Job ID = 6453262 SRX = SRX110776 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T07:58:14 prefetch.2.10.7: 1) Downloading 'SRR388358'... 2020-06-21T07:58:14 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T08:01:55 prefetch.2.10.7: HTTPS download succeed 2020-06-21T08:01:55 prefetch.2.10.7: 1) 'SRR388358' was downloaded successfully Read 35884537 spots for SRR388358/SRR388358.sra Written 35884537 spots for SRR388358/SRR388358.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: 00:05:34 35884537 reads; of these: 35884537 (100.00%) were unpaired; of these: 14341280 (39.97%) aligned 0 times 17332806 (48.30%) aligned exactly 1 time 4210451 (11.73%) aligned >1 times 60.03% overall alignment rate Time searching: 00:05:34 Overall time: 00:05:34 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] 12812296 / 21543257 = 0.5947 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 17:12:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX110776/SRX110776.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX110776/SRX110776.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX110776/SRX110776.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX110776/SRX110776.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 17:12:59: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:12:59: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:13:05: 1000000 INFO @ Sun, 21 Jun 2020 17:13:11: 2000000 INFO @ Sun, 21 Jun 2020 17:13:16: 3000000 INFO @ Sun, 21 Jun 2020 17:13:22: 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 17:13:28: 5000000 INFO @ Sun, 21 Jun 2020 17:13:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX110776/SRX110776.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX110776/SRX110776.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX110776/SRX110776.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX110776/SRX110776.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 17:13:29: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:13:29: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:13:34: 6000000 INFO @ Sun, 21 Jun 2020 17:13:35: 1000000 INFO @ Sun, 21 Jun 2020 17:13:40: 7000000 INFO @ Sun, 21 Jun 2020 17:13:41: 2000000 INFO @ Sun, 21 Jun 2020 17:13:46: 3000000 INFO @ Sun, 21 Jun 2020 17:13:47: 8000000 INFO @ Sun, 21 Jun 2020 17:13:51: #1 tag size is determined as 36 bps INFO @ Sun, 21 Jun 2020 17:13:51: #1 tag size = 36 INFO @ Sun, 21 Jun 2020 17:13:51: #1 total tags in treatment: 8730961 INFO @ Sun, 21 Jun 2020 17:13:51: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:13:51: #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 17:13:52: 4000000 INFO @ Sun, 21 Jun 2020 17:13:52: #1 tags after filtering in treatment: 8730956 INFO @ Sun, 21 Jun 2020 17:13:52: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:13:52: #1 finished! INFO @ Sun, 21 Jun 2020 17:13:52: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:13:52: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:13:53: #2 number of paired peaks: 3762 INFO @ Sun, 21 Jun 2020 17:13:53: start model_add_line... INFO @ Sun, 21 Jun 2020 17:13:53: start X-correlation... INFO @ Sun, 21 Jun 2020 17:13:53: end of X-cor INFO @ Sun, 21 Jun 2020 17:13:53: #2 finished! INFO @ Sun, 21 Jun 2020 17:13:53: #2 predicted fragment length is 74 bps INFO @ Sun, 21 Jun 2020 17:13:53: #2 alternative fragment length(s) may be 2,74,559 bps INFO @ Sun, 21 Jun 2020 17:13:53: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX110776/SRX110776.05_model.r INFO @ Sun, 21 Jun 2020 17:13:53: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:13:53: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 17:13:57: 5000000 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 17:13:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX110776/SRX110776.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX110776/SRX110776.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX110776/SRX110776.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX110776/SRX110776.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 17:13:59: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:13:59: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:14:02: 6000000 INFO @ Sun, 21 Jun 2020 17:14:05: 1000000 INFO @ Sun, 21 Jun 2020 17:14:08: 7000000 INFO @ Sun, 21 Jun 2020 17:14:10: 2000000 INFO @ Sun, 21 Jun 2020 17:14:12: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 17:14:14: 8000000 INFO @ Sun, 21 Jun 2020 17:14:16: 3000000 INFO @ Sun, 21 Jun 2020 17:14:18: #1 tag size is determined as 36 bps INFO @ Sun, 21 Jun 2020 17:14:18: #1 tag size = 36 INFO @ Sun, 21 Jun 2020 17:14:18: #1 total tags in treatment: 8730961 INFO @ Sun, 21 Jun 2020 17:14:18: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:14:18: #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 17:14:18: #1 tags after filtering in treatment: 8730956 INFO @ Sun, 21 Jun 2020 17:14:18: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:14:18: #1 finished! INFO @ Sun, 21 Jun 2020 17:14:18: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:14:18: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:14:19: #2 number of paired peaks: 3762 INFO @ Sun, 21 Jun 2020 17:14:19: start model_add_line... INFO @ Sun, 21 Jun 2020 17:14:19: start X-correlation... INFO @ Sun, 21 Jun 2020 17:14:19: end of X-cor INFO @ Sun, 21 Jun 2020 17:14:19: #2 finished! INFO @ Sun, 21 Jun 2020 17:14:19: #2 predicted fragment length is 74 bps INFO @ Sun, 21 Jun 2020 17:14:19: #2 alternative fragment length(s) may be 2,74,559 bps INFO @ Sun, 21 Jun 2020 17:14:19: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX110776/SRX110776.10_model.r INFO @ Sun, 21 Jun 2020 17:14:19: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:14:19: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 17:14:21: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX110776/SRX110776.05_peaks.xls INFO @ Sun, 21 Jun 2020 17:14:21: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX110776/SRX110776.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:14:21: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX110776/SRX110776.05_summits.bed INFO @ Sun, 21 Jun 2020 17:14:21: Done! pass1 - making usageList (583 chroms): 2 millis pass2 - checking and writing primary data (2450 records, 4 fields): 19 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 17:14:21: 4000000 INFO @ Sun, 21 Jun 2020 17:14:26: 5000000 INFO @ Sun, 21 Jun 2020 17:14:31: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 17:14:37: 7000000 INFO @ Sun, 21 Jun 2020 17:14:39: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 17:14:42: 8000000 INFO @ Sun, 21 Jun 2020 17:14:46: #1 tag size is determined as 36 bps INFO @ Sun, 21 Jun 2020 17:14:46: #1 tag size = 36 INFO @ Sun, 21 Jun 2020 17:14:46: #1 total tags in treatment: 8730961 INFO @ Sun, 21 Jun 2020 17:14:46: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:14:46: #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 17:14:46: #1 tags after filtering in treatment: 8730956 INFO @ Sun, 21 Jun 2020 17:14:46: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:14:46: #1 finished! INFO @ Sun, 21 Jun 2020 17:14:46: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:14:46: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:14:47: #2 number of paired peaks: 3762 INFO @ Sun, 21 Jun 2020 17:14:47: start model_add_line... INFO @ Sun, 21 Jun 2020 17:14:47: start X-correlation... INFO @ Sun, 21 Jun 2020 17:14:47: end of X-cor INFO @ Sun, 21 Jun 2020 17:14:47: #2 finished! INFO @ Sun, 21 Jun 2020 17:14:47: #2 predicted fragment length is 74 bps INFO @ Sun, 21 Jun 2020 17:14:47: #2 alternative fragment length(s) may be 2,74,559 bps INFO @ Sun, 21 Jun 2020 17:14:47: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX110776/SRX110776.20_model.r INFO @ Sun, 21 Jun 2020 17:14:47: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:14:47: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 17:14:49: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX110776/SRX110776.10_peaks.xls INFO @ Sun, 21 Jun 2020 17:14:49: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX110776/SRX110776.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:14:49: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX110776/SRX110776.10_summits.bed INFO @ Sun, 21 Jun 2020 17:14:49: Done! pass1 - making usageList (489 chroms): 2 millis pass2 - checking and writing primary data (1648 records, 4 fields): 15 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 17:15:06: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 17:15:15: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX110776/SRX110776.20_peaks.xls INFO @ Sun, 21 Jun 2020 17:15:15: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX110776/SRX110776.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:15:15: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX110776/SRX110776.20_summits.bed INFO @ Sun, 21 Jun 2020 17:15:15: Done! pass1 - making usageList (241 chroms): 1 millis pass2 - checking and writing primary data (452 records, 4 fields): 9 millis CompletedMACS2peakCalling