Job ID = 6626601 SRX = SRX7262535 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 20281516 spots for SRR10582162/SRR10582162.sra Written 20281516 spots for SRR10582162/SRR10582162.sra fastq に変換しました。 bowtie でマッピング中... Your job 6626726 ("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: 00:03:12 20281516 reads; of these: 20281516 (100.00%) were unpaired; of these: 19289543 (95.11%) aligned 0 times 844087 (4.16%) aligned exactly 1 time 147886 (0.73%) aligned >1 times 4.89% overall alignment rate Time searching: 00:03:12 Overall time: 00:03:12 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] 246508 / 991973 = 0.2485 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 07:53:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7262535/SRX7262535.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7262535/SRX7262535.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7262535/SRX7262535.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7262535/SRX7262535.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 07:53:40: #1 read tag files... INFO @ Tue, 14 Jul 2020 07:53:40: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 07:53:45: #1 tag size is determined as 75 bps INFO @ Tue, 14 Jul 2020 07:53:45: #1 tag size = 75 INFO @ Tue, 14 Jul 2020 07:53:45: #1 total tags in treatment: 745465 INFO @ Tue, 14 Jul 2020 07:53:45: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 07:53:45: #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 07:53:45: #1 tags after filtering in treatment: 745465 INFO @ Tue, 14 Jul 2020 07:53:45: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 07:53:45: #1 finished! INFO @ Tue, 14 Jul 2020 07:53:45: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 07:53:45: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 07:53:45: #2 number of paired peaks: 8111 INFO @ Tue, 14 Jul 2020 07:53:45: start model_add_line... INFO @ Tue, 14 Jul 2020 07:53:45: start X-correlation... INFO @ Tue, 14 Jul 2020 07:53:46: end of X-cor INFO @ Tue, 14 Jul 2020 07:53:46: #2 finished! INFO @ Tue, 14 Jul 2020 07:53:46: #2 predicted fragment length is 242 bps INFO @ Tue, 14 Jul 2020 07:53:46: #2 alternative fragment length(s) may be 242 bps INFO @ Tue, 14 Jul 2020 07:53:46: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7262535/SRX7262535.05_model.r INFO @ Tue, 14 Jul 2020 07:53:46: #3 Call peaks... INFO @ Tue, 14 Jul 2020 07:53:46: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 07:53:47: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 07:53:48: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7262535/SRX7262535.05_peaks.xls INFO @ Tue, 14 Jul 2020 07:53:48: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7262535/SRX7262535.05_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 07:53:48: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7262535/SRX7262535.05_summits.bed INFO @ Tue, 14 Jul 2020 07:53:48: Done! pass1 - making usageList (12 chroms): 0 millis pass2 - checking and writing primary data (1930 records, 4 fields): 12 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 07:54:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7262535/SRX7262535.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7262535/SRX7262535.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7262535/SRX7262535.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7262535/SRX7262535.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 07:54:10: #1 read tag files... INFO @ Tue, 14 Jul 2020 07:54:10: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 07:54:15: #1 tag size is determined as 75 bps INFO @ Tue, 14 Jul 2020 07:54:15: #1 tag size = 75 INFO @ Tue, 14 Jul 2020 07:54:15: #1 total tags in treatment: 745465 INFO @ Tue, 14 Jul 2020 07:54:15: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 07:54:15: #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 07:54:15: #1 tags after filtering in treatment: 745465 INFO @ Tue, 14 Jul 2020 07:54:15: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 07:54:15: #1 finished! INFO @ Tue, 14 Jul 2020 07:54:15: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 07:54:15: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 07:54:15: #2 number of paired peaks: 8111 INFO @ Tue, 14 Jul 2020 07:54:15: start model_add_line... INFO @ Tue, 14 Jul 2020 07:54:15: start X-correlation... INFO @ Tue, 14 Jul 2020 07:54:15: end of X-cor INFO @ Tue, 14 Jul 2020 07:54:15: #2 finished! INFO @ Tue, 14 Jul 2020 07:54:15: #2 predicted fragment length is 242 bps INFO @ Tue, 14 Jul 2020 07:54:15: #2 alternative fragment length(s) may be 242 bps INFO @ Tue, 14 Jul 2020 07:54:15: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7262535/SRX7262535.10_model.r INFO @ Tue, 14 Jul 2020 07:54:15: #3 Call peaks... INFO @ Tue, 14 Jul 2020 07:54:15: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 07:54:17: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 07:54:18: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7262535/SRX7262535.10_peaks.xls INFO @ Tue, 14 Jul 2020 07:54:18: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7262535/SRX7262535.10_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 07:54:18: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7262535/SRX7262535.10_summits.bed INFO @ Tue, 14 Jul 2020 07:54:18: Done! pass1 - making usageList (11 chroms): 1 millis pass2 - checking and writing primary data (880 records, 4 fields): 19 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 07:54:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7262535/SRX7262535.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7262535/SRX7262535.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7262535/SRX7262535.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7262535/SRX7262535.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 07:54:40: #1 read tag files... INFO @ Tue, 14 Jul 2020 07:54:40: #1 read treatment tags... BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。 INFO @ Tue, 14 Jul 2020 07:54:45: #1 tag size is determined as 75 bps INFO @ Tue, 14 Jul 2020 07:54:45: #1 tag size = 75 INFO @ Tue, 14 Jul 2020 07:54:45: #1 total tags in treatment: 745465 INFO @ Tue, 14 Jul 2020 07:54:45: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 07:54:45: #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 07:54:45: #1 tags after filtering in treatment: 745465 INFO @ Tue, 14 Jul 2020 07:54:45: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 07:54:45: #1 finished! INFO @ Tue, 14 Jul 2020 07:54:45: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 07:54:45: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 07:54:45: #2 number of paired peaks: 8111 INFO @ Tue, 14 Jul 2020 07:54:45: start model_add_line... INFO @ Tue, 14 Jul 2020 07:54:46: start X-correlation... INFO @ Tue, 14 Jul 2020 07:54:46: end of X-cor INFO @ Tue, 14 Jul 2020 07:54:46: #2 finished! INFO @ Tue, 14 Jul 2020 07:54:46: #2 predicted fragment length is 242 bps INFO @ Tue, 14 Jul 2020 07:54:46: #2 alternative fragment length(s) may be 242 bps INFO @ Tue, 14 Jul 2020 07:54:46: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7262535/SRX7262535.20_model.r INFO @ Tue, 14 Jul 2020 07:54:46: #3 Call peaks... INFO @ Tue, 14 Jul 2020 07:54:46: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 07:54:47: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 07:54:48: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7262535/SRX7262535.20_peaks.xls INFO @ Tue, 14 Jul 2020 07:54:48: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7262535/SRX7262535.20_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 07:54:48: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7262535/SRX7262535.20_summits.bed INFO @ Tue, 14 Jul 2020 07:54:48: Done! pass1 - making usageList (10 chroms): 0 millis pass2 - checking and writing primary data (315 records, 4 fields): 7 millis CompletedMACS2peakCalling