Job ID = 6455338 SRX = SRX287707 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T10:35:14 prefetch.2.10.7: 1) Downloading 'SRR869895'... 2020-06-21T10:35:14 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T10:40:20 prefetch.2.10.7: HTTPS download succeed 2020-06-21T10:40:20 prefetch.2.10.7: 1) 'SRR869895' was downloaded successfully Read 20839232 spots for SRR869895/SRR869895.sra Written 20839232 spots for SRR869895/SRR869895.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: 00:04:17 20839232 reads; of these: 20839232 (100.00%) were unpaired; of these: 1414482 (6.79%) aligned 0 times 17894566 (85.87%) aligned exactly 1 time 1530184 (7.34%) aligned >1 times 93.21% overall alignment rate Time searching: 00:04:17 Overall time: 00:04:17 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] 3153650 / 19424750 = 0.1624 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 19:50:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX287707/SRX287707.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX287707/SRX287707.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX287707/SRX287707.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX287707/SRX287707.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 19:50:29: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:50:29: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:50:35: 1000000 INFO @ Sun, 21 Jun 2020 19:50:40: 2000000 INFO @ Sun, 21 Jun 2020 19:50:45: 3000000 INFO @ Sun, 21 Jun 2020 19:50:50: 4000000 INFO @ Sun, 21 Jun 2020 19:50:55: 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 19:50:59: 6000000 INFO @ Sun, 21 Jun 2020 19:51:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX287707/SRX287707.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX287707/SRX287707.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX287707/SRX287707.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX287707/SRX287707.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 19:51:00: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:51:00: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:51:05: 7000000 INFO @ Sun, 21 Jun 2020 19:51:05: 1000000 INFO @ Sun, 21 Jun 2020 19:51:10: 8000000 INFO @ Sun, 21 Jun 2020 19:51:10: 2000000 INFO @ Sun, 21 Jun 2020 19:51:15: 9000000 INFO @ Sun, 21 Jun 2020 19:51:16: 3000000 INFO @ Sun, 21 Jun 2020 19:51:20: 10000000 INFO @ Sun, 21 Jun 2020 19:51:21: 4000000 INFO @ Sun, 21 Jun 2020 19:51:26: 11000000 INFO @ Sun, 21 Jun 2020 19:51:26: 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 19:51:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX287707/SRX287707.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX287707/SRX287707.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX287707/SRX287707.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX287707/SRX287707.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 19:51:30: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:51:30: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:51:31: 12000000 INFO @ Sun, 21 Jun 2020 19:51:32: 6000000 INFO @ Sun, 21 Jun 2020 19:51:35: 1000000 INFO @ Sun, 21 Jun 2020 19:51:36: 13000000 INFO @ Sun, 21 Jun 2020 19:51:37: 7000000 INFO @ Sun, 21 Jun 2020 19:51:41: 2000000 INFO @ Sun, 21 Jun 2020 19:51:42: 14000000 INFO @ Sun, 21 Jun 2020 19:51:42: 8000000 INFO @ Sun, 21 Jun 2020 19:51:46: 3000000 INFO @ Sun, 21 Jun 2020 19:51:47: 15000000 INFO @ Sun, 21 Jun 2020 19:51:48: 9000000 INFO @ Sun, 21 Jun 2020 19:51:51: 4000000 INFO @ Sun, 21 Jun 2020 19:51:53: 10000000 INFO @ Sun, 21 Jun 2020 19:51:53: 16000000 INFO @ Sun, 21 Jun 2020 19:51:55: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 19:51:55: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 19:51:55: #1 total tags in treatment: 16271100 INFO @ Sun, 21 Jun 2020 19:51:55: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:51:55: #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 19:51:56: #1 tags after filtering in treatment: 16271091 INFO @ Sun, 21 Jun 2020 19:51:56: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:51:56: #1 finished! INFO @ Sun, 21 Jun 2020 19:51:56: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:51:56: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:51:57: 5000000 INFO @ Sun, 21 Jun 2020 19:51:57: #2 number of paired peaks: 1014 INFO @ Sun, 21 Jun 2020 19:51:57: start model_add_line... INFO @ Sun, 21 Jun 2020 19:51:57: start X-correlation... INFO @ Sun, 21 Jun 2020 19:51:57: end of X-cor INFO @ Sun, 21 Jun 2020 19:51:57: #2 finished! INFO @ Sun, 21 Jun 2020 19:51:57: #2 predicted fragment length is 188 bps INFO @ Sun, 21 Jun 2020 19:51:57: #2 alternative fragment length(s) may be 188 bps INFO @ Sun, 21 Jun 2020 19:51:57: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX287707/SRX287707.05_model.r INFO @ Sun, 21 Jun 2020 19:51:57: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:51:57: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 19:51:58: 11000000 INFO @ Sun, 21 Jun 2020 19:52:02: 6000000 INFO @ Sun, 21 Jun 2020 19:52:03: 12000000 INFO @ Sun, 21 Jun 2020 19:52:07: 7000000 INFO @ Sun, 21 Jun 2020 19:52:09: 13000000 INFO @ Sun, 21 Jun 2020 19:52:13: 8000000 INFO @ Sun, 21 Jun 2020 19:52:14: 14000000 INFO @ Sun, 21 Jun 2020 19:52:18: 9000000 INFO @ Sun, 21 Jun 2020 19:52:20: 15000000 INFO @ Sun, 21 Jun 2020 19:52:23: 10000000 INFO @ Sun, 21 Jun 2020 19:52:26: 16000000 INFO @ Sun, 21 Jun 2020 19:52:28: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 19:52:28: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 19:52:28: #1 total tags in treatment: 16271100 INFO @ Sun, 21 Jun 2020 19:52:28: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:52:28: #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 19:52:28: #1 tags after filtering in treatment: 16271091 INFO @ Sun, 21 Jun 2020 19:52:28: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:52:28: #1 finished! INFO @ Sun, 21 Jun 2020 19:52:28: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:52:28: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:52:29: 11000000 INFO @ Sun, 21 Jun 2020 19:52:29: #2 number of paired peaks: 1014 INFO @ Sun, 21 Jun 2020 19:52:29: start model_add_line... INFO @ Sun, 21 Jun 2020 19:52:29: start X-correlation... INFO @ Sun, 21 Jun 2020 19:52:30: end of X-cor INFO @ Sun, 21 Jun 2020 19:52:30: #2 finished! INFO @ Sun, 21 Jun 2020 19:52:30: #2 predicted fragment length is 188 bps INFO @ Sun, 21 Jun 2020 19:52:30: #2 alternative fragment length(s) may be 188 bps INFO @ Sun, 21 Jun 2020 19:52:30: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX287707/SRX287707.10_model.r INFO @ Sun, 21 Jun 2020 19:52:30: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:52:30: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 19:52:31: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 19:52:34: 12000000 INFO @ Sun, 21 Jun 2020 19:52:39: 13000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 19:52:44: 14000000 INFO @ Sun, 21 Jun 2020 19:52:49: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX287707/SRX287707.05_peaks.xls INFO @ Sun, 21 Jun 2020 19:52:49: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX287707/SRX287707.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:52:49: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX287707/SRX287707.05_summits.bed INFO @ Sun, 21 Jun 2020 19:52:49: Done! INFO @ Sun, 21 Jun 2020 19:52:49: 15000000 pass1 - making usageList (136 chroms): 1 millis pass2 - checking and writing primary data (8327 records, 4 fields): 13 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 19:52:55: 16000000 INFO @ Sun, 21 Jun 2020 19:52:57: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 19:52:57: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 19:52:57: #1 total tags in treatment: 16271100 INFO @ Sun, 21 Jun 2020 19:52:57: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:52:57: #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 19:52:57: #1 tags after filtering in treatment: 16271091 INFO @ Sun, 21 Jun 2020 19:52:57: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:52:57: #1 finished! INFO @ Sun, 21 Jun 2020 19:52:57: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:52:57: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:52:58: #2 number of paired peaks: 1014 INFO @ Sun, 21 Jun 2020 19:52:58: start model_add_line... INFO @ Sun, 21 Jun 2020 19:52:58: start X-correlation... INFO @ Sun, 21 Jun 2020 19:52:58: end of X-cor INFO @ Sun, 21 Jun 2020 19:52:58: #2 finished! INFO @ Sun, 21 Jun 2020 19:52:58: #2 predicted fragment length is 188 bps INFO @ Sun, 21 Jun 2020 19:52:58: #2 alternative fragment length(s) may be 188 bps INFO @ Sun, 21 Jun 2020 19:52:58: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX287707/SRX287707.20_model.r INFO @ Sun, 21 Jun 2020 19:52:58: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:52:58: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 19:53:04: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 19:53:22: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX287707/SRX287707.10_peaks.xls INFO @ Sun, 21 Jun 2020 19:53:22: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX287707/SRX287707.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:53:22: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX287707/SRX287707.10_summits.bed INFO @ Sun, 21 Jun 2020 19:53:22: Done! pass1 - making usageList (100 chroms): 1 millis pass2 - checking and writing primary data (6155 records, 4 fields): 10 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 19:53:34: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 19:53:51: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX287707/SRX287707.20_peaks.xls INFO @ Sun, 21 Jun 2020 19:53:52: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX287707/SRX287707.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:53:52: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX287707/SRX287707.20_summits.bed INFO @ Sun, 21 Jun 2020 19:53:52: Done! pass1 - making usageList (60 chroms): 1 millis pass2 - checking and writing primary data (4153 records, 4 fields): 7 millis CompletedMACS2peakCalling