Job ID = 6456134 SRX = SRX318811 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T10:32:06 prefetch.2.10.7: 1) Downloading 'SRR927158'... 2020-06-21T10:32:06 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T10:42:03 prefetch.2.10.7: HTTPS download succeed 2020-06-21T10:42:03 prefetch.2.10.7: 1) 'SRR927158' was downloaded successfully Read 40444037 spots for SRR927158/SRR927158.sra Written 40444037 spots for SRR927158/SRR927158.sra 2020-06-21T10:44:14 prefetch.2.10.7: 1) Downloading 'SRR927159'... 2020-06-21T10:44:14 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T10:52:59 prefetch.2.10.7: HTTPS download succeed 2020-06-21T10:52:59 prefetch.2.10.7: 1) 'SRR927159' was downloaded successfully Read 44380544 spots for SRR927159/SRR927159.sra Written 44380544 spots for SRR927159/SRR927159.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: 00:20:02 84824581 reads; of these: 84824581 (100.00%) were unpaired; of these: 4880918 (5.75%) aligned 0 times 61386994 (72.37%) aligned exactly 1 time 18556669 (21.88%) aligned >1 times 94.25% overall alignment rate Time searching: 00:20:02 Overall time: 00:20:02 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 36 files... [bam_rmdupse_core] 43865532 / 79943663 = 0.5487 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 20:37:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX318811/SRX318811.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX318811/SRX318811.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX318811/SRX318811.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX318811/SRX318811.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 20:37:31: #1 read tag files... INFO @ Sun, 21 Jun 2020 20:37:31: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 20:37:37: 1000000 INFO @ Sun, 21 Jun 2020 20:37:42: 2000000 INFO @ Sun, 21 Jun 2020 20:37:48: 3000000 INFO @ Sun, 21 Jun 2020 20:37:54: 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 20:38:00: 5000000 INFO @ Sun, 21 Jun 2020 20:38:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX318811/SRX318811.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX318811/SRX318811.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX318811/SRX318811.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX318811/SRX318811.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 20:38:02: #1 read tag files... INFO @ Sun, 21 Jun 2020 20:38:02: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 20:38:05: 6000000 INFO @ Sun, 21 Jun 2020 20:38:09: 1000000 INFO @ Sun, 21 Jun 2020 20:38:12: 7000000 INFO @ Sun, 21 Jun 2020 20:38:15: 2000000 INFO @ Sun, 21 Jun 2020 20:38:18: 8000000 INFO @ Sun, 21 Jun 2020 20:38:21: 3000000 INFO @ Sun, 21 Jun 2020 20:38:24: 9000000 INFO @ Sun, 21 Jun 2020 20:38:27: 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 20:38:30: 10000000 INFO @ Sun, 21 Jun 2020 20:38:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX318811/SRX318811.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX318811/SRX318811.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX318811/SRX318811.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX318811/SRX318811.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 20:38:31: #1 read tag files... INFO @ Sun, 21 Jun 2020 20:38:31: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 20:38:33: 5000000 INFO @ Sun, 21 Jun 2020 20:38:36: 11000000 INFO @ Sun, 21 Jun 2020 20:38:37: 1000000 INFO @ Sun, 21 Jun 2020 20:38:40: 6000000 INFO @ Sun, 21 Jun 2020 20:38:43: 12000000 INFO @ Sun, 21 Jun 2020 20:38:44: 2000000 INFO @ Sun, 21 Jun 2020 20:38:46: 7000000 INFO @ Sun, 21 Jun 2020 20:38:49: 13000000 INFO @ Sun, 21 Jun 2020 20:38:50: 3000000 INFO @ Sun, 21 Jun 2020 20:38:52: 8000000 INFO @ Sun, 21 Jun 2020 20:38:55: 14000000 INFO @ Sun, 21 Jun 2020 20:38:56: 4000000 INFO @ Sun, 21 Jun 2020 20:38:59: 9000000 INFO @ Sun, 21 Jun 2020 20:39:01: 15000000 INFO @ Sun, 21 Jun 2020 20:39:02: 5000000 INFO @ Sun, 21 Jun 2020 20:39:05: 10000000 INFO @ Sun, 21 Jun 2020 20:39:08: 16000000 INFO @ Sun, 21 Jun 2020 20:39:09: 6000000 INFO @ Sun, 21 Jun 2020 20:39:11: 11000000 INFO @ Sun, 21 Jun 2020 20:39:14: 17000000 INFO @ Sun, 21 Jun 2020 20:39:15: 7000000 INFO @ Sun, 21 Jun 2020 20:39:17: 12000000 INFO @ Sun, 21 Jun 2020 20:39:20: 18000000 INFO @ Sun, 21 Jun 2020 20:39:21: 8000000 INFO @ Sun, 21 Jun 2020 20:39:24: 13000000 INFO @ Sun, 21 Jun 2020 20:39:26: 19000000 INFO @ Sun, 21 Jun 2020 20:39:28: 9000000 INFO @ Sun, 21 Jun 2020 20:39:30: 14000000 INFO @ Sun, 21 Jun 2020 20:39:33: 20000000 INFO @ Sun, 21 Jun 2020 20:39:34: 10000000 INFO @ Sun, 21 Jun 2020 20:39:36: 15000000 INFO @ Sun, 21 Jun 2020 20:39:39: 21000000 INFO @ Sun, 21 Jun 2020 20:39:40: 11000000 INFO @ Sun, 21 Jun 2020 20:39:42: 16000000 INFO @ Sun, 21 Jun 2020 20:39:45: 22000000 INFO @ Sun, 21 Jun 2020 20:39:46: 12000000 INFO @ Sun, 21 Jun 2020 20:39:49: 17000000 INFO @ Sun, 21 Jun 2020 20:39:51: 23000000 INFO @ Sun, 21 Jun 2020 20:39:52: 13000000 INFO @ Sun, 21 Jun 2020 20:39:55: 18000000 INFO @ Sun, 21 Jun 2020 20:39:58: 24000000 INFO @ Sun, 21 Jun 2020 20:39:59: 14000000 INFO @ Sun, 21 Jun 2020 20:40:01: 19000000 INFO @ Sun, 21 Jun 2020 20:40:04: 25000000 INFO @ Sun, 21 Jun 2020 20:40:05: 15000000 INFO @ Sun, 21 Jun 2020 20:40:07: 20000000 INFO @ Sun, 21 Jun 2020 20:40:10: 26000000 INFO @ Sun, 21 Jun 2020 20:40:11: 16000000 INFO @ Sun, 21 Jun 2020 20:40:14: 21000000 INFO @ Sun, 21 Jun 2020 20:40:17: 27000000 INFO @ Sun, 21 Jun 2020 20:40:18: 17000000 INFO @ Sun, 21 Jun 2020 20:40:20: 22000000 INFO @ Sun, 21 Jun 2020 20:40:23: 28000000 INFO @ Sun, 21 Jun 2020 20:40:24: 18000000 INFO @ Sun, 21 Jun 2020 20:40:26: 23000000 INFO @ Sun, 21 Jun 2020 20:40:30: 29000000 INFO @ Sun, 21 Jun 2020 20:40:30: 19000000 INFO @ Sun, 21 Jun 2020 20:40:32: 24000000 INFO @ Sun, 21 Jun 2020 20:40:36: 30000000 INFO @ Sun, 21 Jun 2020 20:40:37: 20000000 INFO @ Sun, 21 Jun 2020 20:40:39: 25000000 INFO @ Sun, 21 Jun 2020 20:40:42: 31000000 INFO @ Sun, 21 Jun 2020 20:40:43: 21000000 INFO @ Sun, 21 Jun 2020 20:40:45: 26000000 INFO @ Sun, 21 Jun 2020 20:40:48: 32000000 INFO @ Sun, 21 Jun 2020 20:40:49: 22000000 INFO @ Sun, 21 Jun 2020 20:40:51: 27000000 INFO @ Sun, 21 Jun 2020 20:40:55: 33000000 INFO @ Sun, 21 Jun 2020 20:40:55: 23000000 INFO @ Sun, 21 Jun 2020 20:40:57: 28000000 INFO @ Sun, 21 Jun 2020 20:41:01: 34000000 INFO @ Sun, 21 Jun 2020 20:41:02: 24000000 INFO @ Sun, 21 Jun 2020 20:41:04: 29000000 INFO @ Sun, 21 Jun 2020 20:41:07: 35000000 INFO @ Sun, 21 Jun 2020 20:41:08: 25000000 INFO @ Sun, 21 Jun 2020 20:41:10: 30000000 INFO @ Sun, 21 Jun 2020 20:41:14: 36000000 INFO @ Sun, 21 Jun 2020 20:41:14: 26000000 INFO @ Sun, 21 Jun 2020 20:41:15: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 20:41:15: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 20:41:15: #1 total tags in treatment: 36078131 INFO @ Sun, 21 Jun 2020 20:41:15: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 20:41:15: #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 20:41:16: #1 tags after filtering in treatment: 36078101 INFO @ Sun, 21 Jun 2020 20:41:16: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 20:41:16: #1 finished! INFO @ Sun, 21 Jun 2020 20:41:16: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 20:41:16: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 20:41:17: 31000000 INFO @ Sun, 21 Jun 2020 20:41:18: #2 number of paired peaks: 1003 INFO @ Sun, 21 Jun 2020 20:41:18: start model_add_line... INFO @ Sun, 21 Jun 2020 20:41:19: start X-correlation... INFO @ Sun, 21 Jun 2020 20:41:19: end of X-cor INFO @ Sun, 21 Jun 2020 20:41:19: #2 finished! INFO @ Sun, 21 Jun 2020 20:41:19: #2 predicted fragment length is 167 bps INFO @ Sun, 21 Jun 2020 20:41:19: #2 alternative fragment length(s) may be 3,167 bps INFO @ Sun, 21 Jun 2020 20:41:19: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX318811/SRX318811.05_model.r INFO @ Sun, 21 Jun 2020 20:41:19: #3 Call peaks... INFO @ Sun, 21 Jun 2020 20:41:19: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 20:41:21: 27000000 INFO @ Sun, 21 Jun 2020 20:41:23: 32000000 INFO @ Sun, 21 Jun 2020 20:41:27: 28000000 INFO @ Sun, 21 Jun 2020 20:41:29: 33000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 20:41:34: 29000000 INFO @ Sun, 21 Jun 2020 20:41:36: 34000000 INFO @ Sun, 21 Jun 2020 20:41:40: 30000000 INFO @ Sun, 21 Jun 2020 20:41:42: 35000000 INFO @ Sun, 21 Jun 2020 20:41:47: 31000000 INFO @ Sun, 21 Jun 2020 20:41:49: 36000000 INFO @ Sun, 21 Jun 2020 20:41:50: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 20:41:50: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 20:41:50: #1 total tags in treatment: 36078131 INFO @ Sun, 21 Jun 2020 20:41:50: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 20:41:50: #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 20:41:50: #1 tags after filtering in treatment: 36078101 INFO @ Sun, 21 Jun 2020 20:41:50: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 20:41:50: #1 finished! INFO @ Sun, 21 Jun 2020 20:41:50: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 20:41:50: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 20:41:53: #2 number of paired peaks: 1003 INFO @ Sun, 21 Jun 2020 20:41:53: start model_add_line... INFO @ Sun, 21 Jun 2020 20:41:53: 32000000 INFO @ Sun, 21 Jun 2020 20:41:53: start X-correlation... INFO @ Sun, 21 Jun 2020 20:41:53: end of X-cor INFO @ Sun, 21 Jun 2020 20:41:53: #2 finished! INFO @ Sun, 21 Jun 2020 20:41:53: #2 predicted fragment length is 167 bps INFO @ Sun, 21 Jun 2020 20:41:53: #2 alternative fragment length(s) may be 3,167 bps INFO @ Sun, 21 Jun 2020 20:41:53: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX318811/SRX318811.10_model.r INFO @ Sun, 21 Jun 2020 20:41:53: #3 Call peaks... INFO @ Sun, 21 Jun 2020 20:41:53: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 20:41:59: 33000000 INFO @ Sun, 21 Jun 2020 20:42:05: 34000000 INFO @ Sun, 21 Jun 2020 20:42:11: 35000000 INFO @ Sun, 21 Jun 2020 20:42:18: 36000000 INFO @ Sun, 21 Jun 2020 20:42:18: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 20:42:18: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 20:42:18: #1 total tags in treatment: 36078131 INFO @ Sun, 21 Jun 2020 20:42:18: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 20:42:18: #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 20:42:19: #1 tags after filtering in treatment: 36078101 INFO @ Sun, 21 Jun 2020 20:42:19: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 20:42:19: #1 finished! INFO @ Sun, 21 Jun 2020 20:42:19: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 20:42:19: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 20:42:22: #2 number of paired peaks: 1003 INFO @ Sun, 21 Jun 2020 20:42:22: start model_add_line... INFO @ Sun, 21 Jun 2020 20:42:22: start X-correlation... INFO @ Sun, 21 Jun 2020 20:42:22: end of X-cor INFO @ Sun, 21 Jun 2020 20:42:22: #2 finished! INFO @ Sun, 21 Jun 2020 20:42:22: #2 predicted fragment length is 167 bps INFO @ Sun, 21 Jun 2020 20:42:22: #2 alternative fragment length(s) may be 3,167 bps INFO @ Sun, 21 Jun 2020 20:42:22: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX318811/SRX318811.20_model.r INFO @ Sun, 21 Jun 2020 20:42:22: #3 Call peaks... INFO @ Sun, 21 Jun 2020 20:42:22: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 20:42:42: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 20:43:18: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 20:43:20: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX318811/SRX318811.05_peaks.xls INFO @ Sun, 21 Jun 2020 20:43:20: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX318811/SRX318811.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 20:43:20: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX318811/SRX318811.05_summits.bed INFO @ Sun, 21 Jun 2020 20:43:20: Done! pass1 - making usageList (709 chroms): 3 millis pass2 - checking and writing primary data (12078 records, 4 fields): 31 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 20:43:44: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 20:43:55: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX318811/SRX318811.10_peaks.xls INFO @ Sun, 21 Jun 2020 20:43:55: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX318811/SRX318811.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 20:43:55: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX318811/SRX318811.10_summits.bed INFO @ Sun, 21 Jun 2020 20:43:55: Done! pass1 - making usageList (629 chroms): 2 millis pass2 - checking and writing primary data (10197 records, 4 fields): 27 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 20:44:21: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX318811/SRX318811.20_peaks.xls INFO @ Sun, 21 Jun 2020 20:44:21: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX318811/SRX318811.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 20:44:21: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX318811/SRX318811.20_summits.bed INFO @ Sun, 21 Jun 2020 20:44:21: Done! pass1 - making usageList (512 chroms): 2 millis pass2 - checking and writing primary data (8263 records, 4 fields): 22 millis CompletedMACS2peakCalling