Job ID = 14172917 SRX = SRX7434139 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: 00:02:24 10927441 reads; of these: 10927441 (100.00%) were unpaired; of these: 1853403 (16.96%) aligned 0 times 7507370 (68.70%) aligned exactly 1 time 1566668 (14.34%) aligned >1 times 83.04% overall alignment rate Time searching: 00:02:24 Overall time: 00:02:24 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] 4223109 / 9074038 = 0.4654 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 17:25:49: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7434139/SRX7434139.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7434139/SRX7434139.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7434139/SRX7434139.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7434139/SRX7434139.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 17:25:49: #1 read tag files... INFO @ Sat, 11 Dec 2021 17:25:49: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 17:25:54: 1000000 INFO @ Sat, 11 Dec 2021 17:26:00: 2000000 INFO @ Sat, 11 Dec 2021 17:26:06: 3000000 INFO @ Sat, 11 Dec 2021 17:26:13: 4000000 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 17:26:18: #1 tag size is determined as 51 bps INFO @ Sat, 11 Dec 2021 17:26:18: #1 tag size = 51 INFO @ Sat, 11 Dec 2021 17:26:18: #1 total tags in treatment: 4850929 INFO @ Sat, 11 Dec 2021 17:26:18: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 17:26:18: #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 17:26:18: #1 tags after filtering in treatment: 4850740 INFO @ Sat, 11 Dec 2021 17:26:18: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 17:26:18: #1 finished! INFO @ Sat, 11 Dec 2021 17:26:18: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 17:26:18: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 17:26:19: #2 number of paired peaks: 3862 INFO @ Sat, 11 Dec 2021 17:26:19: start model_add_line... INFO @ Sat, 11 Dec 2021 17:26:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7434139/SRX7434139.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7434139/SRX7434139.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7434139/SRX7434139.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7434139/SRX7434139.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 17:26:19: #1 read tag files... INFO @ Sat, 11 Dec 2021 17:26:19: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 17:26:19: start X-correlation... INFO @ Sat, 11 Dec 2021 17:26:19: end of X-cor INFO @ Sat, 11 Dec 2021 17:26:19: #2 finished! INFO @ Sat, 11 Dec 2021 17:26:19: #2 predicted fragment length is 208 bps INFO @ Sat, 11 Dec 2021 17:26:19: #2 alternative fragment length(s) may be 208 bps INFO @ Sat, 11 Dec 2021 17:26:19: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7434139/SRX7434139.05_model.r INFO @ Sat, 11 Dec 2021 17:26:19: #3 Call peaks... INFO @ Sat, 11 Dec 2021 17:26:19: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 17:26:24: 1000000 INFO @ Sat, 11 Dec 2021 17:26:30: 2000000 INFO @ Sat, 11 Dec 2021 17:26:31: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 17:26:36: 3000000 INFO @ Sat, 11 Dec 2021 17:26:38: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7434139/SRX7434139.05_peaks.xls INFO @ Sat, 11 Dec 2021 17:26:38: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7434139/SRX7434139.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 17:26:38: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7434139/SRX7434139.05_summits.bed INFO @ Sat, 11 Dec 2021 17:26:38: Done! pass1 - making usageList (443 chroms): 1 millis pass2 - checking and writing primary data (4203 records, 4 fields): 16 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 17:26:42: 4000000 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 17:26:47: #1 tag size is determined as 51 bps INFO @ Sat, 11 Dec 2021 17:26:47: #1 tag size = 51 INFO @ Sat, 11 Dec 2021 17:26:47: #1 total tags in treatment: 4850929 INFO @ Sat, 11 Dec 2021 17:26:47: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 17:26:47: #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 17:26:48: #1 tags after filtering in treatment: 4850740 INFO @ Sat, 11 Dec 2021 17:26:48: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 17:26:48: #1 finished! INFO @ Sat, 11 Dec 2021 17:26:48: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 17:26:48: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 17:26:48: #2 number of paired peaks: 3862 INFO @ Sat, 11 Dec 2021 17:26:48: start model_add_line... INFO @ Sat, 11 Dec 2021 17:26:48: start X-correlation... INFO @ Sat, 11 Dec 2021 17:26:48: end of X-cor INFO @ Sat, 11 Dec 2021 17:26:48: #2 finished! INFO @ Sat, 11 Dec 2021 17:26:48: #2 predicted fragment length is 208 bps INFO @ Sat, 11 Dec 2021 17:26:48: #2 alternative fragment length(s) may be 208 bps INFO @ Sat, 11 Dec 2021 17:26:48: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7434139/SRX7434139.10_model.r INFO @ Sat, 11 Dec 2021 17:26:48: #3 Call peaks... INFO @ Sat, 11 Dec 2021 17:26:48: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 17:26:49: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7434139/SRX7434139.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7434139/SRX7434139.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7434139/SRX7434139.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7434139/SRX7434139.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 17:26:49: #1 read tag files... INFO @ Sat, 11 Dec 2021 17:26:49: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 17:26:55: 1000000 INFO @ Sat, 11 Dec 2021 17:27:01: 2000000 INFO @ Sat, 11 Dec 2021 17:27:02: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 17:27:07: 3000000 BedGraph に変換しました。 INFO @ Sat, 11 Dec 2021 17:27:08: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7434139/SRX7434139.10_peaks.xls BigWig に変換中... INFO @ Sat, 11 Dec 2021 17:27:09: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7434139/SRX7434139.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 17:27:09: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7434139/SRX7434139.10_summits.bed INFO @ Sat, 11 Dec 2021 17:27:09: Done! pass1 - making usageList (235 chroms): 1 millis pass2 - checking and writing primary data (3029 records, 4 fields): 10 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 17:27:13: 4000000 INFO @ Sat, 11 Dec 2021 17:27:18: #1 tag size is determined as 51 bps INFO @ Sat, 11 Dec 2021 17:27:18: #1 tag size = 51 INFO @ Sat, 11 Dec 2021 17:27:18: #1 total tags in treatment: 4850929 INFO @ Sat, 11 Dec 2021 17:27:18: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 17:27:18: #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 17:27:19: #1 tags after filtering in treatment: 4850740 INFO @ Sat, 11 Dec 2021 17:27:19: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 17:27:19: #1 finished! INFO @ Sat, 11 Dec 2021 17:27:19: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 17:27:19: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 17:27:19: #2 number of paired peaks: 3862 INFO @ Sat, 11 Dec 2021 17:27:19: start model_add_line... BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 17:27:19: start X-correlation... INFO @ Sat, 11 Dec 2021 17:27:19: end of X-cor INFO @ Sat, 11 Dec 2021 17:27:19: #2 finished! INFO @ Sat, 11 Dec 2021 17:27:19: #2 predicted fragment length is 208 bps INFO @ Sat, 11 Dec 2021 17:27:19: #2 alternative fragment length(s) may be 208 bps INFO @ Sat, 11 Dec 2021 17:27:19: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7434139/SRX7434139.20_model.r INFO @ Sat, 11 Dec 2021 17:27:19: #3 Call peaks... INFO @ Sat, 11 Dec 2021 17:27:19: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 17:27:33: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 17:27:41: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7434139/SRX7434139.20_peaks.xls INFO @ Sat, 11 Dec 2021 17:27:41: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7434139/SRX7434139.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 17:27:41: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7434139/SRX7434139.20_summits.bed INFO @ Sat, 11 Dec 2021 17:27:41: Done! pass1 - making usageList (117 chroms): 1 millis pass2 - checking and writing primary data (2314 records, 4 fields): 7 millis CompletedMACS2peakCalling