Job ID = 6458350 SRX = SRX5011091 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T12:27:04 prefetch.2.10.7: 1) Downloading 'SRR8191540'... 2020-06-21T12:27:04 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T12:30:16 prefetch.2.10.7: HTTPS download succeed 2020-06-21T12:30:16 prefetch.2.10.7: 1) 'SRR8191540' was downloaded successfully Read 22403332 spots for SRR8191540/SRR8191540.sra Written 22403332 spots for SRR8191540/SRR8191540.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: 00:03:46 22403332 reads; of these: 22403332 (100.00%) were unpaired; of these: 11919602 (53.20%) aligned 0 times 8483046 (37.87%) aligned exactly 1 time 2000684 (8.93%) aligned >1 times 46.80% overall alignment rate Time searching: 00:03:46 Overall time: 00:03:46 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] 3495982 / 10483730 = 0.3335 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 21:37:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5011091/SRX5011091.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5011091/SRX5011091.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5011091/SRX5011091.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5011091/SRX5011091.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 21:37:36: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:37:36: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:37:42: 1000000 INFO @ Sun, 21 Jun 2020 21:37:47: 2000000 INFO @ Sun, 21 Jun 2020 21:37:53: 3000000 INFO @ Sun, 21 Jun 2020 21:37:58: 4000000 INFO @ Sun, 21 Jun 2020 21:38:04: 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 21:38:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5011091/SRX5011091.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5011091/SRX5011091.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5011091/SRX5011091.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5011091/SRX5011091.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 21:38:06: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:38:06: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:38:10: 6000000 INFO @ Sun, 21 Jun 2020 21:38:12: 1000000 INFO @ Sun, 21 Jun 2020 21:38:16: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 21:38:16: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 21:38:16: #1 total tags in treatment: 6987748 INFO @ Sun, 21 Jun 2020 21:38:16: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:38:16: #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 21:38:16: #1 tags after filtering in treatment: 6987585 INFO @ Sun, 21 Jun 2020 21:38:16: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:38:16: #1 finished! INFO @ Sun, 21 Jun 2020 21:38:16: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:38:16: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:38:17: #2 number of paired peaks: 3850 INFO @ Sun, 21 Jun 2020 21:38:17: start model_add_line... INFO @ Sun, 21 Jun 2020 21:38:17: start X-correlation... INFO @ Sun, 21 Jun 2020 21:38:17: end of X-cor INFO @ Sun, 21 Jun 2020 21:38:17: #2 finished! INFO @ Sun, 21 Jun 2020 21:38:17: #2 predicted fragment length is 211 bps INFO @ Sun, 21 Jun 2020 21:38:17: #2 alternative fragment length(s) may be 211 bps INFO @ Sun, 21 Jun 2020 21:38:17: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5011091/SRX5011091.05_model.r INFO @ Sun, 21 Jun 2020 21:38:17: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:38:17: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:38:18: 2000000 INFO @ Sun, 21 Jun 2020 21:38:24: 3000000 INFO @ Sun, 21 Jun 2020 21:38:30: 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 21:38:35: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:38:35: 5000000 INFO @ Sun, 21 Jun 2020 21:38:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5011091/SRX5011091.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5011091/SRX5011091.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5011091/SRX5011091.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5011091/SRX5011091.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 21:38:36: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:38:36: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:38:42: 6000000 INFO @ Sun, 21 Jun 2020 21:38:43: 1000000 INFO @ Sun, 21 Jun 2020 21:38:44: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5011091/SRX5011091.05_peaks.xls INFO @ Sun, 21 Jun 2020 21:38:44: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5011091/SRX5011091.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:38:44: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5011091/SRX5011091.05_summits.bed INFO @ Sun, 21 Jun 2020 21:38:44: Done! pass1 - making usageList (316 chroms): 2 millis pass2 - checking and writing primary data (8718 records, 4 fields): 16 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 21:38:48: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 21:38:48: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 21:38:48: #1 total tags in treatment: 6987748 INFO @ Sun, 21 Jun 2020 21:38:48: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:38:48: #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 21:38:49: #1 tags after filtering in treatment: 6987585 INFO @ Sun, 21 Jun 2020 21:38:49: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:38:49: #1 finished! INFO @ Sun, 21 Jun 2020 21:38:49: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:38:49: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:38:49: #2 number of paired peaks: 3850 INFO @ Sun, 21 Jun 2020 21:38:49: start model_add_line... INFO @ Sun, 21 Jun 2020 21:38:50: 2000000 INFO @ Sun, 21 Jun 2020 21:38:50: start X-correlation... INFO @ Sun, 21 Jun 2020 21:38:50: end of X-cor INFO @ Sun, 21 Jun 2020 21:38:50: #2 finished! INFO @ Sun, 21 Jun 2020 21:38:50: #2 predicted fragment length is 211 bps INFO @ Sun, 21 Jun 2020 21:38:50: #2 alternative fragment length(s) may be 211 bps INFO @ Sun, 21 Jun 2020 21:38:50: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5011091/SRX5011091.10_model.r INFO @ Sun, 21 Jun 2020 21:38:50: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:38:50: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:38:55: 3000000 INFO @ Sun, 21 Jun 2020 21:39:01: 4000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 21:39:07: 5000000 INFO @ Sun, 21 Jun 2020 21:39:09: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:39:13: 6000000 INFO @ Sun, 21 Jun 2020 21:39:18: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5011091/SRX5011091.10_peaks.xls INFO @ Sun, 21 Jun 2020 21:39:18: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5011091/SRX5011091.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:39:18: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5011091/SRX5011091.10_summits.bed INFO @ Sun, 21 Jun 2020 21:39:18: Done! pass1 - making usageList (220 chroms): 2 millis pass2 - checking and writing primary data (5649 records, 4 fields): 10 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 21:39:19: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 21:39:19: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 21:39:19: #1 total tags in treatment: 6987748 INFO @ Sun, 21 Jun 2020 21:39:19: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:39:19: #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 21:39:20: #1 tags after filtering in treatment: 6987585 INFO @ Sun, 21 Jun 2020 21:39:20: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:39:20: #1 finished! INFO @ Sun, 21 Jun 2020 21:39:20: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:39:20: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:39:21: #2 number of paired peaks: 3850 INFO @ Sun, 21 Jun 2020 21:39:21: start model_add_line... INFO @ Sun, 21 Jun 2020 21:39:21: start X-correlation... INFO @ Sun, 21 Jun 2020 21:39:21: end of X-cor INFO @ Sun, 21 Jun 2020 21:39:21: #2 finished! INFO @ Sun, 21 Jun 2020 21:39:21: #2 predicted fragment length is 211 bps INFO @ Sun, 21 Jun 2020 21:39:21: #2 alternative fragment length(s) may be 211 bps INFO @ Sun, 21 Jun 2020 21:39:21: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5011091/SRX5011091.20_model.r INFO @ Sun, 21 Jun 2020 21:39:21: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:39:21: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 21:39:39: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:39:48: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5011091/SRX5011091.20_peaks.xls INFO @ Sun, 21 Jun 2020 21:39:48: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5011091/SRX5011091.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:39:48: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5011091/SRX5011091.20_summits.bed INFO @ Sun, 21 Jun 2020 21:39:48: Done! pass1 - making usageList (135 chroms): 1 millis pass2 - checking and writing primary data (3044 records, 4 fields): 8 millis CompletedMACS2peakCalling