Job ID = 6454816 SRX = SRX2592415 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T09:47:55 prefetch.2.10.7: 1) Downloading 'SRR5289692'... 2020-06-21T09:47:55 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T09:52:19 prefetch.2.10.7: HTTPS download succeed 2020-06-21T09:52:19 prefetch.2.10.7: 1) 'SRR5289692' was downloaded successfully Read 28542339 spots for SRR5289692/SRR5289692.sra Written 28542339 spots for SRR5289692/SRR5289692.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: 00:08:42 28542339 reads; of these: 28542339 (100.00%) were unpaired; of these: 2333173 (8.17%) aligned 0 times 21244568 (74.43%) aligned exactly 1 time 4964598 (17.39%) aligned >1 times 91.83% overall alignment rate Time searching: 00:08:42 Overall time: 00:08:42 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] 6891453 / 26209166 = 0.2629 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 19:09:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX2592415/SRX2592415.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX2592415/SRX2592415.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX2592415/SRX2592415.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX2592415/SRX2592415.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 19:09:19: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:09:19: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:09:26: 1000000 INFO @ Sun, 21 Jun 2020 19:09:33: 2000000 INFO @ Sun, 21 Jun 2020 19:09:40: 3000000 INFO @ Sun, 21 Jun 2020 19:09:47: 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 19:09:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX2592415/SRX2592415.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX2592415/SRX2592415.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX2592415/SRX2592415.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX2592415/SRX2592415.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 19:09:50: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:09:50: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:09:55: 5000000 INFO @ Sun, 21 Jun 2020 19:09:57: 1000000 INFO @ Sun, 21 Jun 2020 19:10:02: 6000000 INFO @ Sun, 21 Jun 2020 19:10:04: 2000000 INFO @ Sun, 21 Jun 2020 19:10:10: 7000000 INFO @ Sun, 21 Jun 2020 19:10:11: 3000000 INFO @ Sun, 21 Jun 2020 19:10:17: 8000000 INFO @ Sun, 21 Jun 2020 19:10:17: 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 19:10:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX2592415/SRX2592415.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX2592415/SRX2592415.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX2592415/SRX2592415.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX2592415/SRX2592415.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 19:10:20: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:10:20: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:10:25: 5000000 INFO @ Sun, 21 Jun 2020 19:10:25: 9000000 INFO @ Sun, 21 Jun 2020 19:10:27: 1000000 INFO @ Sun, 21 Jun 2020 19:10:32: 6000000 INFO @ Sun, 21 Jun 2020 19:10:32: 10000000 INFO @ Sun, 21 Jun 2020 19:10:35: 2000000 INFO @ Sun, 21 Jun 2020 19:10:39: 7000000 INFO @ Sun, 21 Jun 2020 19:10:40: 11000000 INFO @ Sun, 21 Jun 2020 19:10:42: 3000000 INFO @ Sun, 21 Jun 2020 19:10:45: 8000000 INFO @ Sun, 21 Jun 2020 19:10:47: 12000000 INFO @ Sun, 21 Jun 2020 19:10:49: 4000000 INFO @ Sun, 21 Jun 2020 19:10:53: 9000000 INFO @ Sun, 21 Jun 2020 19:10:55: 13000000 INFO @ Sun, 21 Jun 2020 19:10:57: 5000000 INFO @ Sun, 21 Jun 2020 19:11:00: 10000000 INFO @ Sun, 21 Jun 2020 19:11:02: 14000000 INFO @ Sun, 21 Jun 2020 19:11:04: 6000000 INFO @ Sun, 21 Jun 2020 19:11:07: 11000000 INFO @ Sun, 21 Jun 2020 19:11:10: 15000000 INFO @ Sun, 21 Jun 2020 19:11:12: 7000000 INFO @ Sun, 21 Jun 2020 19:11:14: 12000000 INFO @ Sun, 21 Jun 2020 19:11:18: 16000000 INFO @ Sun, 21 Jun 2020 19:11:19: 8000000 INFO @ Sun, 21 Jun 2020 19:11:21: 13000000 INFO @ Sun, 21 Jun 2020 19:11:25: 17000000 INFO @ Sun, 21 Jun 2020 19:11:27: 9000000 INFO @ Sun, 21 Jun 2020 19:11:28: 14000000 INFO @ Sun, 21 Jun 2020 19:11:33: 18000000 INFO @ Sun, 21 Jun 2020 19:11:34: 10000000 INFO @ Sun, 21 Jun 2020 19:11:35: 15000000 INFO @ Sun, 21 Jun 2020 19:11:41: 19000000 INFO @ Sun, 21 Jun 2020 19:11:42: 11000000 INFO @ Sun, 21 Jun 2020 19:11:43: 16000000 INFO @ Sun, 21 Jun 2020 19:11:44: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 19:11:44: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 19:11:44: #1 total tags in treatment: 19317713 INFO @ Sun, 21 Jun 2020 19:11:44: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:11:44: #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 19:11:44: #1 tags after filtering in treatment: 19317631 INFO @ Sun, 21 Jun 2020 19:11:44: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:11:44: #1 finished! INFO @ Sun, 21 Jun 2020 19:11:44: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:11:44: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:11:46: #2 number of paired peaks: 2392 INFO @ Sun, 21 Jun 2020 19:11:46: start model_add_line... INFO @ Sun, 21 Jun 2020 19:11:46: start X-correlation... INFO @ Sun, 21 Jun 2020 19:11:46: end of X-cor INFO @ Sun, 21 Jun 2020 19:11:46: #2 finished! INFO @ Sun, 21 Jun 2020 19:11:46: #2 predicted fragment length is 177 bps INFO @ Sun, 21 Jun 2020 19:11:46: #2 alternative fragment length(s) may be 3,177 bps INFO @ Sun, 21 Jun 2020 19:11:46: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX2592415/SRX2592415.05_model.r INFO @ Sun, 21 Jun 2020 19:11:46: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:11:46: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 19:11:50: 12000000 INFO @ Sun, 21 Jun 2020 19:11:50: 17000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 19:11:57: 18000000 INFO @ Sun, 21 Jun 2020 19:11:57: 13000000 INFO @ Sun, 21 Jun 2020 19:12:04: 19000000 INFO @ Sun, 21 Jun 2020 19:12:05: 14000000 INFO @ Sun, 21 Jun 2020 19:12:07: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 19:12:07: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 19:12:07: #1 total tags in treatment: 19317713 INFO @ Sun, 21 Jun 2020 19:12:07: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:12:07: #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 19:12:07: #1 tags after filtering in treatment: 19317631 INFO @ Sun, 21 Jun 2020 19:12:07: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:12:07: #1 finished! INFO @ Sun, 21 Jun 2020 19:12:07: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:12:07: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:12:09: #2 number of paired peaks: 2392 INFO @ Sun, 21 Jun 2020 19:12:09: start model_add_line... INFO @ Sun, 21 Jun 2020 19:12:09: start X-correlation... INFO @ Sun, 21 Jun 2020 19:12:09: end of X-cor INFO @ Sun, 21 Jun 2020 19:12:09: #2 finished! INFO @ Sun, 21 Jun 2020 19:12:09: #2 predicted fragment length is 177 bps INFO @ Sun, 21 Jun 2020 19:12:09: #2 alternative fragment length(s) may be 3,177 bps INFO @ Sun, 21 Jun 2020 19:12:09: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX2592415/SRX2592415.10_model.r INFO @ Sun, 21 Jun 2020 19:12:09: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:12:09: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 19:12:12: 15000000 INFO @ Sun, 21 Jun 2020 19:12:20: 16000000 INFO @ Sun, 21 Jun 2020 19:12:26: 17000000 BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 19:12:33: 18000000 INFO @ Sun, 21 Jun 2020 19:12:38: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 19:12:41: 19000000 INFO @ Sun, 21 Jun 2020 19:12:43: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 19:12:43: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 19:12:43: #1 total tags in treatment: 19317713 INFO @ Sun, 21 Jun 2020 19:12:43: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:12:43: #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 19:12:44: #1 tags after filtering in treatment: 19317631 INFO @ Sun, 21 Jun 2020 19:12:44: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:12:44: #1 finished! INFO @ Sun, 21 Jun 2020 19:12:44: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:12:44: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:12:45: #2 number of paired peaks: 2392 INFO @ Sun, 21 Jun 2020 19:12:45: start model_add_line... INFO @ Sun, 21 Jun 2020 19:12:46: start X-correlation... INFO @ Sun, 21 Jun 2020 19:12:46: end of X-cor INFO @ Sun, 21 Jun 2020 19:12:46: #2 finished! INFO @ Sun, 21 Jun 2020 19:12:46: #2 predicted fragment length is 177 bps INFO @ Sun, 21 Jun 2020 19:12:46: #2 alternative fragment length(s) may be 3,177 bps INFO @ Sun, 21 Jun 2020 19:12:46: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX2592415/SRX2592415.20_model.r INFO @ Sun, 21 Jun 2020 19:12:46: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:12:46: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 19:12:59: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 19:13:02: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX2592415/SRX2592415.05_peaks.xls INFO @ Sun, 21 Jun 2020 19:13:02: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX2592415/SRX2592415.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:13:02: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX2592415/SRX2592415.05_summits.bed INFO @ Sun, 21 Jun 2020 19:13:02: Done! pass1 - making usageList (224 chroms): 3 millis pass2 - checking and writing primary data (14235 records, 4 fields): 20 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 19:13:22: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX2592415/SRX2592415.10_peaks.xls INFO @ Sun, 21 Jun 2020 19:13:22: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX2592415/SRX2592415.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:13:22: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX2592415/SRX2592415.10_summits.bed INFO @ Sun, 21 Jun 2020 19:13:22: Done! pass1 - making usageList (176 chroms): 2 millis pass2 - checking and writing primary data (9792 records, 4 fields): 15 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 19:13:36: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 19:13:58: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX2592415/SRX2592415.20_peaks.xls INFO @ Sun, 21 Jun 2020 19:13:58: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX2592415/SRX2592415.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:13:58: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX2592415/SRX2592415.20_summits.bed INFO @ Sun, 21 Jun 2020 19:13:58: Done! pass1 - making usageList (121 chroms): 1 millis pass2 - checking and writing primary data (4751 records, 4 fields): 10 millis CompletedMACS2peakCalling