Job ID = 6455205 SRX = SRX2832100 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T09:51:10 prefetch.2.10.7: 1) Downloading 'SRR5573764'... 2020-06-21T09:51:10 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T09:53:37 prefetch.2.10.7: HTTPS download succeed 2020-06-21T09:53:37 prefetch.2.10.7: 'SRR5573764' is valid 2020-06-21T09:53:37 prefetch.2.10.7: 1) 'SRR5573764' was downloaded successfully Read 9804058 spots for SRR5573764/SRR5573764.sra Written 9804058 spots for SRR5573764/SRR5573764.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: 00:02:25 9804058 reads; of these: 9804058 (100.00%) were unpaired; of these: 186396 (1.90%) aligned 0 times 7497356 (76.47%) aligned exactly 1 time 2120306 (21.63%) aligned >1 times 98.10% overall alignment rate Time searching: 00:02:25 Overall time: 00:02:25 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] 887917 / 9617662 = 0.0923 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 18:59:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX2832100/SRX2832100.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX2832100/SRX2832100.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX2832100/SRX2832100.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX2832100/SRX2832100.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 18:59:24: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:59:24: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:59:30: 1000000 INFO @ Sun, 21 Jun 2020 18:59:36: 2000000 INFO @ Sun, 21 Jun 2020 18:59:42: 3000000 INFO @ Sun, 21 Jun 2020 18:59:47: 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 18:59:53: 5000000 INFO @ Sun, 21 Jun 2020 18:59:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX2832100/SRX2832100.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX2832100/SRX2832100.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX2832100/SRX2832100.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX2832100/SRX2832100.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 18:59:54: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:59:54: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:59:59: 6000000 INFO @ Sun, 21 Jun 2020 19:00:01: 1000000 INFO @ Sun, 21 Jun 2020 19:00:06: 7000000 INFO @ Sun, 21 Jun 2020 19:00:09: 2000000 INFO @ Sun, 21 Jun 2020 19:00:13: 8000000 INFO @ Sun, 21 Jun 2020 19:00:16: 3000000 INFO @ Sun, 21 Jun 2020 19:00:18: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 19:00:18: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 19:00:18: #1 total tags in treatment: 8729745 INFO @ Sun, 21 Jun 2020 19:00:18: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:00:18: #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 19:00:18: #1 tags after filtering in treatment: 8729608 INFO @ Sun, 21 Jun 2020 19:00:18: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:00:18: #1 finished! INFO @ Sun, 21 Jun 2020 19:00:18: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:00:18: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:00:19: #2 number of paired peaks: 4497 INFO @ Sun, 21 Jun 2020 19:00:19: start model_add_line... INFO @ Sun, 21 Jun 2020 19:00:19: start X-correlation... INFO @ Sun, 21 Jun 2020 19:00:19: end of X-cor INFO @ Sun, 21 Jun 2020 19:00:19: #2 finished! INFO @ Sun, 21 Jun 2020 19:00:19: #2 predicted fragment length is 165 bps INFO @ Sun, 21 Jun 2020 19:00:19: #2 alternative fragment length(s) may be 3,165 bps INFO @ Sun, 21 Jun 2020 19:00:19: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX2832100/SRX2832100.05_model.r INFO @ Sun, 21 Jun 2020 19:00:19: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:00:19: #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 19:00:23: 4000000 INFO @ Sun, 21 Jun 2020 19:00:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX2832100/SRX2832100.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX2832100/SRX2832100.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX2832100/SRX2832100.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX2832100/SRX2832100.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 19:00:25: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:00:25: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:00:30: 5000000 INFO @ Sun, 21 Jun 2020 19:00:31: 1000000 INFO @ Sun, 21 Jun 2020 19:00:37: 6000000 INFO @ Sun, 21 Jun 2020 19:00:38: 2000000 INFO @ Sun, 21 Jun 2020 19:00:44: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 19:00:44: 7000000 INFO @ Sun, 21 Jun 2020 19:00:44: 3000000 INFO @ Sun, 21 Jun 2020 19:00:51: 4000000 INFO @ Sun, 21 Jun 2020 19:00:51: 8000000 INFO @ Sun, 21 Jun 2020 19:00:56: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX2832100/SRX2832100.05_peaks.xls INFO @ Sun, 21 Jun 2020 19:00:56: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX2832100/SRX2832100.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:00:56: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX2832100/SRX2832100.05_summits.bed INFO @ Sun, 21 Jun 2020 19:00:56: Done! INFO @ Sun, 21 Jun 2020 19:00:56: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 19:00:56: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 19:00:56: #1 total tags in treatment: 8729745 INFO @ Sun, 21 Jun 2020 19:00:56: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:00:56: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) pass1 - making usageList (219 chroms): 2 millis pass2 - checking and writing primary data (5448 records, 4 fields): 13 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 19:00:57: #1 tags after filtering in treatment: 8729608 INFO @ Sun, 21 Jun 2020 19:00:57: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:00:57: #1 finished! INFO @ Sun, 21 Jun 2020 19:00:57: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:00:57: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:00:57: 5000000 INFO @ Sun, 21 Jun 2020 19:00:58: #2 number of paired peaks: 4497 INFO @ Sun, 21 Jun 2020 19:00:58: start model_add_line... INFO @ Sun, 21 Jun 2020 19:00:58: start X-correlation... INFO @ Sun, 21 Jun 2020 19:00:58: end of X-cor INFO @ Sun, 21 Jun 2020 19:00:58: #2 finished! INFO @ Sun, 21 Jun 2020 19:00:58: #2 predicted fragment length is 165 bps INFO @ Sun, 21 Jun 2020 19:00:58: #2 alternative fragment length(s) may be 3,165 bps INFO @ Sun, 21 Jun 2020 19:00:58: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX2832100/SRX2832100.10_model.r INFO @ Sun, 21 Jun 2020 19:00:58: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:00:58: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 19:01:03: 6000000 INFO @ Sun, 21 Jun 2020 19:01:09: 7000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 19:01:16: 8000000 INFO @ Sun, 21 Jun 2020 19:01:20: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 19:01:20: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 19:01:20: #1 total tags in treatment: 8729745 INFO @ Sun, 21 Jun 2020 19:01:20: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:01:20: #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 19:01:21: #1 tags after filtering in treatment: 8729608 INFO @ Sun, 21 Jun 2020 19:01:21: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:01:21: #1 finished! INFO @ Sun, 21 Jun 2020 19:01:21: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:01:21: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:01:22: #2 number of paired peaks: 4497 INFO @ Sun, 21 Jun 2020 19:01:22: start model_add_line... INFO @ Sun, 21 Jun 2020 19:01:22: start X-correlation... INFO @ Sun, 21 Jun 2020 19:01:22: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 19:01:22: end of X-cor INFO @ Sun, 21 Jun 2020 19:01:22: #2 finished! INFO @ Sun, 21 Jun 2020 19:01:22: #2 predicted fragment length is 165 bps INFO @ Sun, 21 Jun 2020 19:01:22: #2 alternative fragment length(s) may be 3,165 bps INFO @ Sun, 21 Jun 2020 19:01:22: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX2832100/SRX2832100.20_model.r INFO @ Sun, 21 Jun 2020 19:01:22: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:01:22: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 19:01:34: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX2832100/SRX2832100.10_peaks.xls INFO @ Sun, 21 Jun 2020 19:01:34: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX2832100/SRX2832100.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:01:34: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX2832100/SRX2832100.10_summits.bed INFO @ Sun, 21 Jun 2020 19:01:34: Done! pass1 - making usageList (132 chroms): 1 millis pass2 - checking and writing primary data (2017 records, 4 fields): 7 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 19:01:45: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 19:01:56: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX2832100/SRX2832100.20_peaks.xls INFO @ Sun, 21 Jun 2020 19:01:56: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX2832100/SRX2832100.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:01:56: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX2832100/SRX2832100.20_summits.bed INFO @ Sun, 21 Jun 2020 19:01:56: Done! pass1 - making usageList (94 chroms): 1 millis pass2 - checking and writing primary data (503 records, 4 fields): 6 millis CompletedMACS2peakCalling