Job ID = 6458328 SRX = SRX5011075 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T12:27:07 prefetch.2.10.7: 1) Downloading 'SRR8191524'... 2020-06-21T12:27:07 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T12:29:48 prefetch.2.10.7: HTTPS download succeed 2020-06-21T12:29:48 prefetch.2.10.7: 1) 'SRR8191524' was downloaded successfully Read 26255388 spots for SRR8191524/SRR8191524.sra Written 26255388 spots for SRR8191524/SRR8191524.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: 00:05:43 26255388 reads; of these: 26255388 (100.00%) were unpaired; of these: 7989546 (30.43%) aligned 0 times 13681479 (52.11%) aligned exactly 1 time 4584363 (17.46%) aligned >1 times 69.57% overall alignment rate Time searching: 00:05:43 Overall time: 00:05:43 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] 11372582 / 18265842 = 0.6226 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 21:40:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5011075/SRX5011075.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5011075/SRX5011075.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5011075/SRX5011075.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5011075/SRX5011075.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 21:40:16: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:40:16: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:40:21: 1000000 INFO @ Sun, 21 Jun 2020 21:40:26: 2000000 INFO @ Sun, 21 Jun 2020 21:40:31: 3000000 INFO @ Sun, 21 Jun 2020 21:40:37: 4000000 INFO @ Sun, 21 Jun 2020 21:40:42: 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 21:40:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5011075/SRX5011075.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5011075/SRX5011075.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5011075/SRX5011075.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5011075/SRX5011075.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 21:40:45: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:40:45: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:40:48: 6000000 INFO @ Sun, 21 Jun 2020 21:40:51: 1000000 INFO @ Sun, 21 Jun 2020 21:40:53: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 21:40:53: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 21:40:53: #1 total tags in treatment: 6893260 INFO @ Sun, 21 Jun 2020 21:40:53: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:40:53: #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 21:40:53: #1 tags after filtering in treatment: 6893166 INFO @ Sun, 21 Jun 2020 21:40:53: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:40:53: #1 finished! INFO @ Sun, 21 Jun 2020 21:40:53: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:40:53: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:40:54: #2 number of paired peaks: 3413 INFO @ Sun, 21 Jun 2020 21:40:54: 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 146 bps INFO @ Sun, 21 Jun 2020 21:40:54: #2 alternative fragment length(s) may be 146,597 bps INFO @ Sun, 21 Jun 2020 21:40:54: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5011075/SRX5011075.05_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 21:40:56: 2000000 INFO @ Sun, 21 Jun 2020 21:41:02: 3000000 INFO @ Sun, 21 Jun 2020 21:41:07: 4000000 INFO @ Sun, 21 Jun 2020 21:41:11: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:41:13: 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 21:41:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5011075/SRX5011075.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5011075/SRX5011075.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5011075/SRX5011075.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5011075/SRX5011075.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 21:41:15: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:41:15: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:41:19: 6000000 INFO @ Sun, 21 Jun 2020 21:41:19: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5011075/SRX5011075.05_peaks.xls INFO @ Sun, 21 Jun 2020 21:41:19: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5011075/SRX5011075.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:41:19: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5011075/SRX5011075.05_summits.bed INFO @ Sun, 21 Jun 2020 21:41:19: Done! pass1 - making usageList (769 chroms): 2 millis pass2 - checking and writing primary data (6041 records, 4 fields): 27 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 21:41:23: 1000000 INFO @ Sun, 21 Jun 2020 21:41:25: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 21:41:25: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 21:41:25: #1 total tags in treatment: 6893260 INFO @ Sun, 21 Jun 2020 21:41:25: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:41:25: #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 21:41:25: #1 tags after filtering in treatment: 6893166 INFO @ Sun, 21 Jun 2020 21:41:25: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:41:25: #1 finished! INFO @ Sun, 21 Jun 2020 21:41:25: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:41:25: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:41:26: #2 number of paired peaks: 3413 INFO @ Sun, 21 Jun 2020 21:41:26: start model_add_line... INFO @ Sun, 21 Jun 2020 21:41:26: start X-correlation... INFO @ Sun, 21 Jun 2020 21:41:26: end of X-cor INFO @ Sun, 21 Jun 2020 21:41:26: #2 finished! INFO @ Sun, 21 Jun 2020 21:41:26: #2 predicted fragment length is 146 bps INFO @ Sun, 21 Jun 2020 21:41:26: #2 alternative fragment length(s) may be 146,597 bps INFO @ Sun, 21 Jun 2020 21:41:26: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5011075/SRX5011075.10_model.r INFO @ Sun, 21 Jun 2020 21:41:26: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:41:26: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:41:30: 2000000 INFO @ Sun, 21 Jun 2020 21:41:37: 3000000 INFO @ Sun, 21 Jun 2020 21:41:43: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:41:43: 4000000 INFO @ Sun, 21 Jun 2020 21:41:50: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 21:41:51: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5011075/SRX5011075.10_peaks.xls INFO @ Sun, 21 Jun 2020 21:41:51: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5011075/SRX5011075.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:41:51: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5011075/SRX5011075.10_summits.bed INFO @ Sun, 21 Jun 2020 21:41:51: Done! pass1 - making usageList (653 chroms): 1 millis pass2 - checking and writing primary data (3570 records, 4 fields): 22 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 21:41:57: 6000000 INFO @ Sun, 21 Jun 2020 21:42:03: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 21:42:03: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 21:42:03: #1 total tags in treatment: 6893260 INFO @ Sun, 21 Jun 2020 21:42:03: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:42:03: #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 21:42:04: #1 tags after filtering in treatment: 6893166 INFO @ Sun, 21 Jun 2020 21:42:04: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:42:04: #1 finished! INFO @ Sun, 21 Jun 2020 21:42:04: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:42:04: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:42:04: #2 number of paired peaks: 3413 INFO @ Sun, 21 Jun 2020 21:42:04: start model_add_line... INFO @ Sun, 21 Jun 2020 21:42:05: start X-correlation... INFO @ Sun, 21 Jun 2020 21:42:05: end of X-cor INFO @ Sun, 21 Jun 2020 21:42:05: #2 finished! INFO @ Sun, 21 Jun 2020 21:42:05: #2 predicted fragment length is 146 bps INFO @ Sun, 21 Jun 2020 21:42:05: #2 alternative fragment length(s) may be 146,597 bps INFO @ Sun, 21 Jun 2020 21:42:05: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5011075/SRX5011075.20_model.r INFO @ Sun, 21 Jun 2020 21:42:05: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:42:05: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 21:42:22: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:42:30: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5011075/SRX5011075.20_peaks.xls INFO @ Sun, 21 Jun 2020 21:42:30: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5011075/SRX5011075.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:42:30: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5011075/SRX5011075.20_summits.bed INFO @ Sun, 21 Jun 2020 21:42:30: Done! pass1 - making usageList (502 chroms): 1 millis pass2 - checking and writing primary data (1762 records, 4 fields): 15 millis CompletedMACS2peakCalling