Job ID = 6458320 SRX = SRX5011070 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T12:18:34 prefetch.2.10.7: 1) Downloading 'SRR8191519'... 2020-06-21T12:18:34 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T12:22:28 prefetch.2.10.7: HTTPS download succeed 2020-06-21T12:22:28 prefetch.2.10.7: 1) 'SRR8191519' was downloaded successfully 2020-06-21T12:22:28 prefetch.2.10.7: 'SRR8191519' has 0 unresolved dependencies Read 42079289 spots for SRR8191519/SRR8191519.sra Written 42079289 spots for SRR8191519/SRR8191519.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: 00:08:26 42079289 reads; of these: 42079289 (100.00%) were unpaired; of these: 14674720 (34.87%) aligned 0 times 21284531 (50.58%) aligned exactly 1 time 6120038 (14.54%) aligned >1 times 65.13% overall alignment rate Time searching: 00:08:26 Overall time: 00:08:26 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] 20733245 / 27404569 = 0.7566 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 21:37:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5011070/SRX5011070.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5011070/SRX5011070.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5011070/SRX5011070.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5011070/SRX5011070.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 21:37:09: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:37:09: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:37:14: 1000000 INFO @ Sun, 21 Jun 2020 21:37:19: 2000000 INFO @ Sun, 21 Jun 2020 21:37:24: 3000000 INFO @ Sun, 21 Jun 2020 21:37:29: 4000000 INFO @ Sun, 21 Jun 2020 21:37:34: 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 21:37:39: 6000000 INFO @ Sun, 21 Jun 2020 21:37:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5011070/SRX5011070.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5011070/SRX5011070.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5011070/SRX5011070.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5011070/SRX5011070.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 21:37:39: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:37:39: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:37:43: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 21:37:43: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 21:37:43: #1 total tags in treatment: 6671324 INFO @ Sun, 21 Jun 2020 21:37:43: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:37:43: #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 21:37:43: #1 tags after filtering in treatment: 6671242 INFO @ Sun, 21 Jun 2020 21:37:43: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:37:43: #1 finished! INFO @ Sun, 21 Jun 2020 21:37:43: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:37:43: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:37:44: #2 number of paired peaks: 3973 INFO @ Sun, 21 Jun 2020 21:37:44: start model_add_line... INFO @ Sun, 21 Jun 2020 21:37:44: start X-correlation... INFO @ Sun, 21 Jun 2020 21:37:44: end of X-cor INFO @ Sun, 21 Jun 2020 21:37:44: #2 finished! INFO @ Sun, 21 Jun 2020 21:37:44: #2 predicted fragment length is 167 bps INFO @ Sun, 21 Jun 2020 21:37:44: #2 alternative fragment length(s) may be 167 bps INFO @ Sun, 21 Jun 2020 21:37:44: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5011070/SRX5011070.05_model.r INFO @ Sun, 21 Jun 2020 21:37:44: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:37:44: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:37:45: 1000000 INFO @ Sun, 21 Jun 2020 21:37:51: 2000000 INFO @ Sun, 21 Jun 2020 21:37:55: 3000000 INFO @ Sun, 21 Jun 2020 21:38:00: 4000000 INFO @ Sun, 21 Jun 2020 21:38:02: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:38:05: 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 21:38:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5011070/SRX5011070.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5011070/SRX5011070.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5011070/SRX5011070.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5011070/SRX5011070.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 21:38:09: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:38:09: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:38:10: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5011070/SRX5011070.05_peaks.xls INFO @ Sun, 21 Jun 2020 21:38:10: 6000000 INFO @ Sun, 21 Jun 2020 21:38:10: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5011070/SRX5011070.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:38:10: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5011070/SRX5011070.05_summits.bed INFO @ Sun, 21 Jun 2020 21:38:10: Done! pass1 - making usageList (832 chroms): 2 millis pass2 - checking and writing primary data (6394 records, 4 fields): 40 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 21:38:14: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 21:38:14: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 21:38:14: #1 total tags in treatment: 6671324 INFO @ Sun, 21 Jun 2020 21:38:14: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:38:14: #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 21:38:15: 1000000 INFO @ Sun, 21 Jun 2020 21:38:15: #1 tags after filtering in treatment: 6671242 INFO @ Sun, 21 Jun 2020 21:38:15: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:38:15: #1 finished! INFO @ Sun, 21 Jun 2020 21:38:15: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:38:15: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:38:15: #2 number of paired peaks: 3973 INFO @ Sun, 21 Jun 2020 21:38:15: start model_add_line... INFO @ Sun, 21 Jun 2020 21:38:16: start X-correlation... INFO @ Sun, 21 Jun 2020 21:38:16: end of X-cor INFO @ Sun, 21 Jun 2020 21:38:16: #2 finished! INFO @ Sun, 21 Jun 2020 21:38:16: #2 predicted fragment length is 167 bps INFO @ Sun, 21 Jun 2020 21:38:16: #2 alternative fragment length(s) may be 167 bps INFO @ Sun, 21 Jun 2020 21:38:16: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5011070/SRX5011070.10_model.r INFO @ Sun, 21 Jun 2020 21:38:16: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:38:16: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:38:20: 2000000 INFO @ Sun, 21 Jun 2020 21:38:26: 3000000 INFO @ Sun, 21 Jun 2020 21:38:31: 4000000 INFO @ Sun, 21 Jun 2020 21:38:34: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:38:37: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 21:38:43: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5011070/SRX5011070.10_peaks.xls INFO @ Sun, 21 Jun 2020 21:38:43: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5011070/SRX5011070.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:38:43: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5011070/SRX5011070.10_summits.bed INFO @ Sun, 21 Jun 2020 21:38:43: Done! INFO @ Sun, 21 Jun 2020 21:38:43: 6000000 pass1 - making usageList (694 chroms): 1 millis pass2 - checking and writing primary data (3648 records, 4 fields): 22 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 21:38:47: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 21:38:47: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 21:38:47: #1 total tags in treatment: 6671324 INFO @ Sun, 21 Jun 2020 21:38:47: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:38:47: #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 21:38:47: #1 tags after filtering in treatment: 6671242 INFO @ Sun, 21 Jun 2020 21:38:47: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:38:47: #1 finished! INFO @ Sun, 21 Jun 2020 21:38:47: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:38:47: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:38:48: #2 number of paired peaks: 3973 INFO @ Sun, 21 Jun 2020 21:38:48: start model_add_line... INFO @ Sun, 21 Jun 2020 21:38:48: start X-correlation... INFO @ Sun, 21 Jun 2020 21:38:48: end of X-cor INFO @ Sun, 21 Jun 2020 21:38:48: #2 finished! INFO @ Sun, 21 Jun 2020 21:38:48: #2 predicted fragment length is 167 bps INFO @ Sun, 21 Jun 2020 21:38:48: #2 alternative fragment length(s) may be 167 bps INFO @ Sun, 21 Jun 2020 21:38:48: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5011070/SRX5011070.20_model.r INFO @ Sun, 21 Jun 2020 21:38:48: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:38:48: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 21:39:07: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:39:14: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5011070/SRX5011070.20_peaks.xls INFO @ Sun, 21 Jun 2020 21:39:15: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5011070/SRX5011070.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:39:15: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5011070/SRX5011070.20_summits.bed INFO @ Sun, 21 Jun 2020 21:39:15: Done! pass1 - making usageList (561 chroms): 2 millis pass2 - checking and writing primary data (1825 records, 4 fields): 15 millis CompletedMACS2peakCalling