Job ID = 6454246 SRX = SRX193322 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T08:56:04 prefetch.2.10.7: 1) Downloading 'SRR585055'... 2020-06-21T08:56:04 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T09:01:27 prefetch.2.10.7: HTTPS download succeed 2020-06-21T09:01:27 prefetch.2.10.7: 1) 'SRR585055' was downloaded successfully Read 41858082 spots for SRR585055/SRR585055.sra Written 41858082 spots for SRR585055/SRR585055.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: 00:10:02 41858082 reads; of these: 41858082 (100.00%) were unpaired; of these: 1444870 (3.45%) aligned 0 times 33957147 (81.12%) aligned exactly 1 time 6456065 (15.42%) aligned >1 times 96.55% overall alignment rate Time searching: 00:10:02 Overall time: 00:10:02 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 20 files... [bam_rmdupse_core] 11353580 / 40413212 = 0.2809 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 18:22:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX193322/SRX193322.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX193322/SRX193322.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX193322/SRX193322.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX193322/SRX193322.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 18:22:30: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:22:30: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:22:35: 1000000 INFO @ Sun, 21 Jun 2020 18:22:39: 2000000 INFO @ Sun, 21 Jun 2020 18:22:44: 3000000 INFO @ Sun, 21 Jun 2020 18:22:49: 4000000 INFO @ Sun, 21 Jun 2020 18:22:54: 5000000 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 18:22:58: 6000000 INFO @ Sun, 21 Jun 2020 18:23:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX193322/SRX193322.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX193322/SRX193322.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX193322/SRX193322.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX193322/SRX193322.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 18:23:00: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:23:00: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:23:03: 7000000 INFO @ Sun, 21 Jun 2020 18:23:05: 1000000 INFO @ Sun, 21 Jun 2020 18:23:08: 8000000 INFO @ Sun, 21 Jun 2020 18:23:10: 2000000 INFO @ Sun, 21 Jun 2020 18:23:13: 9000000 INFO @ Sun, 21 Jun 2020 18:23:14: 3000000 INFO @ Sun, 21 Jun 2020 18:23:17: 10000000 INFO @ Sun, 21 Jun 2020 18:23:19: 4000000 INFO @ Sun, 21 Jun 2020 18:23:22: 11000000 INFO @ Sun, 21 Jun 2020 18:23:24: 5000000 INFO @ Sun, 21 Jun 2020 18:23:27: 12000000 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 18:23:29: 6000000 INFO @ Sun, 21 Jun 2020 18:23:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX193322/SRX193322.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX193322/SRX193322.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX193322/SRX193322.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX193322/SRX193322.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 18:23:30: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:23:30: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:23:31: 13000000 INFO @ Sun, 21 Jun 2020 18:23:33: 7000000 INFO @ Sun, 21 Jun 2020 18:23:35: 1000000 INFO @ Sun, 21 Jun 2020 18:23:36: 14000000 INFO @ Sun, 21 Jun 2020 18:23:38: 8000000 INFO @ Sun, 21 Jun 2020 18:23:40: 2000000 INFO @ Sun, 21 Jun 2020 18:23:41: 15000000 INFO @ Sun, 21 Jun 2020 18:23:43: 9000000 INFO @ Sun, 21 Jun 2020 18:23:44: 3000000 INFO @ Sun, 21 Jun 2020 18:23:45: 16000000 INFO @ Sun, 21 Jun 2020 18:23:48: 10000000 INFO @ Sun, 21 Jun 2020 18:23:49: 4000000 INFO @ Sun, 21 Jun 2020 18:23:50: 17000000 INFO @ Sun, 21 Jun 2020 18:23:53: 11000000 INFO @ Sun, 21 Jun 2020 18:23:54: 5000000 INFO @ Sun, 21 Jun 2020 18:23:55: 18000000 INFO @ Sun, 21 Jun 2020 18:23:57: 12000000 INFO @ Sun, 21 Jun 2020 18:23:59: 6000000 INFO @ Sun, 21 Jun 2020 18:24:00: 19000000 INFO @ Sun, 21 Jun 2020 18:24:02: 13000000 INFO @ Sun, 21 Jun 2020 18:24:04: 7000000 INFO @ Sun, 21 Jun 2020 18:24:04: 20000000 INFO @ Sun, 21 Jun 2020 18:24:07: 14000000 INFO @ Sun, 21 Jun 2020 18:24:08: 8000000 INFO @ Sun, 21 Jun 2020 18:24:09: 21000000 INFO @ Sun, 21 Jun 2020 18:24:11: 15000000 INFO @ Sun, 21 Jun 2020 18:24:13: 9000000 INFO @ Sun, 21 Jun 2020 18:24:14: 22000000 INFO @ Sun, 21 Jun 2020 18:24:16: 16000000 INFO @ Sun, 21 Jun 2020 18:24:18: 10000000 INFO @ Sun, 21 Jun 2020 18:24:19: 23000000 INFO @ Sun, 21 Jun 2020 18:24:21: 17000000 INFO @ Sun, 21 Jun 2020 18:24:23: 11000000 INFO @ Sun, 21 Jun 2020 18:24:24: 24000000 INFO @ Sun, 21 Jun 2020 18:24:25: 18000000 INFO @ Sun, 21 Jun 2020 18:24:27: 12000000 INFO @ Sun, 21 Jun 2020 18:24:29: 25000000 INFO @ Sun, 21 Jun 2020 18:24:30: 19000000 INFO @ Sun, 21 Jun 2020 18:24:32: 13000000 INFO @ Sun, 21 Jun 2020 18:24:34: 26000000 INFO @ Sun, 21 Jun 2020 18:24:35: 20000000 INFO @ Sun, 21 Jun 2020 18:24:37: 14000000 INFO @ Sun, 21 Jun 2020 18:24:39: 27000000 INFO @ Sun, 21 Jun 2020 18:24:40: 21000000 INFO @ Sun, 21 Jun 2020 18:24:42: 15000000 INFO @ Sun, 21 Jun 2020 18:24:44: 28000000 INFO @ Sun, 21 Jun 2020 18:24:45: 22000000 INFO @ Sun, 21 Jun 2020 18:24:46: 16000000 INFO @ Sun, 21 Jun 2020 18:24:49: 29000000 INFO @ Sun, 21 Jun 2020 18:24:49: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 18:24:49: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 18:24:49: #1 total tags in treatment: 29059632 INFO @ Sun, 21 Jun 2020 18:24:49: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:24:49: #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 18:24:50: 23000000 INFO @ Sun, 21 Jun 2020 18:24:50: #1 tags after filtering in treatment: 29059478 INFO @ Sun, 21 Jun 2020 18:24:50: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:24:50: #1 finished! INFO @ Sun, 21 Jun 2020 18:24:50: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:24:50: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:24:51: 17000000 INFO @ Sun, 21 Jun 2020 18:24:52: #2 number of paired peaks: 2322 INFO @ Sun, 21 Jun 2020 18:24:52: start model_add_line... INFO @ Sun, 21 Jun 2020 18:24:52: start X-correlation... INFO @ Sun, 21 Jun 2020 18:24:52: end of X-cor INFO @ Sun, 21 Jun 2020 18:24:52: #2 finished! INFO @ Sun, 21 Jun 2020 18:24:52: #2 predicted fragment length is 117 bps INFO @ Sun, 21 Jun 2020 18:24:52: #2 alternative fragment length(s) may be 2,117 bps INFO @ Sun, 21 Jun 2020 18:24:52: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX193322/SRX193322.05_model.r INFO @ Sun, 21 Jun 2020 18:24:52: #3 Call peaks... INFO @ Sun, 21 Jun 2020 18:24:52: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 18:24:54: 24000000 INFO @ Sun, 21 Jun 2020 18:24:56: 18000000 INFO @ Sun, 21 Jun 2020 18:25:00: 25000000 INFO @ Sun, 21 Jun 2020 18:25:00: 19000000 INFO @ Sun, 21 Jun 2020 18:25:05: 26000000 INFO @ Sun, 21 Jun 2020 18:25:05: 20000000 INFO @ Sun, 21 Jun 2020 18:25:09: 27000000 INFO @ Sun, 21 Jun 2020 18:25:10: 21000000 INFO @ Sun, 21 Jun 2020 18:25:14: 28000000 INFO @ Sun, 21 Jun 2020 18:25:15: 22000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 18:25:19: 29000000 INFO @ Sun, 21 Jun 2020 18:25:20: 23000000 INFO @ Sun, 21 Jun 2020 18:25:20: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 18:25:20: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 18:25:20: #1 total tags in treatment: 29059632 INFO @ Sun, 21 Jun 2020 18:25:20: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:25:20: #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 18:25:20: #1 tags after filtering in treatment: 29059478 INFO @ Sun, 21 Jun 2020 18:25:20: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:25:20: #1 finished! INFO @ Sun, 21 Jun 2020 18:25:20: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:25:20: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:25:22: #2 number of paired peaks: 2322 INFO @ Sun, 21 Jun 2020 18:25:22: start model_add_line... INFO @ Sun, 21 Jun 2020 18:25:23: start X-correlation... INFO @ Sun, 21 Jun 2020 18:25:23: end of X-cor INFO @ Sun, 21 Jun 2020 18:25:23: #2 finished! INFO @ Sun, 21 Jun 2020 18:25:23: #2 predicted fragment length is 117 bps INFO @ Sun, 21 Jun 2020 18:25:23: #2 alternative fragment length(s) may be 2,117 bps INFO @ Sun, 21 Jun 2020 18:25:23: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX193322/SRX193322.10_model.r INFO @ Sun, 21 Jun 2020 18:25:23: #3 Call peaks... INFO @ Sun, 21 Jun 2020 18:25:23: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 18:25:25: 24000000 INFO @ Sun, 21 Jun 2020 18:25:30: 25000000 INFO @ Sun, 21 Jun 2020 18:25:34: 26000000 INFO @ Sun, 21 Jun 2020 18:25:39: 27000000 INFO @ Sun, 21 Jun 2020 18:25:44: 28000000 INFO @ Sun, 21 Jun 2020 18:25:49: 29000000 INFO @ Sun, 21 Jun 2020 18:25:49: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 18:25:49: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 18:25:49: #1 total tags in treatment: 29059632 INFO @ Sun, 21 Jun 2020 18:25:49: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:25:49: #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 18:25:50: #1 tags after filtering in treatment: 29059478 INFO @ Sun, 21 Jun 2020 18:25:50: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:25:50: #1 finished! INFO @ Sun, 21 Jun 2020 18:25:50: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:25:50: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:25:50: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 18:25:52: #2 number of paired peaks: 2322 INFO @ Sun, 21 Jun 2020 18:25:52: start model_add_line... INFO @ Sun, 21 Jun 2020 18:25:52: start X-correlation... INFO @ Sun, 21 Jun 2020 18:25:52: end of X-cor INFO @ Sun, 21 Jun 2020 18:25:52: #2 finished! INFO @ Sun, 21 Jun 2020 18:25:52: #2 predicted fragment length is 117 bps INFO @ Sun, 21 Jun 2020 18:25:52: #2 alternative fragment length(s) may be 2,117 bps INFO @ Sun, 21 Jun 2020 18:25:52: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX193322/SRX193322.20_model.r INFO @ Sun, 21 Jun 2020 18:25:52: #3 Call peaks... INFO @ Sun, 21 Jun 2020 18:25:52: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 18:26:17: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX193322/SRX193322.05_peaks.xls INFO @ Sun, 21 Jun 2020 18:26:18: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX193322/SRX193322.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 18:26:18: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX193322/SRX193322.05_summits.bed INFO @ Sun, 21 Jun 2020 18:26:18: Done! pass1 - making usageList (165 chroms): 3 millis pass2 - checking and writing primary data (19687 records, 4 fields): 22 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 18:26:20: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 18:26:48: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX193322/SRX193322.10_peaks.xls INFO @ Sun, 21 Jun 2020 18:26:48: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX193322/SRX193322.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 18:26:48: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX193322/SRX193322.10_summits.bed INFO @ Sun, 21 Jun 2020 18:26:48: Done! pass1 - making usageList (135 chroms): 2 millis pass2 - checking and writing primary data (10992 records, 4 fields): 14 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 18:26:50: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 18:27:18: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX193322/SRX193322.20_peaks.xls INFO @ Sun, 21 Jun 2020 18:27:18: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX193322/SRX193322.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 18:27:18: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX193322/SRX193322.20_summits.bed INFO @ Sun, 21 Jun 2020 18:27:18: Done! pass1 - making usageList (113 chroms): 1 millis pass2 - checking and writing primary data (3454 records, 4 fields): 6 millis CompletedMACS2peakCalling