Job ID = 6452743 SRX = SRX027833 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T08:09:18 prefetch.2.10.7: 1) Downloading 'SRR067916'... 2020-06-21T08:09:18 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T09:00:26 prefetch.2.10.7: HTTPS download succeed 2020-06-21T09:00:26 prefetch.2.10.7: 1) 'SRR067916' was downloaded successfully Read 13975739 spots for SRR067916/SRR067916.sra Written 13975739 spots for SRR067916/SRR067916.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: 00:02:13 13975739 reads; of these: 13975739 (100.00%) were unpaired; of these: 5287532 (37.83%) aligned 0 times 6532631 (46.74%) aligned exactly 1 time 2155576 (15.42%) aligned >1 times 62.17% overall alignment rate Time searching: 00:02:13 Overall time: 00:02:13 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_rmdupse_core] 1311507 / 8688207 = 0.1510 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 18:06:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX027833/SRX027833.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX027833/SRX027833.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX027833/SRX027833.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX027833/SRX027833.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 18:06:32: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:06:32: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:06:37: 1000000 INFO @ Sun, 21 Jun 2020 18:06:41: 2000000 INFO @ Sun, 21 Jun 2020 18:06:46: 3000000 INFO @ Sun, 21 Jun 2020 18:06:51: 4000000 INFO @ Sun, 21 Jun 2020 18:06:55: 5000000 INFO @ Sun, 21 Jun 2020 18:07:00: 6000000 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 18:07:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX027833/SRX027833.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX027833/SRX027833.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX027833/SRX027833.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX027833/SRX027833.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 18:07:02: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:07:02: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:07:05: 7000000 INFO @ Sun, 21 Jun 2020 18:07:07: #1 tag size is determined as 36 bps INFO @ Sun, 21 Jun 2020 18:07:07: #1 tag size = 36 INFO @ Sun, 21 Jun 2020 18:07:07: #1 total tags in treatment: 7376700 INFO @ Sun, 21 Jun 2020 18:07:07: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:07:07: #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 18:07:08: #1 tags after filtering in treatment: 7376569 INFO @ Sun, 21 Jun 2020 18:07:08: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:07:08: #1 finished! INFO @ Sun, 21 Jun 2020 18:07:08: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:07:08: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:07:08: 1000000 INFO @ Sun, 21 Jun 2020 18:07:09: #2 number of paired peaks: 6567 INFO @ Sun, 21 Jun 2020 18:07:09: start model_add_line... INFO @ Sun, 21 Jun 2020 18:07:09: start X-correlation... INFO @ Sun, 21 Jun 2020 18:07:09: end of X-cor INFO @ Sun, 21 Jun 2020 18:07:09: #2 finished! INFO @ Sun, 21 Jun 2020 18:07:09: #2 predicted fragment length is 92 bps INFO @ Sun, 21 Jun 2020 18:07:09: #2 alternative fragment length(s) may be 92 bps INFO @ Sun, 21 Jun 2020 18:07:09: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX027833/SRX027833.05_model.r INFO @ Sun, 21 Jun 2020 18:07:09: #3 Call peaks... INFO @ Sun, 21 Jun 2020 18:07:09: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 18:07:13: 2000000 INFO @ Sun, 21 Jun 2020 18:07:18: 3000000 INFO @ Sun, 21 Jun 2020 18:07:23: 4000000 INFO @ Sun, 21 Jun 2020 18:07:25: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 18:07:29: 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 18:07:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX027833/SRX027833.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX027833/SRX027833.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX027833/SRX027833.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX027833/SRX027833.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 18:07:32: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:07:32: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:07:34: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX027833/SRX027833.05_peaks.xls INFO @ Sun, 21 Jun 2020 18:07:34: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX027833/SRX027833.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 18:07:34: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX027833/SRX027833.05_summits.bed INFO @ Sun, 21 Jun 2020 18:07:34: Done! INFO @ Sun, 21 Jun 2020 18:07:34: 6000000 pass1 - making usageList (528 chroms): 3 millis pass2 - checking and writing primary data (10817 records, 4 fields): 24 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 18:07:38: 1000000 INFO @ Sun, 21 Jun 2020 18:07:40: 7000000 INFO @ Sun, 21 Jun 2020 18:07:42: #1 tag size is determined as 36 bps INFO @ Sun, 21 Jun 2020 18:07:42: #1 tag size = 36 INFO @ Sun, 21 Jun 2020 18:07:42: #1 total tags in treatment: 7376700 INFO @ Sun, 21 Jun 2020 18:07:42: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:07:42: #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 18:07:43: #1 tags after filtering in treatment: 7376569 INFO @ Sun, 21 Jun 2020 18:07:43: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:07:43: #1 finished! INFO @ Sun, 21 Jun 2020 18:07:43: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:07:43: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:07:43: 2000000 INFO @ Sun, 21 Jun 2020 18:07:43: #2 number of paired peaks: 6567 INFO @ Sun, 21 Jun 2020 18:07:43: start model_add_line... INFO @ Sun, 21 Jun 2020 18:07:44: start X-correlation... INFO @ Sun, 21 Jun 2020 18:07:44: end of X-cor INFO @ Sun, 21 Jun 2020 18:07:44: #2 finished! INFO @ Sun, 21 Jun 2020 18:07:44: #2 predicted fragment length is 92 bps INFO @ Sun, 21 Jun 2020 18:07:44: #2 alternative fragment length(s) may be 92 bps INFO @ Sun, 21 Jun 2020 18:07:44: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX027833/SRX027833.10_model.r INFO @ Sun, 21 Jun 2020 18:07:44: #3 Call peaks... INFO @ Sun, 21 Jun 2020 18:07:44: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 18:07:48: 3000000 INFO @ Sun, 21 Jun 2020 18:07:53: 4000000 INFO @ Sun, 21 Jun 2020 18:07:58: 5000000 INFO @ Sun, 21 Jun 2020 18:08:00: #3 Call peaks for each chromosome... BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 18:08:02: 6000000 INFO @ Sun, 21 Jun 2020 18:08:07: 7000000 INFO @ Sun, 21 Jun 2020 18:08:09: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX027833/SRX027833.10_peaks.xls INFO @ Sun, 21 Jun 2020 18:08:09: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX027833/SRX027833.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 18:08:09: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX027833/SRX027833.10_summits.bed INFO @ Sun, 21 Jun 2020 18:08:09: Done! pass1 - making usageList (398 chroms): 2 millis pass2 - checking and writing primary data (8541 records, 4 fields): 19 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 18:08:10: #1 tag size is determined as 36 bps INFO @ Sun, 21 Jun 2020 18:08:10: #1 tag size = 36 INFO @ Sun, 21 Jun 2020 18:08:10: #1 total tags in treatment: 7376700 INFO @ Sun, 21 Jun 2020 18:08:10: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:08:10: #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 18:08:10: #1 tags after filtering in treatment: 7376569 INFO @ Sun, 21 Jun 2020 18:08:10: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:08:10: #1 finished! INFO @ Sun, 21 Jun 2020 18:08:10: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:08:10: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:08:11: #2 number of paired peaks: 6567 INFO @ Sun, 21 Jun 2020 18:08:11: start model_add_line... INFO @ Sun, 21 Jun 2020 18:08:11: start X-correlation... INFO @ Sun, 21 Jun 2020 18:08:11: end of X-cor INFO @ Sun, 21 Jun 2020 18:08:11: #2 finished! INFO @ Sun, 21 Jun 2020 18:08:11: #2 predicted fragment length is 92 bps INFO @ Sun, 21 Jun 2020 18:08:11: #2 alternative fragment length(s) may be 92 bps INFO @ Sun, 21 Jun 2020 18:08:11: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX027833/SRX027833.20_model.r INFO @ Sun, 21 Jun 2020 18:08:11: #3 Call peaks... INFO @ Sun, 21 Jun 2020 18:08:11: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 18:08:28: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 18:08:37: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX027833/SRX027833.20_peaks.xls INFO @ Sun, 21 Jun 2020 18:08:37: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX027833/SRX027833.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 18:08:37: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX027833/SRX027833.20_summits.bed INFO @ Sun, 21 Jun 2020 18:08:37: Done! pass1 - making usageList (169 chroms): 2 millis pass2 - checking and writing primary data (4450 records, 4 fields): 10 millis CompletedMACS2peakCalling