Job ID = 14170983 SRX = SRX9720898 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:02:34 12217676 reads; of these: 12217676 (100.00%) were unpaired; of these: 7107777 (58.18%) aligned 0 times 3577216 (29.28%) aligned exactly 1 time 1532683 (12.54%) aligned >1 times 41.82% overall alignment rate Time searching: 00:02:34 Overall time: 00:02:34 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 1870 sequences. [bam_rmdupse_core] 4658240 / 5109899 = 0.9116 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/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 11 Dec 2021 09:12:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX9720898/SRX9720898.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX9720898/SRX9720898.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX9720898/SRX9720898.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX9720898/SRX9720898.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, 11 Dec 2021 09:12:27: #1 read tag files... INFO @ Sat, 11 Dec 2021 09:12:27: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 09:12:31: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 09:12:31: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 09:12:31: #1 total tags in treatment: 451659 INFO @ Sat, 11 Dec 2021 09:12:31: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 09:12:31: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 09:12:32: #1 tags after filtering in treatment: 451336 INFO @ Sat, 11 Dec 2021 09:12:32: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 09:12:32: #1 finished! INFO @ Sat, 11 Dec 2021 09:12:32: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 09:12:32: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 09:12:32: #2 number of paired peaks: 5322 INFO @ Sat, 11 Dec 2021 09:12:32: start model_add_line... INFO @ Sat, 11 Dec 2021 09:12:32: start X-correlation... INFO @ Sat, 11 Dec 2021 09:12:32: end of X-cor INFO @ Sat, 11 Dec 2021 09:12:32: #2 finished! INFO @ Sat, 11 Dec 2021 09:12:32: #2 predicted fragment length is 168 bps INFO @ Sat, 11 Dec 2021 09:12:32: #2 alternative fragment length(s) may be 56,135,168,220 bps INFO @ Sat, 11 Dec 2021 09:12:32: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX9720898/SRX9720898.05_model.r INFO @ Sat, 11 Dec 2021 09:12:32: #3 Call peaks... INFO @ Sat, 11 Dec 2021 09:12:32: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 09:12:34: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 09:12:34: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX9720898/SRX9720898.05_peaks.xls INFO @ Sat, 11 Dec 2021 09:12:34: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX9720898/SRX9720898.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 09:12:34: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX9720898/SRX9720898.05_summits.bed INFO @ Sat, 11 Dec 2021 09:12:34: Done! pass1 - making usageList (450 chroms): 1 millis pass2 - checking and writing primary data (918 records, 4 fields): 29 millis CompletedMACS2peakCalling WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 11 Dec 2021 09:12:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX9720898/SRX9720898.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX9720898/SRX9720898.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX9720898/SRX9720898.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX9720898/SRX9720898.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, 11 Dec 2021 09:12:57: #1 read tag files... INFO @ Sat, 11 Dec 2021 09:12:57: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 09:13:01: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 09:13:01: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 09:13:01: #1 total tags in treatment: 451659 INFO @ Sat, 11 Dec 2021 09:13:01: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 09:13:01: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 09:13:01: #1 tags after filtering in treatment: 451336 INFO @ Sat, 11 Dec 2021 09:13:01: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 09:13:01: #1 finished! INFO @ Sat, 11 Dec 2021 09:13:01: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 09:13:01: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 09:13:02: #2 number of paired peaks: 5322 INFO @ Sat, 11 Dec 2021 09:13:02: start model_add_line... INFO @ Sat, 11 Dec 2021 09:13:02: start X-correlation... INFO @ Sat, 11 Dec 2021 09:13:02: end of X-cor INFO @ Sat, 11 Dec 2021 09:13:02: #2 finished! INFO @ Sat, 11 Dec 2021 09:13:02: #2 predicted fragment length is 168 bps INFO @ Sat, 11 Dec 2021 09:13:02: #2 alternative fragment length(s) may be 56,135,168,220 bps INFO @ Sat, 11 Dec 2021 09:13:02: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX9720898/SRX9720898.10_model.r INFO @ Sat, 11 Dec 2021 09:13:02: #3 Call peaks... INFO @ Sat, 11 Dec 2021 09:13:02: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 09:13:03: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 09:13:04: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX9720898/SRX9720898.10_peaks.xls INFO @ Sat, 11 Dec 2021 09:13:04: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX9720898/SRX9720898.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 09:13:04: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX9720898/SRX9720898.10_summits.bed INFO @ Sat, 11 Dec 2021 09:13:04: Done! pass1 - making usageList (223 chroms): 1 millis pass2 - checking and writing primary data (342 records, 4 fields): 17 millis CompletedMACS2peakCalling BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 11 Dec 2021 09:13:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX9720898/SRX9720898.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX9720898/SRX9720898.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX9720898/SRX9720898.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX9720898/SRX9720898.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, 11 Dec 2021 09:13:27: #1 read tag files... INFO @ Sat, 11 Dec 2021 09:13:27: #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 @ Sat, 11 Dec 2021 09:13:31: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 09:13:31: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 09:13:31: #1 total tags in treatment: 451659 INFO @ Sat, 11 Dec 2021 09:13:31: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 09:13:31: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 09:13:32: #1 tags after filtering in treatment: 451336 INFO @ Sat, 11 Dec 2021 09:13:32: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 09:13:32: #1 finished! INFO @ Sat, 11 Dec 2021 09:13:32: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 09:13:32: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 09:13:32: #2 number of paired peaks: 5322 INFO @ Sat, 11 Dec 2021 09:13:32: start model_add_line... INFO @ Sat, 11 Dec 2021 09:13:32: start X-correlation... INFO @ Sat, 11 Dec 2021 09:13:32: end of X-cor INFO @ Sat, 11 Dec 2021 09:13:32: #2 finished! INFO @ Sat, 11 Dec 2021 09:13:32: #2 predicted fragment length is 168 bps INFO @ Sat, 11 Dec 2021 09:13:32: #2 alternative fragment length(s) may be 56,135,168,220 bps INFO @ Sat, 11 Dec 2021 09:13:32: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX9720898/SRX9720898.20_model.r INFO @ Sat, 11 Dec 2021 09:13:32: #3 Call peaks... INFO @ Sat, 11 Dec 2021 09:13:32: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 09:13:34: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 09:13:34: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX9720898/SRX9720898.20_peaks.xls INFO @ Sat, 11 Dec 2021 09:13:34: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX9720898/SRX9720898.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 09:13:34: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX9720898/SRX9720898.20_summits.bed INFO @ Sat, 11 Dec 2021 09:13:34: Done! pass1 - making usageList (50 chroms): 1 millis pass2 - checking and writing primary data (98 records, 4 fields): 5 millis CompletedMACS2peakCalling