Job ID = 6459616 SRX = SRX7299241 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T13:25:20 prefetch.2.10.7: 1) Downloading 'SRR10620141'... 2020-06-21T13:25:20 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T13:26:34 prefetch.2.10.7: HTTPS download succeed 2020-06-21T13:26:34 prefetch.2.10.7: 'SRR10620141' is valid 2020-06-21T13:26:34 prefetch.2.10.7: 1) 'SRR10620141' was downloaded successfully 2020-06-21T13:26:34 prefetch.2.10.7: 'SRR10620141' has 0 unresolved dependencies Read 9829976 spots for SRR10620141/SRR10620141.sra Written 9829976 spots for SRR10620141/SRR10620141.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: 00:00:01 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:02:17 9829976 reads; of these: 9829976 (100.00%) were unpaired; of these: 290310 (2.95%) aligned 0 times 8169893 (83.11%) aligned exactly 1 time 1369773 (13.93%) aligned >1 times 97.05% overall alignment rate Time searching: 00:02:18 Overall time: 00:02:18 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_rmdupse_core] 1175806 / 9539666 = 0.1233 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 22:32:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7299241/SRX7299241.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7299241/SRX7299241.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7299241/SRX7299241.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7299241/SRX7299241.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 22:32:20: #1 read tag files... INFO @ Sun, 21 Jun 2020 22:32:20: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 22:32:27: 1000000 INFO @ Sun, 21 Jun 2020 22:32:33: 2000000 INFO @ Sun, 21 Jun 2020 22:32:39: 3000000 INFO @ Sun, 21 Jun 2020 22:32:45: 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 22:32:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7299241/SRX7299241.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7299241/SRX7299241.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7299241/SRX7299241.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7299241/SRX7299241.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 22:32:50: #1 read tag files... INFO @ Sun, 21 Jun 2020 22:32:50: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 22:32:51: 5000000 INFO @ Sun, 21 Jun 2020 22:32:57: 1000000 INFO @ Sun, 21 Jun 2020 22:32:57: 6000000 INFO @ Sun, 21 Jun 2020 22:33:03: 2000000 INFO @ Sun, 21 Jun 2020 22:33:04: 7000000 INFO @ Sun, 21 Jun 2020 22:33:10: 3000000 INFO @ Sun, 21 Jun 2020 22:33:11: 8000000 INFO @ Sun, 21 Jun 2020 22:33:13: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 22:33:13: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 22:33:13: #1 total tags in treatment: 8363860 INFO @ Sun, 21 Jun 2020 22:33:13: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 22:33:13: #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 22:33:14: #1 tags after filtering in treatment: 8363795 INFO @ Sun, 21 Jun 2020 22:33:14: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 22:33:14: #1 finished! INFO @ Sun, 21 Jun 2020 22:33:14: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 22:33:14: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 22:33:15: #2 number of paired peaks: 4113 INFO @ Sun, 21 Jun 2020 22:33:15: start model_add_line... INFO @ Sun, 21 Jun 2020 22:33:15: start X-correlation... INFO @ Sun, 21 Jun 2020 22:33:15: end of X-cor INFO @ Sun, 21 Jun 2020 22:33:15: #2 finished! INFO @ Sun, 21 Jun 2020 22:33:15: #2 predicted fragment length is 161 bps INFO @ Sun, 21 Jun 2020 22:33:15: #2 alternative fragment length(s) may be 161 bps INFO @ Sun, 21 Jun 2020 22:33:15: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7299241/SRX7299241.05_model.r INFO @ Sun, 21 Jun 2020 22:33:15: #3 Call peaks... INFO @ Sun, 21 Jun 2020 22:33:15: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 22:33:16: 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 22:33:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7299241/SRX7299241.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7299241/SRX7299241.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7299241/SRX7299241.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7299241/SRX7299241.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 22:33:20: #1 read tag files... INFO @ Sun, 21 Jun 2020 22:33:20: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 22:33:22: 5000000 INFO @ Sun, 21 Jun 2020 22:33:27: 1000000 INFO @ Sun, 21 Jun 2020 22:33:28: 6000000 INFO @ Sun, 21 Jun 2020 22:33:34: 2000000 INFO @ Sun, 21 Jun 2020 22:33:35: 7000000 INFO @ Sun, 21 Jun 2020 22:33:36: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 22:33:40: 3000000 INFO @ Sun, 21 Jun 2020 22:33:41: 8000000 INFO @ Sun, 21 Jun 2020 22:33:44: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 22:33:44: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 22:33:44: #1 total tags in treatment: 8363860 INFO @ Sun, 21 Jun 2020 22:33:44: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 22:33:44: #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 22:33:44: #1 tags after filtering in treatment: 8363795 INFO @ Sun, 21 Jun 2020 22:33:44: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 22:33:44: #1 finished! INFO @ Sun, 21 Jun 2020 22:33:44: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 22:33:44: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 22:33:45: #2 number of paired peaks: 4113 INFO @ Sun, 21 Jun 2020 22:33:45: start model_add_line... INFO @ Sun, 21 Jun 2020 22:33:45: start X-correlation... INFO @ Sun, 21 Jun 2020 22:33:45: end of X-cor INFO @ Sun, 21 Jun 2020 22:33:45: #2 finished! INFO @ Sun, 21 Jun 2020 22:33:45: #2 predicted fragment length is 161 bps INFO @ Sun, 21 Jun 2020 22:33:45: #2 alternative fragment length(s) may be 161 bps INFO @ Sun, 21 Jun 2020 22:33:45: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7299241/SRX7299241.10_model.r INFO @ Sun, 21 Jun 2020 22:33:45: #3 Call peaks... INFO @ Sun, 21 Jun 2020 22:33:45: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 22:33:46: 4000000 INFO @ Sun, 21 Jun 2020 22:33:47: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7299241/SRX7299241.05_peaks.xls INFO @ Sun, 21 Jun 2020 22:33:47: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7299241/SRX7299241.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 22:33:47: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7299241/SRX7299241.05_summits.bed INFO @ Sun, 21 Jun 2020 22:33:47: Done! pass1 - making usageList (297 chroms): 3 millis pass2 - checking and writing primary data (10569 records, 4 fields): 28 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 22:33:53: 5000000 INFO @ Sun, 21 Jun 2020 22:33:59: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 22:34:06: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 22:34:06: 7000000 INFO @ Sun, 21 Jun 2020 22:34:13: 8000000 INFO @ Sun, 21 Jun 2020 22:34:15: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 22:34:15: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 22:34:15: #1 total tags in treatment: 8363860 INFO @ Sun, 21 Jun 2020 22:34:15: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 22:34:15: #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 22:34:16: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7299241/SRX7299241.10_peaks.xls INFO @ Sun, 21 Jun 2020 22:34:16: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7299241/SRX7299241.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 22:34:16: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7299241/SRX7299241.10_summits.bed INFO @ Sun, 21 Jun 2020 22:34:16: Done! INFO @ Sun, 21 Jun 2020 22:34:16: #1 tags after filtering in treatment: 8363795 INFO @ Sun, 21 Jun 2020 22:34:16: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 22:34:16: #1 finished! INFO @ Sun, 21 Jun 2020 22:34:16: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 22:34:16: #2 looking for paired plus/minus strand peaks... pass1 - making usageList (135 chroms): 2 millis pass2 - checking and writing primary data (7054 records, 4 fields): 17 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 22:34:17: #2 number of paired peaks: 4113 INFO @ Sun, 21 Jun 2020 22:34:17: start model_add_line... INFO @ Sun, 21 Jun 2020 22:34:17: start X-correlation... INFO @ Sun, 21 Jun 2020 22:34:17: end of X-cor INFO @ Sun, 21 Jun 2020 22:34:17: #2 finished! INFO @ Sun, 21 Jun 2020 22:34:17: #2 predicted fragment length is 161 bps INFO @ Sun, 21 Jun 2020 22:34:17: #2 alternative fragment length(s) may be 161 bps INFO @ Sun, 21 Jun 2020 22:34:17: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7299241/SRX7299241.20_model.r INFO @ Sun, 21 Jun 2020 22:34:17: #3 Call peaks... INFO @ Sun, 21 Jun 2020 22:34:17: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 22:34:39: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 22:34:50: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7299241/SRX7299241.20_peaks.xls INFO @ Sun, 21 Jun 2020 22:34:50: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7299241/SRX7299241.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 22:34:50: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7299241/SRX7299241.20_summits.bed INFO @ Sun, 21 Jun 2020 22:34:50: Done! pass1 - making usageList (77 chroms): 2 millis pass2 - checking and writing primary data (3923 records, 4 fields): 10 millis CompletedMACS2peakCalling