Job ID = 6454257 SRX = SRX193332 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T08:56:19 prefetch.2.10.7: 1) Downloading 'SRR585065'... 2020-06-21T08:56:19 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T08:59:55 prefetch.2.10.7: HTTPS download succeed 2020-06-21T08:59:55 prefetch.2.10.7: 1) 'SRR585065' was downloaded successfully Read 27008870 spots for SRR585065/SRR585065.sra Written 27008870 spots for SRR585065/SRR585065.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: 00:07:05 27008870 reads; of these: 27008870 (100.00%) were unpaired; of these: 982254 (3.64%) aligned 0 times 21890450 (81.05%) aligned exactly 1 time 4136166 (15.31%) aligned >1 times 96.36% overall alignment rate Time searching: 00:07:05 Overall time: 00:07:05 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] 8496279 / 26026616 = 0.3264 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 18:16:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX193332/SRX193332.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX193332/SRX193332.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX193332/SRX193332.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX193332/SRX193332.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 18:16:16: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:16:16: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:16:23: 1000000 INFO @ Sun, 21 Jun 2020 18:16:29: 2000000 INFO @ Sun, 21 Jun 2020 18:16:36: 3000000 INFO @ Sun, 21 Jun 2020 18:16:42: 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 18:16:46: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX193332/SRX193332.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX193332/SRX193332.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX193332/SRX193332.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX193332/SRX193332.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 18:16:46: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:16:46: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:16:49: 5000000 INFO @ Sun, 21 Jun 2020 18:16:54: 1000000 INFO @ Sun, 21 Jun 2020 18:16:56: 6000000 INFO @ Sun, 21 Jun 2020 18:17:01: 2000000 INFO @ Sun, 21 Jun 2020 18:17:02: 7000000 INFO @ Sun, 21 Jun 2020 18:17:08: 3000000 INFO @ Sun, 21 Jun 2020 18:17:09: 8000000 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 18:17:16: 4000000 INFO @ Sun, 21 Jun 2020 18:17:16: 9000000 INFO @ Sun, 21 Jun 2020 18:17:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX193332/SRX193332.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX193332/SRX193332.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX193332/SRX193332.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX193332/SRX193332.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 18:17:16: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:17:16: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:17:23: 10000000 INFO @ Sun, 21 Jun 2020 18:17:23: 1000000 INFO @ Sun, 21 Jun 2020 18:17:23: 5000000 INFO @ Sun, 21 Jun 2020 18:17:30: 11000000 INFO @ Sun, 21 Jun 2020 18:17:30: 2000000 INFO @ Sun, 21 Jun 2020 18:17:31: 6000000 INFO @ Sun, 21 Jun 2020 18:17:37: 12000000 INFO @ Sun, 21 Jun 2020 18:17:37: 3000000 INFO @ Sun, 21 Jun 2020 18:17:38: 7000000 INFO @ Sun, 21 Jun 2020 18:17:44: 13000000 INFO @ Sun, 21 Jun 2020 18:17:44: 4000000 INFO @ Sun, 21 Jun 2020 18:17:46: 8000000 INFO @ Sun, 21 Jun 2020 18:17:51: 14000000 INFO @ Sun, 21 Jun 2020 18:17:51: 5000000 INFO @ Sun, 21 Jun 2020 18:17:53: 9000000 INFO @ Sun, 21 Jun 2020 18:17:58: 6000000 INFO @ Sun, 21 Jun 2020 18:17:59: 15000000 INFO @ Sun, 21 Jun 2020 18:18:01: 10000000 INFO @ Sun, 21 Jun 2020 18:18:06: 7000000 INFO @ Sun, 21 Jun 2020 18:18:07: 16000000 INFO @ Sun, 21 Jun 2020 18:18:09: 11000000 INFO @ Sun, 21 Jun 2020 18:18:13: 8000000 INFO @ Sun, 21 Jun 2020 18:18:14: 17000000 INFO @ Sun, 21 Jun 2020 18:18:16: 12000000 INFO @ Sun, 21 Jun 2020 18:18:18: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 18:18:18: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 18:18:18: #1 total tags in treatment: 17530337 INFO @ Sun, 21 Jun 2020 18:18:18: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:18:18: #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 18:18:19: #1 tags after filtering in treatment: 17530121 INFO @ Sun, 21 Jun 2020 18:18:19: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:18:19: #1 finished! INFO @ Sun, 21 Jun 2020 18:18:19: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:18:19: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:18:20: 9000000 INFO @ Sun, 21 Jun 2020 18:18:21: #2 number of paired peaks: 11606 INFO @ Sun, 21 Jun 2020 18:18:21: start model_add_line... INFO @ Sun, 21 Jun 2020 18:18:22: start X-correlation... INFO @ Sun, 21 Jun 2020 18:18:22: end of X-cor INFO @ Sun, 21 Jun 2020 18:18:22: #2 finished! INFO @ Sun, 21 Jun 2020 18:18:22: #2 predicted fragment length is 161 bps INFO @ Sun, 21 Jun 2020 18:18:22: #2 alternative fragment length(s) may be 161 bps INFO @ Sun, 21 Jun 2020 18:18:22: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX193332/SRX193332.05_model.r INFO @ Sun, 21 Jun 2020 18:18:22: #3 Call peaks... INFO @ Sun, 21 Jun 2020 18:18:22: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 18:18:23: 13000000 INFO @ Sun, 21 Jun 2020 18:18:27: 10000000 INFO @ Sun, 21 Jun 2020 18:18:30: 14000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 18:18:34: 11000000 INFO @ Sun, 21 Jun 2020 18:18:39: 15000000 INFO @ Sun, 21 Jun 2020 18:18:41: 12000000 INFO @ Sun, 21 Jun 2020 18:18:46: 16000000 INFO @ Sun, 21 Jun 2020 18:18:49: 13000000 INFO @ Sun, 21 Jun 2020 18:18:54: 17000000 INFO @ Sun, 21 Jun 2020 18:18:55: 14000000 INFO @ Sun, 21 Jun 2020 18:18:58: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 18:18:58: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 18:18:58: #1 total tags in treatment: 17530337 INFO @ Sun, 21 Jun 2020 18:18:58: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:18:58: #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 18:18:59: #1 tags after filtering in treatment: 17530121 INFO @ Sun, 21 Jun 2020 18:18:59: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:18:59: #1 finished! INFO @ Sun, 21 Jun 2020 18:18:59: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:18:59: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:19:01: #2 number of paired peaks: 11606 INFO @ Sun, 21 Jun 2020 18:19:01: start model_add_line... INFO @ Sun, 21 Jun 2020 18:19:02: start X-correlation... INFO @ Sun, 21 Jun 2020 18:19:02: end of X-cor INFO @ Sun, 21 Jun 2020 18:19:02: #2 finished! INFO @ Sun, 21 Jun 2020 18:19:02: #2 predicted fragment length is 161 bps INFO @ Sun, 21 Jun 2020 18:19:02: #2 alternative fragment length(s) may be 161 bps INFO @ Sun, 21 Jun 2020 18:19:02: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX193332/SRX193332.10_model.r INFO @ Sun, 21 Jun 2020 18:19:02: #3 Call peaks... INFO @ Sun, 21 Jun 2020 18:19:02: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 18:19:03: 15000000 INFO @ Sun, 21 Jun 2020 18:19:10: 16000000 INFO @ Sun, 21 Jun 2020 18:19:17: 17000000 INFO @ Sun, 21 Jun 2020 18:19:20: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 18:19:21: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 18:19:21: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 18:19:21: #1 total tags in treatment: 17530337 INFO @ Sun, 21 Jun 2020 18:19:21: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:19:21: #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 18:19:21: #1 tags after filtering in treatment: 17530121 INFO @ Sun, 21 Jun 2020 18:19:21: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:19:21: #1 finished! INFO @ Sun, 21 Jun 2020 18:19:21: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:19:21: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:19:24: #2 number of paired peaks: 11606 INFO @ Sun, 21 Jun 2020 18:19:24: start model_add_line... INFO @ Sun, 21 Jun 2020 18:19:24: start X-correlation... INFO @ Sun, 21 Jun 2020 18:19:24: end of X-cor INFO @ Sun, 21 Jun 2020 18:19:24: #2 finished! INFO @ Sun, 21 Jun 2020 18:19:24: #2 predicted fragment length is 161 bps INFO @ Sun, 21 Jun 2020 18:19:24: #2 alternative fragment length(s) may be 161 bps INFO @ Sun, 21 Jun 2020 18:19:24: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX193332/SRX193332.20_model.r INFO @ Sun, 21 Jun 2020 18:19:24: #3 Call peaks... INFO @ Sun, 21 Jun 2020 18:19:24: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 18:19:40: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX193332/SRX193332.05_peaks.xls INFO @ Sun, 21 Jun 2020 18:19:40: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX193332/SRX193332.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 18:19:40: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX193332/SRX193332.05_summits.bed INFO @ Sun, 21 Jun 2020 18:19:40: Done! pass1 - making usageList (192 chroms): 3 millis pass2 - checking and writing primary data (12197 records, 4 fields): 25 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 18:19:59: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 18:20:19: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX193332/SRX193332.10_peaks.xls INFO @ Sun, 21 Jun 2020 18:20:19: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX193332/SRX193332.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 18:20:19: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX193332/SRX193332.10_summits.bed INFO @ Sun, 21 Jun 2020 18:20:19: Done! pass1 - making usageList (146 chroms): 3 millis pass2 - checking and writing primary data (9954 records, 4 fields): 20 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 18:20:21: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 18:20:41: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX193332/SRX193332.20_peaks.xls INFO @ Sun, 21 Jun 2020 18:20:41: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX193332/SRX193332.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 18:20:41: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX193332/SRX193332.20_summits.bed INFO @ Sun, 21 Jun 2020 18:20:41: Done! pass1 - making usageList (121 chroms): 2 millis pass2 - checking and writing primary data (6923 records, 4 fields): 16 millis CompletedMACS2peakCalling