Job ID = 14167596 SRX = SRX4712950 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: 00:05:47 23488900 reads; of these: 23488900 (100.00%) were unpaired; of these: 2410773 (10.26%) aligned 0 times 16306472 (69.42%) aligned exactly 1 time 4771655 (20.31%) aligned >1 times 89.74% overall alignment rate Time searching: 00:05:48 Overall time: 00:05:48 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_sort_core] merging from 12 files... [bam_rmdupse_core] 17421077 / 21078127 = 0.8265 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 @ Fri, 10 Dec 2021 12:55:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4712950/SRX4712950.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4712950/SRX4712950.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4712950/SRX4712950.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4712950/SRX4712950.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 @ Fri, 10 Dec 2021 12:55:04: #1 read tag files... INFO @ Fri, 10 Dec 2021 12:55:04: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 12:55:10: 1000000 INFO @ Fri, 10 Dec 2021 12:55:15: 2000000 INFO @ Fri, 10 Dec 2021 12:55:21: 3000000 INFO @ Fri, 10 Dec 2021 12:55:24: #1 tag size is determined as 51 bps INFO @ Fri, 10 Dec 2021 12:55:24: #1 tag size = 51 INFO @ Fri, 10 Dec 2021 12:55:24: #1 total tags in treatment: 3657050 INFO @ Fri, 10 Dec 2021 12:55:24: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 12:55:24: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Dec 2021 12:55:25: #1 tags after filtering in treatment: 3657035 INFO @ Fri, 10 Dec 2021 12:55:25: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 12:55:25: #1 finished! INFO @ Fri, 10 Dec 2021 12:55:25: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 12:55:25: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 12:55:25: #2 number of paired peaks: 2644 INFO @ Fri, 10 Dec 2021 12:55:25: start model_add_line... INFO @ Fri, 10 Dec 2021 12:55:25: start X-correlation... INFO @ Fri, 10 Dec 2021 12:55:25: end of X-cor INFO @ Fri, 10 Dec 2021 12:55:25: #2 finished! INFO @ Fri, 10 Dec 2021 12:55:25: #2 predicted fragment length is 104 bps INFO @ Fri, 10 Dec 2021 12:55:25: #2 alternative fragment length(s) may be 104 bps INFO @ Fri, 10 Dec 2021 12:55:25: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX4712950/SRX4712950.05_model.r INFO @ Fri, 10 Dec 2021 12:55:25: #3 Call peaks... INFO @ Fri, 10 Dec 2021 12:55:25: #3 Pre-compute pvalue-qvalue table... 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 @ Fri, 10 Dec 2021 12:55:34: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 12:55:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4712950/SRX4712950.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4712950/SRX4712950.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4712950/SRX4712950.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4712950/SRX4712950.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 @ Fri, 10 Dec 2021 12:55:34: #1 read tag files... INFO @ Fri, 10 Dec 2021 12:55:34: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 12:55:38: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX4712950/SRX4712950.05_peaks.xls INFO @ Fri, 10 Dec 2021 12:55:38: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX4712950/SRX4712950.05_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 12:55:38: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX4712950/SRX4712950.05_summits.bed INFO @ Fri, 10 Dec 2021 12:55:38: Done! pass1 - making usageList (797 chroms): 2 millis pass2 - checking and writing primary data (4174 records, 4 fields): 23 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 12:55:40: 1000000 INFO @ Fri, 10 Dec 2021 12:55:45: 2000000 INFO @ Fri, 10 Dec 2021 12:55:51: 3000000 INFO @ Fri, 10 Dec 2021 12:55:55: #1 tag size is determined as 51 bps INFO @ Fri, 10 Dec 2021 12:55:55: #1 tag size = 51 INFO @ Fri, 10 Dec 2021 12:55:55: #1 total tags in treatment: 3657050 INFO @ Fri, 10 Dec 2021 12:55:55: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 12:55:55: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Dec 2021 12:55:55: #1 tags after filtering in treatment: 3657035 INFO @ Fri, 10 Dec 2021 12:55:55: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 12:55:55: #1 finished! INFO @ Fri, 10 Dec 2021 12:55:55: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 12:55:55: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 12:55:55: #2 number of paired peaks: 2644 INFO @ Fri, 10 Dec 2021 12:55:55: start model_add_line... INFO @ Fri, 10 Dec 2021 12:55:55: start X-correlation... INFO @ Fri, 10 Dec 2021 12:55:55: end of X-cor INFO @ Fri, 10 Dec 2021 12:55:55: #2 finished! INFO @ Fri, 10 Dec 2021 12:55:55: #2 predicted fragment length is 104 bps INFO @ Fri, 10 Dec 2021 12:55:55: #2 alternative fragment length(s) may be 104 bps INFO @ Fri, 10 Dec 2021 12:55:55: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX4712950/SRX4712950.10_model.r INFO @ Fri, 10 Dec 2021 12:55:55: #3 Call peaks... INFO @ Fri, 10 Dec 2021 12:55:55: #3 Pre-compute pvalue-qvalue table... 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 @ Fri, 10 Dec 2021 12:56:04: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 12:56:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4712950/SRX4712950.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4712950/SRX4712950.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4712950/SRX4712950.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4712950/SRX4712950.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 @ Fri, 10 Dec 2021 12:56:04: #1 read tag files... INFO @ Fri, 10 Dec 2021 12:56:04: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 12:56:08: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX4712950/SRX4712950.10_peaks.xls INFO @ Fri, 10 Dec 2021 12:56:08: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX4712950/SRX4712950.10_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 12:56:08: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX4712950/SRX4712950.10_summits.bed INFO @ Fri, 10 Dec 2021 12:56:08: Done! pass1 - making usageList (600 chroms): 2 millis pass2 - checking and writing primary data (2579 records, 4 fields): 36 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 12:56:10: 1000000 INFO @ Fri, 10 Dec 2021 12:56:15: 2000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 10 Dec 2021 12:56:21: 3000000 INFO @ Fri, 10 Dec 2021 12:56:24: #1 tag size is determined as 51 bps INFO @ Fri, 10 Dec 2021 12:56:24: #1 tag size = 51 INFO @ Fri, 10 Dec 2021 12:56:24: #1 total tags in treatment: 3657050 INFO @ Fri, 10 Dec 2021 12:56:24: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 12:56:24: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Dec 2021 12:56:25: #1 tags after filtering in treatment: 3657035 INFO @ Fri, 10 Dec 2021 12:56:25: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 12:56:25: #1 finished! INFO @ Fri, 10 Dec 2021 12:56:25: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 12:56:25: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 12:56:25: #2 number of paired peaks: 2644 INFO @ Fri, 10 Dec 2021 12:56:25: start model_add_line... INFO @ Fri, 10 Dec 2021 12:56:25: start X-correlation... INFO @ Fri, 10 Dec 2021 12:56:25: end of X-cor INFO @ Fri, 10 Dec 2021 12:56:25: #2 finished! INFO @ Fri, 10 Dec 2021 12:56:25: #2 predicted fragment length is 104 bps INFO @ Fri, 10 Dec 2021 12:56:25: #2 alternative fragment length(s) may be 104 bps INFO @ Fri, 10 Dec 2021 12:56:25: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX4712950/SRX4712950.20_model.r INFO @ Fri, 10 Dec 2021 12:56:25: #3 Call peaks... INFO @ Fri, 10 Dec 2021 12:56:25: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Fri, 10 Dec 2021 12:56:34: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 12:56:38: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX4712950/SRX4712950.20_peaks.xls INFO @ Fri, 10 Dec 2021 12:56:38: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX4712950/SRX4712950.20_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 12:56:38: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX4712950/SRX4712950.20_summits.bed INFO @ Fri, 10 Dec 2021 12:56:38: Done! pass1 - making usageList (461 chroms): 1 millis pass2 - checking and writing primary data (1248 records, 4 fields): 13 millis CompletedMACS2peakCalling