Job ID = 6457910 SRX = SRX485215 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T12:03:35 prefetch.2.10.7: 1) Downloading 'SRR1187973'... 2020-06-21T12:03:35 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T12:07:52 prefetch.2.10.7: HTTPS download succeed 2020-06-21T12:07:52 prefetch.2.10.7: 1) 'SRR1187973' was downloaded successfully 2020-06-21T12:07:52 prefetch.2.10.7: 'SRR1187973' has 0 unresolved dependencies Read 25979541 spots for SRR1187973/SRR1187973.sra Written 25979541 spots for SRR1187973/SRR1187973.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: 00:07:25 25979541 reads; of these: 25979541 (100.00%) were unpaired; of these: 2356774 (9.07%) aligned 0 times 14203154 (54.67%) aligned exactly 1 time 9419613 (36.26%) aligned >1 times 90.93% overall alignment rate Time searching: 00:07:26 Overall time: 00:07:26 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 12 files... [bam_rmdupse_core] 6984542 / 23622767 = 0.2957 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 21:22:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX485215/SRX485215.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX485215/SRX485215.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX485215/SRX485215.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX485215/SRX485215.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 21:22:57: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:22:57: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:23:04: 1000000 INFO @ Sun, 21 Jun 2020 21:23:11: 2000000 INFO @ Sun, 21 Jun 2020 21:23:18: 3000000 INFO @ Sun, 21 Jun 2020 21:23:25: 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 21:23:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX485215/SRX485215.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX485215/SRX485215.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX485215/SRX485215.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX485215/SRX485215.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 21:23:27: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:23:27: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:23:33: 5000000 INFO @ Sun, 21 Jun 2020 21:23:35: 1000000 INFO @ Sun, 21 Jun 2020 21:23:41: 6000000 INFO @ Sun, 21 Jun 2020 21:23:43: 2000000 INFO @ Sun, 21 Jun 2020 21:23:49: 7000000 INFO @ Sun, 21 Jun 2020 21:23:51: 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 21:23:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX485215/SRX485215.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX485215/SRX485215.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX485215/SRX485215.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX485215/SRX485215.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 21:23:57: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:23:57: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:23:57: 8000000 INFO @ Sun, 21 Jun 2020 21:23:59: 4000000 INFO @ Sun, 21 Jun 2020 21:24:05: 1000000 INFO @ Sun, 21 Jun 2020 21:24:06: 9000000 INFO @ Sun, 21 Jun 2020 21:24:07: 5000000 INFO @ Sun, 21 Jun 2020 21:24:13: 2000000 INFO @ Sun, 21 Jun 2020 21:24:14: 10000000 INFO @ Sun, 21 Jun 2020 21:24:15: 6000000 INFO @ Sun, 21 Jun 2020 21:24:21: 3000000 INFO @ Sun, 21 Jun 2020 21:24:23: 11000000 INFO @ Sun, 21 Jun 2020 21:24:23: 7000000 INFO @ Sun, 21 Jun 2020 21:24:30: 4000000 INFO @ Sun, 21 Jun 2020 21:24:31: 8000000 INFO @ Sun, 21 Jun 2020 21:24:31: 12000000 INFO @ Sun, 21 Jun 2020 21:24:37: 5000000 INFO @ Sun, 21 Jun 2020 21:24:39: 9000000 INFO @ Sun, 21 Jun 2020 21:24:40: 13000000 INFO @ Sun, 21 Jun 2020 21:24:45: 6000000 INFO @ Sun, 21 Jun 2020 21:24:47: 10000000 INFO @ Sun, 21 Jun 2020 21:24:49: 14000000 INFO @ Sun, 21 Jun 2020 21:24:53: 7000000 INFO @ Sun, 21 Jun 2020 21:24:55: 11000000 INFO @ Sun, 21 Jun 2020 21:24:57: 15000000 INFO @ Sun, 21 Jun 2020 21:25:01: 8000000 INFO @ Sun, 21 Jun 2020 21:25:03: 12000000 INFO @ Sun, 21 Jun 2020 21:25:06: 16000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 21:25:09: 9000000 INFO @ Sun, 21 Jun 2020 21:25:11: 13000000 INFO @ Sun, 21 Jun 2020 21:25:12: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 21:25:12: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 21:25:12: #1 total tags in treatment: 16638225 INFO @ Sun, 21 Jun 2020 21:25:12: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:25:12: #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 21:25:12: #1 tags after filtering in treatment: 16638208 INFO @ Sun, 21 Jun 2020 21:25:12: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:25:12: #1 finished! INFO @ Sun, 21 Jun 2020 21:25:12: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:25:12: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:25:14: #2 number of paired peaks: 2021 INFO @ Sun, 21 Jun 2020 21:25:14: start model_add_line... INFO @ Sun, 21 Jun 2020 21:25:14: start X-correlation... INFO @ Sun, 21 Jun 2020 21:25:14: end of X-cor INFO @ Sun, 21 Jun 2020 21:25:14: #2 finished! INFO @ Sun, 21 Jun 2020 21:25:14: #2 predicted fragment length is 124 bps INFO @ Sun, 21 Jun 2020 21:25:14: #2 alternative fragment length(s) may be 2,124,143 bps INFO @ Sun, 21 Jun 2020 21:25:14: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX485215/SRX485215.05_model.r INFO @ Sun, 21 Jun 2020 21:25:14: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:25:14: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:25:17: 10000000 INFO @ Sun, 21 Jun 2020 21:25:19: 14000000 INFO @ Sun, 21 Jun 2020 21:25:24: 11000000 INFO @ Sun, 21 Jun 2020 21:25:26: 15000000 INFO @ Sun, 21 Jun 2020 21:25:30: 12000000 INFO @ Sun, 21 Jun 2020 21:25:33: 16000000 INFO @ Sun, 21 Jun 2020 21:25:37: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 21:25:37: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 21:25:37: #1 total tags in treatment: 16638225 INFO @ Sun, 21 Jun 2020 21:25:37: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:25:37: #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 21:25:38: 13000000 INFO @ Sun, 21 Jun 2020 21:25:38: #1 tags after filtering in treatment: 16638208 INFO @ Sun, 21 Jun 2020 21:25:38: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:25:38: #1 finished! INFO @ Sun, 21 Jun 2020 21:25:38: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:25:38: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:25:39: #2 number of paired peaks: 2021 INFO @ Sun, 21 Jun 2020 21:25:39: start model_add_line... INFO @ Sun, 21 Jun 2020 21:25:39: start X-correlation... INFO @ Sun, 21 Jun 2020 21:25:39: end of X-cor INFO @ Sun, 21 Jun 2020 21:25:39: #2 finished! INFO @ Sun, 21 Jun 2020 21:25:39: #2 predicted fragment length is 124 bps INFO @ Sun, 21 Jun 2020 21:25:39: #2 alternative fragment length(s) may be 2,124,143 bps INFO @ Sun, 21 Jun 2020 21:25:39: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX485215/SRX485215.10_model.r INFO @ Sun, 21 Jun 2020 21:25:39: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:25:39: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 21:25:44: 14000000 INFO @ Sun, 21 Jun 2020 21:25:49: 15000000 INFO @ Sun, 21 Jun 2020 21:25:50: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:25:55: 16000000 INFO @ Sun, 21 Jun 2020 21:25:59: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 21:25:59: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 21:25:59: #1 total tags in treatment: 16638225 INFO @ Sun, 21 Jun 2020 21:25:59: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:25:59: #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 21:26:00: #1 tags after filtering in treatment: 16638208 INFO @ Sun, 21 Jun 2020 21:26:00: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:26:00: #1 finished! INFO @ Sun, 21 Jun 2020 21:26:00: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:26:00: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:26:01: #2 number of paired peaks: 2021 INFO @ Sun, 21 Jun 2020 21:26:01: start model_add_line... INFO @ Sun, 21 Jun 2020 21:26:01: start X-correlation... INFO @ Sun, 21 Jun 2020 21:26:01: end of X-cor INFO @ Sun, 21 Jun 2020 21:26:01: #2 finished! INFO @ Sun, 21 Jun 2020 21:26:01: #2 predicted fragment length is 124 bps INFO @ Sun, 21 Jun 2020 21:26:01: #2 alternative fragment length(s) may be 2,124,143 bps INFO @ Sun, 21 Jun 2020 21:26:01: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX485215/SRX485215.20_model.r INFO @ Sun, 21 Jun 2020 21:26:01: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:26:01: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:26:08: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX485215/SRX485215.05_peaks.xls INFO @ Sun, 21 Jun 2020 21:26:08: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX485215/SRX485215.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:26:08: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX485215/SRX485215.05_summits.bed INFO @ Sun, 21 Jun 2020 21:26:08: Done! pass1 - making usageList (814 chroms): 2 millis pass2 - checking and writing primary data (5128 records, 4 fields): 25 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 21:26:15: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:26:32: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX485215/SRX485215.10_peaks.xls INFO @ Sun, 21 Jun 2020 21:26:32: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX485215/SRX485215.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:26:32: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX485215/SRX485215.10_summits.bed INFO @ Sun, 21 Jun 2020 21:26:32: Done! pass1 - making usageList (612 chroms): 1 millis pass2 - checking and writing primary data (2525 records, 4 fields): 18 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 21:26:36: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:26:53: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX485215/SRX485215.20_peaks.xls INFO @ Sun, 21 Jun 2020 21:26:53: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX485215/SRX485215.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:26:53: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX485215/SRX485215.20_summits.bed INFO @ Sun, 21 Jun 2020 21:26:53: Done! pass1 - making usageList (454 chroms): 2 millis pass2 - checking and writing primary data (1395 records, 4 fields): 13 millis CompletedMACS2peakCalling