Job ID = 6454239 SRX = SRX193318 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T09:11:09 prefetch.2.10.7: 1) Downloading 'SRR585051'... 2020-06-21T09:11:09 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T09:19:07 prefetch.2.10.7: HTTPS download succeed 2020-06-21T09:19:07 prefetch.2.10.7: 1) 'SRR585051' was downloaded successfully Read 35816233 spots for SRR585051/SRR585051.sra Written 35816233 spots for SRR585051/SRR585051.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: 00:08:36 35816233 reads; of these: 35816233 (100.00%) were unpaired; of these: 1252918 (3.50%) aligned 0 times 28752260 (80.28%) aligned exactly 1 time 5811055 (16.22%) aligned >1 times 96.50% overall alignment rate Time searching: 00:08:36 Overall time: 00:08:36 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] 13409211 / 34563315 = 0.3880 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 18:37:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX193318/SRX193318.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX193318/SRX193318.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX193318/SRX193318.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX193318/SRX193318.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 18:37:00: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:37:00: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:37:06: 1000000 INFO @ Sun, 21 Jun 2020 18:37:11: 2000000 INFO @ Sun, 21 Jun 2020 18:37:17: 3000000 INFO @ Sun, 21 Jun 2020 18:37:22: 4000000 INFO @ Sun, 21 Jun 2020 18:37:28: 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 18:37:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX193318/SRX193318.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX193318/SRX193318.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX193318/SRX193318.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX193318/SRX193318.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 18:37:30: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:37:30: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:37:34: 6000000 INFO @ Sun, 21 Jun 2020 18:37:37: 1000000 INFO @ Sun, 21 Jun 2020 18:37:40: 7000000 INFO @ Sun, 21 Jun 2020 18:37:43: 2000000 INFO @ Sun, 21 Jun 2020 18:37:46: 8000000 INFO @ Sun, 21 Jun 2020 18:37:49: 3000000 INFO @ Sun, 21 Jun 2020 18:37:52: 9000000 INFO @ Sun, 21 Jun 2020 18:37:55: 4000000 INFO @ Sun, 21 Jun 2020 18:37:58: 10000000 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 18:38:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX193318/SRX193318.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX193318/SRX193318.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX193318/SRX193318.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX193318/SRX193318.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 18:38:00: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:38:00: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:38:01: 5000000 INFO @ Sun, 21 Jun 2020 18:38:04: 11000000 INFO @ Sun, 21 Jun 2020 18:38:07: 1000000 INFO @ Sun, 21 Jun 2020 18:38:07: 6000000 INFO @ Sun, 21 Jun 2020 18:38:10: 12000000 INFO @ Sun, 21 Jun 2020 18:38:13: 2000000 INFO @ Sun, 21 Jun 2020 18:38:13: 7000000 INFO @ Sun, 21 Jun 2020 18:38:16: 13000000 INFO @ Sun, 21 Jun 2020 18:38:19: 3000000 INFO @ Sun, 21 Jun 2020 18:38:19: 8000000 INFO @ Sun, 21 Jun 2020 18:38:22: 14000000 INFO @ Sun, 21 Jun 2020 18:38:25: 4000000 INFO @ Sun, 21 Jun 2020 18:38:25: 9000000 INFO @ Sun, 21 Jun 2020 18:38:29: 15000000 INFO @ Sun, 21 Jun 2020 18:38:31: 5000000 INFO @ Sun, 21 Jun 2020 18:38:31: 10000000 INFO @ Sun, 21 Jun 2020 18:38:35: 16000000 INFO @ Sun, 21 Jun 2020 18:38:37: 6000000 INFO @ Sun, 21 Jun 2020 18:38:38: 11000000 INFO @ Sun, 21 Jun 2020 18:38:41: 17000000 INFO @ Sun, 21 Jun 2020 18:38:43: 7000000 INFO @ Sun, 21 Jun 2020 18:38:44: 12000000 INFO @ Sun, 21 Jun 2020 18:38:47: 18000000 INFO @ Sun, 21 Jun 2020 18:38:49: 8000000 INFO @ Sun, 21 Jun 2020 18:38:50: 13000000 INFO @ Sun, 21 Jun 2020 18:38:53: 19000000 INFO @ Sun, 21 Jun 2020 18:38:55: 9000000 INFO @ Sun, 21 Jun 2020 18:38:56: 14000000 INFO @ Sun, 21 Jun 2020 18:38:59: 20000000 INFO @ Sun, 21 Jun 2020 18:39:01: 10000000 INFO @ Sun, 21 Jun 2020 18:39:02: 15000000 INFO @ Sun, 21 Jun 2020 18:39:06: 21000000 INFO @ Sun, 21 Jun 2020 18:39:07: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 18:39:07: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 18:39:07: #1 total tags in treatment: 21154104 INFO @ Sun, 21 Jun 2020 18:39:07: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:39:07: #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 18:39:07: 11000000 INFO @ Sun, 21 Jun 2020 18:39:07: #1 tags after filtering in treatment: 21153913 INFO @ Sun, 21 Jun 2020 18:39:07: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:39:07: #1 finished! INFO @ Sun, 21 Jun 2020 18:39:07: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:39:07: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:39:08: 16000000 INFO @ Sun, 21 Jun 2020 18:39:10: #2 number of paired peaks: 11155 INFO @ Sun, 21 Jun 2020 18:39:10: start model_add_line... INFO @ Sun, 21 Jun 2020 18:39:10: start X-correlation... INFO @ Sun, 21 Jun 2020 18:39:10: end of X-cor INFO @ Sun, 21 Jun 2020 18:39:10: #2 finished! INFO @ Sun, 21 Jun 2020 18:39:10: #2 predicted fragment length is 153 bps INFO @ Sun, 21 Jun 2020 18:39:10: #2 alternative fragment length(s) may be 4,153 bps INFO @ Sun, 21 Jun 2020 18:39:10: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX193318/SRX193318.05_model.r INFO @ Sun, 21 Jun 2020 18:39:10: #3 Call peaks... INFO @ Sun, 21 Jun 2020 18:39:10: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 18:39:13: 12000000 INFO @ Sun, 21 Jun 2020 18:39:14: 17000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 18:39:19: 13000000 INFO @ Sun, 21 Jun 2020 18:39:20: 18000000 INFO @ Sun, 21 Jun 2020 18:39:25: 14000000 INFO @ Sun, 21 Jun 2020 18:39:27: 19000000 INFO @ Sun, 21 Jun 2020 18:39:31: 15000000 INFO @ Sun, 21 Jun 2020 18:39:33: 20000000 INFO @ Sun, 21 Jun 2020 18:39:37: 16000000 INFO @ Sun, 21 Jun 2020 18:39:39: 21000000 INFO @ Sun, 21 Jun 2020 18:39:40: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 18:39:40: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 18:39:40: #1 total tags in treatment: 21154104 INFO @ Sun, 21 Jun 2020 18:39:40: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:39:40: #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 18:39:40: #1 tags after filtering in treatment: 21153913 INFO @ Sun, 21 Jun 2020 18:39:40: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:39:40: #1 finished! INFO @ Sun, 21 Jun 2020 18:39:40: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:39:40: #2 looking for paired plus/minus strand peaks... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 18:39:43: #2 number of paired peaks: 11155 INFO @ Sun, 21 Jun 2020 18:39:43: start model_add_line... INFO @ Sun, 21 Jun 2020 18:39:43: start X-correlation... INFO @ Sun, 21 Jun 2020 18:39:43: end of X-cor INFO @ Sun, 21 Jun 2020 18:39:43: #2 finished! INFO @ Sun, 21 Jun 2020 18:39:43: #2 predicted fragment length is 153 bps INFO @ Sun, 21 Jun 2020 18:39:43: #2 alternative fragment length(s) may be 4,153 bps INFO @ Sun, 21 Jun 2020 18:39:43: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX193318/SRX193318.10_model.r INFO @ Sun, 21 Jun 2020 18:39:43: #3 Call peaks... INFO @ Sun, 21 Jun 2020 18:39:43: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 18:39:43: 17000000 INFO @ Sun, 21 Jun 2020 18:39:49: 18000000 INFO @ Sun, 21 Jun 2020 18:39:54: 19000000 INFO @ Sun, 21 Jun 2020 18:40:00: 20000000 INFO @ Sun, 21 Jun 2020 18:40:04: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 18:40:05: 21000000 INFO @ Sun, 21 Jun 2020 18:40:06: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 18:40:06: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 18:40:06: #1 total tags in treatment: 21154104 INFO @ Sun, 21 Jun 2020 18:40:06: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:40:06: #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 18:40:07: #1 tags after filtering in treatment: 21153913 INFO @ Sun, 21 Jun 2020 18:40:07: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:40:07: #1 finished! INFO @ Sun, 21 Jun 2020 18:40:07: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:40:07: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:40:09: #2 number of paired peaks: 11155 INFO @ Sun, 21 Jun 2020 18:40:09: start model_add_line... INFO @ Sun, 21 Jun 2020 18:40:10: start X-correlation... INFO @ Sun, 21 Jun 2020 18:40:10: end of X-cor INFO @ Sun, 21 Jun 2020 18:40:10: #2 finished! INFO @ Sun, 21 Jun 2020 18:40:10: #2 predicted fragment length is 153 bps INFO @ Sun, 21 Jun 2020 18:40:10: #2 alternative fragment length(s) may be 4,153 bps INFO @ Sun, 21 Jun 2020 18:40:10: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX193318/SRX193318.20_model.r INFO @ Sun, 21 Jun 2020 18:40:10: #3 Call peaks... INFO @ Sun, 21 Jun 2020 18:40:10: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 18:40:25: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX193318/SRX193318.05_peaks.xls INFO @ Sun, 21 Jun 2020 18:40:25: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX193318/SRX193318.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 18:40:26: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX193318/SRX193318.05_summits.bed INFO @ Sun, 21 Jun 2020 18:40:26: Done! pass1 - making usageList (195 chroms): 2 millis pass2 - checking and writing primary data (13953 records, 4 fields): 19 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 18:40:39: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 18:41:00: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX193318/SRX193318.10_peaks.xls INFO @ Sun, 21 Jun 2020 18:41:00: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX193318/SRX193318.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 18:41:00: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX193318/SRX193318.10_summits.bed INFO @ Sun, 21 Jun 2020 18:41:00: Done! pass1 - making usageList (166 chroms): 2 millis pass2 - checking and writing primary data (11309 records, 4 fields): 16 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 18:41:06: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 18:41:27: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX193318/SRX193318.20_peaks.xls INFO @ Sun, 21 Jun 2020 18:41:27: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX193318/SRX193318.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 18:41:27: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX193318/SRX193318.20_summits.bed INFO @ Sun, 21 Jun 2020 18:41:27: Done! pass1 - making usageList (130 chroms): 2 millis pass2 - checking and writing primary data (7718 records, 4 fields): 120 millis CompletedMACS2peakCalling