Job ID = 6458384 SRX = SRX511124 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T12:23:49 prefetch.2.10.7: 1) Downloading 'SRR1217229'... 2020-06-21T12:23:49 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T12:26:38 prefetch.2.10.7: HTTPS download succeed 2020-06-21T12:26:38 prefetch.2.10.7: 1) 'SRR1217229' was downloaded successfully Read 24727664 spots for SRR1217229/SRR1217229.sra Written 24727664 spots for SRR1217229/SRR1217229.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: 00:05:35 24727664 reads; of these: 24727664 (100.00%) were unpaired; of these: 888729 (3.59%) aligned 0 times 15682332 (63.42%) aligned exactly 1 time 8156603 (32.99%) aligned >1 times 96.41% overall alignment rate Time searching: 00:05:35 Overall time: 00:05:35 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 8 files... [bam_rmdupse_core] 4070440 / 23838935 = 0.1707 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 21:38:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX511124/SRX511124.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX511124/SRX511124.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX511124/SRX511124.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX511124/SRX511124.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 21:38:06: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:38:06: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:38:11: 1000000 INFO @ Sun, 21 Jun 2020 21:38:16: 2000000 INFO @ Sun, 21 Jun 2020 21:38:21: 3000000 INFO @ Sun, 21 Jun 2020 21:38:26: 4000000 INFO @ Sun, 21 Jun 2020 21:38:31: 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 21:38:36: 6000000 INFO @ Sun, 21 Jun 2020 21:38:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX511124/SRX511124.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX511124/SRX511124.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX511124/SRX511124.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX511124/SRX511124.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 21:38:36: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:38:36: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:38:41: 7000000 INFO @ Sun, 21 Jun 2020 21:38:42: 1000000 INFO @ Sun, 21 Jun 2020 21:38:46: 8000000 INFO @ Sun, 21 Jun 2020 21:38:47: 2000000 INFO @ Sun, 21 Jun 2020 21:38:52: 9000000 INFO @ Sun, 21 Jun 2020 21:38:52: 3000000 INFO @ Sun, 21 Jun 2020 21:38:57: 10000000 INFO @ Sun, 21 Jun 2020 21:38:58: 4000000 INFO @ Sun, 21 Jun 2020 21:39:02: 11000000 INFO @ Sun, 21 Jun 2020 21:39:03: 5000000 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 21:39:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX511124/SRX511124.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX511124/SRX511124.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX511124/SRX511124.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX511124/SRX511124.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 21:39:06: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:39:06: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:39:08: 12000000 INFO @ Sun, 21 Jun 2020 21:39:09: 6000000 INFO @ Sun, 21 Jun 2020 21:39:12: 1000000 INFO @ Sun, 21 Jun 2020 21:39:13: 13000000 INFO @ Sun, 21 Jun 2020 21:39:14: 7000000 INFO @ Sun, 21 Jun 2020 21:39:17: 2000000 INFO @ Sun, 21 Jun 2020 21:39:19: 14000000 INFO @ Sun, 21 Jun 2020 21:39:19: 8000000 INFO @ Sun, 21 Jun 2020 21:39:22: 3000000 INFO @ Sun, 21 Jun 2020 21:39:24: 15000000 INFO @ Sun, 21 Jun 2020 21:39:25: 9000000 INFO @ Sun, 21 Jun 2020 21:39:28: 4000000 INFO @ Sun, 21 Jun 2020 21:39:29: 16000000 INFO @ Sun, 21 Jun 2020 21:39:30: 10000000 INFO @ Sun, 21 Jun 2020 21:39:33: 5000000 INFO @ Sun, 21 Jun 2020 21:39:35: 17000000 INFO @ Sun, 21 Jun 2020 21:39:35: 11000000 INFO @ Sun, 21 Jun 2020 21:39:39: 6000000 INFO @ Sun, 21 Jun 2020 21:39:41: 18000000 INFO @ Sun, 21 Jun 2020 21:39:41: 12000000 INFO @ Sun, 21 Jun 2020 21:39:44: 7000000 INFO @ Sun, 21 Jun 2020 21:39:46: 19000000 INFO @ Sun, 21 Jun 2020 21:39:46: 13000000 INFO @ Sun, 21 Jun 2020 21:39:49: 8000000 INFO @ Sun, 21 Jun 2020 21:39:50: #1 tag size is determined as 36 bps INFO @ Sun, 21 Jun 2020 21:39:50: #1 tag size = 36 INFO @ Sun, 21 Jun 2020 21:39:50: #1 total tags in treatment: 19768495 INFO @ Sun, 21 Jun 2020 21:39:50: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:39:50: #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 21:39:51: #1 tags after filtering in treatment: 19768447 INFO @ Sun, 21 Jun 2020 21:39:51: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:39:51: #1 finished! INFO @ Sun, 21 Jun 2020 21:39:51: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:39:51: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:39:51: 14000000 INFO @ Sun, 21 Jun 2020 21:39:52: #2 number of paired peaks: 1657 INFO @ Sun, 21 Jun 2020 21:39:52: start model_add_line... INFO @ Sun, 21 Jun 2020 21:39:53: start X-correlation... INFO @ Sun, 21 Jun 2020 21:39:53: end of X-cor INFO @ Sun, 21 Jun 2020 21:39:53: #2 finished! INFO @ Sun, 21 Jun 2020 21:39:53: #2 predicted fragment length is 102 bps INFO @ Sun, 21 Jun 2020 21:39:53: #2 alternative fragment length(s) may be 2,102,132 bps INFO @ Sun, 21 Jun 2020 21:39:53: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX511124/SRX511124.05_model.r INFO @ Sun, 21 Jun 2020 21:39:53: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:39:53: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:39:55: 9000000 INFO @ Sun, 21 Jun 2020 21:39:57: 15000000 INFO @ Sun, 21 Jun 2020 21:40:00: 10000000 INFO @ Sun, 21 Jun 2020 21:40:02: 16000000 INFO @ Sun, 21 Jun 2020 21:40:06: 11000000 INFO @ Sun, 21 Jun 2020 21:40:08: 17000000 INFO @ Sun, 21 Jun 2020 21:40:11: 12000000 INFO @ Sun, 21 Jun 2020 21:40:13: 18000000 INFO @ Sun, 21 Jun 2020 21:40:16: 13000000 INFO @ Sun, 21 Jun 2020 21:40:18: 19000000 INFO @ Sun, 21 Jun 2020 21:40:22: 14000000 INFO @ Sun, 21 Jun 2020 21:40:23: #1 tag size is determined as 36 bps INFO @ Sun, 21 Jun 2020 21:40:23: #1 tag size = 36 INFO @ Sun, 21 Jun 2020 21:40:23: #1 total tags in treatment: 19768495 INFO @ Sun, 21 Jun 2020 21:40:23: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:40:23: #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 21:40:23: #1 tags after filtering in treatment: 19768447 INFO @ Sun, 21 Jun 2020 21:40:23: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:40:23: #1 finished! INFO @ Sun, 21 Jun 2020 21:40:23: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:40:23: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:40:25: #2 number of paired peaks: 1657 INFO @ Sun, 21 Jun 2020 21:40:25: start model_add_line... INFO @ Sun, 21 Jun 2020 21:40:25: start X-correlation... INFO @ Sun, 21 Jun 2020 21:40:25: end of X-cor INFO @ Sun, 21 Jun 2020 21:40:25: #2 finished! INFO @ Sun, 21 Jun 2020 21:40:25: #2 predicted fragment length is 102 bps INFO @ Sun, 21 Jun 2020 21:40:25: #2 alternative fragment length(s) may be 2,102,132 bps INFO @ Sun, 21 Jun 2020 21:40:25: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX511124/SRX511124.10_model.r INFO @ Sun, 21 Jun 2020 21:40:25: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:40:25: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:40:27: 15000000 INFO @ Sun, 21 Jun 2020 21:40:30: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:40:32: 16000000 INFO @ Sun, 21 Jun 2020 21:40:37: 17000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 21:40:42: 18000000 INFO @ Sun, 21 Jun 2020 21:40:47: 19000000 INFO @ Sun, 21 Jun 2020 21:40:49: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX511124/SRX511124.05_peaks.xls INFO @ Sun, 21 Jun 2020 21:40:49: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX511124/SRX511124.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:40:49: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX511124/SRX511124.05_summits.bed INFO @ Sun, 21 Jun 2020 21:40:49: Done! pass1 - making usageList (700 chroms): 2 millis pass2 - checking and writing primary data (3726 records, 4 fields): 20 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 21:40:51: #1 tag size is determined as 36 bps INFO @ Sun, 21 Jun 2020 21:40:51: #1 tag size = 36 INFO @ Sun, 21 Jun 2020 21:40:51: #1 total tags in treatment: 19768495 INFO @ Sun, 21 Jun 2020 21:40:51: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:40:51: #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 21:40:52: #1 tags after filtering in treatment: 19768447 INFO @ Sun, 21 Jun 2020 21:40:52: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:40:52: #1 finished! INFO @ Sun, 21 Jun 2020 21:40:52: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:40:52: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:40:53: #2 number of paired peaks: 1657 INFO @ Sun, 21 Jun 2020 21:40:53: start model_add_line... INFO @ Sun, 21 Jun 2020 21:40:54: start X-correlation... INFO @ Sun, 21 Jun 2020 21:40:54: end of X-cor INFO @ Sun, 21 Jun 2020 21:40:54: #2 finished! INFO @ Sun, 21 Jun 2020 21:40:54: #2 predicted fragment length is 102 bps INFO @ Sun, 21 Jun 2020 21:40:54: #2 alternative fragment length(s) may be 2,102,132 bps INFO @ Sun, 21 Jun 2020 21:40:54: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX511124/SRX511124.20_model.r INFO @ Sun, 21 Jun 2020 21:40:54: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:40:54: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:41:03: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 21:41:22: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX511124/SRX511124.10_peaks.xls INFO @ Sun, 21 Jun 2020 21:41:22: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX511124/SRX511124.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:41:22: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX511124/SRX511124.10_summits.bed INFO @ Sun, 21 Jun 2020 21:41:22: Done! pass1 - making usageList (601 chroms): 1 millis pass2 - checking and writing primary data (2126 records, 4 fields): 17 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 21:41:32: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:41:51: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX511124/SRX511124.20_peaks.xls INFO @ Sun, 21 Jun 2020 21:41:51: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX511124/SRX511124.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:41:51: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX511124/SRX511124.20_summits.bed INFO @ Sun, 21 Jun 2020 21:41:51: Done! pass1 - making usageList (467 chroms): 1 millis pass2 - checking and writing primary data (1298 records, 4 fields): 14 millis CompletedMACS2peakCalling