Job ID = 6508547 SRX = SRX326970 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-26T14:34:18 prefetch.2.10.7: 1) Downloading 'SRR942043'... 2020-06-26T14:34:18 prefetch.2.10.7: Downloading via HTTPS... 2020-06-26T14:36:03 prefetch.2.10.7: HTTPS download succeed 2020-06-26T14:36:03 prefetch.2.10.7: 1) 'SRR942043' was downloaded successfully Read 12359422 spots for SRR942043/SRR942043.sra Written 12359422 spots for SRR942043/SRR942043.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: 00:04:07 12359422 reads; of these: 12359422 (100.00%) were unpaired; of these: 478353 (3.87%) aligned 0 times 8051404 (65.14%) aligned exactly 1 time 3829665 (30.99%) aligned >1 times 96.13% overall alignment rate Time searching: 00:04:07 Overall time: 00:04:07 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] 1744678 / 11881069 = 0.1468 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 @ Fri, 26 Jun 2020 23:44:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX326970/SRX326970.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX326970/SRX326970.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX326970/SRX326970.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX326970/SRX326970.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 @ Fri, 26 Jun 2020 23:44:05: #1 read tag files... INFO @ Fri, 26 Jun 2020 23:44:05: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 23:44:13: 1000000 INFO @ Fri, 26 Jun 2020 23:44:20: 2000000 INFO @ Fri, 26 Jun 2020 23:44:27: 3000000 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 @ Fri, 26 Jun 2020 23:44:34: 4000000 INFO @ Fri, 26 Jun 2020 23:44:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX326970/SRX326970.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX326970/SRX326970.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX326970/SRX326970.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX326970/SRX326970.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 @ Fri, 26 Jun 2020 23:44:36: #1 read tag files... INFO @ Fri, 26 Jun 2020 23:44:36: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 23:44:42: 5000000 INFO @ Fri, 26 Jun 2020 23:44:43: 1000000 INFO @ Fri, 26 Jun 2020 23:44:49: 6000000 INFO @ Fri, 26 Jun 2020 23:44:51: 2000000 INFO @ Fri, 26 Jun 2020 23:44:57: 7000000 INFO @ Fri, 26 Jun 2020 23:44:59: 3000000 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 @ Fri, 26 Jun 2020 23:45:05: 8000000 INFO @ Fri, 26 Jun 2020 23:45:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX326970/SRX326970.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX326970/SRX326970.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX326970/SRX326970.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX326970/SRX326970.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 @ Fri, 26 Jun 2020 23:45:05: #1 read tag files... INFO @ Fri, 26 Jun 2020 23:45:05: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 23:45:06: 4000000 INFO @ Fri, 26 Jun 2020 23:45:13: 1000000 INFO @ Fri, 26 Jun 2020 23:45:13: 9000000 INFO @ Fri, 26 Jun 2020 23:45:14: 5000000 INFO @ Fri, 26 Jun 2020 23:45:20: 2000000 INFO @ Fri, 26 Jun 2020 23:45:21: 10000000 INFO @ Fri, 26 Jun 2020 23:45:22: #1 tag size is determined as 49 bps INFO @ Fri, 26 Jun 2020 23:45:22: #1 tag size = 49 INFO @ Fri, 26 Jun 2020 23:45:22: #1 total tags in treatment: 10136391 INFO @ Fri, 26 Jun 2020 23:45:22: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 23:45:22: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 26 Jun 2020 23:45:22: 6000000 INFO @ Fri, 26 Jun 2020 23:45:22: #1 tags after filtering in treatment: 10136278 INFO @ Fri, 26 Jun 2020 23:45:22: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 23:45:22: #1 finished! INFO @ Fri, 26 Jun 2020 23:45:22: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 23:45:22: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 23:45:23: #2 number of paired peaks: 1737 INFO @ Fri, 26 Jun 2020 23:45:23: start model_add_line... INFO @ Fri, 26 Jun 2020 23:45:23: start X-correlation... INFO @ Fri, 26 Jun 2020 23:45:23: end of X-cor INFO @ Fri, 26 Jun 2020 23:45:23: #2 finished! INFO @ Fri, 26 Jun 2020 23:45:23: #2 predicted fragment length is 133 bps INFO @ Fri, 26 Jun 2020 23:45:23: #2 alternative fragment length(s) may be 133 bps INFO @ Fri, 26 Jun 2020 23:45:23: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX326970/SRX326970.05_model.r INFO @ Fri, 26 Jun 2020 23:45:23: #3 Call peaks... INFO @ Fri, 26 Jun 2020 23:45:23: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 26 Jun 2020 23:45:27: 3000000 INFO @ Fri, 26 Jun 2020 23:45:30: 7000000 INFO @ Fri, 26 Jun 2020 23:45:34: 4000000 INFO @ Fri, 26 Jun 2020 23:45:38: 8000000 INFO @ Fri, 26 Jun 2020 23:45:42: 5000000 INFO @ Fri, 26 Jun 2020 23:45:46: 9000000 INFO @ Fri, 26 Jun 2020 23:45:49: 6000000 INFO @ Fri, 26 Jun 2020 23:45:50: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 23:45:54: 10000000 INFO @ Fri, 26 Jun 2020 23:45:55: #1 tag size is determined as 49 bps INFO @ Fri, 26 Jun 2020 23:45:55: #1 tag size = 49 INFO @ Fri, 26 Jun 2020 23:45:55: #1 total tags in treatment: 10136391 INFO @ Fri, 26 Jun 2020 23:45:55: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 23:45:55: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 26 Jun 2020 23:45:55: #1 tags after filtering in treatment: 10136278 INFO @ Fri, 26 Jun 2020 23:45:55: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 23:45:55: #1 finished! INFO @ Fri, 26 Jun 2020 23:45:55: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 23:45:55: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 23:45:56: #2 number of paired peaks: 1737 INFO @ Fri, 26 Jun 2020 23:45:56: start model_add_line... INFO @ Fri, 26 Jun 2020 23:45:56: 7000000 INFO @ Fri, 26 Jun 2020 23:45:56: start X-correlation... INFO @ Fri, 26 Jun 2020 23:45:56: end of X-cor INFO @ Fri, 26 Jun 2020 23:45:56: #2 finished! INFO @ Fri, 26 Jun 2020 23:45:56: #2 predicted fragment length is 133 bps INFO @ Fri, 26 Jun 2020 23:45:56: #2 alternative fragment length(s) may be 133 bps INFO @ Fri, 26 Jun 2020 23:45:56: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX326970/SRX326970.10_model.r INFO @ Fri, 26 Jun 2020 23:45:56: #3 Call peaks... INFO @ Fri, 26 Jun 2020 23:45:56: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 26 Jun 2020 23:46:03: 8000000 INFO @ Fri, 26 Jun 2020 23:46:03: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX326970/SRX326970.05_peaks.xls INFO @ Fri, 26 Jun 2020 23:46:03: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX326970/SRX326970.05_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 23:46:03: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX326970/SRX326970.05_summits.bed INFO @ Fri, 26 Jun 2020 23:46:03: Done! pass1 - making usageList (586 chroms): 2 millis pass2 - checking and writing primary data (4677 records, 4 fields): 22 millis CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 26 Jun 2020 23:46:09: 9000000 INFO @ Fri, 26 Jun 2020 23:46:15: 10000000 INFO @ Fri, 26 Jun 2020 23:46:16: #1 tag size is determined as 49 bps INFO @ Fri, 26 Jun 2020 23:46:16: #1 tag size = 49 INFO @ Fri, 26 Jun 2020 23:46:16: #1 total tags in treatment: 10136391 INFO @ Fri, 26 Jun 2020 23:46:16: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 23:46:16: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 26 Jun 2020 23:46:17: #1 tags after filtering in treatment: 10136278 INFO @ Fri, 26 Jun 2020 23:46:17: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 23:46:17: #1 finished! INFO @ Fri, 26 Jun 2020 23:46:17: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 23:46:17: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 23:46:18: #2 number of paired peaks: 1737 INFO @ Fri, 26 Jun 2020 23:46:18: start model_add_line... INFO @ Fri, 26 Jun 2020 23:46:18: start X-correlation... INFO @ Fri, 26 Jun 2020 23:46:18: end of X-cor INFO @ Fri, 26 Jun 2020 23:46:18: #2 finished! INFO @ Fri, 26 Jun 2020 23:46:18: #2 predicted fragment length is 133 bps INFO @ Fri, 26 Jun 2020 23:46:18: #2 alternative fragment length(s) may be 133 bps INFO @ Fri, 26 Jun 2020 23:46:18: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX326970/SRX326970.20_model.r INFO @ Fri, 26 Jun 2020 23:46:18: #3 Call peaks... INFO @ Fri, 26 Jun 2020 23:46:18: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 26 Jun 2020 23:46:23: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Fri, 26 Jun 2020 23:46:37: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX326970/SRX326970.10_peaks.xls INFO @ Fri, 26 Jun 2020 23:46:37: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX326970/SRX326970.10_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 23:46:37: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX326970/SRX326970.10_summits.bed INFO @ Fri, 26 Jun 2020 23:46:37: Done! pass1 - making usageList (512 chroms): 1 millis pass2 - checking and writing primary data (2825 records, 4 fields): 18 millis CompletedMACS2peakCalling INFO @ Fri, 26 Jun 2020 23:46:44: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 23:46:58: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX326970/SRX326970.20_peaks.xls INFO @ Fri, 26 Jun 2020 23:46:58: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX326970/SRX326970.20_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 23:46:58: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX326970/SRX326970.20_summits.bed INFO @ Fri, 26 Jun 2020 23:46:58: Done! pass1 - making usageList (415 chroms): 1 millis pass2 - checking and writing primary data (1538 records, 4 fields): 14 millis CompletedMACS2peakCalling