Job ID = 6455326 SRX = SRX287695 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T09:55:40 prefetch.2.10.7: 1) Downloading 'SRR869883'... 2020-06-21T09:55:40 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T09:58:01 prefetch.2.10.7: HTTPS download succeed 2020-06-21T09:58:02 prefetch.2.10.7: 'SRR869883' is valid 2020-06-21T09:58:02 prefetch.2.10.7: 1) 'SRR869883' was downloaded successfully Read 15241323 spots for SRR869883/SRR869883.sra Written 15241323 spots for SRR869883/SRR869883.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: 00:03:36 15241323 reads; of these: 15241323 (100.00%) were unpaired; of these: 565446 (3.71%) aligned 0 times 13210251 (86.67%) aligned exactly 1 time 1465626 (9.62%) aligned >1 times 96.29% overall alignment rate Time searching: 00:03:36 Overall time: 00:03:36 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 8 files... [bam_rmdupse_core] 5426306 / 14675877 = 0.3697 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 19:06:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX287695/SRX287695.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX287695/SRX287695.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX287695/SRX287695.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX287695/SRX287695.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 19:06:17: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:06:17: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:06:23: 1000000 INFO @ Sun, 21 Jun 2020 19:06:29: 2000000 INFO @ Sun, 21 Jun 2020 19:06:35: 3000000 INFO @ Sun, 21 Jun 2020 19:06:41: 4000000 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 19:06:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX287695/SRX287695.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX287695/SRX287695.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX287695/SRX287695.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX287695/SRX287695.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 19:06:47: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:06:47: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:06:47: 5000000 INFO @ Sun, 21 Jun 2020 19:06:54: 6000000 INFO @ Sun, 21 Jun 2020 19:06:55: 1000000 INFO @ Sun, 21 Jun 2020 19:07:01: 7000000 INFO @ Sun, 21 Jun 2020 19:07:02: 2000000 INFO @ Sun, 21 Jun 2020 19:07:08: 8000000 INFO @ Sun, 21 Jun 2020 19:07:10: 3000000 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 19:07:15: 9000000 INFO @ Sun, 21 Jun 2020 19:07:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX287695/SRX287695.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX287695/SRX287695.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX287695/SRX287695.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX287695/SRX287695.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 19:07:17: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:07:17: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:07:17: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 19:07:17: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 19:07:17: #1 total tags in treatment: 9249571 INFO @ Sun, 21 Jun 2020 19:07:17: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:07:17: #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 19:07:17: #1 tags after filtering in treatment: 9249547 INFO @ Sun, 21 Jun 2020 19:07:17: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:07:17: #1 finished! INFO @ Sun, 21 Jun 2020 19:07:17: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:07:17: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:07:18: 4000000 INFO @ Sun, 21 Jun 2020 19:07:19: #2 number of paired peaks: 10364 INFO @ Sun, 21 Jun 2020 19:07:19: start model_add_line... INFO @ Sun, 21 Jun 2020 19:07:19: start X-correlation... INFO @ Sun, 21 Jun 2020 19:07:19: end of X-cor INFO @ Sun, 21 Jun 2020 19:07:19: #2 finished! INFO @ Sun, 21 Jun 2020 19:07:19: #2 predicted fragment length is 193 bps INFO @ Sun, 21 Jun 2020 19:07:19: #2 alternative fragment length(s) may be 193 bps INFO @ Sun, 21 Jun 2020 19:07:19: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX287695/SRX287695.05_model.r INFO @ Sun, 21 Jun 2020 19:07:19: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:07:19: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 19:07:24: 1000000 INFO @ Sun, 21 Jun 2020 19:07:25: 5000000 INFO @ Sun, 21 Jun 2020 19:07:32: 2000000 INFO @ Sun, 21 Jun 2020 19:07:33: 6000000 INFO @ Sun, 21 Jun 2020 19:07:40: 3000000 INFO @ Sun, 21 Jun 2020 19:07:41: 7000000 INFO @ Sun, 21 Jun 2020 19:07:46: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 19:07:47: 4000000 INFO @ Sun, 21 Jun 2020 19:07:49: 8000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 19:07:55: 5000000 INFO @ Sun, 21 Jun 2020 19:07:56: 9000000 INFO @ Sun, 21 Jun 2020 19:07:57: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX287695/SRX287695.05_peaks.xls INFO @ Sun, 21 Jun 2020 19:07:57: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX287695/SRX287695.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:07:57: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX287695/SRX287695.05_summits.bed INFO @ Sun, 21 Jun 2020 19:07:57: Done! pass1 - making usageList (409 chroms): 2 millis pass2 - checking and writing primary data (8196 records, 4 fields): 26 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 19:07:59: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 19:07:59: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 19:07:59: #1 total tags in treatment: 9249571 INFO @ Sun, 21 Jun 2020 19:07:59: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:07:59: #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 19:07:59: #1 tags after filtering in treatment: 9249547 INFO @ Sun, 21 Jun 2020 19:07:59: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:07:59: #1 finished! INFO @ Sun, 21 Jun 2020 19:07:59: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:07:59: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:08:00: #2 number of paired peaks: 10364 INFO @ Sun, 21 Jun 2020 19:08:00: start model_add_line... INFO @ Sun, 21 Jun 2020 19:08:01: start X-correlation... INFO @ Sun, 21 Jun 2020 19:08:01: end of X-cor INFO @ Sun, 21 Jun 2020 19:08:01: #2 finished! INFO @ Sun, 21 Jun 2020 19:08:01: #2 predicted fragment length is 193 bps INFO @ Sun, 21 Jun 2020 19:08:01: #2 alternative fragment length(s) may be 193 bps INFO @ Sun, 21 Jun 2020 19:08:01: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX287695/SRX287695.10_model.r INFO @ Sun, 21 Jun 2020 19:08:01: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:08:01: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 19:08:03: 6000000 BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 19:08:10: 7000000 INFO @ Sun, 21 Jun 2020 19:08:17: 8000000 INFO @ Sun, 21 Jun 2020 19:08:25: 9000000 INFO @ Sun, 21 Jun 2020 19:08:27: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 19:08:27: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 19:08:27: #1 total tags in treatment: 9249571 INFO @ Sun, 21 Jun 2020 19:08:27: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:08:27: #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 19:08:27: #1 tags after filtering in treatment: 9249547 INFO @ Sun, 21 Jun 2020 19:08:27: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:08:27: #1 finished! INFO @ Sun, 21 Jun 2020 19:08:27: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:08:27: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:08:29: #2 number of paired peaks: 10364 INFO @ Sun, 21 Jun 2020 19:08:29: start model_add_line... INFO @ Sun, 21 Jun 2020 19:08:29: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 19:08:29: start X-correlation... INFO @ Sun, 21 Jun 2020 19:08:29: end of X-cor INFO @ Sun, 21 Jun 2020 19:08:29: #2 finished! INFO @ Sun, 21 Jun 2020 19:08:29: #2 predicted fragment length is 193 bps INFO @ Sun, 21 Jun 2020 19:08:29: #2 alternative fragment length(s) may be 193 bps INFO @ Sun, 21 Jun 2020 19:08:29: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX287695/SRX287695.20_model.r INFO @ Sun, 21 Jun 2020 19:08:29: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:08:29: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 19:08:40: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX287695/SRX287695.10_peaks.xls INFO @ Sun, 21 Jun 2020 19:08:41: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX287695/SRX287695.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:08:41: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX287695/SRX287695.10_summits.bed INFO @ Sun, 21 Jun 2020 19:08:41: Done! pass1 - making usageList (271 chroms): 2 millis pass2 - checking and writing primary data (7421 records, 4 fields): 31 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 19:08:58: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 19:09:09: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX287695/SRX287695.20_peaks.xls INFO @ Sun, 21 Jun 2020 19:09:09: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX287695/SRX287695.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:09:09: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX287695/SRX287695.20_summits.bed INFO @ Sun, 21 Jun 2020 19:09:09: Done! pass1 - making usageList (114 chroms): 2 millis pass2 - checking and writing primary data (6474 records, 4 fields): 13 millis CompletedMACS2peakCalling