Job ID = 12266589 SRX = SRX7282925 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 4733984 spots for SRR10603284/SRR10603284.sra Written 4733984 spots for SRR10603284/SRR10603284.sra fastq に変換しました。 bowtie でマッピング中... Your job 12266767 ("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: 00:01:41 4733984 reads; of these: 4733984 (100.00%) were unpaired; of these: 778433 (16.44%) aligned 0 times 3166686 (66.89%) aligned exactly 1 time 788865 (16.66%) aligned >1 times 83.56% overall alignment rate Time searching: 00:01:41 Overall time: 00:01:41 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] 523491 / 3955551 = 0.1323 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 09:06:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7282925/SRX7282925.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7282925/SRX7282925.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7282925/SRX7282925.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7282925/SRX7282925.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 09:06:01: #1 read tag files... INFO @ Sat, 03 Apr 2021 09:06:01: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 09:06:10: 1000000 INFO @ Sat, 03 Apr 2021 09:06:20: 2000000 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 09:06:30: 3000000 INFO @ Sat, 03 Apr 2021 09:06:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7282925/SRX7282925.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7282925/SRX7282925.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7282925/SRX7282925.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7282925/SRX7282925.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 09:06:31: #1 read tag files... INFO @ Sat, 03 Apr 2021 09:06:31: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 09:06:34: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 09:06:34: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 09:06:34: #1 total tags in treatment: 3432060 INFO @ Sat, 03 Apr 2021 09:06:34: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 09:06:34: #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 09:06:34: #1 tags after filtering in treatment: 3432060 INFO @ Sat, 03 Apr 2021 09:06:34: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 09:06:34: #1 finished! INFO @ Sat, 03 Apr 2021 09:06:34: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 09:06:34: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 09:06:34: #2 number of paired peaks: 1327 INFO @ Sat, 03 Apr 2021 09:06:34: start model_add_line... INFO @ Sat, 03 Apr 2021 09:06:34: start X-correlation... INFO @ Sat, 03 Apr 2021 09:06:34: end of X-cor INFO @ Sat, 03 Apr 2021 09:06:34: #2 finished! INFO @ Sat, 03 Apr 2021 09:06:34: #2 predicted fragment length is 109 bps INFO @ Sat, 03 Apr 2021 09:06:34: #2 alternative fragment length(s) may be 109 bps INFO @ Sat, 03 Apr 2021 09:06:34: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7282925/SRX7282925.05_model.r INFO @ Sat, 03 Apr 2021 09:06:34: #3 Call peaks... INFO @ Sat, 03 Apr 2021 09:06:34: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 09:06:43: 1000000 INFO @ Sat, 03 Apr 2021 09:06:45: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 09:06:50: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7282925/SRX7282925.05_peaks.xls INFO @ Sat, 03 Apr 2021 09:06:51: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7282925/SRX7282925.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 09:06:51: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7282925/SRX7282925.05_summits.bed INFO @ Sat, 03 Apr 2021 09:06:51: Done! pass1 - making usageList (15 chroms): 3 millis pass2 - checking and writing primary data (4761 records, 4 fields): 15 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 09:06:54: 2000000 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 09:07:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7282925/SRX7282925.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7282925/SRX7282925.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7282925/SRX7282925.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7282925/SRX7282925.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 09:07:01: #1 read tag files... INFO @ Sat, 03 Apr 2021 09:07:01: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 09:07:06: 3000000 INFO @ Sat, 03 Apr 2021 09:07:11: 1000000 INFO @ Sat, 03 Apr 2021 09:07:11: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 09:07:11: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 09:07:11: #1 total tags in treatment: 3432060 INFO @ Sat, 03 Apr 2021 09:07:11: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 09:07:11: #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 09:07:11: #1 tags after filtering in treatment: 3432060 INFO @ Sat, 03 Apr 2021 09:07:11: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 09:07:11: #1 finished! INFO @ Sat, 03 Apr 2021 09:07:11: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 09:07:11: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 09:07:12: #2 number of paired peaks: 1327 INFO @ Sat, 03 Apr 2021 09:07:12: start model_add_line... INFO @ Sat, 03 Apr 2021 09:07:12: start X-correlation... INFO @ Sat, 03 Apr 2021 09:07:12: end of X-cor INFO @ Sat, 03 Apr 2021 09:07:12: #2 finished! INFO @ Sat, 03 Apr 2021 09:07:12: #2 predicted fragment length is 109 bps INFO @ Sat, 03 Apr 2021 09:07:12: #2 alternative fragment length(s) may be 109 bps INFO @ Sat, 03 Apr 2021 09:07:12: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7282925/SRX7282925.10_model.r INFO @ Sat, 03 Apr 2021 09:07:12: #3 Call peaks... INFO @ Sat, 03 Apr 2021 09:07:12: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 09:07:20: 2000000 INFO @ Sat, 03 Apr 2021 09:07:22: #3 Call peaks for each chromosome... BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 09:07:28: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7282925/SRX7282925.10_peaks.xls INFO @ Sat, 03 Apr 2021 09:07:28: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7282925/SRX7282925.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 09:07:28: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7282925/SRX7282925.10_summits.bed INFO @ Sat, 03 Apr 2021 09:07:28: Done! pass1 - making usageList (12 chroms): 1 millis pass2 - checking and writing primary data (2160 records, 4 fields): 8 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 09:07:29: 3000000 INFO @ Sat, 03 Apr 2021 09:07:33: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 09:07:33: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 09:07:33: #1 total tags in treatment: 3432060 INFO @ Sat, 03 Apr 2021 09:07:33: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 09:07:33: #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 09:07:33: #1 tags after filtering in treatment: 3432060 INFO @ Sat, 03 Apr 2021 09:07:33: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 09:07:33: #1 finished! INFO @ Sat, 03 Apr 2021 09:07:33: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 09:07:33: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 09:07:33: #2 number of paired peaks: 1327 INFO @ Sat, 03 Apr 2021 09:07:33: start model_add_line... INFO @ Sat, 03 Apr 2021 09:07:33: start X-correlation... INFO @ Sat, 03 Apr 2021 09:07:33: end of X-cor INFO @ Sat, 03 Apr 2021 09:07:33: #2 finished! INFO @ Sat, 03 Apr 2021 09:07:33: #2 predicted fragment length is 109 bps INFO @ Sat, 03 Apr 2021 09:07:33: #2 alternative fragment length(s) may be 109 bps INFO @ Sat, 03 Apr 2021 09:07:33: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7282925/SRX7282925.20_model.r INFO @ Sat, 03 Apr 2021 09:07:33: #3 Call peaks... INFO @ Sat, 03 Apr 2021 09:07:33: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 09:07:43: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 09:07:49: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7282925/SRX7282925.20_peaks.xls INFO @ Sat, 03 Apr 2021 09:07:49: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7282925/SRX7282925.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 09:07:49: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7282925/SRX7282925.20_summits.bed INFO @ Sat, 03 Apr 2021 09:07:49: Done! pass1 - making usageList (10 chroms): 1 millis pass2 - checking and writing primary data (559 records, 4 fields): 3 millis CompletedMACS2peakCalling