Job ID = 6626541 SRX = SRX6813079 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 25639487 spots for SRR10080063/SRR10080063.sra Written 25639487 spots for SRR10080063/SRR10080063.sra fastq に変換しました。 bowtie でマッピング中... Your job 6626665 ("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: 00:02:46 25639487 reads; of these: 25639487 (100.00%) were unpaired; of these: 22947519 (89.50%) aligned 0 times 2241244 (8.74%) aligned exactly 1 time 450724 (1.76%) aligned >1 times 10.50% overall alignment rate Time searching: 00:02:46 Overall time: 00:02:46 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] 312214 / 2691968 = 0.1160 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 07:28:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX6813079/SRX6813079.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX6813079/SRX6813079.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX6813079/SRX6813079.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX6813079/SRX6813079.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 07:28:41: #1 read tag files... INFO @ Tue, 14 Jul 2020 07:28:41: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 07:28:47: 1000000 INFO @ Tue, 14 Jul 2020 07:28:53: 2000000 INFO @ Tue, 14 Jul 2020 07:28:55: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 07:28:55: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 07:28:55: #1 total tags in treatment: 2379754 INFO @ Tue, 14 Jul 2020 07:28:55: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 07:28:55: #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 07:28:55: #1 tags after filtering in treatment: 2379754 INFO @ Tue, 14 Jul 2020 07:28:55: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 07:28:55: #1 finished! INFO @ Tue, 14 Jul 2020 07:28:55: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 07:28:55: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 07:28:55: #2 number of paired peaks: 2439 INFO @ Tue, 14 Jul 2020 07:28:55: start model_add_line... INFO @ Tue, 14 Jul 2020 07:28:55: start X-correlation... INFO @ Tue, 14 Jul 2020 07:28:55: end of X-cor INFO @ Tue, 14 Jul 2020 07:28:55: #2 finished! INFO @ Tue, 14 Jul 2020 07:28:55: #2 predicted fragment length is 167 bps INFO @ Tue, 14 Jul 2020 07:28:55: #2 alternative fragment length(s) may be 167 bps INFO @ Tue, 14 Jul 2020 07:28:55: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX6813079/SRX6813079.05_model.r INFO @ Tue, 14 Jul 2020 07:28:55: #3 Call peaks... INFO @ Tue, 14 Jul 2020 07:28:55: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 07:29:01: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 07:29:04: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX6813079/SRX6813079.05_peaks.xls INFO @ Tue, 14 Jul 2020 07:29:04: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX6813079/SRX6813079.05_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 07:29:04: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX6813079/SRX6813079.05_summits.bed INFO @ Tue, 14 Jul 2020 07:29:04: Done! pass1 - making usageList (12 chroms): 1 millis pass2 - checking and writing primary data (3614 records, 4 fields): 17 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 07:29:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX6813079/SRX6813079.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX6813079/SRX6813079.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX6813079/SRX6813079.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX6813079/SRX6813079.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 07:29:11: #1 read tag files... INFO @ Tue, 14 Jul 2020 07:29:11: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 07:29:16: 1000000 INFO @ Tue, 14 Jul 2020 07:29:22: 2000000 INFO @ Tue, 14 Jul 2020 07:29:24: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 07:29:24: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 07:29:24: #1 total tags in treatment: 2379754 INFO @ Tue, 14 Jul 2020 07:29:24: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 07:29:24: #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 07:29:24: #1 tags after filtering in treatment: 2379754 INFO @ Tue, 14 Jul 2020 07:29:24: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 07:29:24: #1 finished! INFO @ Tue, 14 Jul 2020 07:29:24: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 07:29:24: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 07:29:24: #2 number of paired peaks: 2439 INFO @ Tue, 14 Jul 2020 07:29:24: start model_add_line... INFO @ Tue, 14 Jul 2020 07:29:24: start X-correlation... INFO @ Tue, 14 Jul 2020 07:29:24: end of X-cor INFO @ Tue, 14 Jul 2020 07:29:24: #2 finished! INFO @ Tue, 14 Jul 2020 07:29:24: #2 predicted fragment length is 167 bps INFO @ Tue, 14 Jul 2020 07:29:24: #2 alternative fragment length(s) may be 167 bps INFO @ Tue, 14 Jul 2020 07:29:24: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX6813079/SRX6813079.10_model.r INFO @ Tue, 14 Jul 2020 07:29:24: #3 Call peaks... INFO @ Tue, 14 Jul 2020 07:29:24: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 07:29:30: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 07:29:33: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX6813079/SRX6813079.10_peaks.xls INFO @ Tue, 14 Jul 2020 07:29:33: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX6813079/SRX6813079.10_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 07:29:33: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX6813079/SRX6813079.10_summits.bed INFO @ Tue, 14 Jul 2020 07:29:33: Done! pass1 - making usageList (12 chroms): 0 millis pass2 - checking and writing primary data (2567 records, 4 fields): 23 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 07:29:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX6813079/SRX6813079.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX6813079/SRX6813079.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX6813079/SRX6813079.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX6813079/SRX6813079.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 07:29:41: #1 read tag files... INFO @ Tue, 14 Jul 2020 07:29:41: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 07:29:46: 1000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 14 Jul 2020 07:29:52: 2000000 INFO @ Tue, 14 Jul 2020 07:29:54: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 07:29:54: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 07:29:54: #1 total tags in treatment: 2379754 INFO @ Tue, 14 Jul 2020 07:29:54: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 07:29:54: #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 07:29:54: #1 tags after filtering in treatment: 2379754 INFO @ Tue, 14 Jul 2020 07:29:54: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 07:29:54: #1 finished! INFO @ Tue, 14 Jul 2020 07:29:54: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 07:29:54: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 07:29:54: #2 number of paired peaks: 2439 INFO @ Tue, 14 Jul 2020 07:29:54: start model_add_line... INFO @ Tue, 14 Jul 2020 07:29:54: start X-correlation... INFO @ Tue, 14 Jul 2020 07:29:55: end of X-cor INFO @ Tue, 14 Jul 2020 07:29:55: #2 finished! INFO @ Tue, 14 Jul 2020 07:29:55: #2 predicted fragment length is 167 bps INFO @ Tue, 14 Jul 2020 07:29:55: #2 alternative fragment length(s) may be 167 bps INFO @ Tue, 14 Jul 2020 07:29:55: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX6813079/SRX6813079.20_model.r INFO @ Tue, 14 Jul 2020 07:29:55: #3 Call peaks... INFO @ Tue, 14 Jul 2020 07:29:55: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Tue, 14 Jul 2020 07:30:00: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 07:30:03: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX6813079/SRX6813079.20_peaks.xls INFO @ Tue, 14 Jul 2020 07:30:03: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX6813079/SRX6813079.20_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 07:30:03: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX6813079/SRX6813079.20_summits.bed INFO @ Tue, 14 Jul 2020 07:30:03: Done! pass1 - making usageList (9 chroms): 1 millis pass2 - checking and writing primary data (1605 records, 4 fields): 16 millis CompletedMACS2peakCalling