Job ID = 6458779 SRX = SRX5436052 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T12:37:44 prefetch.2.10.7: 1) Downloading 'SRR8637384'... 2020-06-21T12:37:44 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T12:43:10 prefetch.2.10.7: HTTPS download succeed 2020-06-21T12:43:10 prefetch.2.10.7: 1) 'SRR8637384' was downloaded successfully Read 46698560 spots for SRR8637384/SRR8637384.sra Written 46698560 spots for SRR8637384/SRR8637384.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: 00:10:39 46698560 reads; of these: 46698560 (100.00%) were unpaired; of these: 11558190 (24.75%) aligned 0 times 25752527 (55.15%) aligned exactly 1 time 9387843 (20.10%) aligned >1 times 75.25% overall alignment rate Time searching: 00:10:39 Overall time: 00:10:39 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 16 files... [bam_rmdupse_core] 12935259 / 35140370 = 0.3681 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 22:04:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5436052/SRX5436052.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5436052/SRX5436052.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5436052/SRX5436052.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5436052/SRX5436052.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 22:04:44: #1 read tag files... INFO @ Sun, 21 Jun 2020 22:04:44: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 22:04:50: 1000000 INFO @ Sun, 21 Jun 2020 22:04:55: 2000000 INFO @ Sun, 21 Jun 2020 22:05:00: 3000000 INFO @ Sun, 21 Jun 2020 22:05:06: 4000000 INFO @ Sun, 21 Jun 2020 22:05:11: 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 22:05:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5436052/SRX5436052.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5436052/SRX5436052.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5436052/SRX5436052.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5436052/SRX5436052.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 22:05:14: #1 read tag files... INFO @ Sun, 21 Jun 2020 22:05:14: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 22:05:17: 6000000 INFO @ Sun, 21 Jun 2020 22:05:20: 1000000 INFO @ Sun, 21 Jun 2020 22:05:24: 7000000 INFO @ Sun, 21 Jun 2020 22:05:27: 2000000 INFO @ Sun, 21 Jun 2020 22:05:30: 8000000 INFO @ Sun, 21 Jun 2020 22:05:33: 3000000 INFO @ Sun, 21 Jun 2020 22:05:36: 9000000 INFO @ Sun, 21 Jun 2020 22:05:39: 4000000 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 22:05:42: 10000000 INFO @ Sun, 21 Jun 2020 22:05:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5436052/SRX5436052.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5436052/SRX5436052.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5436052/SRX5436052.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5436052/SRX5436052.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 22:05:44: #1 read tag files... INFO @ Sun, 21 Jun 2020 22:05:44: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 22:05:45: 5000000 INFO @ Sun, 21 Jun 2020 22:05:48: 11000000 INFO @ Sun, 21 Jun 2020 22:05:50: 1000000 INFO @ Sun, 21 Jun 2020 22:05:51: 6000000 INFO @ Sun, 21 Jun 2020 22:05:55: 12000000 INFO @ Sun, 21 Jun 2020 22:05:56: 2000000 INFO @ Sun, 21 Jun 2020 22:05:57: 7000000 INFO @ Sun, 21 Jun 2020 22:06:01: 13000000 INFO @ Sun, 21 Jun 2020 22:06:01: 3000000 INFO @ Sun, 21 Jun 2020 22:06:04: 8000000 INFO @ Sun, 21 Jun 2020 22:06:07: 4000000 INFO @ Sun, 21 Jun 2020 22:06:07: 14000000 INFO @ Sun, 21 Jun 2020 22:06:10: 9000000 INFO @ Sun, 21 Jun 2020 22:06:13: 5000000 INFO @ Sun, 21 Jun 2020 22:06:14: 15000000 INFO @ Sun, 21 Jun 2020 22:06:16: 10000000 INFO @ Sun, 21 Jun 2020 22:06:18: 6000000 INFO @ Sun, 21 Jun 2020 22:06:20: 16000000 INFO @ Sun, 21 Jun 2020 22:06:23: 11000000 INFO @ Sun, 21 Jun 2020 22:06:24: 7000000 INFO @ Sun, 21 Jun 2020 22:06:26: 17000000 INFO @ Sun, 21 Jun 2020 22:06:29: 12000000 INFO @ Sun, 21 Jun 2020 22:06:30: 8000000 INFO @ Sun, 21 Jun 2020 22:06:33: 18000000 INFO @ Sun, 21 Jun 2020 22:06:35: 13000000 INFO @ Sun, 21 Jun 2020 22:06:36: 9000000 INFO @ Sun, 21 Jun 2020 22:06:40: 19000000 INFO @ Sun, 21 Jun 2020 22:06:42: 10000000 INFO @ Sun, 21 Jun 2020 22:06:42: 14000000 INFO @ Sun, 21 Jun 2020 22:06:46: 20000000 INFO @ Sun, 21 Jun 2020 22:06:47: 11000000 INFO @ Sun, 21 Jun 2020 22:06:48: 15000000 INFO @ Sun, 21 Jun 2020 22:06:53: 21000000 INFO @ Sun, 21 Jun 2020 22:06:54: 12000000 INFO @ Sun, 21 Jun 2020 22:06:55: 16000000 INFO @ Sun, 21 Jun 2020 22:07:00: 13000000 INFO @ Sun, 21 Jun 2020 22:07:00: 22000000 INFO @ Sun, 21 Jun 2020 22:07:01: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 22:07:01: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 22:07:01: #1 total tags in treatment: 22205111 INFO @ Sun, 21 Jun 2020 22:07:01: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 22:07:01: #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 22:07:01: 17000000 INFO @ Sun, 21 Jun 2020 22:07:02: #1 tags after filtering in treatment: 22205053 INFO @ Sun, 21 Jun 2020 22:07:02: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 22:07:02: #1 finished! INFO @ Sun, 21 Jun 2020 22:07:02: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 22:07:02: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 22:07:04: #2 number of paired peaks: 1084 INFO @ Sun, 21 Jun 2020 22:07:04: start model_add_line... INFO @ Sun, 21 Jun 2020 22:07:04: start X-correlation... INFO @ Sun, 21 Jun 2020 22:07:04: end of X-cor INFO @ Sun, 21 Jun 2020 22:07:04: #2 finished! INFO @ Sun, 21 Jun 2020 22:07:04: #2 predicted fragment length is 121 bps INFO @ Sun, 21 Jun 2020 22:07:04: #2 alternative fragment length(s) may be 3,121,592 bps INFO @ Sun, 21 Jun 2020 22:07:04: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5436052/SRX5436052.05_model.r INFO @ Sun, 21 Jun 2020 22:07:04: #3 Call peaks... INFO @ Sun, 21 Jun 2020 22:07:04: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 22:07:06: 14000000 INFO @ Sun, 21 Jun 2020 22:07:08: 18000000 INFO @ Sun, 21 Jun 2020 22:07:12: 15000000 INFO @ Sun, 21 Jun 2020 22:07:15: 19000000 INFO @ Sun, 21 Jun 2020 22:07:18: 16000000 INFO @ Sun, 21 Jun 2020 22:07:21: 20000000 INFO @ Sun, 21 Jun 2020 22:07:24: 17000000 INFO @ Sun, 21 Jun 2020 22:07:27: 21000000 INFO @ Sun, 21 Jun 2020 22:07:31: 18000000 INFO @ Sun, 21 Jun 2020 22:07:33: 22000000 INFO @ Sun, 21 Jun 2020 22:07:35: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 22:07:35: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 22:07:35: #1 total tags in treatment: 22205111 INFO @ Sun, 21 Jun 2020 22:07:35: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 22:07:35: #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 22:07:36: #1 tags after filtering in treatment: 22205053 INFO @ Sun, 21 Jun 2020 22:07:36: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 22:07:36: #1 finished! INFO @ Sun, 21 Jun 2020 22:07:36: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 22:07:36: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 22:07:37: #2 number of paired peaks: 1084 INFO @ Sun, 21 Jun 2020 22:07:37: start model_add_line... INFO @ Sun, 21 Jun 2020 22:07:38: start X-correlation... INFO @ Sun, 21 Jun 2020 22:07:38: end of X-cor INFO @ Sun, 21 Jun 2020 22:07:38: #2 finished! INFO @ Sun, 21 Jun 2020 22:07:38: #2 predicted fragment length is 121 bps INFO @ Sun, 21 Jun 2020 22:07:38: #2 alternative fragment length(s) may be 3,121,592 bps INFO @ Sun, 21 Jun 2020 22:07:38: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5436052/SRX5436052.10_model.r INFO @ Sun, 21 Jun 2020 22:07:38: #3 Call peaks... INFO @ Sun, 21 Jun 2020 22:07:38: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 22:07:38: 19000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 22:07:44: 20000000 INFO @ Sun, 21 Jun 2020 22:07:50: 21000000 INFO @ Sun, 21 Jun 2020 22:07:50: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 22:07:56: 22000000 INFO @ Sun, 21 Jun 2020 22:07:58: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 22:07:58: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 22:07:58: #1 total tags in treatment: 22205111 INFO @ Sun, 21 Jun 2020 22:07:58: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 22:07:58: #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 22:07:59: #1 tags after filtering in treatment: 22205053 INFO @ Sun, 21 Jun 2020 22:07:59: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 22:07:59: #1 finished! INFO @ Sun, 21 Jun 2020 22:07:59: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 22:07:59: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 22:08:00: #2 number of paired peaks: 1084 INFO @ Sun, 21 Jun 2020 22:08:00: start model_add_line... INFO @ Sun, 21 Jun 2020 22:08:00: start X-correlation... INFO @ Sun, 21 Jun 2020 22:08:00: end of X-cor INFO @ Sun, 21 Jun 2020 22:08:00: #2 finished! INFO @ Sun, 21 Jun 2020 22:08:00: #2 predicted fragment length is 121 bps INFO @ Sun, 21 Jun 2020 22:08:00: #2 alternative fragment length(s) may be 3,121,592 bps INFO @ Sun, 21 Jun 2020 22:08:00: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5436052/SRX5436052.20_model.r INFO @ Sun, 21 Jun 2020 22:08:00: #3 Call peaks... INFO @ Sun, 21 Jun 2020 22:08:01: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 22:08:12: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5436052/SRX5436052.05_peaks.xls INFO @ Sun, 21 Jun 2020 22:08:12: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5436052/SRX5436052.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 22:08:12: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5436052/SRX5436052.05_summits.bed INFO @ Sun, 21 Jun 2020 22:08:12: Done! pass1 - making usageList (678 chroms): 3 millis pass2 - checking and writing primary data (5197 records, 4 fields): 45 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 22:08:24: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 22:08:46: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5436052/SRX5436052.10_peaks.xls INFO @ Sun, 21 Jun 2020 22:08:46: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5436052/SRX5436052.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 22:08:46: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5436052/SRX5436052.10_summits.bed INFO @ Sun, 21 Jun 2020 22:08:46: Done! pass1 - making usageList (554 chroms): 2 millis pass2 - checking and writing primary data (3300 records, 4 fields): 39 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 22:08:47: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 22:09:09: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5436052/SRX5436052.20_peaks.xls INFO @ Sun, 21 Jun 2020 22:09:09: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5436052/SRX5436052.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 22:09:09: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5436052/SRX5436052.20_summits.bed INFO @ Sun, 21 Jun 2020 22:09:09: Done! pass1 - making usageList (411 chroms): 1 millis pass2 - checking and writing primary data (1571 records, 4 fields): 25 millis CompletedMACS2peakCalling