Job ID = 6626596 SRX = SRX7262533 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 18569856 spots for SRR10582160/SRR10582160.sra Written 18569856 spots for SRR10582160/SRR10582160.sra fastq に変換しました。 bowtie でマッピング中... Your job 6626719 ("srTdm6") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:03:22 18569856 reads; of these: 18569856 (100.00%) were unpaired; of these: 16836535 (90.67%) aligned 0 times 1457318 (7.85%) aligned exactly 1 time 276003 (1.49%) aligned >1 times 9.33% overall alignment rate Time searching: 00:03:22 Overall time: 00:03:22 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 15 sequences. [bam_rmdupse_core] 287761 / 1733321 = 0.1660 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 @ Tue, 14 Jul 2020 07:48:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7262533/SRX7262533.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7262533/SRX7262533.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7262533/SRX7262533.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7262533/SRX7262533.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 @ Tue, 14 Jul 2020 07:48:44: #1 read tag files... INFO @ Tue, 14 Jul 2020 07:48:44: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 07:48:50: 1000000 INFO @ Tue, 14 Jul 2020 07:48:53: #1 tag size is determined as 75 bps INFO @ Tue, 14 Jul 2020 07:48:53: #1 tag size = 75 INFO @ Tue, 14 Jul 2020 07:48:53: #1 total tags in treatment: 1445560 INFO @ Tue, 14 Jul 2020 07:48:53: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 07:48:53: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 14 Jul 2020 07:48:53: #1 tags after filtering in treatment: 1445560 INFO @ Tue, 14 Jul 2020 07:48:53: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 07:48:53: #1 finished! INFO @ Tue, 14 Jul 2020 07:48:53: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 07:48:53: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 07:48:53: #2 number of paired peaks: 8444 INFO @ Tue, 14 Jul 2020 07:48:53: start model_add_line... INFO @ Tue, 14 Jul 2020 07:48:53: start X-correlation... INFO @ Tue, 14 Jul 2020 07:48:53: end of X-cor INFO @ Tue, 14 Jul 2020 07:48:53: #2 finished! INFO @ Tue, 14 Jul 2020 07:48:53: #2 predicted fragment length is 227 bps INFO @ Tue, 14 Jul 2020 07:48:53: #2 alternative fragment length(s) may be 227 bps INFO @ Tue, 14 Jul 2020 07:48:53: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7262533/SRX7262533.05_model.r INFO @ Tue, 14 Jul 2020 07:48:53: #3 Call peaks... INFO @ Tue, 14 Jul 2020 07:48:53: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 07:48:57: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 07:48:59: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7262533/SRX7262533.05_peaks.xls INFO @ Tue, 14 Jul 2020 07:48:59: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7262533/SRX7262533.05_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 07:48:59: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7262533/SRX7262533.05_summits.bed INFO @ Tue, 14 Jul 2020 07:48:59: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (3433 records, 4 fields): 8 millis CompletedMACS2peakCalling 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 @ Tue, 14 Jul 2020 07:49:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7262533/SRX7262533.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7262533/SRX7262533.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7262533/SRX7262533.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7262533/SRX7262533.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 @ Tue, 14 Jul 2020 07:49:14: #1 read tag files... INFO @ Tue, 14 Jul 2020 07:49:14: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 07:49:20: 1000000 INFO @ Tue, 14 Jul 2020 07:49:23: #1 tag size is determined as 75 bps INFO @ Tue, 14 Jul 2020 07:49:23: #1 tag size = 75 INFO @ Tue, 14 Jul 2020 07:49:23: #1 total tags in treatment: 1445560 INFO @ Tue, 14 Jul 2020 07:49:23: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 07:49:23: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 14 Jul 2020 07:49:23: #1 tags after filtering in treatment: 1445560 INFO @ Tue, 14 Jul 2020 07:49:23: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 07:49:23: #1 finished! INFO @ Tue, 14 Jul 2020 07:49:23: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 07:49:23: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 07:49:23: #2 number of paired peaks: 8444 INFO @ Tue, 14 Jul 2020 07:49:23: start model_add_line... INFO @ Tue, 14 Jul 2020 07:49:23: start X-correlation... INFO @ Tue, 14 Jul 2020 07:49:23: end of X-cor INFO @ Tue, 14 Jul 2020 07:49:23: #2 finished! INFO @ Tue, 14 Jul 2020 07:49:23: #2 predicted fragment length is 227 bps INFO @ Tue, 14 Jul 2020 07:49:23: #2 alternative fragment length(s) may be 227 bps INFO @ Tue, 14 Jul 2020 07:49:23: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7262533/SRX7262533.10_model.r INFO @ Tue, 14 Jul 2020 07:49:23: #3 Call peaks... INFO @ Tue, 14 Jul 2020 07:49:23: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 07:49:27: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 07:49:29: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7262533/SRX7262533.10_peaks.xls INFO @ Tue, 14 Jul 2020 07:49:29: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7262533/SRX7262533.10_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 07:49:29: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7262533/SRX7262533.10_summits.bed INFO @ Tue, 14 Jul 2020 07:49:29: Done! pass1 - making usageList (12 chroms): 1 millis pass2 - checking and writing primary data (1996 records, 4 fields): 15 millis CompletedMACS2peakCalling 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 @ Tue, 14 Jul 2020 07:49:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7262533/SRX7262533.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7262533/SRX7262533.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7262533/SRX7262533.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7262533/SRX7262533.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 @ Tue, 14 Jul 2020 07:49:44: #1 read tag files... INFO @ Tue, 14 Jul 2020 07:49:44: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 07:49:49: 1000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 14 Jul 2020 07:49:52: #1 tag size is determined as 75 bps INFO @ Tue, 14 Jul 2020 07:49:52: #1 tag size = 75 INFO @ Tue, 14 Jul 2020 07:49:52: #1 total tags in treatment: 1445560 INFO @ Tue, 14 Jul 2020 07:49:52: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 07:49:52: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 14 Jul 2020 07:49:52: #1 tags after filtering in treatment: 1445560 INFO @ Tue, 14 Jul 2020 07:49:52: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 07:49:52: #1 finished! INFO @ Tue, 14 Jul 2020 07:49:52: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 07:49:52: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 07:49:52: #2 number of paired peaks: 8444 INFO @ Tue, 14 Jul 2020 07:49:52: start model_add_line... INFO @ Tue, 14 Jul 2020 07:49:52: start X-correlation... INFO @ Tue, 14 Jul 2020 07:49:52: end of X-cor INFO @ Tue, 14 Jul 2020 07:49:52: #2 finished! INFO @ Tue, 14 Jul 2020 07:49:52: #2 predicted fragment length is 227 bps INFO @ Tue, 14 Jul 2020 07:49:52: #2 alternative fragment length(s) may be 227 bps INFO @ Tue, 14 Jul 2020 07:49:52: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7262533/SRX7262533.20_model.r INFO @ Tue, 14 Jul 2020 07:49:52: #3 Call peaks... INFO @ Tue, 14 Jul 2020 07:49:52: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Tue, 14 Jul 2020 07:49:56: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 07:49:58: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7262533/SRX7262533.20_peaks.xls INFO @ Tue, 14 Jul 2020 07:49:58: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7262533/SRX7262533.20_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 07:49:58: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7262533/SRX7262533.20_summits.bed INFO @ Tue, 14 Jul 2020 07:49:58: Done! pass1 - making usageList (10 chroms): 1 millis pass2 - checking and writing primary data (861 records, 4 fields): 2 millis CompletedMACS2peakCalling