Job ID = 6453580 SRX = SRX128170 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T08:22:47 prefetch.2.10.7: 1) Downloading 'SRR442091'... 2020-06-21T08:22:47 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T08:29:21 prefetch.2.10.7: HTTPS download succeed 2020-06-21T08:29:21 prefetch.2.10.7: 1) 'SRR442091' was downloaded successfully Read 31045396 spots for SRR442091/SRR442091.sra Written 31045396 spots for SRR442091/SRR442091.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: 00:05:52 31045396 reads; of these: 31045396 (100.00%) were unpaired; of these: 1430935 (4.61%) aligned 0 times 24381654 (78.54%) aligned exactly 1 time 5232807 (16.86%) aligned >1 times 95.39% overall alignment rate Time searching: 00:05:52 Overall time: 00:05:52 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 8 files... [bam_rmdupse_core] 10286628 / 29614461 = 0.3474 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 17:43:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX128170/SRX128170.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX128170/SRX128170.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX128170/SRX128170.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX128170/SRX128170.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 17:43:31: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:43:31: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:43:37: 1000000 INFO @ Sun, 21 Jun 2020 17:43:43: 2000000 INFO @ Sun, 21 Jun 2020 17:43:49: 3000000 INFO @ Sun, 21 Jun 2020 17:43:55: 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 17:44:01: 5000000 INFO @ Sun, 21 Jun 2020 17:44:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX128170/SRX128170.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX128170/SRX128170.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX128170/SRX128170.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX128170/SRX128170.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 17:44:01: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:44:01: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:44:07: 1000000 INFO @ Sun, 21 Jun 2020 17:44:08: 6000000 INFO @ Sun, 21 Jun 2020 17:44:13: 2000000 INFO @ Sun, 21 Jun 2020 17:44:14: 7000000 INFO @ Sun, 21 Jun 2020 17:44:19: 3000000 INFO @ Sun, 21 Jun 2020 17:44:20: 8000000 INFO @ Sun, 21 Jun 2020 17:44:26: 4000000 INFO @ Sun, 21 Jun 2020 17:44:27: 9000000 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 17:44:32: 5000000 INFO @ Sun, 21 Jun 2020 17:44:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX128170/SRX128170.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX128170/SRX128170.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX128170/SRX128170.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX128170/SRX128170.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 17:44:32: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:44:32: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:44:33: 10000000 INFO @ Sun, 21 Jun 2020 17:44:38: 6000000 INFO @ Sun, 21 Jun 2020 17:44:38: 1000000 INFO @ Sun, 21 Jun 2020 17:44:39: 11000000 INFO @ Sun, 21 Jun 2020 17:44:44: 7000000 INFO @ Sun, 21 Jun 2020 17:44:44: 2000000 INFO @ Sun, 21 Jun 2020 17:44:46: 12000000 INFO @ Sun, 21 Jun 2020 17:44:50: 8000000 INFO @ Sun, 21 Jun 2020 17:44:51: 3000000 INFO @ Sun, 21 Jun 2020 17:44:52: 13000000 INFO @ Sun, 21 Jun 2020 17:44:57: 9000000 INFO @ Sun, 21 Jun 2020 17:44:57: 4000000 INFO @ Sun, 21 Jun 2020 17:44:59: 14000000 INFO @ Sun, 21 Jun 2020 17:45:03: 10000000 INFO @ Sun, 21 Jun 2020 17:45:03: 5000000 INFO @ Sun, 21 Jun 2020 17:45:05: 15000000 INFO @ Sun, 21 Jun 2020 17:45:09: 11000000 INFO @ Sun, 21 Jun 2020 17:45:10: 6000000 INFO @ Sun, 21 Jun 2020 17:45:13: 16000000 INFO @ Sun, 21 Jun 2020 17:45:15: 12000000 INFO @ Sun, 21 Jun 2020 17:45:16: 7000000 INFO @ Sun, 21 Jun 2020 17:45:19: 17000000 INFO @ Sun, 21 Jun 2020 17:45:22: 13000000 INFO @ Sun, 21 Jun 2020 17:45:22: 8000000 INFO @ Sun, 21 Jun 2020 17:45:26: 18000000 INFO @ Sun, 21 Jun 2020 17:45:28: 14000000 INFO @ Sun, 21 Jun 2020 17:45:28: 9000000 INFO @ Sun, 21 Jun 2020 17:45:32: 19000000 INFO @ Sun, 21 Jun 2020 17:45:34: 15000000 INFO @ Sun, 21 Jun 2020 17:45:35: 10000000 INFO @ Sun, 21 Jun 2020 17:45:35: #1 tag size is determined as 36 bps INFO @ Sun, 21 Jun 2020 17:45:35: #1 tag size = 36 INFO @ Sun, 21 Jun 2020 17:45:35: #1 total tags in treatment: 19327833 INFO @ Sun, 21 Jun 2020 17:45:35: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:45:35: #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 17:45:35: #1 tags after filtering in treatment: 19327765 INFO @ Sun, 21 Jun 2020 17:45:35: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:45:35: #1 finished! INFO @ Sun, 21 Jun 2020 17:45:35: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:45:35: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:45:38: #2 number of paired peaks: 6861 INFO @ Sun, 21 Jun 2020 17:45:38: start model_add_line... INFO @ Sun, 21 Jun 2020 17:45:38: start X-correlation... INFO @ Sun, 21 Jun 2020 17:45:38: end of X-cor INFO @ Sun, 21 Jun 2020 17:45:38: #2 finished! INFO @ Sun, 21 Jun 2020 17:45:38: #2 predicted fragment length is 165 bps INFO @ Sun, 21 Jun 2020 17:45:38: #2 alternative fragment length(s) may be 165 bps INFO @ Sun, 21 Jun 2020 17:45:38: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX128170/SRX128170.05_model.r INFO @ Sun, 21 Jun 2020 17:45:38: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:45:38: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 17:45:41: 16000000 INFO @ Sun, 21 Jun 2020 17:45:41: 11000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 17:45:47: 17000000 INFO @ Sun, 21 Jun 2020 17:45:47: 12000000 INFO @ Sun, 21 Jun 2020 17:45:53: 13000000 INFO @ Sun, 21 Jun 2020 17:45:53: 18000000 INFO @ Sun, 21 Jun 2020 17:45:59: 14000000 INFO @ Sun, 21 Jun 2020 17:45:59: 19000000 INFO @ Sun, 21 Jun 2020 17:46:01: #1 tag size is determined as 36 bps INFO @ Sun, 21 Jun 2020 17:46:01: #1 tag size = 36 INFO @ Sun, 21 Jun 2020 17:46:01: #1 total tags in treatment: 19327833 INFO @ Sun, 21 Jun 2020 17:46:01: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:46:01: #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 17:46:02: #1 tags after filtering in treatment: 19327765 INFO @ Sun, 21 Jun 2020 17:46:02: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:46:02: #1 finished! INFO @ Sun, 21 Jun 2020 17:46:02: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:46:02: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:46:04: #2 number of paired peaks: 6861 INFO @ Sun, 21 Jun 2020 17:46:04: start model_add_line... INFO @ Sun, 21 Jun 2020 17:46:04: start X-correlation... INFO @ Sun, 21 Jun 2020 17:46:04: end of X-cor INFO @ Sun, 21 Jun 2020 17:46:04: #2 finished! INFO @ Sun, 21 Jun 2020 17:46:04: #2 predicted fragment length is 165 bps INFO @ Sun, 21 Jun 2020 17:46:04: #2 alternative fragment length(s) may be 165 bps INFO @ Sun, 21 Jun 2020 17:46:04: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX128170/SRX128170.10_model.r INFO @ Sun, 21 Jun 2020 17:46:04: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:46:04: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 17:46:04: 15000000 INFO @ Sun, 21 Jun 2020 17:46:10: 16000000 INFO @ Sun, 21 Jun 2020 17:46:16: 17000000 BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 17:46:21: 18000000 INFO @ Sun, 21 Jun 2020 17:46:27: 19000000 INFO @ Sun, 21 Jun 2020 17:46:29: #1 tag size is determined as 36 bps INFO @ Sun, 21 Jun 2020 17:46:29: #1 tag size = 36 INFO @ Sun, 21 Jun 2020 17:46:29: #1 total tags in treatment: 19327833 INFO @ Sun, 21 Jun 2020 17:46:29: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:46:29: #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 17:46:30: #1 tags after filtering in treatment: 19327765 INFO @ Sun, 21 Jun 2020 17:46:30: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:46:30: #1 finished! INFO @ Sun, 21 Jun 2020 17:46:30: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:46:30: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:46:32: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 17:46:32: #2 number of paired peaks: 6861 INFO @ Sun, 21 Jun 2020 17:46:32: start model_add_line... INFO @ Sun, 21 Jun 2020 17:46:32: start X-correlation... INFO @ Sun, 21 Jun 2020 17:46:32: end of X-cor INFO @ Sun, 21 Jun 2020 17:46:32: #2 finished! INFO @ Sun, 21 Jun 2020 17:46:32: #2 predicted fragment length is 165 bps INFO @ Sun, 21 Jun 2020 17:46:32: #2 alternative fragment length(s) may be 165 bps INFO @ Sun, 21 Jun 2020 17:46:32: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX128170/SRX128170.20_model.r INFO @ Sun, 21 Jun 2020 17:46:32: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:46:32: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 17:46:55: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX128170/SRX128170.05_peaks.xls INFO @ Sun, 21 Jun 2020 17:46:55: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX128170/SRX128170.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:46:55: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX128170/SRX128170.05_summits.bed INFO @ Sun, 21 Jun 2020 17:46:55: Done! pass1 - making usageList (236 chroms): 2 millis pass2 - checking and writing primary data (13596 records, 4 fields): 20 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 17:47:00: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 17:47:23: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX128170/SRX128170.10_peaks.xls INFO @ Sun, 21 Jun 2020 17:47:23: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX128170/SRX128170.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:47:24: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX128170/SRX128170.10_summits.bed INFO @ Sun, 21 Jun 2020 17:47:24: Done! pass1 - making usageList (183 chroms): 3 millis pass2 - checking and writing primary data (11474 records, 4 fields): 18 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 17:47:27: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 17:47:50: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX128170/SRX128170.20_peaks.xls INFO @ Sun, 21 Jun 2020 17:47:50: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX128170/SRX128170.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:47:50: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX128170/SRX128170.20_summits.bed INFO @ Sun, 21 Jun 2020 17:47:50: Done! pass1 - making usageList (151 chroms): 2 millis pass2 - checking and writing primary data (8390 records, 4 fields): 14 millis CompletedMACS2peakCalling