Job ID = 12266602 SRX = SRX7282931 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 5600794 spots for SRR10603290/SRR10603290.sra Written 5600794 spots for SRR10603290/SRR10603290.sra fastq に変換しました。 bowtie でマッピング中... Your job 12266764 ("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: 00:01:10 5600794 reads; of these: 5600794 (100.00%) were unpaired; of these: 879721 (15.71%) aligned 0 times 4205334 (75.08%) aligned exactly 1 time 515739 (9.21%) aligned >1 times 84.29% overall alignment rate Time searching: 00:01:10 Overall time: 00:01:10 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] 1673966 / 4721073 = 0.3546 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/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 09:05:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7282931/SRX7282931.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7282931/SRX7282931.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7282931/SRX7282931.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7282931/SRX7282931.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 @ Sat, 03 Apr 2021 09:05:28: #1 read tag files... INFO @ Sat, 03 Apr 2021 09:05:28: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 09:05:34: 1000000 INFO @ Sat, 03 Apr 2021 09:05:40: 2000000 INFO @ Sat, 03 Apr 2021 09:05:46: 3000000 INFO @ Sat, 03 Apr 2021 09:05:47: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 09:05:47: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 09:05:47: #1 total tags in treatment: 3047107 INFO @ Sat, 03 Apr 2021 09:05:47: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 09:05:47: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 09:05:47: #1 tags after filtering in treatment: 3047107 INFO @ Sat, 03 Apr 2021 09:05:47: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 09:05:47: #1 finished! INFO @ Sat, 03 Apr 2021 09:05:47: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 09:05:47: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 09:05:47: #2 number of paired peaks: 7077 INFO @ Sat, 03 Apr 2021 09:05:47: start model_add_line... INFO @ Sat, 03 Apr 2021 09:05:47: start X-correlation... INFO @ Sat, 03 Apr 2021 09:05:47: end of X-cor INFO @ Sat, 03 Apr 2021 09:05:47: #2 finished! INFO @ Sat, 03 Apr 2021 09:05:47: #2 predicted fragment length is 109 bps INFO @ Sat, 03 Apr 2021 09:05:47: #2 alternative fragment length(s) may be 109 bps INFO @ Sat, 03 Apr 2021 09:05:47: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7282931/SRX7282931.05_model.r INFO @ Sat, 03 Apr 2021 09:05:47: #3 Call peaks... INFO @ Sat, 03 Apr 2021 09:05:47: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 09:05:55: #3 Call peaks for each chromosome... WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 09:05:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7282931/SRX7282931.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7282931/SRX7282931.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7282931/SRX7282931.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7282931/SRX7282931.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 @ Sat, 03 Apr 2021 09:05:58: #1 read tag files... INFO @ Sat, 03 Apr 2021 09:05:58: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 09:06:00: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7282931/SRX7282931.05_peaks.xls INFO @ Sat, 03 Apr 2021 09:06:00: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7282931/SRX7282931.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 09:06:00: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7282931/SRX7282931.05_summits.bed INFO @ Sat, 03 Apr 2021 09:06:00: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (12896 records, 4 fields): 14 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 09:06:04: 1000000 INFO @ Sat, 03 Apr 2021 09:06:10: 2000000 INFO @ Sat, 03 Apr 2021 09:06:17: 3000000 INFO @ Sat, 03 Apr 2021 09:06:17: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 09:06:17: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 09:06:17: #1 total tags in treatment: 3047107 INFO @ Sat, 03 Apr 2021 09:06:17: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 09:06:17: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 09:06:17: #1 tags after filtering in treatment: 3047107 INFO @ Sat, 03 Apr 2021 09:06:17: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 09:06:17: #1 finished! INFO @ Sat, 03 Apr 2021 09:06:17: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 09:06:17: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 09:06:17: #2 number of paired peaks: 7077 INFO @ Sat, 03 Apr 2021 09:06:17: start model_add_line... INFO @ Sat, 03 Apr 2021 09:06:17: start X-correlation... INFO @ Sat, 03 Apr 2021 09:06:17: end of X-cor INFO @ Sat, 03 Apr 2021 09:06:17: #2 finished! INFO @ Sat, 03 Apr 2021 09:06:17: #2 predicted fragment length is 109 bps INFO @ Sat, 03 Apr 2021 09:06:17: #2 alternative fragment length(s) may be 109 bps INFO @ Sat, 03 Apr 2021 09:06:17: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7282931/SRX7282931.10_model.r INFO @ Sat, 03 Apr 2021 09:06:17: #3 Call peaks... INFO @ Sat, 03 Apr 2021 09:06:17: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 09:06:25: #3 Call peaks for each chromosome... BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 09:06:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7282931/SRX7282931.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7282931/SRX7282931.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7282931/SRX7282931.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7282931/SRX7282931.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 @ Sat, 03 Apr 2021 09:06:28: #1 read tag files... INFO @ Sat, 03 Apr 2021 09:06:28: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 09:06:29: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7282931/SRX7282931.10_peaks.xls INFO @ Sat, 03 Apr 2021 09:06:29: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7282931/SRX7282931.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 09:06:29: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7282931/SRX7282931.10_summits.bed INFO @ Sat, 03 Apr 2021 09:06:29: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (8114 records, 4 fields): 10 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 09:06:34: 1000000 INFO @ Sat, 03 Apr 2021 09:06:40: 2000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 09:06:47: 3000000 INFO @ Sat, 03 Apr 2021 09:06:47: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 09:06:47: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 09:06:47: #1 total tags in treatment: 3047107 INFO @ Sat, 03 Apr 2021 09:06:47: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 09:06:47: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 09:06:47: #1 tags after filtering in treatment: 3047107 INFO @ Sat, 03 Apr 2021 09:06:47: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 09:06:47: #1 finished! INFO @ Sat, 03 Apr 2021 09:06:47: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 09:06:47: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 09:06:48: #2 number of paired peaks: 7077 INFO @ Sat, 03 Apr 2021 09:06:48: start model_add_line... INFO @ Sat, 03 Apr 2021 09:06:48: start X-correlation... INFO @ Sat, 03 Apr 2021 09:06:48: end of X-cor INFO @ Sat, 03 Apr 2021 09:06:48: #2 finished! INFO @ Sat, 03 Apr 2021 09:06:48: #2 predicted fragment length is 109 bps INFO @ Sat, 03 Apr 2021 09:06:48: #2 alternative fragment length(s) may be 109 bps INFO @ Sat, 03 Apr 2021 09:06:48: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7282931/SRX7282931.20_model.r INFO @ Sat, 03 Apr 2021 09:06:48: #3 Call peaks... INFO @ Sat, 03 Apr 2021 09:06:48: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 09:06:56: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 09:07:00: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7282931/SRX7282931.20_peaks.xls INFO @ Sat, 03 Apr 2021 09:07:00: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7282931/SRX7282931.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 09:07:00: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7282931/SRX7282931.20_summits.bed INFO @ Sat, 03 Apr 2021 09:07:00: Done! pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (3845 records, 4 fields): 6 millis CompletedMACS2peakCalling