Job ID = 6452539 SRX = SRX016151 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T07:23:17 prefetch.2.10.7: 1) Downloading 'SRR034710'... 2020-06-21T07:23:17 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T07:24:17 prefetch.2.10.7: HTTPS download succeed 2020-06-21T07:24:17 prefetch.2.10.7: 'SRR034710' is valid 2020-06-21T07:24:17 prefetch.2.10.7: 1) 'SRR034710' was downloaded successfully Read 6403468 spots for SRR034710/SRR034710.sra Written 6403468 spots for SRR034710/SRR034710.sra 2020-06-21T07:24:43 prefetch.2.10.7: 1) Downloading 'SRR034711'... 2020-06-21T07:24:43 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T07:25:33 prefetch.2.10.7: HTTPS download succeed 2020-06-21T07:25:34 prefetch.2.10.7: 'SRR034711' is valid 2020-06-21T07:25:34 prefetch.2.10.7: 1) 'SRR034711' was downloaded successfully Read 3549680 spots for SRR034711/SRR034711.sra Written 3549680 spots for SRR034711/SRR034711.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: 00:01:47 9953148 reads; of these: 9953148 (100.00%) were unpaired; of these: 535141 (5.38%) aligned 0 times 8218902 (82.58%) aligned exactly 1 time 1199105 (12.05%) aligned >1 times 94.62% overall alignment rate Time searching: 00:01:47 Overall time: 00:01:47 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] 5532480 / 9418007 = 0.5874 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 16:29:49: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX016151/SRX016151.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX016151/SRX016151.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX016151/SRX016151.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX016151/SRX016151.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 16:29:49: #1 read tag files... INFO @ Sun, 21 Jun 2020 16:29:49: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 16:29:54: 1000000 INFO @ Sun, 21 Jun 2020 16:29:59: 2000000 INFO @ Sun, 21 Jun 2020 16:30:04: 3000000 INFO @ Sun, 21 Jun 2020 16:30:10: #1 tag size is determined as 36 bps INFO @ Sun, 21 Jun 2020 16:30:10: #1 tag size = 36 INFO @ Sun, 21 Jun 2020 16:30:10: #1 total tags in treatment: 3885527 INFO @ Sun, 21 Jun 2020 16:30:10: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 16:30:10: #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 16:30:10: #1 tags after filtering in treatment: 3885421 INFO @ Sun, 21 Jun 2020 16:30:10: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 16:30:10: #1 finished! INFO @ Sun, 21 Jun 2020 16:30:10: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 16:30:10: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 16:30:10: #2 number of paired peaks: 1492 INFO @ Sun, 21 Jun 2020 16:30:10: start model_add_line... INFO @ Sun, 21 Jun 2020 16:30:10: start X-correlation... INFO @ Sun, 21 Jun 2020 16:30:10: end of X-cor INFO @ Sun, 21 Jun 2020 16:30:10: #2 finished! INFO @ Sun, 21 Jun 2020 16:30:10: #2 predicted fragment length is 287 bps INFO @ Sun, 21 Jun 2020 16:30:10: #2 alternative fragment length(s) may be 287 bps INFO @ Sun, 21 Jun 2020 16:30:10: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX016151/SRX016151.05_model.r INFO @ Sun, 21 Jun 2020 16:30:10: #3 Call peaks... INFO @ Sun, 21 Jun 2020 16:30:10: #3 Pre-compute pvalue-qvalue table... 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 16:30:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX016151/SRX016151.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX016151/SRX016151.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX016151/SRX016151.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX016151/SRX016151.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 16:30:18: #1 read tag files... INFO @ Sun, 21 Jun 2020 16:30:18: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 16:30:20: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 16:30:24: 1000000 INFO @ Sun, 21 Jun 2020 16:30:25: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX016151/SRX016151.05_peaks.xls INFO @ Sun, 21 Jun 2020 16:30:25: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX016151/SRX016151.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 16:30:25: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX016151/SRX016151.05_summits.bed INFO @ Sun, 21 Jun 2020 16:30:25: Done! pass1 - making usageList (170 chroms): 1 millis pass2 - checking and writing primary data (3989 records, 4 fields): 9 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 16:30:30: 2000000 INFO @ Sun, 21 Jun 2020 16:30:36: 3000000 INFO @ Sun, 21 Jun 2020 16:30:42: #1 tag size is determined as 36 bps INFO @ Sun, 21 Jun 2020 16:30:42: #1 tag size = 36 INFO @ Sun, 21 Jun 2020 16:30:42: #1 total tags in treatment: 3885527 INFO @ Sun, 21 Jun 2020 16:30:42: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 16:30:42: #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 16:30:42: #1 tags after filtering in treatment: 3885421 INFO @ Sun, 21 Jun 2020 16:30:42: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 16:30:42: #1 finished! INFO @ Sun, 21 Jun 2020 16:30:42: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 16:30:42: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 16:30:42: #2 number of paired peaks: 1492 INFO @ Sun, 21 Jun 2020 16:30:42: start model_add_line... INFO @ Sun, 21 Jun 2020 16:30:42: start X-correlation... INFO @ Sun, 21 Jun 2020 16:30:42: end of X-cor INFO @ Sun, 21 Jun 2020 16:30:42: #2 finished! INFO @ Sun, 21 Jun 2020 16:30:42: #2 predicted fragment length is 287 bps INFO @ Sun, 21 Jun 2020 16:30:42: #2 alternative fragment length(s) may be 287 bps INFO @ Sun, 21 Jun 2020 16:30:42: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX016151/SRX016151.10_model.r INFO @ Sun, 21 Jun 2020 16:30:42: #3 Call peaks... INFO @ Sun, 21 Jun 2020 16:30:42: #3 Pre-compute pvalue-qvalue table... 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 16:30:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX016151/SRX016151.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX016151/SRX016151.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX016151/SRX016151.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX016151/SRX016151.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 16:30:48: #1 read tag files... INFO @ Sun, 21 Jun 2020 16:30:48: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 16:30:52: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 16:30:54: 1000000 INFO @ Sun, 21 Jun 2020 16:30:57: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX016151/SRX016151.10_peaks.xls INFO @ Sun, 21 Jun 2020 16:30:57: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX016151/SRX016151.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 16:30:57: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX016151/SRX016151.10_summits.bed INFO @ Sun, 21 Jun 2020 16:30:57: Done! pass1 - making usageList (90 chroms): 1 millis pass2 - checking and writing primary data (1831 records, 4 fields): 5 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 16:30:59: 2000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 16:31:04: 3000000 INFO @ Sun, 21 Jun 2020 16:31:09: #1 tag size is determined as 36 bps INFO @ Sun, 21 Jun 2020 16:31:09: #1 tag size = 36 INFO @ Sun, 21 Jun 2020 16:31:09: #1 total tags in treatment: 3885527 INFO @ Sun, 21 Jun 2020 16:31:09: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 16:31:09: #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 16:31:09: #1 tags after filtering in treatment: 3885421 INFO @ Sun, 21 Jun 2020 16:31:09: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 16:31:09: #1 finished! INFO @ Sun, 21 Jun 2020 16:31:09: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 16:31:09: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 16:31:10: #2 number of paired peaks: 1492 INFO @ Sun, 21 Jun 2020 16:31:10: start model_add_line... INFO @ Sun, 21 Jun 2020 16:31:10: start X-correlation... INFO @ Sun, 21 Jun 2020 16:31:10: end of X-cor INFO @ Sun, 21 Jun 2020 16:31:10: #2 finished! INFO @ Sun, 21 Jun 2020 16:31:10: #2 predicted fragment length is 287 bps INFO @ Sun, 21 Jun 2020 16:31:10: #2 alternative fragment length(s) may be 287 bps INFO @ Sun, 21 Jun 2020 16:31:10: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX016151/SRX016151.20_model.r INFO @ Sun, 21 Jun 2020 16:31:10: #3 Call peaks... INFO @ Sun, 21 Jun 2020 16:31:10: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 16:31:19: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 16:31:24: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX016151/SRX016151.20_peaks.xls INFO @ Sun, 21 Jun 2020 16:31:24: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX016151/SRX016151.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 16:31:24: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX016151/SRX016151.20_summits.bed INFO @ Sun, 21 Jun 2020 16:31:24: Done! pass1 - making usageList (58 chroms): 1 millis pass2 - checking and writing primary data (479 records, 4 fields): 5 millis CompletedMACS2peakCalling