Job ID = 6457494 SRX = SRX4664649 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T11:42:40 prefetch.2.10.7: 1) Downloading 'SRR7813076'... 2020-06-21T11:42:40 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T11:47:29 prefetch.2.10.7: HTTPS download succeed 2020-06-21T11:47:29 prefetch.2.10.7: 1) 'SRR7813076' was downloaded successfully Read 32583830 spots for SRR7813076/SRR7813076.sra Written 32583830 spots for SRR7813076/SRR7813076.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: 00:08:55 32583830 reads; of these: 32583830 (100.00%) were unpaired; of these: 1207417 (3.71%) aligned 0 times 23510108 (72.15%) aligned exactly 1 time 7866305 (24.14%) aligned >1 times 96.29% overall alignment rate Time searching: 00:08:55 Overall time: 00:08:55 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] 9602232 / 31376413 = 0.3060 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 21:03:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4664649/SRX4664649.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4664649/SRX4664649.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4664649/SRX4664649.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4664649/SRX4664649.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 21:03:39: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:03:39: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:03:45: 1000000 INFO @ Sun, 21 Jun 2020 21:03:50: 2000000 INFO @ Sun, 21 Jun 2020 21:03:56: 3000000 INFO @ Sun, 21 Jun 2020 21:04:01: 4000000 INFO @ Sun, 21 Jun 2020 21:04:07: 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 21:04:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4664649/SRX4664649.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4664649/SRX4664649.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4664649/SRX4664649.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4664649/SRX4664649.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 21:04:09: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:04:09: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:04:14: 6000000 INFO @ Sun, 21 Jun 2020 21:04:17: 1000000 INFO @ Sun, 21 Jun 2020 21:04:21: 7000000 INFO @ Sun, 21 Jun 2020 21:04:24: 2000000 INFO @ Sun, 21 Jun 2020 21:04:28: 8000000 INFO @ Sun, 21 Jun 2020 21:04:32: 3000000 INFO @ Sun, 21 Jun 2020 21:04:35: 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 21:04:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4664649/SRX4664649.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4664649/SRX4664649.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4664649/SRX4664649.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4664649/SRX4664649.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 21:04:39: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:04:39: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:04:40: 4000000 INFO @ Sun, 21 Jun 2020 21:04:42: 10000000 INFO @ Sun, 21 Jun 2020 21:04:46: 1000000 INFO @ Sun, 21 Jun 2020 21:04:48: 5000000 INFO @ Sun, 21 Jun 2020 21:04:49: 11000000 INFO @ Sun, 21 Jun 2020 21:04:53: 2000000 INFO @ Sun, 21 Jun 2020 21:04:56: 6000000 INFO @ Sun, 21 Jun 2020 21:04:56: 12000000 INFO @ Sun, 21 Jun 2020 21:05:01: 3000000 INFO @ Sun, 21 Jun 2020 21:05:04: 13000000 INFO @ Sun, 21 Jun 2020 21:05:04: 7000000 INFO @ Sun, 21 Jun 2020 21:05:08: 4000000 INFO @ Sun, 21 Jun 2020 21:05:11: 14000000 INFO @ Sun, 21 Jun 2020 21:05:12: 8000000 INFO @ Sun, 21 Jun 2020 21:05:15: 5000000 INFO @ Sun, 21 Jun 2020 21:05:18: 15000000 INFO @ Sun, 21 Jun 2020 21:05:20: 9000000 INFO @ Sun, 21 Jun 2020 21:05:22: 6000000 INFO @ Sun, 21 Jun 2020 21:05:25: 16000000 INFO @ Sun, 21 Jun 2020 21:05:27: 10000000 INFO @ Sun, 21 Jun 2020 21:05:29: 7000000 INFO @ Sun, 21 Jun 2020 21:05:32: 17000000 INFO @ Sun, 21 Jun 2020 21:05:35: 11000000 INFO @ Sun, 21 Jun 2020 21:05:36: 8000000 INFO @ Sun, 21 Jun 2020 21:05:39: 18000000 INFO @ Sun, 21 Jun 2020 21:05:43: 9000000 INFO @ Sun, 21 Jun 2020 21:05:43: 12000000 INFO @ Sun, 21 Jun 2020 21:05:47: 19000000 INFO @ Sun, 21 Jun 2020 21:05:51: 10000000 INFO @ Sun, 21 Jun 2020 21:05:51: 13000000 INFO @ Sun, 21 Jun 2020 21:05:54: 20000000 INFO @ Sun, 21 Jun 2020 21:05:58: 11000000 INFO @ Sun, 21 Jun 2020 21:05:59: 14000000 INFO @ Sun, 21 Jun 2020 21:06:01: 21000000 INFO @ Sun, 21 Jun 2020 21:06:05: 12000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 21:06:07: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 21:06:07: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 21:06:07: #1 total tags in treatment: 21774181 INFO @ Sun, 21 Jun 2020 21:06:07: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:06:07: #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 21:06:07: 15000000 INFO @ Sun, 21 Jun 2020 21:06:08: #1 tags after filtering in treatment: 21774112 INFO @ Sun, 21 Jun 2020 21:06:08: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:06:08: #1 finished! INFO @ Sun, 21 Jun 2020 21:06:08: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:06:08: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:06:09: #2 number of paired peaks: 2527 INFO @ Sun, 21 Jun 2020 21:06:09: start model_add_line... INFO @ Sun, 21 Jun 2020 21:06:09: start X-correlation... INFO @ Sun, 21 Jun 2020 21:06:09: end of X-cor INFO @ Sun, 21 Jun 2020 21:06:09: #2 finished! INFO @ Sun, 21 Jun 2020 21:06:09: #2 predicted fragment length is 140 bps INFO @ Sun, 21 Jun 2020 21:06:09: #2 alternative fragment length(s) may be 140 bps INFO @ Sun, 21 Jun 2020 21:06:09: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX4664649/SRX4664649.05_model.r INFO @ Sun, 21 Jun 2020 21:06:09: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:06:09: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:06:12: 13000000 INFO @ Sun, 21 Jun 2020 21:06:15: 16000000 INFO @ Sun, 21 Jun 2020 21:06:19: 14000000 INFO @ Sun, 21 Jun 2020 21:06:23: 17000000 INFO @ Sun, 21 Jun 2020 21:06:27: 15000000 INFO @ Sun, 21 Jun 2020 21:06:32: 18000000 INFO @ Sun, 21 Jun 2020 21:06:34: 16000000 INFO @ Sun, 21 Jun 2020 21:06:40: 19000000 INFO @ Sun, 21 Jun 2020 21:06:41: 17000000 BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 21:06:48: 20000000 INFO @ Sun, 21 Jun 2020 21:06:48: 18000000 INFO @ Sun, 21 Jun 2020 21:06:56: 19000000 INFO @ Sun, 21 Jun 2020 21:06:56: 21000000 INFO @ Sun, 21 Jun 2020 21:06:58: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:07:03: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 21:07:03: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 21:07:03: #1 total tags in treatment: 21774181 INFO @ Sun, 21 Jun 2020 21:07:03: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:07:03: #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 21:07:03: 20000000 INFO @ Sun, 21 Jun 2020 21:07:03: #1 tags after filtering in treatment: 21774112 INFO @ Sun, 21 Jun 2020 21:07:03: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:07:03: #1 finished! INFO @ Sun, 21 Jun 2020 21:07:03: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:07:03: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:07:05: #2 number of paired peaks: 2527 INFO @ Sun, 21 Jun 2020 21:07:05: start model_add_line... INFO @ Sun, 21 Jun 2020 21:07:05: start X-correlation... INFO @ Sun, 21 Jun 2020 21:07:05: end of X-cor INFO @ Sun, 21 Jun 2020 21:07:05: #2 finished! INFO @ Sun, 21 Jun 2020 21:07:05: #2 predicted fragment length is 140 bps INFO @ Sun, 21 Jun 2020 21:07:05: #2 alternative fragment length(s) may be 140 bps INFO @ Sun, 21 Jun 2020 21:07:05: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX4664649/SRX4664649.10_model.r INFO @ Sun, 21 Jun 2020 21:07:05: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:07:05: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:07:09: 21000000 INFO @ Sun, 21 Jun 2020 21:07:14: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 21:07:14: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 21:07:14: #1 total tags in treatment: 21774181 INFO @ Sun, 21 Jun 2020 21:07:14: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:07:14: #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 21:07:14: #1 tags after filtering in treatment: 21774112 INFO @ Sun, 21 Jun 2020 21:07:14: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:07:14: #1 finished! INFO @ Sun, 21 Jun 2020 21:07:14: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:07:14: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:07:16: #2 number of paired peaks: 2527 INFO @ Sun, 21 Jun 2020 21:07:16: start model_add_line... INFO @ Sun, 21 Jun 2020 21:07:16: start X-correlation... INFO @ Sun, 21 Jun 2020 21:07:16: end of X-cor INFO @ Sun, 21 Jun 2020 21:07:16: #2 finished! INFO @ Sun, 21 Jun 2020 21:07:16: #2 predicted fragment length is 140 bps INFO @ Sun, 21 Jun 2020 21:07:16: #2 alternative fragment length(s) may be 140 bps INFO @ Sun, 21 Jun 2020 21:07:16: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX4664649/SRX4664649.20_model.r INFO @ Sun, 21 Jun 2020 21:07:16: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:07:16: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:07:20: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX4664649/SRX4664649.05_peaks.xls INFO @ Sun, 21 Jun 2020 21:07:20: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX4664649/SRX4664649.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:07:20: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX4664649/SRX4664649.05_summits.bed INFO @ Sun, 21 Jun 2020 21:07:21: Done! pass1 - making usageList (608 chroms): 3 millis pass2 - checking and writing primary data (12832 records, 4 fields): 28 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 21:07:51: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:08:04: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:08:13: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX4664649/SRX4664649.10_peaks.xls INFO @ Sun, 21 Jun 2020 21:08:13: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX4664649/SRX4664649.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:08:13: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX4664649/SRX4664649.10_summits.bed INFO @ Sun, 21 Jun 2020 21:08:13: Done! pass1 - making usageList (550 chroms): 2 millis pass2 - checking and writing primary data (10132 records, 4 fields): 24 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 21:08:25: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX4664649/SRX4664649.20_peaks.xls INFO @ Sun, 21 Jun 2020 21:08:25: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX4664649/SRX4664649.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:08:25: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX4664649/SRX4664649.20_summits.bed INFO @ Sun, 21 Jun 2020 21:08:25: Done! pass1 - making usageList (443 chroms): 2 millis pass2 - checking and writing primary data (7082 records, 4 fields): 19 millis CompletedMACS2peakCalling