Job ID = 6626528 SRX = SRX6813068 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 9137400 spots for SRR10080074/SRR10080074.sra Written 9137400 spots for SRR10080074/SRR10080074.sra fastq に変換しました。 bowtie でマッピング中... Your job 6626648 ("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: 00:02:12 9137400 reads; of these: 9137400 (100.00%) were unpaired; of these: 408749 (4.47%) aligned 0 times 7519276 (82.29%) aligned exactly 1 time 1209375 (13.24%) aligned >1 times 95.53% overall alignment rate Time searching: 00:02:12 Overall time: 00:02:12 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] 614022 / 8728651 = 0.0703 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 07:25:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX6813068/SRX6813068.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX6813068/SRX6813068.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX6813068/SRX6813068.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX6813068/SRX6813068.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 07:25:24: #1 read tag files... INFO @ Tue, 14 Jul 2020 07:25:24: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 07:25:32: 1000000 INFO @ Tue, 14 Jul 2020 07:25:38: 2000000 INFO @ Tue, 14 Jul 2020 07:25:44: 3000000 INFO @ Tue, 14 Jul 2020 07:25:51: 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 @ Tue, 14 Jul 2020 07:25:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX6813068/SRX6813068.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX6813068/SRX6813068.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX6813068/SRX6813068.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX6813068/SRX6813068.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 07:25:54: #1 read tag files... INFO @ Tue, 14 Jul 2020 07:25:54: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 07:25:57: 5000000 INFO @ Tue, 14 Jul 2020 07:26:00: 1000000 INFO @ Tue, 14 Jul 2020 07:26:04: 6000000 INFO @ Tue, 14 Jul 2020 07:26:06: 2000000 INFO @ Tue, 14 Jul 2020 07:26:11: 7000000 INFO @ Tue, 14 Jul 2020 07:26:13: 3000000 INFO @ Tue, 14 Jul 2020 07:26:18: 8000000 INFO @ Tue, 14 Jul 2020 07:26:19: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 07:26:19: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 07:26:19: #1 total tags in treatment: 8114629 INFO @ Tue, 14 Jul 2020 07:26:19: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 07:26:19: #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 07:26:19: 4000000 INFO @ Tue, 14 Jul 2020 07:26:19: #1 tags after filtering in treatment: 8114629 INFO @ Tue, 14 Jul 2020 07:26:19: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 07:26:19: #1 finished! INFO @ Tue, 14 Jul 2020 07:26:19: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 07:26:19: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 07:26:20: #2 number of paired peaks: 4814 INFO @ Tue, 14 Jul 2020 07:26:20: start model_add_line... INFO @ Tue, 14 Jul 2020 07:26:20: start X-correlation... INFO @ Tue, 14 Jul 2020 07:26:20: end of X-cor INFO @ Tue, 14 Jul 2020 07:26:20: #2 finished! INFO @ Tue, 14 Jul 2020 07:26:20: #2 predicted fragment length is 201 bps INFO @ Tue, 14 Jul 2020 07:26:20: #2 alternative fragment length(s) may be 201 bps INFO @ Tue, 14 Jul 2020 07:26:20: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX6813068/SRX6813068.05_model.r INFO @ Tue, 14 Jul 2020 07:26:20: #3 Call peaks... INFO @ Tue, 14 Jul 2020 07:26:20: #3 Pre-compute pvalue-qvalue table... 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 07:26:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX6813068/SRX6813068.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX6813068/SRX6813068.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX6813068/SRX6813068.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX6813068/SRX6813068.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 07:26:24: #1 read tag files... INFO @ Tue, 14 Jul 2020 07:26:24: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 07:26:25: 5000000 INFO @ Tue, 14 Jul 2020 07:26:31: 6000000 INFO @ Tue, 14 Jul 2020 07:26:32: 1000000 INFO @ Tue, 14 Jul 2020 07:26:37: 7000000 INFO @ Tue, 14 Jul 2020 07:26:39: 2000000 INFO @ Tue, 14 Jul 2020 07:26:40: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 07:26:43: 8000000 INFO @ Tue, 14 Jul 2020 07:26:44: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 07:26:44: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 07:26:44: #1 total tags in treatment: 8114629 INFO @ Tue, 14 Jul 2020 07:26:44: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 07:26:44: #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 07:26:44: #1 tags after filtering in treatment: 8114629 INFO @ Tue, 14 Jul 2020 07:26:44: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 07:26:44: #1 finished! INFO @ Tue, 14 Jul 2020 07:26:44: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 07:26:44: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 07:26:45: #2 number of paired peaks: 4814 INFO @ Tue, 14 Jul 2020 07:26:45: start model_add_line... INFO @ Tue, 14 Jul 2020 07:26:45: start X-correlation... INFO @ Tue, 14 Jul 2020 07:26:45: end of X-cor INFO @ Tue, 14 Jul 2020 07:26:45: #2 finished! INFO @ Tue, 14 Jul 2020 07:26:45: #2 predicted fragment length is 201 bps INFO @ Tue, 14 Jul 2020 07:26:45: #2 alternative fragment length(s) may be 201 bps INFO @ Tue, 14 Jul 2020 07:26:45: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX6813068/SRX6813068.10_model.r INFO @ Tue, 14 Jul 2020 07:26:45: #3 Call peaks... INFO @ Tue, 14 Jul 2020 07:26:45: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 07:26:45: 3000000 INFO @ Tue, 14 Jul 2020 07:26:48: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX6813068/SRX6813068.05_peaks.xls INFO @ Tue, 14 Jul 2020 07:26:48: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX6813068/SRX6813068.05_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 07:26:48: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX6813068/SRX6813068.05_summits.bed INFO @ Tue, 14 Jul 2020 07:26:48: Done! pass1 - making usageList (12 chroms): 1 millis pass2 - checking and writing primary data (1813 records, 4 fields): 23 millis CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 07:26:52: 4000000 INFO @ Tue, 14 Jul 2020 07:26:58: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 14 Jul 2020 07:27:04: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 07:27:05: 6000000 INFO @ Tue, 14 Jul 2020 07:27:11: 7000000 INFO @ Tue, 14 Jul 2020 07:27:13: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX6813068/SRX6813068.10_peaks.xls INFO @ Tue, 14 Jul 2020 07:27:13: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX6813068/SRX6813068.10_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 07:27:13: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX6813068/SRX6813068.10_summits.bed INFO @ Tue, 14 Jul 2020 07:27:13: Done! pass1 - making usageList (11 chroms): 0 millis pass2 - checking and writing primary data (668 records, 4 fields): 19 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Tue, 14 Jul 2020 07:27:18: 8000000 INFO @ Tue, 14 Jul 2020 07:27:18: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 07:27:18: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 07:27:18: #1 total tags in treatment: 8114629 INFO @ Tue, 14 Jul 2020 07:27:18: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 07:27:18: #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 07:27:18: #1 tags after filtering in treatment: 8114629 INFO @ Tue, 14 Jul 2020 07:27:18: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 07:27:18: #1 finished! INFO @ Tue, 14 Jul 2020 07:27:18: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 07:27:18: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 07:27:19: #2 number of paired peaks: 4814 INFO @ Tue, 14 Jul 2020 07:27:19: start model_add_line... INFO @ Tue, 14 Jul 2020 07:27:19: start X-correlation... INFO @ Tue, 14 Jul 2020 07:27:19: end of X-cor INFO @ Tue, 14 Jul 2020 07:27:19: #2 finished! INFO @ Tue, 14 Jul 2020 07:27:19: #2 predicted fragment length is 201 bps INFO @ Tue, 14 Jul 2020 07:27:19: #2 alternative fragment length(s) may be 201 bps INFO @ Tue, 14 Jul 2020 07:27:19: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX6813068/SRX6813068.20_model.r INFO @ Tue, 14 Jul 2020 07:27:19: #3 Call peaks... INFO @ Tue, 14 Jul 2020 07:27:19: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 07:27:38: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 07:27:46: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX6813068/SRX6813068.20_peaks.xls INFO @ Tue, 14 Jul 2020 07:27:46: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX6813068/SRX6813068.20_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 07:27:47: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX6813068/SRX6813068.20_summits.bed INFO @ Tue, 14 Jul 2020 07:27:47: Done! pass1 - making usageList (9 chroms): 1 millis pass2 - checking and writing primary data (232 records, 4 fields): 14 millis CompletedMACS2peakCalling