Job ID = 6452616 SRX = SRX018630 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T07:55:45 prefetch.2.10.7: 1) Downloading 'SRR039096'... 2020-06-21T07:55:45 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T07:57:04 prefetch.2.10.7: HTTPS download succeed 2020-06-21T07:57:04 prefetch.2.10.7: 'SRR039096' is valid 2020-06-21T07:57:04 prefetch.2.10.7: 1) 'SRR039096' was downloaded successfully Read 5452372 spots for SRR039096/SRR039096.sra Written 5452372 spots for SRR039096/SRR039096.sra 2020-06-21T07:57:29 prefetch.2.10.7: 1) Downloading 'SRR039097'... 2020-06-21T07:57:29 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T07:58:21 prefetch.2.10.7: HTTPS download succeed 2020-06-21T07:58:21 prefetch.2.10.7: 'SRR039097' is valid 2020-06-21T07:58:21 prefetch.2.10.7: 1) 'SRR039097' was downloaded successfully Read 5930026 spots for SRR039097/SRR039097.sra Written 5930026 spots for SRR039097/SRR039097.sra 2020-06-21T07:58:48 prefetch.2.10.7: 1) Downloading 'SRR039098'... 2020-06-21T07:58:48 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T07:59:39 prefetch.2.10.7: HTTPS download succeed 2020-06-21T07:59:39 prefetch.2.10.7: 'SRR039098' is valid 2020-06-21T07:59:39 prefetch.2.10.7: 1) 'SRR039098' was downloaded successfully Read 4742892 spots for SRR039098/SRR039098.sra Written 4742892 spots for SRR039098/SRR039098.sra fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:01 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:02:46 16125290 reads; of these: 16125290 (100.00%) were unpaired; of these: 5712290 (35.42%) aligned 0 times 7197305 (44.63%) aligned exactly 1 time 3215695 (19.94%) aligned >1 times 64.58% overall alignment rate Time searching: 00:02:47 Overall time: 00:02:47 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] 951428 / 10413000 = 0.0914 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 17:05:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX018630/SRX018630.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX018630/SRX018630.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX018630/SRX018630.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX018630/SRX018630.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 17:05:58: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:05:58: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:06:03: 1000000 INFO @ Sun, 21 Jun 2020 17:06:08: 2000000 INFO @ Sun, 21 Jun 2020 17:06:13: 3000000 INFO @ Sun, 21 Jun 2020 17:06:19: 4000000 INFO @ Sun, 21 Jun 2020 17:06:24: 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 17:06:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX018630/SRX018630.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX018630/SRX018630.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX018630/SRX018630.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX018630/SRX018630.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 17:06:28: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:06:28: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:06:29: 6000000 INFO @ Sun, 21 Jun 2020 17:06:33: 1000000 INFO @ Sun, 21 Jun 2020 17:06:35: 7000000 INFO @ Sun, 21 Jun 2020 17:06:39: 2000000 INFO @ Sun, 21 Jun 2020 17:06:40: 8000000 INFO @ Sun, 21 Jun 2020 17:06:44: 3000000 INFO @ Sun, 21 Jun 2020 17:06:46: 9000000 INFO @ Sun, 21 Jun 2020 17:06:49: #1 tag size is determined as 39 bps INFO @ Sun, 21 Jun 2020 17:06:49: #1 tag size = 39 INFO @ Sun, 21 Jun 2020 17:06:49: #1 total tags in treatment: 9461572 INFO @ Sun, 21 Jun 2020 17:06:49: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:06:49: #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 17:06:49: #1 tags after filtering in treatment: 9461476 INFO @ Sun, 21 Jun 2020 17:06:49: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:06:49: #1 finished! INFO @ Sun, 21 Jun 2020 17:06:49: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:06:49: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:06:50: 4000000 INFO @ Sun, 21 Jun 2020 17:06:50: #2 number of paired peaks: 1206 INFO @ Sun, 21 Jun 2020 17:06:50: start model_add_line... INFO @ Sun, 21 Jun 2020 17:06:50: start X-correlation... INFO @ Sun, 21 Jun 2020 17:06:50: end of X-cor INFO @ Sun, 21 Jun 2020 17:06:50: #2 finished! INFO @ Sun, 21 Jun 2020 17:06:50: #2 predicted fragment length is 98 bps INFO @ Sun, 21 Jun 2020 17:06:50: #2 alternative fragment length(s) may be 4,98 bps INFO @ Sun, 21 Jun 2020 17:06:50: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX018630/SRX018630.05_model.r INFO @ Sun, 21 Jun 2020 17:06:50: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:06:50: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 17:06:55: 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 17:06:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX018630/SRX018630.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX018630/SRX018630.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX018630/SRX018630.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX018630/SRX018630.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 17:06:58: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:06:58: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:07:00: 6000000 INFO @ Sun, 21 Jun 2020 17:07:03: 1000000 INFO @ Sun, 21 Jun 2020 17:07:06: 7000000 INFO @ Sun, 21 Jun 2020 17:07:09: 2000000 INFO @ Sun, 21 Jun 2020 17:07:12: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 17:07:12: 8000000 INFO @ Sun, 21 Jun 2020 17:07:15: 3000000 INFO @ Sun, 21 Jun 2020 17:07:17: 9000000 INFO @ Sun, 21 Jun 2020 17:07:20: 4000000 INFO @ Sun, 21 Jun 2020 17:07:20: #1 tag size is determined as 39 bps INFO @ Sun, 21 Jun 2020 17:07:20: #1 tag size = 39 INFO @ Sun, 21 Jun 2020 17:07:20: #1 total tags in treatment: 9461572 INFO @ Sun, 21 Jun 2020 17:07:20: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:07:20: #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 17:07:21: #1 tags after filtering in treatment: 9461476 INFO @ Sun, 21 Jun 2020 17:07:21: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:07:21: #1 finished! INFO @ Sun, 21 Jun 2020 17:07:21: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:07:21: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:07:21: #2 number of paired peaks: 1206 INFO @ Sun, 21 Jun 2020 17:07:21: start model_add_line... INFO @ Sun, 21 Jun 2020 17:07:22: start X-correlation... INFO @ Sun, 21 Jun 2020 17:07:22: end of X-cor INFO @ Sun, 21 Jun 2020 17:07:22: #2 finished! INFO @ Sun, 21 Jun 2020 17:07:22: #2 predicted fragment length is 98 bps INFO @ Sun, 21 Jun 2020 17:07:22: #2 alternative fragment length(s) may be 4,98 bps INFO @ Sun, 21 Jun 2020 17:07:22: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX018630/SRX018630.10_model.r INFO @ Sun, 21 Jun 2020 17:07:22: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:07:22: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 17:07:22: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX018630/SRX018630.05_peaks.xls INFO @ Sun, 21 Jun 2020 17:07:22: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX018630/SRX018630.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:07:22: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX018630/SRX018630.05_summits.bed INFO @ Sun, 21 Jun 2020 17:07:23: Done! pass1 - making usageList (623 chroms): 1 millis pass2 - checking and writing primary data (2986 records, 4 fields): 21 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 17:07:25: 5000000 INFO @ Sun, 21 Jun 2020 17:07:31: 6000000 INFO @ Sun, 21 Jun 2020 17:07:36: 7000000 INFO @ Sun, 21 Jun 2020 17:07:42: 8000000 INFO @ Sun, 21 Jun 2020 17:07:44: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 17:07:47: 9000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 17:07:50: #1 tag size is determined as 39 bps INFO @ Sun, 21 Jun 2020 17:07:50: #1 tag size = 39 INFO @ Sun, 21 Jun 2020 17:07:50: #1 total tags in treatment: 9461572 INFO @ Sun, 21 Jun 2020 17:07:50: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:07:50: #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 17:07:50: #1 tags after filtering in treatment: 9461476 INFO @ Sun, 21 Jun 2020 17:07:50: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:07:50: #1 finished! INFO @ Sun, 21 Jun 2020 17:07:50: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:07:50: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:07:51: #2 number of paired peaks: 1206 INFO @ Sun, 21 Jun 2020 17:07:51: start model_add_line... INFO @ Sun, 21 Jun 2020 17:07:51: start X-correlation... INFO @ Sun, 21 Jun 2020 17:07:51: end of X-cor INFO @ Sun, 21 Jun 2020 17:07:51: #2 finished! INFO @ Sun, 21 Jun 2020 17:07:51: #2 predicted fragment length is 98 bps INFO @ Sun, 21 Jun 2020 17:07:51: #2 alternative fragment length(s) may be 4,98 bps INFO @ Sun, 21 Jun 2020 17:07:51: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX018630/SRX018630.20_model.r INFO @ Sun, 21 Jun 2020 17:07:51: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:07:51: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 17:07:55: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX018630/SRX018630.10_peaks.xls INFO @ Sun, 21 Jun 2020 17:07:55: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX018630/SRX018630.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:07:55: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX018630/SRX018630.10_summits.bed INFO @ Sun, 21 Jun 2020 17:07:55: Done! pass1 - making usageList (432 chroms): 1 millis pass2 - checking and writing primary data (1348 records, 4 fields): 12 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 17:08:12: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 17:08:23: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX018630/SRX018630.20_peaks.xls INFO @ Sun, 21 Jun 2020 17:08:23: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX018630/SRX018630.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:08:23: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX018630/SRX018630.20_summits.bed INFO @ Sun, 21 Jun 2020 17:08:23: Done! pass1 - making usageList (173 chroms): 1 millis pass2 - checking and writing primary data (509 records, 4 fields): 8 millis CompletedMACS2peakCalling