Job ID = 6452763 SRX = SRX032109 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T07:41:53 prefetch.2.10.7: 1) Downloading 'SRR073925'... 2020-06-21T07:41:53 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T07:44:48 prefetch.2.10.7: HTTPS download succeed 2020-06-21T07:44:49 prefetch.2.10.7: 'SRR073925' is valid 2020-06-21T07:44:49 prefetch.2.10.7: 1) 'SRR073925' was downloaded successfully Read 19382151 spots for SRR073925/SRR073925.sra Written 19382151 spots for SRR073925/SRR073925.sra 2020-06-21T07:45:56 prefetch.2.10.7: 1) Downloading 'SRR073926'... 2020-06-21T07:45:56 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T07:47:34 prefetch.2.10.7: HTTPS download succeed 2020-06-21T07:47:35 prefetch.2.10.7: 'SRR073926' is valid 2020-06-21T07:47:35 prefetch.2.10.7: 1) 'SRR073926' was downloaded successfully Read 15209955 spots for SRR073926/SRR073926.sra Written 15209955 spots for SRR073926/SRR073926.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: 00:15:27 34592106 reads; of these: 34592106 (100.00%) were unpaired; of these: 2214725 (6.40%) aligned 0 times 14221475 (41.11%) aligned exactly 1 time 18155906 (52.49%) aligned >1 times 93.60% overall alignment rate Time searching: 00:15:27 Overall time: 00:15:27 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] 26426694 / 32377381 = 0.8162 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 17:08:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX032109/SRX032109.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX032109/SRX032109.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX032109/SRX032109.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX032109/SRX032109.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 17:08:56: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:08:56: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:09:01: 1000000 INFO @ Sun, 21 Jun 2020 17:09:07: 2000000 INFO @ Sun, 21 Jun 2020 17:09:12: 3000000 INFO @ Sun, 21 Jun 2020 17:09:18: 4000000 INFO @ Sun, 21 Jun 2020 17:09:24: 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 17:09:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX032109/SRX032109.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX032109/SRX032109.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX032109/SRX032109.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX032109/SRX032109.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 17:09:26: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:09:26: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:09:30: #1 tag size is determined as 36 bps INFO @ Sun, 21 Jun 2020 17:09:30: #1 tag size = 36 INFO @ Sun, 21 Jun 2020 17:09:30: #1 total tags in treatment: 5950687 INFO @ Sun, 21 Jun 2020 17:09:30: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:09:30: #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 17:09:30: #1 tags after filtering in treatment: 5950685 INFO @ Sun, 21 Jun 2020 17:09:30: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:09:30: #1 finished! INFO @ Sun, 21 Jun 2020 17:09:30: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:09:30: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:09:31: #2 number of paired peaks: 3937 INFO @ Sun, 21 Jun 2020 17:09:31: start model_add_line... INFO @ Sun, 21 Jun 2020 17:09:31: start X-correlation... INFO @ Sun, 21 Jun 2020 17:09:31: end of X-cor INFO @ Sun, 21 Jun 2020 17:09:31: #2 finished! INFO @ Sun, 21 Jun 2020 17:09:31: #2 predicted fragment length is 154 bps INFO @ Sun, 21 Jun 2020 17:09:31: #2 alternative fragment length(s) may be 4,151,154 bps INFO @ Sun, 21 Jun 2020 17:09:31: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX032109/SRX032109.05_model.r INFO @ Sun, 21 Jun 2020 17:09:31: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:09:31: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 17:09:33: 1000000 INFO @ Sun, 21 Jun 2020 17:09:40: 2000000 INFO @ Sun, 21 Jun 2020 17:09:46: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 17:09:47: 3000000 INFO @ Sun, 21 Jun 2020 17:09:53: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX032109/SRX032109.05_peaks.xls INFO @ Sun, 21 Jun 2020 17:09:53: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX032109/SRX032109.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:09:53: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX032109/SRX032109.05_summits.bed INFO @ Sun, 21 Jun 2020 17:09:53: Done! pass1 - making usageList (1052 chroms): 2 millis pass2 - checking and writing primary data (4205 records, 4 fields): 29 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 17:09:54: 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 17:09:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX032109/SRX032109.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX032109/SRX032109.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX032109/SRX032109.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX032109/SRX032109.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 17:09:56: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:09:56: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:10:01: 5000000 INFO @ Sun, 21 Jun 2020 17:10:02: 1000000 INFO @ Sun, 21 Jun 2020 17:10:08: #1 tag size is determined as 36 bps INFO @ Sun, 21 Jun 2020 17:10:08: #1 tag size = 36 INFO @ Sun, 21 Jun 2020 17:10:08: #1 total tags in treatment: 5950687 INFO @ Sun, 21 Jun 2020 17:10:08: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:10:08: #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 17:10:08: #1 tags after filtering in treatment: 5950685 INFO @ Sun, 21 Jun 2020 17:10:08: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:10:08: #1 finished! INFO @ Sun, 21 Jun 2020 17:10:08: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:10:08: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:10:09: 2000000 INFO @ Sun, 21 Jun 2020 17:10:09: #2 number of paired peaks: 3937 INFO @ Sun, 21 Jun 2020 17:10:09: start model_add_line... INFO @ Sun, 21 Jun 2020 17:10:09: start X-correlation... INFO @ Sun, 21 Jun 2020 17:10:09: end of X-cor INFO @ Sun, 21 Jun 2020 17:10:09: #2 finished! INFO @ Sun, 21 Jun 2020 17:10:09: #2 predicted fragment length is 154 bps INFO @ Sun, 21 Jun 2020 17:10:09: #2 alternative fragment length(s) may be 4,151,154 bps INFO @ Sun, 21 Jun 2020 17:10:09: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX032109/SRX032109.10_model.r INFO @ Sun, 21 Jun 2020 17:10:09: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:10:09: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 17:10:15: 3000000 INFO @ Sun, 21 Jun 2020 17:10:21: 4000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 17:10:24: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 17:10:26: 5000000 INFO @ Sun, 21 Jun 2020 17:10:31: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX032109/SRX032109.10_peaks.xls INFO @ Sun, 21 Jun 2020 17:10:31: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX032109/SRX032109.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:10:31: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX032109/SRX032109.10_summits.bed INFO @ Sun, 21 Jun 2020 17:10:31: Done! pass1 - making usageList (873 chroms): 2 millis pass2 - checking and writing primary data (2171 records, 4 fields): 25 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 17:10:32: #1 tag size is determined as 36 bps INFO @ Sun, 21 Jun 2020 17:10:32: #1 tag size = 36 INFO @ Sun, 21 Jun 2020 17:10:32: #1 total tags in treatment: 5950687 INFO @ Sun, 21 Jun 2020 17:10:32: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:10:32: #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 17:10:32: #1 tags after filtering in treatment: 5950685 INFO @ Sun, 21 Jun 2020 17:10:32: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:10:32: #1 finished! INFO @ Sun, 21 Jun 2020 17:10:32: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:10:32: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:10:33: #2 number of paired peaks: 3937 INFO @ Sun, 21 Jun 2020 17:10:33: start model_add_line... INFO @ Sun, 21 Jun 2020 17:10:33: start X-correlation... INFO @ Sun, 21 Jun 2020 17:10:33: end of X-cor INFO @ Sun, 21 Jun 2020 17:10:33: #2 finished! INFO @ Sun, 21 Jun 2020 17:10:33: #2 predicted fragment length is 154 bps INFO @ Sun, 21 Jun 2020 17:10:33: #2 alternative fragment length(s) may be 4,151,154 bps INFO @ Sun, 21 Jun 2020 17:10:33: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX032109/SRX032109.20_model.r INFO @ Sun, 21 Jun 2020 17:10:33: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:10:33: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 17:10:48: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 17:10:55: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX032109/SRX032109.20_peaks.xls INFO @ Sun, 21 Jun 2020 17:10:55: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX032109/SRX032109.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:10:55: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX032109/SRX032109.20_summits.bed INFO @ Sun, 21 Jun 2020 17:10:55: Done! pass1 - making usageList (708 chroms): 1 millis pass2 - checking and writing primary data (1260 records, 4 fields): 29 millis CompletedMACS2peakCalling