Job ID = 6453831 SRX = SRX151959 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T08:46:47 prefetch.2.10.7: 1) Downloading 'SRR504793'... 2020-06-21T08:46:47 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T08:47:22 prefetch.2.10.7: HTTPS download succeed 2020-06-21T08:47:22 prefetch.2.10.7: 'SRR504793' is valid 2020-06-21T08:47:22 prefetch.2.10.7: 1) 'SRR504793' was downloaded successfully Read 5120395 spots for SRR504793/SRR504793.sra Written 5120395 spots for SRR504793/SRR504793.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: 00:01:08 5120395 reads; of these: 5120395 (100.00%) were unpaired; of these: 230345 (4.50%) aligned 0 times 3658808 (71.46%) aligned exactly 1 time 1231242 (24.05%) aligned >1 times 95.50% overall alignment rate Time searching: 00:01:08 Overall time: 00:01:08 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] 412314 / 4890050 = 0.0843 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 17:50:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX151959/SRX151959.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX151959/SRX151959.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX151959/SRX151959.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX151959/SRX151959.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 17:50:18: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:50:18: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:50:22: 1000000 INFO @ Sun, 21 Jun 2020 17:50:27: 2000000 INFO @ Sun, 21 Jun 2020 17:50:32: 3000000 INFO @ Sun, 21 Jun 2020 17:50:37: 4000000 INFO @ Sun, 21 Jun 2020 17:50:40: #1 tag size is determined as 30 bps INFO @ Sun, 21 Jun 2020 17:50:40: #1 tag size = 30 INFO @ Sun, 21 Jun 2020 17:50:40: #1 total tags in treatment: 4477736 INFO @ Sun, 21 Jun 2020 17:50:40: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:50:40: #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 17:50:40: #1 tags after filtering in treatment: 4477699 INFO @ Sun, 21 Jun 2020 17:50:40: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:50:40: #1 finished! INFO @ Sun, 21 Jun 2020 17:50:40: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:50:40: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:50:41: #2 number of paired peaks: 1760 INFO @ Sun, 21 Jun 2020 17:50:41: start model_add_line... INFO @ Sun, 21 Jun 2020 17:50:41: start X-correlation... INFO @ Sun, 21 Jun 2020 17:50:41: end of X-cor INFO @ Sun, 21 Jun 2020 17:50:41: #2 finished! INFO @ Sun, 21 Jun 2020 17:50:41: #2 predicted fragment length is 110 bps INFO @ Sun, 21 Jun 2020 17:50:41: #2 alternative fragment length(s) may be 110 bps INFO @ Sun, 21 Jun 2020 17:50:41: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX151959/SRX151959.05_model.r INFO @ Sun, 21 Jun 2020 17:50:41: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:50:41: #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 17:50:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX151959/SRX151959.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX151959/SRX151959.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX151959/SRX151959.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX151959/SRX151959.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 17:50:48: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:50:48: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:50:51: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 17:50:52: 1000000 INFO @ Sun, 21 Jun 2020 17:50:56: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX151959/SRX151959.05_peaks.xls INFO @ Sun, 21 Jun 2020 17:50:56: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX151959/SRX151959.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:50:56: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX151959/SRX151959.05_summits.bed INFO @ Sun, 21 Jun 2020 17:50:56: Done! pass1 - making usageList (484 chroms): 1 millis pass2 - checking and writing primary data (6090 records, 4 fields): 17 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 17:50:57: 2000000 INFO @ Sun, 21 Jun 2020 17:51:02: 3000000 INFO @ Sun, 21 Jun 2020 17:51:07: 4000000 INFO @ Sun, 21 Jun 2020 17:51:10: #1 tag size is determined as 30 bps INFO @ Sun, 21 Jun 2020 17:51:10: #1 tag size = 30 INFO @ Sun, 21 Jun 2020 17:51:10: #1 total tags in treatment: 4477736 INFO @ Sun, 21 Jun 2020 17:51:10: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:51:10: #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 17:51:10: #1 tags after filtering in treatment: 4477699 INFO @ Sun, 21 Jun 2020 17:51:10: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:51:10: #1 finished! INFO @ Sun, 21 Jun 2020 17:51:10: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:51:10: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:51:11: #2 number of paired peaks: 1760 INFO @ Sun, 21 Jun 2020 17:51:11: start model_add_line... INFO @ Sun, 21 Jun 2020 17:51:11: start X-correlation... INFO @ Sun, 21 Jun 2020 17:51:11: end of X-cor INFO @ Sun, 21 Jun 2020 17:51:11: #2 finished! INFO @ Sun, 21 Jun 2020 17:51:11: #2 predicted fragment length is 110 bps INFO @ Sun, 21 Jun 2020 17:51:11: #2 alternative fragment length(s) may be 110 bps INFO @ Sun, 21 Jun 2020 17:51:11: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX151959/SRX151959.10_model.r INFO @ Sun, 21 Jun 2020 17:51:11: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:51:11: #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 17:51:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX151959/SRX151959.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX151959/SRX151959.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX151959/SRX151959.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX151959/SRX151959.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 17:51:18: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:51:18: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:51:21: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 17:51:22: 1000000 INFO @ Sun, 21 Jun 2020 17:51:26: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX151959/SRX151959.10_peaks.xls INFO @ Sun, 21 Jun 2020 17:51:26: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX151959/SRX151959.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:51:26: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX151959/SRX151959.10_summits.bed INFO @ Sun, 21 Jun 2020 17:51:26: Done! pass1 - making usageList (253 chroms): 1 millis pass2 - checking and writing primary data (2777 records, 4 fields): 10 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 17:51:27: 2000000 INFO @ Sun, 21 Jun 2020 17:51:32: 3000000 INFO @ Sun, 21 Jun 2020 17:51:37: 4000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 17:51:40: #1 tag size is determined as 30 bps INFO @ Sun, 21 Jun 2020 17:51:40: #1 tag size = 30 INFO @ Sun, 21 Jun 2020 17:51:40: #1 total tags in treatment: 4477736 INFO @ Sun, 21 Jun 2020 17:51:40: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:51:40: #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 17:51:40: #1 tags after filtering in treatment: 4477699 INFO @ Sun, 21 Jun 2020 17:51:40: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:51:40: #1 finished! INFO @ Sun, 21 Jun 2020 17:51:40: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:51:40: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:51:41: #2 number of paired peaks: 1760 INFO @ Sun, 21 Jun 2020 17:51:41: start model_add_line... INFO @ Sun, 21 Jun 2020 17:51:41: start X-correlation... INFO @ Sun, 21 Jun 2020 17:51:41: end of X-cor INFO @ Sun, 21 Jun 2020 17:51:41: #2 finished! INFO @ Sun, 21 Jun 2020 17:51:41: #2 predicted fragment length is 110 bps INFO @ Sun, 21 Jun 2020 17:51:41: #2 alternative fragment length(s) may be 110 bps INFO @ Sun, 21 Jun 2020 17:51:41: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX151959/SRX151959.20_model.r INFO @ Sun, 21 Jun 2020 17:51:41: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:51:41: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 17:51:51: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 17:51:56: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX151959/SRX151959.20_peaks.xls INFO @ Sun, 21 Jun 2020 17:51:56: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX151959/SRX151959.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:51:56: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX151959/SRX151959.20_summits.bed INFO @ Sun, 21 Jun 2020 17:51:56: Done! pass1 - making usageList (128 chroms): 1 millis pass2 - checking and writing primary data (856 records, 4 fields): 5 millis CompletedMACS2peakCalling