Job ID = 6457266 SRX = SRX4639146 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T11:45:18 prefetch.2.10.7: 1) Downloading 'SRR7784127'... 2020-06-21T11:45:18 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T11:49:08 prefetch.2.10.7: HTTPS download succeed 2020-06-21T11:49:08 prefetch.2.10.7: 1) 'SRR7784127' was downloaded successfully Read 27925816 spots for SRR7784127/SRR7784127.sra Written 27925816 spots for SRR7784127/SRR7784127.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 27925816 reads; of these: 27925816 (100.00%) were unpaired; of these: 3972339 (14.22%) aligned 0 times 17747333 (63.55%) aligned exactly 1 time 6206144 (22.22%) aligned >1 times 85.78% 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] 10893735 / 23953477 = 0.4548 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 21:03:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4639146/SRX4639146.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4639146/SRX4639146.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4639146/SRX4639146.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4639146/SRX4639146.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 21:03:09: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:03:09: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:03:15: 1000000 INFO @ Sun, 21 Jun 2020 21:03:21: 2000000 INFO @ Sun, 21 Jun 2020 21:03:27: 3000000 INFO @ Sun, 21 Jun 2020 21:03:33: 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 21:03:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4639146/SRX4639146.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4639146/SRX4639146.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4639146/SRX4639146.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4639146/SRX4639146.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 21:03:39: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:03:39: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:03:39: 5000000 INFO @ Sun, 21 Jun 2020 21:03:45: 6000000 INFO @ Sun, 21 Jun 2020 21:03:46: 1000000 INFO @ Sun, 21 Jun 2020 21:03:52: 7000000 INFO @ Sun, 21 Jun 2020 21:03:52: 2000000 INFO @ Sun, 21 Jun 2020 21:03:58: 8000000 INFO @ Sun, 21 Jun 2020 21:03:58: 3000000 INFO @ Sun, 21 Jun 2020 21:04:04: 9000000 INFO @ Sun, 21 Jun 2020 21:04:05: 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 21:04:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4639146/SRX4639146.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4639146/SRX4639146.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4639146/SRX4639146.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4639146/SRX4639146.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 21:04:09: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:04:09: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:04:11: 10000000 INFO @ Sun, 21 Jun 2020 21:04:12: 5000000 INFO @ Sun, 21 Jun 2020 21:04:16: 1000000 INFO @ Sun, 21 Jun 2020 21:04:17: 11000000 INFO @ Sun, 21 Jun 2020 21:04:18: 6000000 INFO @ Sun, 21 Jun 2020 21:04:23: 12000000 INFO @ Sun, 21 Jun 2020 21:04:23: 2000000 INFO @ Sun, 21 Jun 2020 21:04:25: 7000000 INFO @ Sun, 21 Jun 2020 21:04:29: 13000000 INFO @ Sun, 21 Jun 2020 21:04:29: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 21:04:29: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 21:04:29: #1 total tags in treatment: 13059742 INFO @ Sun, 21 Jun 2020 21:04:29: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:04:29: #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 21:04:30: #1 tags after filtering in treatment: 13059733 INFO @ Sun, 21 Jun 2020 21:04:30: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:04:30: #1 finished! INFO @ Sun, 21 Jun 2020 21:04:30: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:04:30: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:04:30: 3000000 INFO @ Sun, 21 Jun 2020 21:04:31: #2 number of paired peaks: 1365 INFO @ Sun, 21 Jun 2020 21:04:31: start model_add_line... INFO @ Sun, 21 Jun 2020 21:04:31: start X-correlation... INFO @ Sun, 21 Jun 2020 21:04:31: end of X-cor INFO @ Sun, 21 Jun 2020 21:04:31: #2 finished! INFO @ Sun, 21 Jun 2020 21:04:31: #2 predicted fragment length is 113 bps INFO @ Sun, 21 Jun 2020 21:04:31: #2 alternative fragment length(s) may be 4,113 bps INFO @ Sun, 21 Jun 2020 21:04:31: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX4639146/SRX4639146.05_model.r INFO @ Sun, 21 Jun 2020 21:04:31: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:04:31: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:04:32: 8000000 INFO @ Sun, 21 Jun 2020 21:04:36: 4000000 INFO @ Sun, 21 Jun 2020 21:04:39: 9000000 INFO @ Sun, 21 Jun 2020 21:04:43: 5000000 INFO @ Sun, 21 Jun 2020 21:04:45: 10000000 INFO @ Sun, 21 Jun 2020 21:04:49: 6000000 INFO @ Sun, 21 Jun 2020 21:04:52: 11000000 INFO @ Sun, 21 Jun 2020 21:04:56: 7000000 INFO @ Sun, 21 Jun 2020 21:04:58: 12000000 INFO @ Sun, 21 Jun 2020 21:04:59: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:05:02: 8000000 INFO @ Sun, 21 Jun 2020 21:05:04: 13000000 INFO @ Sun, 21 Jun 2020 21:05:04: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 21:05:04: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 21:05:04: #1 total tags in treatment: 13059742 INFO @ Sun, 21 Jun 2020 21:05:04: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:05:04: #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 21:05:05: #1 tags after filtering in treatment: 13059733 INFO @ Sun, 21 Jun 2020 21:05:05: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:05:05: #1 finished! INFO @ Sun, 21 Jun 2020 21:05:05: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:05:05: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:05:06: #2 number of paired peaks: 1365 INFO @ Sun, 21 Jun 2020 21:05:06: start model_add_line... INFO @ Sun, 21 Jun 2020 21:05:06: start X-correlation... INFO @ Sun, 21 Jun 2020 21:05:06: end of X-cor INFO @ Sun, 21 Jun 2020 21:05:06: #2 finished! INFO @ Sun, 21 Jun 2020 21:05:06: #2 predicted fragment length is 113 bps INFO @ Sun, 21 Jun 2020 21:05:06: #2 alternative fragment length(s) may be 4,113 bps INFO @ Sun, 21 Jun 2020 21:05:06: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX4639146/SRX4639146.10_model.r INFO @ Sun, 21 Jun 2020 21:05:06: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:05:06: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:05:09: 9000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 21:05:14: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX4639146/SRX4639146.05_peaks.xls INFO @ Sun, 21 Jun 2020 21:05:14: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX4639146/SRX4639146.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:05:14: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX4639146/SRX4639146.05_summits.bed INFO @ Sun, 21 Jun 2020 21:05:14: Done! pass1 - making usageList (758 chroms): 1 millis pass2 - checking and writing primary data (4416 records, 4 fields): 25 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 21:05:15: 10000000 INFO @ Sun, 21 Jun 2020 21:05:22: 11000000 INFO @ Sun, 21 Jun 2020 21:05:27: 12000000 INFO @ Sun, 21 Jun 2020 21:05:33: 13000000 INFO @ Sun, 21 Jun 2020 21:05:34: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 21:05:34: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 21:05:34: #1 total tags in treatment: 13059742 INFO @ Sun, 21 Jun 2020 21:05:34: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:05:34: #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 21:05:34: #1 tags after filtering in treatment: 13059733 INFO @ Sun, 21 Jun 2020 21:05:34: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:05:34: #1 finished! INFO @ Sun, 21 Jun 2020 21:05:34: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:05:34: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:05:34: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:05:35: #2 number of paired peaks: 1365 INFO @ Sun, 21 Jun 2020 21:05:35: start model_add_line... INFO @ Sun, 21 Jun 2020 21:05:35: start X-correlation... INFO @ Sun, 21 Jun 2020 21:05:35: end of X-cor INFO @ Sun, 21 Jun 2020 21:05:35: #2 finished! INFO @ Sun, 21 Jun 2020 21:05:35: #2 predicted fragment length is 113 bps INFO @ Sun, 21 Jun 2020 21:05:35: #2 alternative fragment length(s) may be 4,113 bps INFO @ Sun, 21 Jun 2020 21:05:35: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX4639146/SRX4639146.20_model.r INFO @ Sun, 21 Jun 2020 21:05:35: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:05:35: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 21:05:48: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX4639146/SRX4639146.10_peaks.xls INFO @ Sun, 21 Jun 2020 21:05:48: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX4639146/SRX4639146.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:05:48: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX4639146/SRX4639146.10_summits.bed INFO @ Sun, 21 Jun 2020 21:05:48: Done! pass1 - making usageList (644 chroms): 1 millis pass2 - checking and writing primary data (2816 records, 4 fields): 21 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 21:06:04: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:06:19: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX4639146/SRX4639146.20_peaks.xls INFO @ Sun, 21 Jun 2020 21:06:19: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX4639146/SRX4639146.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:06:19: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX4639146/SRX4639146.20_summits.bed INFO @ Sun, 21 Jun 2020 21:06:19: Done! pass1 - making usageList (549 chroms): 1 millis pass2 - checking and writing primary data (1855 records, 4 fields): 18 millis CompletedMACS2peakCalling