Job ID = 6458955 SRX = SRX5827824 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T12:45:55 prefetch.2.10.7: 1) Downloading 'SRR9051575'... 2020-06-21T12:45:55 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T12:49:51 prefetch.2.10.7: HTTPS download succeed 2020-06-21T12:49:51 prefetch.2.10.7: 1) 'SRR9051575' was downloaded successfully 2020-06-21T12:49:51 prefetch.2.10.7: 'SRR9051575' has 0 unresolved dependencies Read 36171707 spots for SRR9051575/SRR9051575.sra Written 36171707 spots for SRR9051575/SRR9051575.sra fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:01 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:08:42 36171707 reads; of these: 36171707 (100.00%) were unpaired; of these: 2820232 (7.80%) aligned 0 times 28628490 (79.15%) aligned exactly 1 time 4722985 (13.06%) aligned >1 times 92.20% overall alignment rate Time searching: 00:08:43 Overall time: 00:08:43 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] 16307311 / 33351475 = 0.4890 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 22:08:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5827824/SRX5827824.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5827824/SRX5827824.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5827824/SRX5827824.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5827824/SRX5827824.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 22:08:14: #1 read tag files... INFO @ Sun, 21 Jun 2020 22:08:14: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 22:08:20: 1000000 INFO @ Sun, 21 Jun 2020 22:08:25: 2000000 INFO @ Sun, 21 Jun 2020 22:08:31: 3000000 INFO @ Sun, 21 Jun 2020 22:08:36: 4000000 INFO @ Sun, 21 Jun 2020 22:08:42: 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 22:08:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5827824/SRX5827824.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5827824/SRX5827824.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5827824/SRX5827824.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5827824/SRX5827824.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 22:08:44: #1 read tag files... INFO @ Sun, 21 Jun 2020 22:08:44: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 22:08:49: 6000000 INFO @ Sun, 21 Jun 2020 22:08:51: 1000000 INFO @ Sun, 21 Jun 2020 22:08:56: 7000000 INFO @ Sun, 21 Jun 2020 22:08:58: 2000000 INFO @ Sun, 21 Jun 2020 22:09:03: 8000000 INFO @ Sun, 21 Jun 2020 22:09:05: 3000000 INFO @ Sun, 21 Jun 2020 22:09:10: 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 22:09:13: 4000000 INFO @ Sun, 21 Jun 2020 22:09:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5827824/SRX5827824.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5827824/SRX5827824.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5827824/SRX5827824.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5827824/SRX5827824.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 22:09:14: #1 read tag files... INFO @ Sun, 21 Jun 2020 22:09:14: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 22:09:18: 10000000 INFO @ Sun, 21 Jun 2020 22:09:20: 5000000 INFO @ Sun, 21 Jun 2020 22:09:21: 1000000 INFO @ Sun, 21 Jun 2020 22:09:25: 11000000 INFO @ Sun, 21 Jun 2020 22:09:27: 6000000 INFO @ Sun, 21 Jun 2020 22:09:28: 2000000 INFO @ Sun, 21 Jun 2020 22:09:32: 12000000 INFO @ Sun, 21 Jun 2020 22:09:34: 7000000 INFO @ Sun, 21 Jun 2020 22:09:35: 3000000 INFO @ Sun, 21 Jun 2020 22:09:39: 13000000 INFO @ Sun, 21 Jun 2020 22:09:41: 8000000 INFO @ Sun, 21 Jun 2020 22:09:42: 4000000 INFO @ Sun, 21 Jun 2020 22:09:46: 14000000 INFO @ Sun, 21 Jun 2020 22:09:49: 9000000 INFO @ Sun, 21 Jun 2020 22:09:50: 5000000 INFO @ Sun, 21 Jun 2020 22:09:53: 15000000 INFO @ Sun, 21 Jun 2020 22:09:56: 10000000 INFO @ Sun, 21 Jun 2020 22:09:57: 6000000 INFO @ Sun, 21 Jun 2020 22:10:00: 16000000 INFO @ Sun, 21 Jun 2020 22:10:03: 11000000 INFO @ Sun, 21 Jun 2020 22:10:04: 7000000 INFO @ Sun, 21 Jun 2020 22:10:07: 17000000 INFO @ Sun, 21 Jun 2020 22:10:08: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 22:10:08: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 22:10:08: #1 total tags in treatment: 17044164 INFO @ Sun, 21 Jun 2020 22:10:08: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 22:10:08: #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 22:10:08: #1 tags after filtering in treatment: 17044162 INFO @ Sun, 21 Jun 2020 22:10:08: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 22:10:08: #1 finished! INFO @ Sun, 21 Jun 2020 22:10:08: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 22:10:08: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 22:10:10: #2 number of paired peaks: 1865 INFO @ Sun, 21 Jun 2020 22:10:10: start model_add_line... INFO @ Sun, 21 Jun 2020 22:10:10: start X-correlation... INFO @ Sun, 21 Jun 2020 22:10:10: end of X-cor INFO @ Sun, 21 Jun 2020 22:10:10: #2 finished! INFO @ Sun, 21 Jun 2020 22:10:10: #2 predicted fragment length is 145 bps INFO @ Sun, 21 Jun 2020 22:10:10: #2 alternative fragment length(s) may be 145 bps INFO @ Sun, 21 Jun 2020 22:10:10: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5827824/SRX5827824.05_model.r INFO @ Sun, 21 Jun 2020 22:10:10: #3 Call peaks... INFO @ Sun, 21 Jun 2020 22:10:10: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 22:10:10: 12000000 INFO @ Sun, 21 Jun 2020 22:10:11: 8000000 INFO @ Sun, 21 Jun 2020 22:10:17: 13000000 INFO @ Sun, 21 Jun 2020 22:10:18: 9000000 INFO @ Sun, 21 Jun 2020 22:10:24: 14000000 INFO @ Sun, 21 Jun 2020 22:10:25: 10000000 INFO @ Sun, 21 Jun 2020 22:10:31: 15000000 INFO @ Sun, 21 Jun 2020 22:10:32: 11000000 INFO @ Sun, 21 Jun 2020 22:10:37: 16000000 INFO @ Sun, 21 Jun 2020 22:10:38: 12000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 22:10:45: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 22:10:45: 17000000 INFO @ Sun, 21 Jun 2020 22:10:46: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 22:10:46: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 22:10:46: #1 total tags in treatment: 17044164 INFO @ Sun, 21 Jun 2020 22:10:46: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 22:10:46: #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 22:10:46: 13000000 INFO @ Sun, 21 Jun 2020 22:10:46: #1 tags after filtering in treatment: 17044162 INFO @ Sun, 21 Jun 2020 22:10:46: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 22:10:46: #1 finished! INFO @ Sun, 21 Jun 2020 22:10:46: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 22:10:46: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 22:10:47: #2 number of paired peaks: 1865 INFO @ Sun, 21 Jun 2020 22:10:47: start model_add_line... INFO @ Sun, 21 Jun 2020 22:10:48: start X-correlation... INFO @ Sun, 21 Jun 2020 22:10:48: end of X-cor INFO @ Sun, 21 Jun 2020 22:10:48: #2 finished! INFO @ Sun, 21 Jun 2020 22:10:48: #2 predicted fragment length is 145 bps INFO @ Sun, 21 Jun 2020 22:10:48: #2 alternative fragment length(s) may be 145 bps INFO @ Sun, 21 Jun 2020 22:10:48: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5827824/SRX5827824.10_model.r INFO @ Sun, 21 Jun 2020 22:10:48: #3 Call peaks... INFO @ Sun, 21 Jun 2020 22:10:48: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 22:10:53: 14000000 INFO @ Sun, 21 Jun 2020 22:10:59: 15000000 INFO @ Sun, 21 Jun 2020 22:11:03: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5827824/SRX5827824.05_peaks.xls INFO @ Sun, 21 Jun 2020 22:11:03: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5827824/SRX5827824.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 22:11:03: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5827824/SRX5827824.05_summits.bed INFO @ Sun, 21 Jun 2020 22:11:03: Done! pass1 - making usageList (498 chroms): 2 millis pass2 - checking and writing primary data (6023 records, 4 fields): 18 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 22:11:05: 16000000 INFO @ Sun, 21 Jun 2020 22:11:12: 17000000 INFO @ Sun, 21 Jun 2020 22:11:12: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 22:11:12: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 22:11:12: #1 total tags in treatment: 17044164 INFO @ Sun, 21 Jun 2020 22:11:12: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 22:11:12: #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 22:11:12: #1 tags after filtering in treatment: 17044162 INFO @ Sun, 21 Jun 2020 22:11:12: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 22:11:12: #1 finished! INFO @ Sun, 21 Jun 2020 22:11:12: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 22:11:12: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 22:11:14: #2 number of paired peaks: 1865 INFO @ Sun, 21 Jun 2020 22:11:14: start model_add_line... INFO @ Sun, 21 Jun 2020 22:11:14: start X-correlation... INFO @ Sun, 21 Jun 2020 22:11:14: end of X-cor INFO @ Sun, 21 Jun 2020 22:11:14: #2 finished! INFO @ Sun, 21 Jun 2020 22:11:14: #2 predicted fragment length is 145 bps INFO @ Sun, 21 Jun 2020 22:11:14: #2 alternative fragment length(s) may be 145 bps INFO @ Sun, 21 Jun 2020 22:11:14: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5827824/SRX5827824.20_model.r INFO @ Sun, 21 Jun 2020 22:11:14: #3 Call peaks... INFO @ Sun, 21 Jun 2020 22:11:14: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 22:11:23: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 22:11:41: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5827824/SRX5827824.10_peaks.xls INFO @ Sun, 21 Jun 2020 22:11:41: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5827824/SRX5827824.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 22:11:41: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5827824/SRX5827824.10_summits.bed INFO @ Sun, 21 Jun 2020 22:11:41: Done! pass1 - making usageList (343 chroms): 2 millis pass2 - checking and writing primary data (3572 records, 4 fields): 12 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 22:11:51: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 22:12:10: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5827824/SRX5827824.20_peaks.xls INFO @ Sun, 21 Jun 2020 22:12:10: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5827824/SRX5827824.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 22:12:10: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5827824/SRX5827824.20_summits.bed INFO @ Sun, 21 Jun 2020 22:12:10: Done! pass1 - making usageList (155 chroms): 1 millis pass2 - checking and writing primary data (1924 records, 4 fields): 7 millis CompletedMACS2peakCalling