Job ID = 14170958 SRX = SRX9720887 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: 00:03:36 13878543 reads; of these: 13878543 (100.00%) were unpaired; of these: 943311 (6.80%) aligned 0 times 8881640 (64.00%) aligned exactly 1 time 4053592 (29.21%) aligned >1 times 93.20% overall alignment rate Time searching: 00:03:36 Overall time: 00:03:36 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 8 files... [bam_rmdupse_core] 1553578 / 12935232 = 0.1201 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 09:11:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX9720887/SRX9720887.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX9720887/SRX9720887.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX9720887/SRX9720887.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX9720887/SRX9720887.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 09:11:30: #1 read tag files... INFO @ Sat, 11 Dec 2021 09:11:30: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 09:11:37: 1000000 INFO @ Sat, 11 Dec 2021 09:11:43: 2000000 INFO @ Sat, 11 Dec 2021 09:11:50: 3000000 INFO @ Sat, 11 Dec 2021 09:11:56: 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 09:12:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX9720887/SRX9720887.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX9720887/SRX9720887.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX9720887/SRX9720887.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX9720887/SRX9720887.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 09:12:00: #1 read tag files... INFO @ Sat, 11 Dec 2021 09:12:00: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 09:12:03: 5000000 INFO @ Sat, 11 Dec 2021 09:12:07: 1000000 INFO @ Sat, 11 Dec 2021 09:12:10: 6000000 INFO @ Sat, 11 Dec 2021 09:12:14: 2000000 INFO @ Sat, 11 Dec 2021 09:12:17: 7000000 INFO @ Sat, 11 Dec 2021 09:12:21: 3000000 INFO @ Sat, 11 Dec 2021 09:12:24: 8000000 INFO @ Sat, 11 Dec 2021 09:12:28: 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 09:12:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX9720887/SRX9720887.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX9720887/SRX9720887.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX9720887/SRX9720887.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX9720887/SRX9720887.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 09:12:30: #1 read tag files... INFO @ Sat, 11 Dec 2021 09:12:30: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 09:12:31: 9000000 INFO @ Sat, 11 Dec 2021 09:12:35: 5000000 INFO @ Sat, 11 Dec 2021 09:12:37: 1000000 INFO @ Sat, 11 Dec 2021 09:12:38: 10000000 INFO @ Sat, 11 Dec 2021 09:12:42: 6000000 INFO @ Sat, 11 Dec 2021 09:12:44: 2000000 INFO @ Sat, 11 Dec 2021 09:12:45: 11000000 INFO @ Sat, 11 Dec 2021 09:12:48: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 09:12:48: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 09:12:48: #1 total tags in treatment: 11381654 INFO @ Sat, 11 Dec 2021 09:12:48: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 09:12:48: #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 09:12:49: #1 tags after filtering in treatment: 11381567 INFO @ Sat, 11 Dec 2021 09:12:49: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 09:12:49: #1 finished! INFO @ Sat, 11 Dec 2021 09:12:49: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 09:12:49: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 09:12:49: 7000000 INFO @ Sat, 11 Dec 2021 09:12:50: #2 number of paired peaks: 1328 INFO @ Sat, 11 Dec 2021 09:12:50: start model_add_line... INFO @ Sat, 11 Dec 2021 09:12:50: start X-correlation... INFO @ Sat, 11 Dec 2021 09:12:50: end of X-cor INFO @ Sat, 11 Dec 2021 09:12:50: #2 finished! INFO @ Sat, 11 Dec 2021 09:12:50: #2 predicted fragment length is 143 bps INFO @ Sat, 11 Dec 2021 09:12:50: #2 alternative fragment length(s) may be 4,67,100,105,143 bps INFO @ Sat, 11 Dec 2021 09:12:50: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX9720887/SRX9720887.05_model.r INFO @ Sat, 11 Dec 2021 09:12:50: #3 Call peaks... INFO @ Sat, 11 Dec 2021 09:12:50: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 09:12:51: 3000000 INFO @ Sat, 11 Dec 2021 09:12:56: 8000000 INFO @ Sat, 11 Dec 2021 09:12:58: 4000000 INFO @ Sat, 11 Dec 2021 09:13:03: 9000000 INFO @ Sat, 11 Dec 2021 09:13:05: 5000000 INFO @ Sat, 11 Dec 2021 09:13:10: 10000000 INFO @ Sat, 11 Dec 2021 09:13:12: 6000000 INFO @ Sat, 11 Dec 2021 09:13:13: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 09:13:18: 11000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 09:13:19: 7000000 INFO @ Sat, 11 Dec 2021 09:13:20: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 09:13:20: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 09:13:20: #1 total tags in treatment: 11381654 INFO @ Sat, 11 Dec 2021 09:13:20: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 09:13:20: #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 09:13:21: #1 tags after filtering in treatment: 11381567 INFO @ Sat, 11 Dec 2021 09:13:21: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 09:13:21: #1 finished! INFO @ Sat, 11 Dec 2021 09:13:21: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 09:13:21: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 09:13:22: #2 number of paired peaks: 1328 INFO @ Sat, 11 Dec 2021 09:13:22: start model_add_line... INFO @ Sat, 11 Dec 2021 09:13:22: start X-correlation... INFO @ Sat, 11 Dec 2021 09:13:22: end of X-cor INFO @ Sat, 11 Dec 2021 09:13:22: #2 finished! INFO @ Sat, 11 Dec 2021 09:13:22: #2 predicted fragment length is 143 bps INFO @ Sat, 11 Dec 2021 09:13:22: #2 alternative fragment length(s) may be 4,67,100,105,143 bps INFO @ Sat, 11 Dec 2021 09:13:22: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX9720887/SRX9720887.10_model.r INFO @ Sat, 11 Dec 2021 09:13:22: #3 Call peaks... INFO @ Sat, 11 Dec 2021 09:13:22: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 09:13:25: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX9720887/SRX9720887.05_peaks.xls INFO @ Sat, 11 Dec 2021 09:13:25: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX9720887/SRX9720887.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 09:13:25: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX9720887/SRX9720887.05_summits.bed INFO @ Sat, 11 Dec 2021 09:13:25: Done! pass1 - making usageList (642 chroms): 2 millis pass2 - checking and writing primary data (4059 records, 4 fields): 20 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 09:13:26: 8000000 INFO @ Sat, 11 Dec 2021 09:13:32: 9000000 INFO @ Sat, 11 Dec 2021 09:13:39: 10000000 BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 09:13:45: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 09:13:46: 11000000 INFO @ Sat, 11 Dec 2021 09:13:49: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 09:13:49: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 09:13:49: #1 total tags in treatment: 11381654 INFO @ Sat, 11 Dec 2021 09:13:49: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 09:13:49: #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 09:13:49: #1 tags after filtering in treatment: 11381567 INFO @ Sat, 11 Dec 2021 09:13:49: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 09:13:49: #1 finished! INFO @ Sat, 11 Dec 2021 09:13:49: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 09:13:49: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 09:13:50: #2 number of paired peaks: 1328 INFO @ Sat, 11 Dec 2021 09:13:50: start model_add_line... INFO @ Sat, 11 Dec 2021 09:13:50: start X-correlation... INFO @ Sat, 11 Dec 2021 09:13:50: end of X-cor INFO @ Sat, 11 Dec 2021 09:13:50: #2 finished! INFO @ Sat, 11 Dec 2021 09:13:50: #2 predicted fragment length is 143 bps INFO @ Sat, 11 Dec 2021 09:13:50: #2 alternative fragment length(s) may be 4,67,100,105,143 bps INFO @ Sat, 11 Dec 2021 09:13:50: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX9720887/SRX9720887.20_model.r INFO @ Sat, 11 Dec 2021 09:13:50: #3 Call peaks... INFO @ Sat, 11 Dec 2021 09:13:50: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 09:13:57: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX9720887/SRX9720887.10_peaks.xls INFO @ Sat, 11 Dec 2021 09:13:57: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX9720887/SRX9720887.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 09:13:57: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX9720887/SRX9720887.10_summits.bed INFO @ Sat, 11 Dec 2021 09:13:57: Done! pass1 - making usageList (562 chroms): 2 millis pass2 - checking and writing primary data (2786 records, 4 fields): 17 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 09:14:14: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 09:14:26: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX9720887/SRX9720887.20_peaks.xls INFO @ Sat, 11 Dec 2021 09:14:26: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX9720887/SRX9720887.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 09:14:26: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX9720887/SRX9720887.20_summits.bed INFO @ Sat, 11 Dec 2021 09:14:26: Done! pass1 - making usageList (430 chroms): 1 millis pass2 - checking and writing primary data (1693 records, 4 fields): 14 millis CompletedMACS2peakCalling