Job ID = 6454469 SRX = SRX215502 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T09:14:09 prefetch.2.10.7: 1) Downloading 'SRR646468'... 2020-06-21T09:14:09 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T09:22:16 prefetch.2.10.7: HTTPS download succeed 2020-06-21T09:22:16 prefetch.2.10.7: 1) 'SRR646468' was downloaded successfully Read 50624300 spots for SRR646468/SRR646468.sra Written 50624300 spots for SRR646468/SRR646468.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: 00:07:09 50624300 reads; of these: 50624300 (100.00%) were unpaired; of these: 21146170 (41.77%) aligned 0 times 25429752 (50.23%) aligned exactly 1 time 4048378 (8.00%) aligned >1 times 58.23% overall alignment rate Time searching: 00:07:09 Overall time: 00:07:09 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] 17856936 / 29478130 = 0.6058 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 18:36:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX215502/SRX215502.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX215502/SRX215502.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX215502/SRX215502.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX215502/SRX215502.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 18:36:58: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:36:58: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:37:05: 1000000 INFO @ Sun, 21 Jun 2020 18:37:11: 2000000 INFO @ Sun, 21 Jun 2020 18:37:17: 3000000 INFO @ Sun, 21 Jun 2020 18:37:24: 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 18:37:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX215502/SRX215502.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX215502/SRX215502.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX215502/SRX215502.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX215502/SRX215502.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 18:37:28: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:37:28: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:37:30: 5000000 INFO @ Sun, 21 Jun 2020 18:37:35: 1000000 INFO @ Sun, 21 Jun 2020 18:37:37: 6000000 INFO @ Sun, 21 Jun 2020 18:37:41: 2000000 INFO @ Sun, 21 Jun 2020 18:37:44: 7000000 INFO @ Sun, 21 Jun 2020 18:37:48: 3000000 INFO @ Sun, 21 Jun 2020 18:37:51: 8000000 INFO @ Sun, 21 Jun 2020 18:37:54: 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 18:37:58: 9000000 INFO @ Sun, 21 Jun 2020 18:37:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX215502/SRX215502.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX215502/SRX215502.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX215502/SRX215502.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX215502/SRX215502.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 18:37:59: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:37:59: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:38:01: 5000000 INFO @ Sun, 21 Jun 2020 18:38:05: 10000000 INFO @ Sun, 21 Jun 2020 18:38:05: 1000000 INFO @ Sun, 21 Jun 2020 18:38:07: 6000000 INFO @ Sun, 21 Jun 2020 18:38:12: 2000000 INFO @ Sun, 21 Jun 2020 18:38:12: 11000000 INFO @ Sun, 21 Jun 2020 18:38:14: 7000000 INFO @ Sun, 21 Jun 2020 18:38:17: #1 tag size is determined as 36 bps INFO @ Sun, 21 Jun 2020 18:38:17: #1 tag size = 36 INFO @ Sun, 21 Jun 2020 18:38:17: #1 total tags in treatment: 11621194 INFO @ Sun, 21 Jun 2020 18:38:17: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:38:17: #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 18:38:18: #1 tags after filtering in treatment: 11621184 INFO @ Sun, 21 Jun 2020 18:38:18: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:38:18: #1 finished! INFO @ Sun, 21 Jun 2020 18:38:18: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:38:18: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:38:19: #2 number of paired peaks: 7432 INFO @ Sun, 21 Jun 2020 18:38:19: start model_add_line... INFO @ Sun, 21 Jun 2020 18:38:19: start X-correlation... INFO @ Sun, 21 Jun 2020 18:38:19: end of X-cor INFO @ Sun, 21 Jun 2020 18:38:19: #2 finished! INFO @ Sun, 21 Jun 2020 18:38:19: #2 predicted fragment length is 334 bps INFO @ Sun, 21 Jun 2020 18:38:19: #2 alternative fragment length(s) may be 334 bps INFO @ Sun, 21 Jun 2020 18:38:19: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX215502/SRX215502.05_model.r INFO @ Sun, 21 Jun 2020 18:38:19: #3 Call peaks... INFO @ Sun, 21 Jun 2020 18:38:19: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 18:38:19: 3000000 INFO @ Sun, 21 Jun 2020 18:38:20: 8000000 INFO @ Sun, 21 Jun 2020 18:38:26: 4000000 INFO @ Sun, 21 Jun 2020 18:38:27: 9000000 INFO @ Sun, 21 Jun 2020 18:38:32: 5000000 INFO @ Sun, 21 Jun 2020 18:38:33: 10000000 INFO @ Sun, 21 Jun 2020 18:38:38: 6000000 INFO @ Sun, 21 Jun 2020 18:38:39: 11000000 INFO @ Sun, 21 Jun 2020 18:38:43: #1 tag size is determined as 36 bps INFO @ Sun, 21 Jun 2020 18:38:43: #1 tag size = 36 INFO @ Sun, 21 Jun 2020 18:38:43: #1 total tags in treatment: 11621194 INFO @ Sun, 21 Jun 2020 18:38:43: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:38:43: #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 18:38:44: #1 tags after filtering in treatment: 11621184 INFO @ Sun, 21 Jun 2020 18:38:44: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:38:44: #1 finished! INFO @ Sun, 21 Jun 2020 18:38:44: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:38:44: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:38:45: 7000000 INFO @ Sun, 21 Jun 2020 18:38:45: #2 number of paired peaks: 7432 INFO @ Sun, 21 Jun 2020 18:38:45: start model_add_line... INFO @ Sun, 21 Jun 2020 18:38:45: start X-correlation... INFO @ Sun, 21 Jun 2020 18:38:45: end of X-cor INFO @ Sun, 21 Jun 2020 18:38:45: #2 finished! INFO @ Sun, 21 Jun 2020 18:38:45: #2 predicted fragment length is 334 bps INFO @ Sun, 21 Jun 2020 18:38:45: #2 alternative fragment length(s) may be 334 bps INFO @ Sun, 21 Jun 2020 18:38:45: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX215502/SRX215502.10_model.r INFO @ Sun, 21 Jun 2020 18:38:45: #3 Call peaks... INFO @ Sun, 21 Jun 2020 18:38:45: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 18:38:51: 8000000 INFO @ Sun, 21 Jun 2020 18:38:56: 9000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 18:38:59: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 18:39:03: 10000000 INFO @ Sun, 21 Jun 2020 18:39:08: 11000000 INFO @ Sun, 21 Jun 2020 18:39:12: #1 tag size is determined as 36 bps INFO @ Sun, 21 Jun 2020 18:39:12: #1 tag size = 36 INFO @ Sun, 21 Jun 2020 18:39:12: #1 total tags in treatment: 11621194 INFO @ Sun, 21 Jun 2020 18:39:12: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:39:12: #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 18:39:13: #1 tags after filtering in treatment: 11621184 INFO @ Sun, 21 Jun 2020 18:39:13: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:39:13: #1 finished! INFO @ Sun, 21 Jun 2020 18:39:13: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:39:13: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:39:14: #2 number of paired peaks: 7432 INFO @ Sun, 21 Jun 2020 18:39:14: start model_add_line... INFO @ Sun, 21 Jun 2020 18:39:14: start X-correlation... INFO @ Sun, 21 Jun 2020 18:39:14: end of X-cor INFO @ Sun, 21 Jun 2020 18:39:14: #2 finished! INFO @ Sun, 21 Jun 2020 18:39:14: #2 predicted fragment length is 334 bps INFO @ Sun, 21 Jun 2020 18:39:14: #2 alternative fragment length(s) may be 334 bps INFO @ Sun, 21 Jun 2020 18:39:14: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX215502/SRX215502.20_model.r INFO @ Sun, 21 Jun 2020 18:39:14: #3 Call peaks... INFO @ Sun, 21 Jun 2020 18:39:14: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 18:39:15: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX215502/SRX215502.05_peaks.xls INFO @ Sun, 21 Jun 2020 18:39:15: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX215502/SRX215502.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 18:39:15: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX215502/SRX215502.05_summits.bed INFO @ Sun, 21 Jun 2020 18:39:15: Done! pass1 - making usageList (630 chroms): 2 millis pass2 - checking and writing primary data (7427 records, 4 fields): 26 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 18:39:25: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 18:39:41: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX215502/SRX215502.10_peaks.xls INFO @ Sun, 21 Jun 2020 18:39:41: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX215502/SRX215502.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 18:39:41: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX215502/SRX215502.10_summits.bed INFO @ Sun, 21 Jun 2020 18:39:41: Done! pass1 - making usageList (545 chroms): 2 millis pass2 - checking and writing primary data (6767 records, 4 fields): 23 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 18:39:55: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 18:40:10: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX215502/SRX215502.20_peaks.xls INFO @ Sun, 21 Jun 2020 18:40:10: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX215502/SRX215502.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 18:40:10: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX215502/SRX215502.20_summits.bed INFO @ Sun, 21 Jun 2020 18:40:10: Done! pass1 - making usageList (426 chroms): 1 millis pass2 - checking and writing primary data (6078 records, 4 fields): 19 millis CompletedMACS2peakCalling