun, 21 Jun 2020 20:27:40: #2 number of paired peaks: 1953 INFO @ Sun, 21 Jun 2020 20:27:40: start model_add_line... INFO @ Sun, 21 Jun 2020 20:27:40: start X-correlation... INFO @ Sun, 21 Jun 2020 20:27:40: end of X-cor INFO @ Sun, 21 Jun 2020 20:27:40: #2 finished! INFO @ Sun, 21 Jun 2020 20:27:40: #2 predicted fragment length is 141 bps INFO @ Sun, 21 Jun 2020 20:27:40: #2 alternative fragment length(s) may be 4,141 bps INFO @ Sun, 21 Jun 2020 20:27:40: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3981683/SRX3981683.05_model.r INFO @ Sun, 21 Jun 2020 20:27:40: #3 Call peaks... INFO @ Sun, 21 Jun 2020 20:27:40: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 20:27:44: 18000000 INFO @ Sun, 21 Jun 2020 20:27:44: 24000000 INFO @ Sun, 21 Jun 2020 20:27:48: 19000000 INFO @ Sun, 21 Jun 2020 20:27:49: 25000000 INFO @ Sun, 21 Jun 2020 20:27:53: 20000000 INFO @ Sun, 21 Jun 2020 20:27:54: 26000000 INFO @ Sun, 21 Jun 2020 20:27:57: 21000000 INFO @ Sun, 21 Jun 2020 20:27:59: 27000000 INFO @ Sun, 21 Jun 2020 20:28:02: 22000000 INFO @ Sun, 21 Jun 2020 20:28:04: 28000000 INFO @ Sun, 21 Jun 2020 20:28:07: 23000000 INFO @ Sun, 21 Jun 2020 20:28:08: 29000000 INFO @ Sun, 21 Jun 2020 20:28:10: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 20:28:10: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 20:28:10: #1 total tags in treatment: 29350860 INFO @ Sun, 21 Jun 2020 20:28:10: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 20:28:10: #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 20:28:11: #1 tags after filtering in treatment: 29350787 INFO @ Sun, 21 Jun 2020 20:28:11: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 20:28:11: #1 finished! INFO @ Sun, 21 Jun 2020 20:28:11: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 20:28:11: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 20:28:11: 24000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 20:28:13: #2 number of paired peaks: 1953 INFO @ Sun, 21 Jun 2020 20:28:13: start model_add_line... INFO @ Sun, 21 Jun 2020 20:28:13: start X-correlation... INFO @ Sun, 21 Jun 2020 20:28:13: end of X-cor INFO @ Sun, 21 Jun 2020 20:28:13: #2 finished! INFO @ Sun, 21 Jun 2020 20:28:13: #2 predicted fragment length is 141 bps INFO @ Sun, 21 Jun 2020 20:28:13: #2 alternative fragment length(s) may be 4,141 bps INFO @ Sun, 21 Jun 2020 20:28:13: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3981683/SRX3981683.10_model.r INFO @ Sun, 21 Jun 2020 20:28:13: #3 Call peaks... INFO @ Sun, 21 Jun 2020 20:28:13: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 20:28:16: 25000000 INFO @ Sun, 21 Jun 2020 20:28:21: 26000000 INFO @ Sun, 21 Jun 2020 20:28:25: 27000000 INFO @ Sun, 21 Jun 2020 20:28:29: 28000000 INFO @ Sun, 21 Jun 2020 20:28:34: 29000000 INFO @ Sun, 21 Jun 2020 20:28:36: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 20:28:36: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 20:28:36: #1 total tags in treatment: 29350860 INFO @ Sun, 21 Jun 2020 20:28:36: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 20:28:36: #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 20:28:37: #1 tags after filtering in treatment: 29350787 INFO @ Sun, 21 Jun 2020 20:28:37: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 20:28:37: #1 finished! INFO @ Sun, 21 Jun 2020 20:28:37: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 20:28:37: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 20:28:39: #2 number of paired peaks: 1953 INFO @ Sun, 21 Jun 2020 20:28:39: start model_add_line... INFO @ Sun, 21 Jun 2020 20:28:39: start X-correlation... INFO @ Sun, 21 Jun 2020 20:28:39: end of X-cor INFO @ Sun, 21 Jun 2020 20:28:39: #2 finished! INFO @ Sun, 21 Jun 2020 20:28:39: #2 predicted fragment length is 141 bps INFO @ Sun, 21 Jun 2020 20:28:39: #2 alternative fragment length(s) may be 4,141 bps INFO @ Sun, 21 Jun 2020 20:28:39: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3981683/SRX3981683.20_model.r INFO @ Sun, 21 Jun 2020 20:28:39: #3 Call peaks... INFO @ Sun, 21 Jun 2020 20:28:39: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 20:28:41: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 20:29:09: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3981683/SRX3981683.05_peaks.xls INFO @ Sun, 21 Jun 2020 20:29:09: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3981683/SRX3981683.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 20:29:09: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3981683/SRX3981683.05_summits.bed INFO @ Sun, 21 Jun 2020 20:29:09: Done! pass1 - making usageList (188 chroms): 3 millis pass2 - checking and writing primary data (11075 records, 4 fields): 15 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 20:29:15: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 20:29:39: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 20:29:42: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3981683/SRX3981683.10_peaks.xls INFO @ Sun, 21 Jun 2020 20:29:42: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3981683/SRX3981683.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 20:29:42: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3981683/SRX3981683.10_summits.bed INFO @ Sun, 21 Jun 2020 20:29:42: Done! pass1 - making usageList (145 chroms): 1 millis pass2 - checking and writing primary data (7148 records, 4 fields): 13 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 20:30:09: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3981683/SRX3981683.20_peaks.xls INFO @ Sun, 21 Jun 2020 20:30:09: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3981683/SRX3981683.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 20:30:09: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3981683/SRX3981683.20_summits.bed INFO @ Sun, 21 Jun 2020 20:30:09: Done! pass1 - making usageList (83 chroms): 2 millis pass2 - checking and writing primary data (3088 records, 4 fields): 7 millis CompletedMACS2peakCalling