Job ID = 6626542 SRX = SRX6813080 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 23483068 spots for SRR10080062/SRR10080062.sra Written 23483068 spots for SRR10080062/SRR10080062.sra fastq に変換しました。 bowtie でマッピング中... Your job 6626669 ("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: 00:02:45 23483068 reads; of these: 23483068 (100.00%) were unpaired; of these: 20812071 (88.63%) aligned 0 times 2232646 (9.51%) aligned exactly 1 time 438351 (1.87%) aligned >1 times 11.37% overall alignment rate Time searching: 00:02:45 Overall time: 00:02:45 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] 410746 / 2670997 = 0.1538 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 07:30:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX6813080/SRX6813080.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX6813080/SRX6813080.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX6813080/SRX6813080.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX6813080/SRX6813080.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 07:30:08: #1 read tag files... INFO @ Tue, 14 Jul 2020 07:30:08: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 07:30:15: 1000000 INFO @ Tue, 14 Jul 2020 07:30:22: 2000000 INFO @ Tue, 14 Jul 2020 07:30:24: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 07:30:24: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 07:30:24: #1 total tags in treatment: 2260251 INFO @ Tue, 14 Jul 2020 07:30:24: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 07:30:24: #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 07:30:24: #1 tags after filtering in treatment: 2260251 INFO @ Tue, 14 Jul 2020 07:30:24: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 07:30:24: #1 finished! INFO @ Tue, 14 Jul 2020 07:30:24: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 07:30:24: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 07:30:24: #2 number of paired peaks: 2431 INFO @ Tue, 14 Jul 2020 07:30:24: start model_add_line... INFO @ Tue, 14 Jul 2020 07:30:24: start X-correlation... INFO @ Tue, 14 Jul 2020 07:30:24: end of X-cor INFO @ Tue, 14 Jul 2020 07:30:24: #2 finished! INFO @ Tue, 14 Jul 2020 07:30:24: #2 predicted fragment length is 178 bps INFO @ Tue, 14 Jul 2020 07:30:24: #2 alternative fragment length(s) may be 178 bps INFO @ Tue, 14 Jul 2020 07:30:24: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX6813080/SRX6813080.05_model.r INFO @ Tue, 14 Jul 2020 07:30:24: #3 Call peaks... INFO @ Tue, 14 Jul 2020 07:30:24: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 07:30:30: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 07:30:33: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX6813080/SRX6813080.05_peaks.xls INFO @ Tue, 14 Jul 2020 07:30:33: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX6813080/SRX6813080.05_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 07:30:33: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX6813080/SRX6813080.05_summits.bed INFO @ Tue, 14 Jul 2020 07:30:33: Done! pass1 - making usageList (11 chroms): 1 millis pass2 - checking and writing primary data (3422 records, 4 fields): 21 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 07:30:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX6813080/SRX6813080.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX6813080/SRX6813080.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX6813080/SRX6813080.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX6813080/SRX6813080.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 07:30:38: #1 read tag files... INFO @ Tue, 14 Jul 2020 07:30:38: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 07:30:44: 1000000 INFO @ Tue, 14 Jul 2020 07:30:50: 2000000 INFO @ Tue, 14 Jul 2020 07:30:52: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 07:30:52: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 07:30:52: #1 total tags in treatment: 2260251 INFO @ Tue, 14 Jul 2020 07:30:52: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 07:30:52: #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 07:30:52: #1 tags after filtering in treatment: 2260251 INFO @ Tue, 14 Jul 2020 07:30:52: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 07:30:52: #1 finished! INFO @ Tue, 14 Jul 2020 07:30:52: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 07:30:52: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 07:30:52: #2 number of paired peaks: 2431 INFO @ Tue, 14 Jul 2020 07:30:52: start model_add_line... INFO @ Tue, 14 Jul 2020 07:30:52: start X-correlation... INFO @ Tue, 14 Jul 2020 07:30:52: end of X-cor INFO @ Tue, 14 Jul 2020 07:30:52: #2 finished! INFO @ Tue, 14 Jul 2020 07:30:52: #2 predicted fragment length is 178 bps INFO @ Tue, 14 Jul 2020 07:30:52: #2 alternative fragment length(s) may be 178 bps INFO @ Tue, 14 Jul 2020 07:30:52: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX6813080/SRX6813080.10_model.r INFO @ Tue, 14 Jul 2020 07:30:52: #3 Call peaks... INFO @ Tue, 14 Jul 2020 07:30:52: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 07:30:58: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 07:31:01: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX6813080/SRX6813080.10_peaks.xls INFO @ Tue, 14 Jul 2020 07:31:01: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX6813080/SRX6813080.10_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 07:31:01: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX6813080/SRX6813080.10_summits.bed INFO @ Tue, 14 Jul 2020 07:31:01: Done! pass1 - making usageList (11 chroms): 1 millis pass2 - checking and writing primary data (2423 records, 4 fields): 61 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 07:31:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX6813080/SRX6813080.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX6813080/SRX6813080.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX6813080/SRX6813080.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX6813080/SRX6813080.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 07:31:08: #1 read tag files... INFO @ Tue, 14 Jul 2020 07:31:08: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 07:31:15: 1000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 14 Jul 2020 07:31:22: 2000000 BigWig に変換しました。 INFO @ Tue, 14 Jul 2020 07:31:24: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 07:31:24: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 07:31:24: #1 total tags in treatment: 2260251 INFO @ Tue, 14 Jul 2020 07:31:24: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 07:31:24: #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 07:31:24: #1 tags after filtering in treatment: 2260251 INFO @ Tue, 14 Jul 2020 07:31:24: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 07:31:24: #1 finished! INFO @ Tue, 14 Jul 2020 07:31:24: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 07:31:24: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 07:31:24: #2 number of paired peaks: 2431 INFO @ Tue, 14 Jul 2020 07:31:24: start model_add_line... INFO @ Tue, 14 Jul 2020 07:31:24: start X-correlation... INFO @ Tue, 14 Jul 2020 07:31:24: end of X-cor INFO @ Tue, 14 Jul 2020 07:31:24: #2 finished! INFO @ Tue, 14 Jul 2020 07:31:24: #2 predicted fragment length is 178 bps INFO @ Tue, 14 Jul 2020 07:31:24: #2 alternative fragment length(s) may be 178 bps INFO @ Tue, 14 Jul 2020 07:31:24: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX6813080/SRX6813080.20_model.r INFO @ Tue, 14 Jul 2020 07:31:24: #3 Call peaks... INFO @ Tue, 14 Jul 2020 07:31:24: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 07:31:30: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 07:31:33: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX6813080/SRX6813080.20_peaks.xls INFO @ Tue, 14 Jul 2020 07:31:33: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX6813080/SRX6813080.20_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 07:31:33: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX6813080/SRX6813080.20_summits.bed INFO @ Tue, 14 Jul 2020 07:31:33: Done! pass1 - making usageList (9 chroms): 1 millis pass2 - checking and writing primary data (1543 records, 4 fields): 22 millis CompletedMACS2peakCalling