Job ID = 6455201 SRX = SRX2832096 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T10:05:55 prefetch.2.10.7: 1) Downloading 'SRR5573760'... 2020-06-21T10:05:55 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T10:10:26 prefetch.2.10.7: HTTPS download succeed 2020-06-21T10:10:27 prefetch.2.10.7: 'SRR5573760' is valid 2020-06-21T10:10:27 prefetch.2.10.7: 1) 'SRR5573760' was downloaded successfully Read 15893282 spots for SRR5573760/SRR5573760.sra Written 15893282 spots for SRR5573760/SRR5573760.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: 00:05:00 15893282 reads; of these: 15893282 (100.00%) were unpaired; of these: 811116 (5.10%) aligned 0 times 8233817 (51.81%) aligned exactly 1 time 6848349 (43.09%) aligned >1 times 94.90% overall alignment rate Time searching: 00:05:00 Overall time: 00:05:00 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 8 files... [bam_rmdupse_core] 4582994 / 15082166 = 0.3039 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 19:20:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX2832096/SRX2832096.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX2832096/SRX2832096.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX2832096/SRX2832096.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX2832096/SRX2832096.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 19:20:14: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:20:14: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:20:21: 1000000 INFO @ Sun, 21 Jun 2020 19:20:27: 2000000 INFO @ Sun, 21 Jun 2020 19:20:34: 3000000 INFO @ Sun, 21 Jun 2020 19:20:40: 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 19:20:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX2832096/SRX2832096.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX2832096/SRX2832096.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX2832096/SRX2832096.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX2832096/SRX2832096.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 19:20:44: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:20:44: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:20:46: 5000000 INFO @ Sun, 21 Jun 2020 19:20:51: 1000000 INFO @ Sun, 21 Jun 2020 19:20:53: 6000000 INFO @ Sun, 21 Jun 2020 19:20:58: 2000000 INFO @ Sun, 21 Jun 2020 19:21:00: 7000000 INFO @ Sun, 21 Jun 2020 19:21:05: 3000000 INFO @ Sun, 21 Jun 2020 19:21:06: 8000000 INFO @ Sun, 21 Jun 2020 19:21:12: 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 19:21:14: 9000000 INFO @ Sun, 21 Jun 2020 19:21:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX2832096/SRX2832096.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX2832096/SRX2832096.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX2832096/SRX2832096.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX2832096/SRX2832096.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 19:21:14: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:21:14: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:21:19: 5000000 INFO @ Sun, 21 Jun 2020 19:21:21: 10000000 INFO @ Sun, 21 Jun 2020 19:21:22: 1000000 INFO @ Sun, 21 Jun 2020 19:21:24: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 19:21:24: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 19:21:24: #1 total tags in treatment: 10499172 INFO @ Sun, 21 Jun 2020 19:21:24: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:21:24: #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 19:21:25: #1 tags after filtering in treatment: 10499107 INFO @ Sun, 21 Jun 2020 19:21:25: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:21:25: #1 finished! INFO @ Sun, 21 Jun 2020 19:21:25: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:21:25: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:21:25: #2 number of paired peaks: 2057 INFO @ Sun, 21 Jun 2020 19:21:25: start model_add_line... INFO @ Sun, 21 Jun 2020 19:21:26: start X-correlation... INFO @ Sun, 21 Jun 2020 19:21:26: end of X-cor INFO @ Sun, 21 Jun 2020 19:21:26: #2 finished! INFO @ Sun, 21 Jun 2020 19:21:26: #2 predicted fragment length is 221 bps INFO @ Sun, 21 Jun 2020 19:21:26: #2 alternative fragment length(s) may be 4,221 bps INFO @ Sun, 21 Jun 2020 19:21:26: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX2832096/SRX2832096.05_model.r INFO @ Sun, 21 Jun 2020 19:21:26: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:21:26: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 19:21:26: 6000000 INFO @ Sun, 21 Jun 2020 19:21:29: 2000000 INFO @ Sun, 21 Jun 2020 19:21:33: 7000000 INFO @ Sun, 21 Jun 2020 19:21:36: 3000000 INFO @ Sun, 21 Jun 2020 19:21:40: 8000000 INFO @ Sun, 21 Jun 2020 19:21:43: 4000000 INFO @ Sun, 21 Jun 2020 19:21:47: 9000000 INFO @ Sun, 21 Jun 2020 19:21:50: 5000000 INFO @ Sun, 21 Jun 2020 19:21:53: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 19:21:54: 10000000 INFO @ Sun, 21 Jun 2020 19:21:57: 6000000 INFO @ Sun, 21 Jun 2020 19:21:58: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 19:21:58: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 19:21:58: #1 total tags in treatment: 10499172 INFO @ Sun, 21 Jun 2020 19:21:58: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:21:58: #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 19:21:59: #1 tags after filtering in treatment: 10499107 INFO @ Sun, 21 Jun 2020 19:21:59: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:21:59: #1 finished! INFO @ Sun, 21 Jun 2020 19:21:59: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:21:59: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:22:00: #2 number of paired peaks: 2057 INFO @ Sun, 21 Jun 2020 19:22:00: start model_add_line... INFO @ Sun, 21 Jun 2020 19:22:00: start X-correlation... INFO @ Sun, 21 Jun 2020 19:22:00: end of X-cor INFO @ Sun, 21 Jun 2020 19:22:00: #2 finished! INFO @ Sun, 21 Jun 2020 19:22:00: #2 predicted fragment length is 221 bps INFO @ Sun, 21 Jun 2020 19:22:00: #2 alternative fragment length(s) may be 4,221 bps INFO @ Sun, 21 Jun 2020 19:22:00: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX2832096/SRX2832096.10_model.r INFO @ Sun, 21 Jun 2020 19:22:00: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:22:00: #3 Pre-compute pvalue-qvalue table... BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 19:22:04: 7000000 INFO @ Sun, 21 Jun 2020 19:22:06: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX2832096/SRX2832096.05_peaks.xls INFO @ Sun, 21 Jun 2020 19:22:06: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX2832096/SRX2832096.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:22:06: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX2832096/SRX2832096.05_summits.bed INFO @ Sun, 21 Jun 2020 19:22:06: Done! pass1 - making usageList (892 chroms): 2 millis pass2 - checking and writing primary data (4194 records, 4 fields): 31 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 19:22:11: 8000000 INFO @ Sun, 21 Jun 2020 19:22:18: 9000000 BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 19:22:24: 10000000 INFO @ Sun, 21 Jun 2020 19:22:27: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 19:22:28: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 19:22:28: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 19:22:28: #1 total tags in treatment: 10499172 INFO @ Sun, 21 Jun 2020 19:22:28: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:22:28: #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 19:22:28: #1 tags after filtering in treatment: 10499107 INFO @ Sun, 21 Jun 2020 19:22:28: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:22:28: #1 finished! INFO @ Sun, 21 Jun 2020 19:22:28: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:22:28: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:22:29: #2 number of paired peaks: 2057 INFO @ Sun, 21 Jun 2020 19:22:29: start model_add_line... INFO @ Sun, 21 Jun 2020 19:22:29: start X-correlation... INFO @ Sun, 21 Jun 2020 19:22:29: end of X-cor INFO @ Sun, 21 Jun 2020 19:22:29: #2 finished! INFO @ Sun, 21 Jun 2020 19:22:29: #2 predicted fragment length is 221 bps INFO @ Sun, 21 Jun 2020 19:22:29: #2 alternative fragment length(s) may be 4,221 bps INFO @ Sun, 21 Jun 2020 19:22:29: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX2832096/SRX2832096.20_model.r INFO @ Sun, 21 Jun 2020 19:22:29: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:22:29: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 19:22:40: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX2832096/SRX2832096.10_peaks.xls INFO @ Sun, 21 Jun 2020 19:22:40: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX2832096/SRX2832096.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:22:40: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX2832096/SRX2832096.10_summits.bed INFO @ Sun, 21 Jun 2020 19:22:40: Done! pass1 - making usageList (796 chroms): 2 millis pass2 - checking and writing primary data (2636 records, 4 fields): 22 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 19:22:57: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 19:23:09: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX2832096/SRX2832096.20_peaks.xls INFO @ Sun, 21 Jun 2020 19:23:09: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX2832096/SRX2832096.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:23:09: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX2832096/SRX2832096.20_summits.bed INFO @ Sun, 21 Jun 2020 19:23:09: Done! pass1 - making usageList (614 chroms): 1 millis pass2 - checking and writing primary data (1415 records, 4 fields): 17 millis CompletedMACS2peakCalling