Job ID = 6454821 SRX = SRX2592420 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T09:42:25 prefetch.2.10.7: 1) Downloading 'SRR5289697'... 2020-06-21T09:42:25 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T09:46:19 prefetch.2.10.7: HTTPS download succeed 2020-06-21T09:46:19 prefetch.2.10.7: 1) 'SRR5289697' was downloaded successfully Read 24123727 spots for SRR5289697/SRR5289697.sra Written 24123727 spots for SRR5289697/SRR5289697.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: 00:07:16 24123727 reads; of these: 24123727 (100.00%) were unpaired; of these: 2019130 (8.37%) aligned 0 times 17930946 (74.33%) aligned exactly 1 time 4173651 (17.30%) aligned >1 times 91.63% overall alignment rate Time searching: 00:07:16 Overall time: 00:07:16 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] 7511533 / 22104597 = 0.3398 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 19:00:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX2592420/SRX2592420.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX2592420/SRX2592420.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX2592420/SRX2592420.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX2592420/SRX2592420.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 19:00:29: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:00:29: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:00:35: 1000000 INFO @ Sun, 21 Jun 2020 19:00:42: 2000000 INFO @ Sun, 21 Jun 2020 19:00:48: 3000000 INFO @ Sun, 21 Jun 2020 19:00:54: 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 19:01:01: 5000000 INFO @ Sun, 21 Jun 2020 19:01:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX2592420/SRX2592420.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX2592420/SRX2592420.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX2592420/SRX2592420.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX2592420/SRX2592420.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 19:01:01: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:01:01: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:01:07: 6000000 INFO @ Sun, 21 Jun 2020 19:01:08: 1000000 INFO @ Sun, 21 Jun 2020 19:01:14: 7000000 INFO @ Sun, 21 Jun 2020 19:01:15: 2000000 INFO @ Sun, 21 Jun 2020 19:01:21: 8000000 INFO @ Sun, 21 Jun 2020 19:01:21: 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 19:01:27: 9000000 INFO @ Sun, 21 Jun 2020 19:01:28: 4000000 INFO @ Sun, 21 Jun 2020 19:01:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX2592420/SRX2592420.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX2592420/SRX2592420.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX2592420/SRX2592420.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX2592420/SRX2592420.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 19:01:29: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:01:29: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:01:34: 10000000 INFO @ Sun, 21 Jun 2020 19:01:35: 5000000 INFO @ Sun, 21 Jun 2020 19:01:35: 1000000 INFO @ Sun, 21 Jun 2020 19:01:41: 11000000 INFO @ Sun, 21 Jun 2020 19:01:41: 6000000 INFO @ Sun, 21 Jun 2020 19:01:41: 2000000 INFO @ Sun, 21 Jun 2020 19:01:48: 3000000 INFO @ Sun, 21 Jun 2020 19:01:48: 12000000 INFO @ Sun, 21 Jun 2020 19:01:48: 7000000 INFO @ Sun, 21 Jun 2020 19:01:54: 4000000 INFO @ Sun, 21 Jun 2020 19:01:55: 13000000 INFO @ Sun, 21 Jun 2020 19:01:55: 8000000 INFO @ Sun, 21 Jun 2020 19:02:00: 5000000 INFO @ Sun, 21 Jun 2020 19:02:02: 14000000 INFO @ Sun, 21 Jun 2020 19:02:02: 9000000 INFO @ Sun, 21 Jun 2020 19:02:06: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 19:02:06: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 19:02:06: #1 total tags in treatment: 14593064 INFO @ Sun, 21 Jun 2020 19:02:06: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:02:06: #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 19:02:07: #1 tags after filtering in treatment: 14592953 INFO @ Sun, 21 Jun 2020 19:02:07: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:02:07: #1 finished! INFO @ Sun, 21 Jun 2020 19:02:07: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:02:07: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:02:07: 6000000 INFO @ Sun, 21 Jun 2020 19:02:08: #2 number of paired peaks: 2865 INFO @ Sun, 21 Jun 2020 19:02:08: start model_add_line... INFO @ Sun, 21 Jun 2020 19:02:09: start X-correlation... INFO @ Sun, 21 Jun 2020 19:02:09: end of X-cor INFO @ Sun, 21 Jun 2020 19:02:09: #2 finished! INFO @ Sun, 21 Jun 2020 19:02:09: #2 predicted fragment length is 192 bps INFO @ Sun, 21 Jun 2020 19:02:09: #2 alternative fragment length(s) may be 4,192 bps INFO @ Sun, 21 Jun 2020 19:02:09: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX2592420/SRX2592420.05_model.r INFO @ Sun, 21 Jun 2020 19:02:09: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:02:09: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 19:02:09: 10000000 INFO @ Sun, 21 Jun 2020 19:02:13: 7000000 INFO @ Sun, 21 Jun 2020 19:02:16: 11000000 INFO @ Sun, 21 Jun 2020 19:02:20: 8000000 INFO @ Sun, 21 Jun 2020 19:02:24: 12000000 INFO @ Sun, 21 Jun 2020 19:02:26: 9000000 INFO @ Sun, 21 Jun 2020 19:02:31: 13000000 INFO @ Sun, 21 Jun 2020 19:02:32: 10000000 INFO @ Sun, 21 Jun 2020 19:02:38: 14000000 INFO @ Sun, 21 Jun 2020 19:02:39: 11000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 19:02:42: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 19:02:42: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 19:02:42: #1 total tags in treatment: 14593064 INFO @ Sun, 21 Jun 2020 19:02:42: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:02:42: #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 19:02:43: #1 tags after filtering in treatment: 14592953 INFO @ Sun, 21 Jun 2020 19:02:43: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:02:43: #1 finished! INFO @ Sun, 21 Jun 2020 19:02:43: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:02:43: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:02:44: #2 number of paired peaks: 2865 INFO @ Sun, 21 Jun 2020 19:02:44: start model_add_line... INFO @ Sun, 21 Jun 2020 19:02:44: start X-correlation... INFO @ Sun, 21 Jun 2020 19:02:44: end of X-cor INFO @ Sun, 21 Jun 2020 19:02:44: #2 finished! INFO @ Sun, 21 Jun 2020 19:02:44: #2 predicted fragment length is 192 bps INFO @ Sun, 21 Jun 2020 19:02:44: #2 alternative fragment length(s) may be 4,192 bps INFO @ Sun, 21 Jun 2020 19:02:44: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX2592420/SRX2592420.10_model.r INFO @ Sun, 21 Jun 2020 19:02:44: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:02:44: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 19:02:46: 12000000 INFO @ Sun, 21 Jun 2020 19:02:51: 13000000 INFO @ Sun, 21 Jun 2020 19:02:53: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 19:02:57: 14000000 INFO @ Sun, 21 Jun 2020 19:03:01: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 19:03:01: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 19:03:01: #1 total tags in treatment: 14593064 INFO @ Sun, 21 Jun 2020 19:03:01: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:03:01: #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 19:03:02: #1 tags after filtering in treatment: 14592953 INFO @ Sun, 21 Jun 2020 19:03:02: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:03:02: #1 finished! INFO @ Sun, 21 Jun 2020 19:03:02: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:03:02: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:03:03: #2 number of paired peaks: 2865 INFO @ Sun, 21 Jun 2020 19:03:03: start model_add_line... INFO @ Sun, 21 Jun 2020 19:03:04: start X-correlation... INFO @ Sun, 21 Jun 2020 19:03:04: end of X-cor INFO @ Sun, 21 Jun 2020 19:03:04: #2 finished! INFO @ Sun, 21 Jun 2020 19:03:04: #2 predicted fragment length is 192 bps INFO @ Sun, 21 Jun 2020 19:03:04: #2 alternative fragment length(s) may be 4,192 bps INFO @ Sun, 21 Jun 2020 19:03:04: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX2592420/SRX2592420.20_model.r INFO @ Sun, 21 Jun 2020 19:03:04: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:03:04: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 19:03:13: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX2592420/SRX2592420.05_peaks.xls INFO @ Sun, 21 Jun 2020 19:03:14: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX2592420/SRX2592420.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:03:14: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX2592420/SRX2592420.05_summits.bed INFO @ Sun, 21 Jun 2020 19:03:14: Done! pass1 - making usageList (209 chroms): 4 millis pass2 - checking and writing primary data (16463 records, 4 fields): 24 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 19:03:28: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 19:03:48: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX2592420/SRX2592420.10_peaks.xls INFO @ Sun, 21 Jun 2020 19:03:48: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX2592420/SRX2592420.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:03:48: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX2592420/SRX2592420.10_summits.bed INFO @ Sun, 21 Jun 2020 19:03:48: Done! pass1 - making usageList (162 chroms): 3 millis pass2 - checking and writing primary data (11776 records, 4 fields): 18 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 19:03:49: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 19:04:09: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX2592420/SRX2592420.20_peaks.xls INFO @ Sun, 21 Jun 2020 19:04:09: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX2592420/SRX2592420.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:04:09: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX2592420/SRX2592420.20_summits.bed INFO @ Sun, 21 Jun 2020 19:04:10: Done! pass1 - making usageList (128 chroms): 2 millis pass2 - checking and writing primary data (5930 records, 4 fields): 12 millis CompletedMACS2peakCalling