Job ID = 6456123 SRX = SRX318796 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T10:37:59 prefetch.2.10.7: 1) Downloading 'SRR927112'... 2020-06-21T10:37:59 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T10:42:38 prefetch.2.10.7: HTTPS download succeed 2020-06-21T10:42:38 prefetch.2.10.7: 1) 'SRR927112' was downloaded successfully Read 24452880 spots for SRR927112/SRR927112.sra Written 24452880 spots for SRR927112/SRR927112.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: 00:05:44 24452880 reads; of these: 24452880 (100.00%) were unpaired; of these: 3693387 (15.10%) aligned 0 times 16429956 (67.19%) aligned exactly 1 time 4329537 (17.71%) aligned >1 times 84.90% overall alignment rate Time searching: 00:05:44 Overall time: 00:05:44 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] 7940971 / 20759493 = 0.3825 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 19:55:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX318796/SRX318796.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX318796/SRX318796.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX318796/SRX318796.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX318796/SRX318796.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 19:55:47: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:55:47: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:55:53: 1000000 INFO @ Sun, 21 Jun 2020 19:55:59: 2000000 INFO @ Sun, 21 Jun 2020 19:56:06: 3000000 INFO @ Sun, 21 Jun 2020 19:56:12: 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 19:56:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX318796/SRX318796.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX318796/SRX318796.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX318796/SRX318796.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX318796/SRX318796.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 19:56:17: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:56:17: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:56:19: 5000000 INFO @ Sun, 21 Jun 2020 19:56:24: 1000000 INFO @ Sun, 21 Jun 2020 19:56:26: 6000000 INFO @ Sun, 21 Jun 2020 19:56:31: 2000000 INFO @ Sun, 21 Jun 2020 19:56:33: 7000000 INFO @ Sun, 21 Jun 2020 19:56:38: 3000000 INFO @ Sun, 21 Jun 2020 19:56:40: 8000000 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 19:56:46: 4000000 INFO @ Sun, 21 Jun 2020 19:56:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX318796/SRX318796.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX318796/SRX318796.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX318796/SRX318796.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX318796/SRX318796.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 19:56:47: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:56:47: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:56:47: 9000000 INFO @ Sun, 21 Jun 2020 19:56:53: 1000000 INFO @ Sun, 21 Jun 2020 19:56:53: 5000000 INFO @ Sun, 21 Jun 2020 19:56:55: 10000000 INFO @ Sun, 21 Jun 2020 19:57:00: 2000000 INFO @ Sun, 21 Jun 2020 19:57:01: 6000000 INFO @ Sun, 21 Jun 2020 19:57:04: 11000000 INFO @ Sun, 21 Jun 2020 19:57:06: 3000000 INFO @ Sun, 21 Jun 2020 19:57:08: 7000000 INFO @ Sun, 21 Jun 2020 19:57:11: 12000000 INFO @ Sun, 21 Jun 2020 19:57:12: 4000000 INFO @ Sun, 21 Jun 2020 19:57:16: 8000000 INFO @ Sun, 21 Jun 2020 19:57:18: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 19:57:18: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 19:57:18: #1 total tags in treatment: 12818522 INFO @ Sun, 21 Jun 2020 19:57:18: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:57:18: #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 19:57:19: 5000000 INFO @ Sun, 21 Jun 2020 19:57:19: #1 tags after filtering in treatment: 12818378 INFO @ Sun, 21 Jun 2020 19:57:19: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:57:19: #1 finished! INFO @ Sun, 21 Jun 2020 19:57:19: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:57:19: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:57:21: #2 number of paired peaks: 10052 INFO @ Sun, 21 Jun 2020 19:57:21: start model_add_line... INFO @ Sun, 21 Jun 2020 19:57:21: start X-correlation... INFO @ Sun, 21 Jun 2020 19:57:21: end of X-cor INFO @ Sun, 21 Jun 2020 19:57:21: #2 finished! INFO @ Sun, 21 Jun 2020 19:57:21: #2 predicted fragment length is 234 bps INFO @ Sun, 21 Jun 2020 19:57:21: #2 alternative fragment length(s) may be 234 bps INFO @ Sun, 21 Jun 2020 19:57:21: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX318796/SRX318796.05_model.r INFO @ Sun, 21 Jun 2020 19:57:21: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:57:21: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 19:57:23: 9000000 INFO @ Sun, 21 Jun 2020 19:57:25: 6000000 INFO @ Sun, 21 Jun 2020 19:57:30: 10000000 INFO @ Sun, 21 Jun 2020 19:57:31: 7000000 INFO @ Sun, 21 Jun 2020 19:57:38: 11000000 INFO @ Sun, 21 Jun 2020 19:57:38: 8000000 INFO @ Sun, 21 Jun 2020 19:57:44: 9000000 INFO @ Sun, 21 Jun 2020 19:57:45: 12000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 19:57:51: 10000000 INFO @ Sun, 21 Jun 2020 19:57:51: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 19:57:51: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 19:57:51: #1 total tags in treatment: 12818522 INFO @ Sun, 21 Jun 2020 19:57:51: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:57:51: #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 19:57:52: #1 tags after filtering in treatment: 12818378 INFO @ Sun, 21 Jun 2020 19:57:52: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:57:52: #1 finished! INFO @ Sun, 21 Jun 2020 19:57:52: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:57:52: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:57:53: #2 number of paired peaks: 10052 INFO @ Sun, 21 Jun 2020 19:57:53: start model_add_line... INFO @ Sun, 21 Jun 2020 19:57:54: start X-correlation... INFO @ Sun, 21 Jun 2020 19:57:54: end of X-cor INFO @ Sun, 21 Jun 2020 19:57:54: #2 finished! INFO @ Sun, 21 Jun 2020 19:57:54: #2 predicted fragment length is 234 bps INFO @ Sun, 21 Jun 2020 19:57:54: #2 alternative fragment length(s) may be 234 bps INFO @ Sun, 21 Jun 2020 19:57:54: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX318796/SRX318796.10_model.r INFO @ Sun, 21 Jun 2020 19:57:54: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:57:54: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 19:57:58: 11000000 INFO @ Sun, 21 Jun 2020 19:58:04: 12000000 INFO @ Sun, 21 Jun 2020 19:58:09: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 19:58:09: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 19:58:09: #1 total tags in treatment: 12818522 INFO @ Sun, 21 Jun 2020 19:58:09: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:58:09: #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 19:58:10: #1 tags after filtering in treatment: 12818378 INFO @ Sun, 21 Jun 2020 19:58:10: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:58:10: #1 finished! INFO @ Sun, 21 Jun 2020 19:58:10: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:58:10: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:58:12: #2 number of paired peaks: 10052 INFO @ Sun, 21 Jun 2020 19:58:12: start model_add_line... INFO @ Sun, 21 Jun 2020 19:58:12: start X-correlation... INFO @ Sun, 21 Jun 2020 19:58:12: end of X-cor INFO @ Sun, 21 Jun 2020 19:58:12: #2 finished! INFO @ Sun, 21 Jun 2020 19:58:12: #2 predicted fragment length is 234 bps INFO @ Sun, 21 Jun 2020 19:58:12: #2 alternative fragment length(s) may be 234 bps INFO @ Sun, 21 Jun 2020 19:58:12: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX318796/SRX318796.20_model.r INFO @ Sun, 21 Jun 2020 19:58:12: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:58:12: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 19:58:13: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 19:58:29: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX318796/SRX318796.05_peaks.xls INFO @ Sun, 21 Jun 2020 19:58:29: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX318796/SRX318796.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:58:29: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX318796/SRX318796.05_summits.bed INFO @ Sun, 21 Jun 2020 19:58:29: Done! pass1 - making usageList (349 chroms): 2 millis pass2 - checking and writing primary data (9449 records, 4 fields): 32 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 19:58:46: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 19:59:02: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX318796/SRX318796.10_peaks.xls INFO @ Sun, 21 Jun 2020 19:59:02: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX318796/SRX318796.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:59:02: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX318796/SRX318796.10_summits.bed INFO @ Sun, 21 Jun 2020 19:59:02: Done! pass1 - making usageList (235 chroms): 3 millis pass2 - checking and writing primary data (8200 records, 4 fields): 24 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 19:59:05: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 19:59:20: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX318796/SRX318796.20_peaks.xls INFO @ Sun, 21 Jun 2020 19:59:20: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX318796/SRX318796.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:59:20: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX318796/SRX318796.20_summits.bed INFO @ Sun, 21 Jun 2020 19:59:20: Done! pass1 - making usageList (176 chroms): 2 millis pass2 - checking and writing primary data (6760 records, 4 fields): 19 millis CompletedMACS2peakCalling