Job ID = 12264855 SRX = SRX3032254 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 16779395 spots for SRR5863944/SRR5863944.sra Written 16779395 spots for SRR5863944/SRR5863944.sra fastq に変換しました。 bowtie でマッピング中... Your job 12265042 ("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: 00:03:01 16779395 reads; of these: 16779395 (100.00%) were unpaired; of these: 7556529 (45.03%) aligned 0 times 5042372 (30.05%) aligned exactly 1 time 4180494 (24.91%) aligned >1 times 54.97% overall alignment rate Time searching: 00:03:01 Overall time: 00:03:01 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] 4813764 / 9222866 = 0.5219 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 05:59:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3032254/SRX3032254.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3032254/SRX3032254.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3032254/SRX3032254.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3032254/SRX3032254.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 05:59:41: #1 read tag files... INFO @ Sat, 03 Apr 2021 05:59:41: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 05:59:47: 1000000 INFO @ Sat, 03 Apr 2021 05:59:53: 2000000 INFO @ Sat, 03 Apr 2021 05:59:59: 3000000 INFO @ Sat, 03 Apr 2021 06:00:05: 4000000 INFO @ Sat, 03 Apr 2021 06:00:07: #1 tag size is determined as 20 bps INFO @ Sat, 03 Apr 2021 06:00:07: #1 tag size = 20 INFO @ Sat, 03 Apr 2021 06:00:07: #1 total tags in treatment: 4409102 INFO @ Sat, 03 Apr 2021 06:00:07: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:00:07: #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 06:00:07: #1 tags after filtering in treatment: 4409102 INFO @ Sat, 03 Apr 2021 06:00:07: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:00:07: #1 finished! INFO @ Sat, 03 Apr 2021 06:00:07: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:00:07: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:00:08: #2 number of paired peaks: 1171 INFO @ Sat, 03 Apr 2021 06:00:08: start model_add_line... INFO @ Sat, 03 Apr 2021 06:00:08: start X-correlation... INFO @ Sat, 03 Apr 2021 06:00:08: end of X-cor INFO @ Sat, 03 Apr 2021 06:00:08: #2 finished! INFO @ Sat, 03 Apr 2021 06:00:08: #2 predicted fragment length is 60 bps INFO @ Sat, 03 Apr 2021 06:00:08: #2 alternative fragment length(s) may be 60 bps INFO @ Sat, 03 Apr 2021 06:00:08: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX3032254/SRX3032254.05_model.r INFO @ Sat, 03 Apr 2021 06:00:08: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:00:08: #3 Pre-compute pvalue-qvalue table... 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 06:00:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3032254/SRX3032254.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3032254/SRX3032254.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3032254/SRX3032254.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3032254/SRX3032254.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 06:00:11: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:00:11: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:00:18: 1000000 INFO @ Sat, 03 Apr 2021 06:00:21: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:00:25: 2000000 INFO @ Sat, 03 Apr 2021 06:00:28: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX3032254/SRX3032254.05_peaks.xls INFO @ Sat, 03 Apr 2021 06:00:28: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX3032254/SRX3032254.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:00:28: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX3032254/SRX3032254.05_summits.bed INFO @ Sat, 03 Apr 2021 06:00:28: Done! pass1 - making usageList (13 chroms): 2 millis pass2 - checking and writing primary data (5952 records, 4 fields): 18 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:00:31: 3000000 INFO @ Sat, 03 Apr 2021 06:00:38: 4000000 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 06:00:40: #1 tag size is determined as 20 bps INFO @ Sat, 03 Apr 2021 06:00:40: #1 tag size = 20 INFO @ Sat, 03 Apr 2021 06:00:40: #1 total tags in treatment: 4409102 INFO @ Sat, 03 Apr 2021 06:00:40: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:00:40: #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 06:00:40: #1 tags after filtering in treatment: 4409102 INFO @ Sat, 03 Apr 2021 06:00:40: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:00:40: #1 finished! INFO @ Sat, 03 Apr 2021 06:00:40: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:00:40: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:00:41: #2 number of paired peaks: 1171 INFO @ Sat, 03 Apr 2021 06:00:41: start model_add_line... INFO @ Sat, 03 Apr 2021 06:00:41: start X-correlation... INFO @ Sat, 03 Apr 2021 06:00:41: end of X-cor INFO @ Sat, 03 Apr 2021 06:00:41: #2 finished! INFO @ Sat, 03 Apr 2021 06:00:41: #2 predicted fragment length is 60 bps INFO @ Sat, 03 Apr 2021 06:00:41: #2 alternative fragment length(s) may be 60 bps INFO @ Sat, 03 Apr 2021 06:00:41: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX3032254/SRX3032254.10_model.r INFO @ Sat, 03 Apr 2021 06:00:41: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:00:41: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:00:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3032254/SRX3032254.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3032254/SRX3032254.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3032254/SRX3032254.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3032254/SRX3032254.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 06:00:41: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:00:41: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:00:48: 1000000 INFO @ Sat, 03 Apr 2021 06:00:54: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:00:54: 2000000 INFO @ Sat, 03 Apr 2021 06:01:01: 3000000 INFO @ Sat, 03 Apr 2021 06:01:01: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX3032254/SRX3032254.10_peaks.xls INFO @ Sat, 03 Apr 2021 06:01:01: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX3032254/SRX3032254.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:01:01: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX3032254/SRX3032254.10_summits.bed INFO @ Sat, 03 Apr 2021 06:01:01: Done! pass1 - making usageList (11 chroms): 2 millis pass2 - checking and writing primary data (1850 records, 4 fields): 7 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:01:08: 4000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 06:01:10: #1 tag size is determined as 20 bps INFO @ Sat, 03 Apr 2021 06:01:10: #1 tag size = 20 INFO @ Sat, 03 Apr 2021 06:01:10: #1 total tags in treatment: 4409102 INFO @ Sat, 03 Apr 2021 06:01:10: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:01:10: #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 06:01:10: #1 tags after filtering in treatment: 4409102 INFO @ Sat, 03 Apr 2021 06:01:10: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:01:10: #1 finished! INFO @ Sat, 03 Apr 2021 06:01:10: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:01:10: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:01:11: #2 number of paired peaks: 1171 INFO @ Sat, 03 Apr 2021 06:01:11: start model_add_line... INFO @ Sat, 03 Apr 2021 06:01:11: start X-correlation... INFO @ Sat, 03 Apr 2021 06:01:11: end of X-cor INFO @ Sat, 03 Apr 2021 06:01:11: #2 finished! INFO @ Sat, 03 Apr 2021 06:01:11: #2 predicted fragment length is 60 bps INFO @ Sat, 03 Apr 2021 06:01:11: #2 alternative fragment length(s) may be 60 bps INFO @ Sat, 03 Apr 2021 06:01:11: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX3032254/SRX3032254.20_model.r INFO @ Sat, 03 Apr 2021 06:01:11: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:01:11: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 06:01:24: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:01:31: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX3032254/SRX3032254.20_peaks.xls INFO @ Sat, 03 Apr 2021 06:01:31: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX3032254/SRX3032254.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:01:31: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX3032254/SRX3032254.20_summits.bed INFO @ Sat, 03 Apr 2021 06:01:31: Done! pass1 - making usageList (10 chroms): 1 millis pass2 - checking and writing primary data (164 records, 4 fields): 18 millis CompletedMACS2peakCalling