Job ID = 6456853 SRX = SRX3981735 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T11:33:39 prefetch.2.10.7: 1) Downloading 'SRR7050617'... 2020-06-21T11:33:39 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T11:34:39 prefetch.2.10.7: HTTPS download succeed 2020-06-21T11:34:39 prefetch.2.10.7: 'SRR7050617' is valid 2020-06-21T11:34:39 prefetch.2.10.7: 1) 'SRR7050617' was downloaded successfully 2020-06-21T11:34:39 prefetch.2.10.7: 'SRR7050617' has 0 unresolved dependencies Read 13349898 spots for SRR7050617/SRR7050617.sra Written 13349898 spots for SRR7050617/SRR7050617.sra 2020-06-21T11:35:40 prefetch.2.10.7: 1) Downloading 'SRR7050618'... 2020-06-21T11:35:40 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T11:37:15 prefetch.2.10.7: HTTPS download succeed 2020-06-21T11:37:15 prefetch.2.10.7: 'SRR7050618' is valid 2020-06-21T11:37:15 prefetch.2.10.7: 1) 'SRR7050618' was downloaded successfully 2020-06-21T11:37:15 prefetch.2.10.7: 'SRR7050618' has 0 unresolved dependencies Read 13503382 spots for SRR7050618/SRR7050618.sra Written 13503382 spots for SRR7050618/SRR7050618.sra 2020-06-21T11:38:16 prefetch.2.10.7: 1) Downloading 'SRR7050619'... 2020-06-21T11:38:16 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T11:40:00 prefetch.2.10.7: HTTPS download succeed 2020-06-21T11:40:01 prefetch.2.10.7: 'SRR7050619' is valid 2020-06-21T11:40:01 prefetch.2.10.7: 1) 'SRR7050619' was downloaded successfully 2020-06-21T11:40:01 prefetch.2.10.7: 'SRR7050619' has 0 unresolved dependencies Read 13582003 spots for SRR7050619/SRR7050619.sra Written 13582003 spots for SRR7050619/SRR7050619.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: 00:11:06 40435283 reads; of these: 40435283 (100.00%) were unpaired; of these: 1078309 (2.67%) aligned 0 times 31125614 (76.98%) aligned exactly 1 time 8231360 (20.36%) aligned >1 times 97.33% overall alignment rate Time searching: 00:11:06 Overall time: 00:11:06 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 20 files... [bam_rmdupse_core] 13921267 / 39356974 = 0.3537 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 21:01:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3981735/SRX3981735.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3981735/SRX3981735.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3981735/SRX3981735.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3981735/SRX3981735.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 21:01:28: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:01:28: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:01:35: 1000000 INFO @ Sun, 21 Jun 2020 21:01:42: 2000000 INFO @ Sun, 21 Jun 2020 21:01:49: 3000000 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 21:01:55: 4000000 INFO @ Sun, 21 Jun 2020 21:01:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3981735/SRX3981735.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3981735/SRX3981735.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3981735/SRX3981735.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3981735/SRX3981735.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 21:01:58: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:01:58: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:02:03: 5000000 INFO @ Sun, 21 Jun 2020 21:02:06: 1000000 INFO @ Sun, 21 Jun 2020 21:02:10: 6000000 INFO @ Sun, 21 Jun 2020 21:02:14: 2000000 INFO @ Sun, 21 Jun 2020 21:02:17: 7000000 INFO @ Sun, 21 Jun 2020 21:02:23: 3000000 INFO @ Sun, 21 Jun 2020 21:02:24: 8000000 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 21:02:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3981735/SRX3981735.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3981735/SRX3981735.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3981735/SRX3981735.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3981735/SRX3981735.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 21:02:28: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:02:28: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:02:31: 9000000 INFO @ Sun, 21 Jun 2020 21:02:31: 4000000 INFO @ Sun, 21 Jun 2020 21:02:37: 1000000 INFO @ Sun, 21 Jun 2020 21:02:38: 10000000 INFO @ Sun, 21 Jun 2020 21:02:41: 5000000 INFO @ Sun, 21 Jun 2020 21:02:45: 11000000 INFO @ Sun, 21 Jun 2020 21:02:46: 2000000 INFO @ Sun, 21 Jun 2020 21:02:50: 6000000 INFO @ Sun, 21 Jun 2020 21:02:53: 12000000 INFO @ Sun, 21 Jun 2020 21:02:55: 3000000 INFO @ Sun, 21 Jun 2020 21:02:59: 7000000 INFO @ Sun, 21 Jun 2020 21:03:02: 13000000 INFO @ Sun, 21 Jun 2020 21:03:04: 4000000 INFO @ Sun, 21 Jun 2020 21:03:08: 8000000 INFO @ Sun, 21 Jun 2020 21:03:09: 14000000 INFO @ Sun, 21 Jun 2020 21:03:14: 5000000 INFO @ Sun, 21 Jun 2020 21:03:17: 15000000 INFO @ Sun, 21 Jun 2020 21:03:18: 9000000 INFO @ Sun, 21 Jun 2020 21:03:23: 6000000 INFO @ Sun, 21 Jun 2020 21:03:25: 16000000 INFO @ Sun, 21 Jun 2020 21:03:27: 10000000 INFO @ Sun, 21 Jun 2020 21:03:32: 7000000 INFO @ Sun, 21 Jun 2020 21:03:33: 17000000 INFO @ Sun, 21 Jun 2020 21:03:37: 11000000 INFO @ Sun, 21 Jun 2020 21:03:41: 18000000 INFO @ Sun, 21 Jun 2020 21:03:42: 8000000 INFO @ Sun, 21 Jun 2020 21:03:46: 12000000 INFO @ Sun, 21 Jun 2020 21:03:49: 19000000 INFO @ Sun, 21 Jun 2020 21:03:52: 9000000 INFO @ Sun, 21 Jun 2020 21:03:56: 13000000 INFO @ Sun, 21 Jun 2020 21:03:58: 20000000 INFO @ Sun, 21 Jun 2020 21:04:01: 10000000 INFO @ Sun, 21 Jun 2020 21:04:06: 14000000 INFO @ Sun, 21 Jun 2020 21:04:06: 21000000 INFO @ Sun, 21 Jun 2020 21:04:10: 11000000 INFO @ Sun, 21 Jun 2020 21:04:15: 15000000 INFO @ Sun, 21 Jun 2020 21:04:16: 22000000 INFO @ Sun, 21 Jun 2020 21:04:20: 12000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 21:04:25: 16000000 INFO @ Sun, 21 Jun 2020 21:04:26: 23000000 INFO @ Sun, 21 Jun 2020 21:04:30: 13000000 INFO @ Sun, 21 Jun 2020 21:04:34: 24000000 INFO @ Sun, 21 Jun 2020 21:04:35: 17000000 INFO @ Sun, 21 Jun 2020 21:04:39: 14000000 INFO @ Sun, 21 Jun 2020 21:04:43: 25000000 INFO @ Sun, 21 Jun 2020 21:04:45: 18000000 INFO @ Sun, 21 Jun 2020 21:04:47: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 21:04:47: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 21:04:47: #1 total tags in treatment: 25435707 INFO @ Sun, 21 Jun 2020 21:04:47: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:04:47: #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 21:04:48: #1 tags after filtering in treatment: 25435639 INFO @ Sun, 21 Jun 2020 21:04:48: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:04:48: #1 finished! INFO @ Sun, 21 Jun 2020 21:04:48: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:04:48: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:04:49: 15000000 INFO @ Sun, 21 Jun 2020 21:04:51: #2 number of paired peaks: 3774 INFO @ Sun, 21 Jun 2020 21:04:51: start model_add_line... INFO @ Sun, 21 Jun 2020 21:04:51: start X-correlation... INFO @ Sun, 21 Jun 2020 21:04:51: end of X-cor INFO @ Sun, 21 Jun 2020 21:04:51: #2 finished! INFO @ Sun, 21 Jun 2020 21:04:51: #2 predicted fragment length is 213 bps INFO @ Sun, 21 Jun 2020 21:04:51: #2 alternative fragment length(s) may be 213 bps INFO @ Sun, 21 Jun 2020 21:04:51: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3981735/SRX3981735.05_model.r INFO @ Sun, 21 Jun 2020 21:04:51: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:04:51: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:04:54: 19000000 INFO @ Sun, 21 Jun 2020 21:04:59: 16000000 INFO @ Sun, 21 Jun 2020 21:05:04: 20000000 INFO @ Sun, 21 Jun 2020 21:05:08: 17000000 INFO @ Sun, 21 Jun 2020 21:05:13: 21000000 BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 21:05:18: 18000000 INFO @ Sun, 21 Jun 2020 21:05:24: 22000000 INFO @ Sun, 21 Jun 2020 21:05:28: 19000000 INFO @ Sun, 21 Jun 2020 21:05:34: 23000000 INFO @ Sun, 21 Jun 2020 21:05:37: 20000000 INFO @ Sun, 21 Jun 2020 21:05:44: 24000000 INFO @ Sun, 21 Jun 2020 21:05:47: 21000000 INFO @ Sun, 21 Jun 2020 21:05:54: 25000000 INFO @ Sun, 21 Jun 2020 21:05:58: 22000000 INFO @ Sun, 21 Jun 2020 21:05:58: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 21:05:58: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 21:05:58: #1 total tags in treatment: 25435707 INFO @ Sun, 21 Jun 2020 21:05:58: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:05:58: #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 21:05:59: #1 tags after filtering in treatment: 25435639 INFO @ Sun, 21 Jun 2020 21:05:59: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:05:59: #1 finished! INFO @ Sun, 21 Jun 2020 21:05:59: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:05:59: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:06:02: #2 number of paired peaks: 3774 INFO @ Sun, 21 Jun 2020 21:06:02: start model_add_line... INFO @ Sun, 21 Jun 2020 21:06:02: start X-correlation... INFO @ Sun, 21 Jun 2020 21:06:02: end of X-cor INFO @ Sun, 21 Jun 2020 21:06:02: #2 finished! INFO @ Sun, 21 Jun 2020 21:06:02: #2 predicted fragment length is 213 bps INFO @ Sun, 21 Jun 2020 21:06:02: #2 alternative fragment length(s) may be 213 bps INFO @ Sun, 21 Jun 2020 21:06:02: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3981735/SRX3981735.10_model.r INFO @ Sun, 21 Jun 2020 21:06:02: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:06:02: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:06:07: 23000000 INFO @ Sun, 21 Jun 2020 21:06:16: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:06:17: 24000000 INFO @ Sun, 21 Jun 2020 21:06:27: 25000000 INFO @ Sun, 21 Jun 2020 21:06:32: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 21:06:32: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 21:06:32: #1 total tags in treatment: 25435707 INFO @ Sun, 21 Jun 2020 21:06:32: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:06:32: #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 21:06:33: #1 tags after filtering in treatment: 25435639 INFO @ Sun, 21 Jun 2020 21:06:33: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:06:33: #1 finished! INFO @ Sun, 21 Jun 2020 21:06:33: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:06:33: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:06:35: #2 number of paired peaks: 3774 INFO @ Sun, 21 Jun 2020 21:06:35: start model_add_line... INFO @ Sun, 21 Jun 2020 21:06:35: start X-correlation... INFO @ Sun, 21 Jun 2020 21:06:35: end of X-cor INFO @ Sun, 21 Jun 2020 21:06:35: #2 finished! INFO @ Sun, 21 Jun 2020 21:06:35: #2 predicted fragment length is 213 bps INFO @ Sun, 21 Jun 2020 21:06:35: #2 alternative fragment length(s) may be 213 bps INFO @ Sun, 21 Jun 2020 21:06:35: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3981735/SRX3981735.20_model.r INFO @ Sun, 21 Jun 2020 21:06:35: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:06:35: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:06:42: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3981735/SRX3981735.05_peaks.xls INFO @ Sun, 21 Jun 2020 21:06:42: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3981735/SRX3981735.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:06:42: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3981735/SRX3981735.05_summits.bed INFO @ Sun, 21 Jun 2020 21:06:42: Done! pass1 - making usageList (258 chroms): 2 millis pass2 - checking and writing primary data (9284 records, 4 fields): 39 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 21:07:27: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:07:52: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3981735/SRX3981735.10_peaks.xls INFO @ Sun, 21 Jun 2020 21:07:52: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3981735/SRX3981735.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:07:52: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3981735/SRX3981735.10_summits.bed INFO @ Sun, 21 Jun 2020 21:07:52: Done! pass1 - making usageList (204 chroms): 3 millis pass2 - checking and writing primary data (7038 records, 4 fields): 20 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 21:07:59: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:08:24: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3981735/SRX3981735.20_peaks.xls INFO @ Sun, 21 Jun 2020 21:08:24: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3981735/SRX3981735.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:08:24: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3981735/SRX3981735.20_summits.bed INFO @ Sun, 21 Jun 2020 21:08:24: Done! pass1 - making usageList (164 chroms): 1 millis pass2 - checking and writing primary data (4593 records, 4 fields): 18 millis CompletedMACS2peakCalling