Job ID = 6453691 SRX = SRX1361360 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T08:38:09 prefetch.2.10.7: 1) Downloading 'SRR2749798'... 2020-06-21T08:38:09 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T08:48:07 prefetch.2.10.7: HTTPS download succeed 2020-06-21T08:48:07 prefetch.2.10.7: 1) 'SRR2749798' was downloaded successfully Read 55092790 spots for SRR2749798/SRR2749798.sra Written 55092790 spots for SRR2749798/SRR2749798.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: 00:13:48 55092790 reads; of these: 55092790 (100.00%) were unpaired; of these: 2684615 (4.87%) aligned 0 times 39546482 (71.78%) aligned exactly 1 time 12861693 (23.35%) aligned >1 times 95.13% overall alignment rate Time searching: 00:13:48 Overall time: 00:13:48 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 24 files... [bam_rmdupse_core] 25635657 / 52408175 = 0.4892 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 18:15:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX1361360/SRX1361360.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX1361360/SRX1361360.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX1361360/SRX1361360.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX1361360/SRX1361360.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 18:15:48: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:15:48: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:15:53: 1000000 INFO @ Sun, 21 Jun 2020 18:15:58: 2000000 INFO @ Sun, 21 Jun 2020 18:16:02: 3000000 INFO @ Sun, 21 Jun 2020 18:16:07: 4000000 INFO @ Sun, 21 Jun 2020 18:16:12: 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 18:16:17: 6000000 INFO @ Sun, 21 Jun 2020 18:16:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX1361360/SRX1361360.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX1361360/SRX1361360.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX1361360/SRX1361360.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX1361360/SRX1361360.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 18:16:18: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:16:18: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:16:22: 7000000 INFO @ Sun, 21 Jun 2020 18:16:24: 1000000 INFO @ Sun, 21 Jun 2020 18:16:28: 8000000 INFO @ Sun, 21 Jun 2020 18:16:30: 2000000 INFO @ Sun, 21 Jun 2020 18:16:33: 9000000 INFO @ Sun, 21 Jun 2020 18:16:36: 3000000 INFO @ Sun, 21 Jun 2020 18:16:38: 10000000 INFO @ Sun, 21 Jun 2020 18:16:41: 4000000 INFO @ Sun, 21 Jun 2020 18:16:43: 11000000 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 18:16:47: 5000000 INFO @ Sun, 21 Jun 2020 18:16:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX1361360/SRX1361360.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX1361360/SRX1361360.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX1361360/SRX1361360.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX1361360/SRX1361360.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 18:16:48: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:16:48: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:16:48: 12000000 INFO @ Sun, 21 Jun 2020 18:16:53: 13000000 INFO @ Sun, 21 Jun 2020 18:16:54: 6000000 INFO @ Sun, 21 Jun 2020 18:16:54: 1000000 INFO @ Sun, 21 Jun 2020 18:16:59: 14000000 INFO @ Sun, 21 Jun 2020 18:17:00: 7000000 INFO @ Sun, 21 Jun 2020 18:17:00: 2000000 INFO @ Sun, 21 Jun 2020 18:17:04: 15000000 INFO @ Sun, 21 Jun 2020 18:17:05: 8000000 INFO @ Sun, 21 Jun 2020 18:17:06: 3000000 INFO @ Sun, 21 Jun 2020 18:17:09: 16000000 INFO @ Sun, 21 Jun 2020 18:17:11: 9000000 INFO @ Sun, 21 Jun 2020 18:17:12: 4000000 INFO @ Sun, 21 Jun 2020 18:17:14: 17000000 INFO @ Sun, 21 Jun 2020 18:17:17: 10000000 INFO @ Sun, 21 Jun 2020 18:17:18: 5000000 INFO @ Sun, 21 Jun 2020 18:17:20: 18000000 INFO @ Sun, 21 Jun 2020 18:17:23: 11000000 INFO @ Sun, 21 Jun 2020 18:17:24: 6000000 INFO @ Sun, 21 Jun 2020 18:17:25: 19000000 INFO @ Sun, 21 Jun 2020 18:17:29: 12000000 INFO @ Sun, 21 Jun 2020 18:17:30: 7000000 INFO @ Sun, 21 Jun 2020 18:17:30: 20000000 INFO @ Sun, 21 Jun 2020 18:17:35: 13000000 INFO @ Sun, 21 Jun 2020 18:17:36: 8000000 INFO @ Sun, 21 Jun 2020 18:17:36: 21000000 INFO @ Sun, 21 Jun 2020 18:17:41: 22000000 INFO @ Sun, 21 Jun 2020 18:17:42: 9000000 INFO @ Sun, 21 Jun 2020 18:17:42: 14000000 INFO @ Sun, 21 Jun 2020 18:17:46: 23000000 INFO @ Sun, 21 Jun 2020 18:17:48: 10000000 INFO @ Sun, 21 Jun 2020 18:17:48: 15000000 INFO @ Sun, 21 Jun 2020 18:17:52: 24000000 INFO @ Sun, 21 Jun 2020 18:17:53: 11000000 INFO @ Sun, 21 Jun 2020 18:17:54: 16000000 INFO @ Sun, 21 Jun 2020 18:17:57: 25000000 INFO @ Sun, 21 Jun 2020 18:17:59: 12000000 INFO @ Sun, 21 Jun 2020 18:18:00: 17000000 INFO @ Sun, 21 Jun 2020 18:18:02: 26000000 INFO @ Sun, 21 Jun 2020 18:18:06: 13000000 INFO @ Sun, 21 Jun 2020 18:18:07: 18000000 INFO @ Sun, 21 Jun 2020 18:18:07: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 18:18:07: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 18:18:07: #1 total tags in treatment: 26772518 INFO @ Sun, 21 Jun 2020 18:18:07: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:18:07: #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 18:18:08: #1 tags after filtering in treatment: 26772471 INFO @ Sun, 21 Jun 2020 18:18:08: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:18:08: #1 finished! INFO @ Sun, 21 Jun 2020 18:18:08: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:18:08: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:18:09: #2 number of paired peaks: 1491 INFO @ Sun, 21 Jun 2020 18:18:09: start model_add_line... INFO @ Sun, 21 Jun 2020 18:18:10: start X-correlation... INFO @ Sun, 21 Jun 2020 18:18:10: end of X-cor INFO @ Sun, 21 Jun 2020 18:18:10: #2 finished! INFO @ Sun, 21 Jun 2020 18:18:10: #2 predicted fragment length is 228 bps INFO @ Sun, 21 Jun 2020 18:18:10: #2 alternative fragment length(s) may be 228 bps INFO @ Sun, 21 Jun 2020 18:18:10: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX1361360/SRX1361360.05_model.r INFO @ Sun, 21 Jun 2020 18:18:10: #3 Call peaks... INFO @ Sun, 21 Jun 2020 18:18:10: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 18:18:12: 14000000 INFO @ Sun, 21 Jun 2020 18:18:13: 19000000 INFO @ Sun, 21 Jun 2020 18:18:18: 15000000 INFO @ Sun, 21 Jun 2020 18:18:19: 20000000 INFO @ Sun, 21 Jun 2020 18:18:24: 16000000 INFO @ Sun, 21 Jun 2020 18:18:26: 21000000 INFO @ Sun, 21 Jun 2020 18:18:30: 17000000 INFO @ Sun, 21 Jun 2020 18:18:32: 22000000 INFO @ Sun, 21 Jun 2020 18:18:36: 18000000 INFO @ Sun, 21 Jun 2020 18:18:38: 23000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 18:18:42: 19000000 INFO @ Sun, 21 Jun 2020 18:18:44: 24000000 INFO @ Sun, 21 Jun 2020 18:18:48: 20000000 INFO @ Sun, 21 Jun 2020 18:18:50: 25000000 INFO @ Sun, 21 Jun 2020 18:18:54: 21000000 INFO @ Sun, 21 Jun 2020 18:18:56: 26000000 INFO @ Sun, 21 Jun 2020 18:19:00: 22000000 INFO @ Sun, 21 Jun 2020 18:19:01: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 18:19:01: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 18:19:01: #1 total tags in treatment: 26772518 INFO @ Sun, 21 Jun 2020 18:19:01: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:19:01: #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 18:19:02: #1 tags after filtering in treatment: 26772471 INFO @ Sun, 21 Jun 2020 18:19:02: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:19:02: #1 finished! INFO @ Sun, 21 Jun 2020 18:19:02: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:19:02: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:19:04: #2 number of paired peaks: 1491 INFO @ Sun, 21 Jun 2020 18:19:04: start model_add_line... INFO @ Sun, 21 Jun 2020 18:19:04: start X-correlation... INFO @ Sun, 21 Jun 2020 18:19:04: end of X-cor INFO @ Sun, 21 Jun 2020 18:19:04: #2 finished! INFO @ Sun, 21 Jun 2020 18:19:04: #2 predicted fragment length is 228 bps INFO @ Sun, 21 Jun 2020 18:19:04: #2 alternative fragment length(s) may be 228 bps INFO @ Sun, 21 Jun 2020 18:19:04: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX1361360/SRX1361360.10_model.r INFO @ Sun, 21 Jun 2020 18:19:04: #3 Call peaks... INFO @ Sun, 21 Jun 2020 18:19:04: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 18:19:06: 23000000 INFO @ Sun, 21 Jun 2020 18:19:12: 24000000 INFO @ Sun, 21 Jun 2020 18:19:12: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 18:19:18: 25000000 INFO @ Sun, 21 Jun 2020 18:19:23: 26000000 INFO @ Sun, 21 Jun 2020 18:19:28: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 18:19:28: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 18:19:28: #1 total tags in treatment: 26772518 INFO @ Sun, 21 Jun 2020 18:19:28: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:19:28: #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 18:19:29: #1 tags after filtering in treatment: 26772471 INFO @ Sun, 21 Jun 2020 18:19:29: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:19:29: #1 finished! INFO @ Sun, 21 Jun 2020 18:19:29: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:19:29: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:19:31: #2 number of paired peaks: 1491 INFO @ Sun, 21 Jun 2020 18:19:31: start model_add_line... INFO @ Sun, 21 Jun 2020 18:19:31: start X-correlation... INFO @ Sun, 21 Jun 2020 18:19:31: end of X-cor INFO @ Sun, 21 Jun 2020 18:19:31: #2 finished! INFO @ Sun, 21 Jun 2020 18:19:31: #2 predicted fragment length is 228 bps INFO @ Sun, 21 Jun 2020 18:19:31: #2 alternative fragment length(s) may be 228 bps INFO @ Sun, 21 Jun 2020 18:19:31: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX1361360/SRX1361360.20_model.r INFO @ Sun, 21 Jun 2020 18:19:31: #3 Call peaks... INFO @ Sun, 21 Jun 2020 18:19:31: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 18:19:38: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX1361360/SRX1361360.05_peaks.xls INFO @ Sun, 21 Jun 2020 18:19:39: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX1361360/SRX1361360.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 18:19:39: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX1361360/SRX1361360.05_summits.bed INFO @ Sun, 21 Jun 2020 18:19:39: Done! pass1 - making usageList (692 chroms): 2 millis pass2 - checking and writing primary data (8886 records, 4 fields): 26 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 18:20:07: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 18:20:34: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 18:20:34: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX1361360/SRX1361360.10_peaks.xls INFO @ Sun, 21 Jun 2020 18:20:34: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX1361360/SRX1361360.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 18:20:34: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX1361360/SRX1361360.10_summits.bed INFO @ Sun, 21 Jun 2020 18:20:34: Done! pass1 - making usageList (646 chroms): 1 millis pass2 - checking and writing primary data (7388 records, 4 fields): 24 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 18:21:01: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX1361360/SRX1361360.20_peaks.xls INFO @ Sun, 21 Jun 2020 18:21:01: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX1361360/SRX1361360.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 18:21:01: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX1361360/SRX1361360.20_summits.bed INFO @ Sun, 21 Jun 2020 18:21:01: Done! pass1 - making usageList (573 chroms): 1 millis pass2 - checking and writing primary data (5759 records, 4 fields): 20 millis CompletedMACS2peakCalling