Job ID = 6456205 SRX = SRX330996 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T10:31:21 prefetch.2.10.7: 1) Downloading 'SRR947208'... 2020-06-21T10:31:21 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T10:31:57 prefetch.2.10.7: HTTPS download succeed 2020-06-21T10:31:57 prefetch.2.10.7: 'SRR947208' is valid 2020-06-21T10:31:57 prefetch.2.10.7: 1) 'SRR947208' was downloaded successfully Read 2138827 spots for SRR947208/SRR947208.sra Written 2138827 spots for SRR947208/SRR947208.sra 2020-06-21T10:32:13 prefetch.2.10.7: 1) Downloading 'SRR947209'... 2020-06-21T10:32:13 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T10:32:52 prefetch.2.10.7: HTTPS download succeed 2020-06-21T10:32:52 prefetch.2.10.7: 'SRR947209' is valid 2020-06-21T10:32:52 prefetch.2.10.7: 1) 'SRR947209' was downloaded successfully Read 2513683 spots for SRR947209/SRR947209.sra Written 2513683 spots for SRR947209/SRR947209.sra 2020-06-21T10:33:09 prefetch.2.10.7: 1) Downloading 'SRR947210'... 2020-06-21T10:33:09 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T10:33:47 prefetch.2.10.7: HTTPS download succeed 2020-06-21T10:33:47 prefetch.2.10.7: 'SRR947210' is valid 2020-06-21T10:33:47 prefetch.2.10.7: 1) 'SRR947210' was downloaded successfully Read 3780213 spots for SRR947210/SRR947210.sra Written 3780213 spots for SRR947210/SRR947210.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: 00:01:27 8432723 reads; of these: 8432723 (100.00%) were unpaired; of these: 3234643 (38.36%) aligned 0 times 3525203 (41.80%) aligned exactly 1 time 1672877 (19.84%) aligned >1 times 61.64% overall alignment rate Time searching: 00:01:28 Overall time: 00:01:28 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] 1347912 / 5198080 = 0.2593 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 19:36:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX330996/SRX330996.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX330996/SRX330996.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX330996/SRX330996.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX330996/SRX330996.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 19:36:59: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:36:59: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:37:03: 1000000 INFO @ Sun, 21 Jun 2020 19:37:08: 2000000 INFO @ Sun, 21 Jun 2020 19:37:12: 3000000 INFO @ Sun, 21 Jun 2020 19:37:17: #1 tag size is determined as 36 bps INFO @ Sun, 21 Jun 2020 19:37:17: #1 tag size = 36 INFO @ Sun, 21 Jun 2020 19:37:17: #1 total tags in treatment: 3850168 INFO @ Sun, 21 Jun 2020 19:37:17: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:37:17: #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 19:37:17: #1 tags after filtering in treatment: 3849964 INFO @ Sun, 21 Jun 2020 19:37:17: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:37:17: #1 finished! INFO @ Sun, 21 Jun 2020 19:37:17: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:37:17: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:37:17: #2 number of paired peaks: 4696 INFO @ Sun, 21 Jun 2020 19:37:17: start model_add_line... INFO @ Sun, 21 Jun 2020 19:37:17: start X-correlation... INFO @ Sun, 21 Jun 2020 19:37:17: end of X-cor INFO @ Sun, 21 Jun 2020 19:37:17: #2 finished! INFO @ Sun, 21 Jun 2020 19:37:17: #2 predicted fragment length is 81 bps INFO @ Sun, 21 Jun 2020 19:37:17: #2 alternative fragment length(s) may be 81 bps INFO @ Sun, 21 Jun 2020 19:37:17: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX330996/SRX330996.05_model.r INFO @ Sun, 21 Jun 2020 19:37:17: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:37:17: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 19:37:26: #3 Call peaks for each chromosome... 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 19:37:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX330996/SRX330996.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX330996/SRX330996.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX330996/SRX330996.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX330996/SRX330996.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 19:37:29: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:37:29: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:37:30: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX330996/SRX330996.05_peaks.xls INFO @ Sun, 21 Jun 2020 19:37:30: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX330996/SRX330996.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:37:30: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX330996/SRX330996.05_summits.bed INFO @ Sun, 21 Jun 2020 19:37:30: Done! pass1 - making usageList (394 chroms): 2 millis pass2 - checking and writing primary data (8559 records, 4 fields): 18 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 19:37:33: 1000000 INFO @ Sun, 21 Jun 2020 19:37:38: 2000000 INFO @ Sun, 21 Jun 2020 19:37:42: 3000000 INFO @ Sun, 21 Jun 2020 19:37:47: #1 tag size is determined as 36 bps INFO @ Sun, 21 Jun 2020 19:37:47: #1 tag size = 36 INFO @ Sun, 21 Jun 2020 19:37:47: #1 total tags in treatment: 3850168 INFO @ Sun, 21 Jun 2020 19:37:47: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:37:47: #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 19:37:47: #1 tags after filtering in treatment: 3849964 INFO @ Sun, 21 Jun 2020 19:37:47: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:37:47: #1 finished! INFO @ Sun, 21 Jun 2020 19:37:47: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:37:47: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:37:47: #2 number of paired peaks: 4696 INFO @ Sun, 21 Jun 2020 19:37:47: start model_add_line... INFO @ Sun, 21 Jun 2020 19:37:47: start X-correlation... INFO @ Sun, 21 Jun 2020 19:37:47: end of X-cor INFO @ Sun, 21 Jun 2020 19:37:47: #2 finished! INFO @ Sun, 21 Jun 2020 19:37:47: #2 predicted fragment length is 81 bps INFO @ Sun, 21 Jun 2020 19:37:47: #2 alternative fragment length(s) may be 81 bps INFO @ Sun, 21 Jun 2020 19:37:47: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX330996/SRX330996.10_model.r INFO @ Sun, 21 Jun 2020 19:37:47: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:37:47: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 19:37:56: #3 Call peaks for each chromosome... 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 19:37:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX330996/SRX330996.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX330996/SRX330996.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX330996/SRX330996.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX330996/SRX330996.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 19:37:59: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:37:59: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:38:01: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX330996/SRX330996.10_peaks.xls INFO @ Sun, 21 Jun 2020 19:38:01: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX330996/SRX330996.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:38:01: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX330996/SRX330996.10_summits.bed INFO @ Sun, 21 Jun 2020 19:38:01: Done! pass1 - making usageList (187 chroms): 3 millis pass2 - checking and writing primary data (4464 records, 4 fields): 11 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 19:38:04: 1000000 INFO @ Sun, 21 Jun 2020 19:38:09: 2000000 INFO @ Sun, 21 Jun 2020 19:38:15: 3000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 19:38:19: #1 tag size is determined as 36 bps INFO @ Sun, 21 Jun 2020 19:38:19: #1 tag size = 36 INFO @ Sun, 21 Jun 2020 19:38:19: #1 total tags in treatment: 3850168 INFO @ Sun, 21 Jun 2020 19:38:19: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:38:19: #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 19:38:20: #1 tags after filtering in treatment: 3849964 INFO @ Sun, 21 Jun 2020 19:38:20: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:38:20: #1 finished! INFO @ Sun, 21 Jun 2020 19:38:20: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:38:20: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:38:20: #2 number of paired peaks: 4696 INFO @ Sun, 21 Jun 2020 19:38:20: start model_add_line... INFO @ Sun, 21 Jun 2020 19:38:20: start X-correlation... INFO @ Sun, 21 Jun 2020 19:38:20: end of X-cor INFO @ Sun, 21 Jun 2020 19:38:20: #2 finished! INFO @ Sun, 21 Jun 2020 19:38:20: #2 predicted fragment length is 81 bps INFO @ Sun, 21 Jun 2020 19:38:20: #2 alternative fragment length(s) may be 81 bps INFO @ Sun, 21 Jun 2020 19:38:20: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX330996/SRX330996.20_model.r INFO @ Sun, 21 Jun 2020 19:38:20: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:38:20: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 19:38:30: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 19:38:34: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX330996/SRX330996.20_peaks.xls INFO @ Sun, 21 Jun 2020 19:38:34: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX330996/SRX330996.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:38:34: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX330996/SRX330996.20_summits.bed INFO @ Sun, 21 Jun 2020 19:38:34: Done! pass1 - making usageList (141 chroms): 1 millis pass2 - checking and writing primary data (1876 records, 4 fields): 6 millis CompletedMACS2peakCalling