Job ID = 6455224 SRX = SRX287569 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T09:40:10 prefetch.2.10.7: 1) Downloading 'SRR869712'... 2020-06-21T09:40:10 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T09:44:12 prefetch.2.10.7: HTTPS download succeed 2020-06-21T09:44:12 prefetch.2.10.7: 1) 'SRR869712' was downloaded successfully Read 21337759 spots for SRR869712/SRR869712.sra Written 21337759 spots for SRR869712/SRR869712.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: 00:05:37 21337759 reads; of these: 21337759 (100.00%) were unpaired; of these: 1456430 (6.83%) aligned 0 times 15688471 (73.52%) aligned exactly 1 time 4192858 (19.65%) aligned >1 times 93.17% overall alignment rate Time searching: 00:05:37 Overall time: 00:05:37 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] 3319148 / 19881329 = 0.1669 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 18:56:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX287569/SRX287569.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX287569/SRX287569.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX287569/SRX287569.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX287569/SRX287569.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 18:56:19: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:56:19: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:56:24: 1000000 INFO @ Sun, 21 Jun 2020 18:56:29: 2000000 INFO @ Sun, 21 Jun 2020 18:56:34: 3000000 INFO @ Sun, 21 Jun 2020 18:56:39: 4000000 INFO @ Sun, 21 Jun 2020 18:56:45: 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 18:56:49: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX287569/SRX287569.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX287569/SRX287569.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX287569/SRX287569.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX287569/SRX287569.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 18:56:49: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:56:49: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:56:50: 6000000 INFO @ Sun, 21 Jun 2020 18:56:54: 1000000 INFO @ Sun, 21 Jun 2020 18:56:55: 7000000 INFO @ Sun, 21 Jun 2020 18:57:00: 2000000 INFO @ Sun, 21 Jun 2020 18:57:01: 8000000 INFO @ Sun, 21 Jun 2020 18:57:06: 3000000 INFO @ Sun, 21 Jun 2020 18:57:07: 9000000 INFO @ Sun, 21 Jun 2020 18:57:12: 10000000 INFO @ Sun, 21 Jun 2020 18:57:12: 4000000 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 18:57:18: 11000000 INFO @ Sun, 21 Jun 2020 18:57:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX287569/SRX287569.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX287569/SRX287569.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX287569/SRX287569.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX287569/SRX287569.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 18:57:19: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:57:19: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:57:19: 5000000 INFO @ Sun, 21 Jun 2020 18:57:23: 12000000 INFO @ Sun, 21 Jun 2020 18:57:25: 6000000 INFO @ Sun, 21 Jun 2020 18:57:25: 1000000 INFO @ Sun, 21 Jun 2020 18:57:29: 13000000 INFO @ Sun, 21 Jun 2020 18:57:31: 7000000 INFO @ Sun, 21 Jun 2020 18:57:31: 2000000 INFO @ Sun, 21 Jun 2020 18:57:35: 14000000 INFO @ Sun, 21 Jun 2020 18:57:37: 8000000 INFO @ Sun, 21 Jun 2020 18:57:37: 3000000 INFO @ Sun, 21 Jun 2020 18:57:41: 15000000 INFO @ Sun, 21 Jun 2020 18:57:43: 9000000 INFO @ Sun, 21 Jun 2020 18:57:44: 4000000 INFO @ Sun, 21 Jun 2020 18:57:46: 16000000 INFO @ Sun, 21 Jun 2020 18:57:49: 10000000 INFO @ Sun, 21 Jun 2020 18:57:50: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 18:57:50: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 18:57:50: #1 total tags in treatment: 16562181 INFO @ Sun, 21 Jun 2020 18:57:50: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:57:50: #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 18:57:50: 5000000 INFO @ Sun, 21 Jun 2020 18:57:51: #1 tags after filtering in treatment: 16562181 INFO @ Sun, 21 Jun 2020 18:57:51: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:57:51: #1 finished! INFO @ Sun, 21 Jun 2020 18:57:51: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:57:51: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:57:52: #2 number of paired peaks: 1941 INFO @ Sun, 21 Jun 2020 18:57:52: start model_add_line... INFO @ Sun, 21 Jun 2020 18:57:52: start X-correlation... INFO @ Sun, 21 Jun 2020 18:57:52: end of X-cor INFO @ Sun, 21 Jun 2020 18:57:52: #2 finished! INFO @ Sun, 21 Jun 2020 18:57:52: #2 predicted fragment length is 207 bps INFO @ Sun, 21 Jun 2020 18:57:52: #2 alternative fragment length(s) may be 3,207 bps INFO @ Sun, 21 Jun 2020 18:57:52: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX287569/SRX287569.05_model.r INFO @ Sun, 21 Jun 2020 18:57:52: #3 Call peaks... INFO @ Sun, 21 Jun 2020 18:57:52: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 18:57:55: 11000000 INFO @ Sun, 21 Jun 2020 18:57:56: 6000000 INFO @ Sun, 21 Jun 2020 18:58:02: 12000000 INFO @ Sun, 21 Jun 2020 18:58:02: 7000000 INFO @ Sun, 21 Jun 2020 18:58:08: 13000000 INFO @ Sun, 21 Jun 2020 18:58:08: 8000000 INFO @ Sun, 21 Jun 2020 18:58:14: 9000000 INFO @ Sun, 21 Jun 2020 18:58:14: 14000000 INFO @ Sun, 21 Jun 2020 18:58:20: 10000000 INFO @ Sun, 21 Jun 2020 18:58:21: 15000000 INFO @ Sun, 21 Jun 2020 18:58:26: 11000000 INFO @ Sun, 21 Jun 2020 18:58:27: 16000000 INFO @ Sun, 21 Jun 2020 18:58:31: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 18:58:31: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 18:58:31: #1 total tags in treatment: 16562181 INFO @ Sun, 21 Jun 2020 18:58:31: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:58:31: #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 18:58:31: #1 tags after filtering in treatment: 16562181 INFO @ Sun, 21 Jun 2020 18:58:31: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:58:31: #1 finished! INFO @ Sun, 21 Jun 2020 18:58:31: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:58:31: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:58:32: 12000000 INFO @ Sun, 21 Jun 2020 18:58:33: #2 number of paired peaks: 1941 INFO @ Sun, 21 Jun 2020 18:58:33: start model_add_line... INFO @ Sun, 21 Jun 2020 18:58:33: start X-correlation... INFO @ Sun, 21 Jun 2020 18:58:33: end of X-cor INFO @ Sun, 21 Jun 2020 18:58:33: #2 finished! INFO @ Sun, 21 Jun 2020 18:58:33: #2 predicted fragment length is 207 bps INFO @ Sun, 21 Jun 2020 18:58:33: #2 alternative fragment length(s) may be 3,207 bps INFO @ Sun, 21 Jun 2020 18:58:33: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX287569/SRX287569.10_model.r INFO @ Sun, 21 Jun 2020 18:58:33: #3 Call peaks... INFO @ Sun, 21 Jun 2020 18:58:33: #3 Pre-compute pvalue-qvalue table... BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 18:58:34: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 18:58:38: 13000000 INFO @ Sun, 21 Jun 2020 18:58:45: 14000000 INFO @ Sun, 21 Jun 2020 18:58:51: 15000000 INFO @ Sun, 21 Jun 2020 18:58:52: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX287569/SRX287569.05_peaks.xls INFO @ Sun, 21 Jun 2020 18:58:52: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX287569/SRX287569.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 18:58:52: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX287569/SRX287569.05_summits.bed INFO @ Sun, 21 Jun 2020 18:58:52: Done! pass1 - making usageList (582 chroms): 2 millis pass2 - checking and writing primary data (1747 records, 4 fields): 18 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 18:58:57: 16000000 INFO @ Sun, 21 Jun 2020 18:59:00: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 18:59:00: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 18:59:00: #1 total tags in treatment: 16562181 INFO @ Sun, 21 Jun 2020 18:59:00: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:59:00: #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 18:59:01: #1 tags after filtering in treatment: 16562181 INFO @ Sun, 21 Jun 2020 18:59:01: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:59:01: #1 finished! INFO @ Sun, 21 Jun 2020 18:59:01: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:59:01: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:59:02: #2 number of paired peaks: 1941 INFO @ Sun, 21 Jun 2020 18:59:02: start model_add_line... INFO @ Sun, 21 Jun 2020 18:59:02: start X-correlation... INFO @ Sun, 21 Jun 2020 18:59:02: end of X-cor INFO @ Sun, 21 Jun 2020 18:59:02: #2 finished! INFO @ Sun, 21 Jun 2020 18:59:02: #2 predicted fragment length is 207 bps INFO @ Sun, 21 Jun 2020 18:59:02: #2 alternative fragment length(s) may be 3,207 bps INFO @ Sun, 21 Jun 2020 18:59:02: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX287569/SRX287569.20_model.r INFO @ Sun, 21 Jun 2020 18:59:02: #3 Call peaks... INFO @ Sun, 21 Jun 2020 18:59:02: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 18:59:11: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 18:59:29: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX287569/SRX287569.10_peaks.xls INFO @ Sun, 21 Jun 2020 18:59:29: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX287569/SRX287569.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 18:59:29: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX287569/SRX287569.10_summits.bed INFO @ Sun, 21 Jun 2020 18:59:29: Done! pass1 - making usageList (501 chroms): 1 millis pass2 - checking and writing primary data (939 records, 4 fields): 16 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 18:59:41: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 18:59:58: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX287569/SRX287569.20_peaks.xls INFO @ Sun, 21 Jun 2020 18:59:59: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX287569/SRX287569.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 18:59:59: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX287569/SRX287569.20_summits.bed INFO @ Sun, 21 Jun 2020 18:59:59: Done! pass1 - making usageList (435 chroms): 1 millis pass2 - checking and writing primary data (665 records, 4 fields): 14 millis CompletedMACS2peakCalling