Job ID = 6455342 SRX = SRX287711 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T10:26:21 prefetch.2.10.7: 1) Downloading 'SRR869899'... 2020-06-21T10:26:21 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T10:30:47 prefetch.2.10.7: HTTPS download succeed 2020-06-21T10:30:47 prefetch.2.10.7: 1) 'SRR869899' was downloaded successfully Read 24549420 spots for SRR869899/SRR869899.sra Written 24549420 spots for SRR869899/SRR869899.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: 00:07:07 24549420 reads; of these: 24549420 (100.00%) were unpaired; of these: 1261377 (5.14%) aligned 0 times 17413251 (70.93%) aligned exactly 1 time 5874792 (23.93%) aligned >1 times 94.86% overall alignment rate Time searching: 00:07:07 Overall time: 00:07:07 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] 5206626 / 23288043 = 0.2236 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 19:46:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX287711/SRX287711.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX287711/SRX287711.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX287711/SRX287711.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX287711/SRX287711.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 19:46:39: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:46:39: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:46:47: 1000000 INFO @ Sun, 21 Jun 2020 19:46:56: 2000000 INFO @ Sun, 21 Jun 2020 19:47:04: 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 19:47:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX287711/SRX287711.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX287711/SRX287711.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX287711/SRX287711.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX287711/SRX287711.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 19:47:09: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:47:09: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:47:13: 4000000 INFO @ Sun, 21 Jun 2020 19:47:16: 1000000 INFO @ Sun, 21 Jun 2020 19:47:20: 5000000 INFO @ Sun, 21 Jun 2020 19:47:24: 2000000 INFO @ Sun, 21 Jun 2020 19:47:28: 6000000 INFO @ Sun, 21 Jun 2020 19:47:32: 3000000 INFO @ Sun, 21 Jun 2020 19:47:36: 7000000 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 19:47:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX287711/SRX287711.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX287711/SRX287711.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX287711/SRX287711.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX287711/SRX287711.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 19:47:39: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:47:39: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:47:40: 4000000 INFO @ Sun, 21 Jun 2020 19:47:44: 8000000 INFO @ Sun, 21 Jun 2020 19:47:47: 1000000 INFO @ Sun, 21 Jun 2020 19:47:47: 5000000 INFO @ Sun, 21 Jun 2020 19:47:52: 9000000 INFO @ Sun, 21 Jun 2020 19:47:54: 6000000 INFO @ Sun, 21 Jun 2020 19:47:55: 2000000 INFO @ Sun, 21 Jun 2020 19:48:01: 10000000 INFO @ Sun, 21 Jun 2020 19:48:01: 7000000 INFO @ Sun, 21 Jun 2020 19:48:03: 3000000 INFO @ Sun, 21 Jun 2020 19:48:09: 8000000 INFO @ Sun, 21 Jun 2020 19:48:09: 11000000 INFO @ Sun, 21 Jun 2020 19:48:11: 4000000 INFO @ Sun, 21 Jun 2020 19:48:15: 9000000 INFO @ Sun, 21 Jun 2020 19:48:17: 12000000 INFO @ Sun, 21 Jun 2020 19:48:19: 5000000 INFO @ Sun, 21 Jun 2020 19:48:22: 10000000 INFO @ Sun, 21 Jun 2020 19:48:24: 13000000 INFO @ Sun, 21 Jun 2020 19:48:26: 6000000 INFO @ Sun, 21 Jun 2020 19:48:29: 11000000 INFO @ Sun, 21 Jun 2020 19:48:31: 14000000 INFO @ Sun, 21 Jun 2020 19:48:34: 7000000 INFO @ Sun, 21 Jun 2020 19:48:36: 12000000 INFO @ Sun, 21 Jun 2020 19:48:39: 15000000 INFO @ Sun, 21 Jun 2020 19:48:42: 8000000 INFO @ Sun, 21 Jun 2020 19:48:43: 13000000 INFO @ Sun, 21 Jun 2020 19:48:46: 16000000 INFO @ Sun, 21 Jun 2020 19:48:49: 9000000 INFO @ Sun, 21 Jun 2020 19:48:50: 14000000 INFO @ Sun, 21 Jun 2020 19:48:53: 17000000 INFO @ Sun, 21 Jun 2020 19:48:56: 10000000 INFO @ Sun, 21 Jun 2020 19:48:58: 15000000 INFO @ Sun, 21 Jun 2020 19:49:00: 18000000 INFO @ Sun, 21 Jun 2020 19:49:01: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 19:49:01: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 19:49:01: #1 total tags in treatment: 18081417 INFO @ Sun, 21 Jun 2020 19:49:01: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:49:01: #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 19:49:02: #1 tags after filtering in treatment: 18081417 INFO @ Sun, 21 Jun 2020 19:49:02: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:49:02: #1 finished! INFO @ Sun, 21 Jun 2020 19:49:02: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:49:02: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:49:03: #2 number of paired peaks: 2222 INFO @ Sun, 21 Jun 2020 19:49:03: start model_add_line... INFO @ Sun, 21 Jun 2020 19:49:03: 11000000 INFO @ Sun, 21 Jun 2020 19:49:03: start X-correlation... INFO @ Sun, 21 Jun 2020 19:49:03: end of X-cor INFO @ Sun, 21 Jun 2020 19:49:03: #2 finished! INFO @ Sun, 21 Jun 2020 19:49:03: #2 predicted fragment length is 151 bps INFO @ Sun, 21 Jun 2020 19:49:03: #2 alternative fragment length(s) may be 3,151,169 bps INFO @ Sun, 21 Jun 2020 19:49:03: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX287711/SRX287711.05_model.r INFO @ Sun, 21 Jun 2020 19:49:03: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:49:03: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 19:49:04: 16000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 19:49:11: 12000000 INFO @ Sun, 21 Jun 2020 19:49:11: 17000000 INFO @ Sun, 21 Jun 2020 19:49:17: 18000000 INFO @ Sun, 21 Jun 2020 19:49:18: 13000000 INFO @ Sun, 21 Jun 2020 19:49:18: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 19:49:18: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 19:49:18: #1 total tags in treatment: 18081417 INFO @ Sun, 21 Jun 2020 19:49:18: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:49:18: #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 19:49:19: #1 tags after filtering in treatment: 18081417 INFO @ Sun, 21 Jun 2020 19:49:19: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:49:19: #1 finished! INFO @ Sun, 21 Jun 2020 19:49:19: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:49:19: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:49:20: #2 number of paired peaks: 2222 INFO @ Sun, 21 Jun 2020 19:49:20: start model_add_line... INFO @ Sun, 21 Jun 2020 19:49:21: start X-correlation... INFO @ Sun, 21 Jun 2020 19:49:21: end of X-cor INFO @ Sun, 21 Jun 2020 19:49:21: #2 finished! INFO @ Sun, 21 Jun 2020 19:49:21: #2 predicted fragment length is 151 bps INFO @ Sun, 21 Jun 2020 19:49:21: #2 alternative fragment length(s) may be 3,151,169 bps INFO @ Sun, 21 Jun 2020 19:49:21: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX287711/SRX287711.10_model.r INFO @ Sun, 21 Jun 2020 19:49:21: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:49:21: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 19:49:25: 14000000 INFO @ Sun, 21 Jun 2020 19:49:33: 15000000 INFO @ Sun, 21 Jun 2020 19:49:40: 16000000 INFO @ Sun, 21 Jun 2020 19:49:41: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 19:49:48: 17000000 BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 19:49:55: 18000000 INFO @ Sun, 21 Jun 2020 19:49:56: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 19:49:56: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 19:49:56: #1 total tags in treatment: 18081417 INFO @ Sun, 21 Jun 2020 19:49:56: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:49:56: #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 19:49:57: #1 tags after filtering in treatment: 18081417 INFO @ Sun, 21 Jun 2020 19:49:57: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:49:57: #1 finished! INFO @ Sun, 21 Jun 2020 19:49:57: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:49:57: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:49:58: #2 number of paired peaks: 2222 INFO @ Sun, 21 Jun 2020 19:49:58: start model_add_line... INFO @ Sun, 21 Jun 2020 19:49:59: start X-correlation... INFO @ Sun, 21 Jun 2020 19:49:59: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 19:49:59: end of X-cor INFO @ Sun, 21 Jun 2020 19:49:59: #2 finished! INFO @ Sun, 21 Jun 2020 19:49:59: #2 predicted fragment length is 151 bps INFO @ Sun, 21 Jun 2020 19:49:59: #2 alternative fragment length(s) may be 3,151,169 bps INFO @ Sun, 21 Jun 2020 19:49:59: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX287711/SRX287711.20_model.r INFO @ Sun, 21 Jun 2020 19:49:59: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:49:59: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 19:50:00: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX287711/SRX287711.05_peaks.xls INFO @ Sun, 21 Jun 2020 19:50:00: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX287711/SRX287711.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:50:00: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX287711/SRX287711.05_summits.bed INFO @ Sun, 21 Jun 2020 19:50:00: Done! pass1 - making usageList (721 chroms): 3 millis pass2 - checking and writing primary data (8895 records, 4 fields): 48 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 19:50:16: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX287711/SRX287711.10_peaks.xls INFO @ Sun, 21 Jun 2020 19:50:17: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX287711/SRX287711.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:50:17: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX287711/SRX287711.10_summits.bed INFO @ Sun, 21 Jun 2020 19:50:17: Done! pass1 - making usageList (651 chroms): 2 millis pass2 - checking and writing primary data (5949 records, 4 fields): 42 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 19:50:37: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 19:50:54: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX287711/SRX287711.20_peaks.xls INFO @ Sun, 21 Jun 2020 19:50:54: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX287711/SRX287711.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:50:54: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX287711/SRX287711.20_summits.bed INFO @ Sun, 21 Jun 2020 19:50:54: Done! pass1 - making usageList (518 chroms): 2 millis pass2 - checking and writing primary data (2431 records, 4 fields): 29 millis CompletedMACS2peakCalling