Job ID = 14172797 SRX = SRX7434115 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: 00:01:58 8841729 reads; of these: 8841729 (100.00%) were unpaired; of these: 1347380 (15.24%) aligned 0 times 5862054 (66.30%) aligned exactly 1 time 1632295 (18.46%) aligned >1 times 84.76% overall alignment rate Time searching: 00:01:58 Overall time: 00:01:58 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] 3590778 / 7494349 = 0.4791 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 16:59:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7434115/SRX7434115.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7434115/SRX7434115.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7434115/SRX7434115.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7434115/SRX7434115.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 16:59:52: #1 read tag files... INFO @ Sat, 11 Dec 2021 16:59:52: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 16:59:58: 1000000 INFO @ Sat, 11 Dec 2021 17:00:03: 2000000 INFO @ Sat, 11 Dec 2021 17:00:09: 3000000 INFO @ Sat, 11 Dec 2021 17:00:15: #1 tag size is determined as 51 bps INFO @ Sat, 11 Dec 2021 17:00:15: #1 tag size = 51 INFO @ Sat, 11 Dec 2021 17:00:15: #1 total tags in treatment: 3903571 INFO @ Sat, 11 Dec 2021 17:00:15: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 17:00:15: #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 17:00:15: #1 tags after filtering in treatment: 3903427 INFO @ Sat, 11 Dec 2021 17:00:15: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 17:00:15: #1 finished! INFO @ Sat, 11 Dec 2021 17:00:15: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 17:00:15: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 17:00:16: #2 number of paired peaks: 2613 INFO @ Sat, 11 Dec 2021 17:00:16: start model_add_line... INFO @ Sat, 11 Dec 2021 17:00:16: start X-correlation... INFO @ Sat, 11 Dec 2021 17:00:16: end of X-cor INFO @ Sat, 11 Dec 2021 17:00:16: #2 finished! INFO @ Sat, 11 Dec 2021 17:00:16: #2 predicted fragment length is 236 bps INFO @ Sat, 11 Dec 2021 17:00:16: #2 alternative fragment length(s) may be 236 bps INFO @ Sat, 11 Dec 2021 17:00:16: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7434115/SRX7434115.05_model.r INFO @ Sat, 11 Dec 2021 17:00:16: #3 Call peaks... INFO @ Sat, 11 Dec 2021 17:00:16: #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 @ Sat, 11 Dec 2021 17:00:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7434115/SRX7434115.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7434115/SRX7434115.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7434115/SRX7434115.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7434115/SRX7434115.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 17:00:22: #1 read tag files... INFO @ Sat, 11 Dec 2021 17:00:22: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 17:00:26: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 17:00:29: 1000000 INFO @ Sat, 11 Dec 2021 17:00:31: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7434115/SRX7434115.05_peaks.xls INFO @ Sat, 11 Dec 2021 17:00:31: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7434115/SRX7434115.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 17:00:31: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7434115/SRX7434115.05_summits.bed INFO @ Sat, 11 Dec 2021 17:00:31: Done! pass1 - making usageList (500 chroms): 2 millis pass2 - checking and writing primary data (2994 records, 4 fields): 15 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 17:00:36: 2000000 INFO @ Sat, 11 Dec 2021 17:00:43: 3000000 INFO @ Sat, 11 Dec 2021 17:00:49: #1 tag size is determined as 51 bps INFO @ Sat, 11 Dec 2021 17:00:49: #1 tag size = 51 INFO @ Sat, 11 Dec 2021 17:00:49: #1 total tags in treatment: 3903571 INFO @ Sat, 11 Dec 2021 17:00:49: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 17:00:49: #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 17:00:49: #1 tags after filtering in treatment: 3903427 INFO @ Sat, 11 Dec 2021 17:00:49: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 17:00:49: #1 finished! INFO @ Sat, 11 Dec 2021 17:00:49: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 17:00:49: #2 looking for paired plus/minus strand peaks... 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 17:00:50: #2 number of paired peaks: 2613 INFO @ Sat, 11 Dec 2021 17:00:50: start model_add_line... INFO @ Sat, 11 Dec 2021 17:00:50: start X-correlation... INFO @ Sat, 11 Dec 2021 17:00:50: end of X-cor INFO @ Sat, 11 Dec 2021 17:00:50: #2 finished! INFO @ Sat, 11 Dec 2021 17:00:50: #2 predicted fragment length is 236 bps INFO @ Sat, 11 Dec 2021 17:00:50: #2 alternative fragment length(s) may be 236 bps INFO @ Sat, 11 Dec 2021 17:00:50: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7434115/SRX7434115.10_model.r INFO @ Sat, 11 Dec 2021 17:00:50: #3 Call peaks... INFO @ Sat, 11 Dec 2021 17:00:50: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 17:00:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7434115/SRX7434115.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7434115/SRX7434115.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7434115/SRX7434115.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7434115/SRX7434115.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 17:00:52: #1 read tag files... INFO @ Sat, 11 Dec 2021 17:00:52: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 17:00:58: 1000000 INFO @ Sat, 11 Dec 2021 17:01:00: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 17:01:03: 2000000 INFO @ Sat, 11 Dec 2021 17:01:04: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7434115/SRX7434115.10_peaks.xls INFO @ Sat, 11 Dec 2021 17:01:04: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7434115/SRX7434115.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 17:01:04: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7434115/SRX7434115.10_summits.bed INFO @ Sat, 11 Dec 2021 17:01:04: Done! pass1 - making usageList (293 chroms): 1 millis pass2 - checking and writing primary data (2113 records, 4 fields): 11 millis CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 17:01:09: 3000000 INFO @ Sat, 11 Dec 2021 17:01:15: #1 tag size is determined as 51 bps INFO @ Sat, 11 Dec 2021 17:01:15: #1 tag size = 51 INFO @ Sat, 11 Dec 2021 17:01:15: #1 total tags in treatment: 3903571 INFO @ Sat, 11 Dec 2021 17:01:15: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 17:01:15: #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 17:01:16: #1 tags after filtering in treatment: 3903427 INFO @ Sat, 11 Dec 2021 17:01:16: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 17:01:16: #1 finished! INFO @ Sat, 11 Dec 2021 17:01:16: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 17:01:16: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 17:01:16: #2 number of paired peaks: 2613 INFO @ Sat, 11 Dec 2021 17:01:16: start model_add_line... INFO @ Sat, 11 Dec 2021 17:01:16: start X-correlation... INFO @ Sat, 11 Dec 2021 17:01:16: end of X-cor INFO @ Sat, 11 Dec 2021 17:01:16: #2 finished! INFO @ Sat, 11 Dec 2021 17:01:16: #2 predicted fragment length is 236 bps INFO @ Sat, 11 Dec 2021 17:01:16: #2 alternative fragment length(s) may be 236 bps INFO @ Sat, 11 Dec 2021 17:01:16: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7434115/SRX7434115.20_model.r INFO @ Sat, 11 Dec 2021 17:01:16: #3 Call peaks... INFO @ Sat, 11 Dec 2021 17:01:16: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 17:01:26: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 17:01:30: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7434115/SRX7434115.20_peaks.xls INFO @ Sat, 11 Dec 2021 17:01:30: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7434115/SRX7434115.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 17:01:30: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7434115/SRX7434115.20_summits.bed INFO @ Sat, 11 Dec 2021 17:01:30: Done! pass1 - making usageList (124 chroms): 1 millis pass2 - checking and writing primary data (1288 records, 4 fields): 6 millis CompletedMACS2peakCalling