Job ID = 14172833 SRX = SRX7434127 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: 00:02:01 11431621 reads; of these: 11431621 (100.00%) were unpaired; of these: 4969697 (43.47%) aligned 0 times 4934998 (43.17%) aligned exactly 1 time 1526926 (13.36%) aligned >1 times 56.53% overall alignment rate Time searching: 00:02:01 Overall time: 00:02:01 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] 2943021 / 6461924 = 0.4554 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 17:08:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7434127/SRX7434127.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7434127/SRX7434127.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7434127/SRX7434127.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7434127/SRX7434127.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 17:08:27: #1 read tag files... INFO @ Sat, 11 Dec 2021 17:08:27: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 17:08:34: 1000000 INFO @ Sat, 11 Dec 2021 17:08:41: 2000000 INFO @ Sat, 11 Dec 2021 17:08:48: 3000000 INFO @ Sat, 11 Dec 2021 17:08:52: #1 tag size is determined as 51 bps INFO @ Sat, 11 Dec 2021 17:08:52: #1 tag size = 51 INFO @ Sat, 11 Dec 2021 17:08:52: #1 total tags in treatment: 3518903 INFO @ Sat, 11 Dec 2021 17:08:52: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 17:08:52: #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 17:08:52: #1 tags after filtering in treatment: 3518740 INFO @ Sat, 11 Dec 2021 17:08:52: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 17:08:52: #1 finished! INFO @ Sat, 11 Dec 2021 17:08:52: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 17:08:52: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 17:08:52: #2 number of paired peaks: 2295 INFO @ Sat, 11 Dec 2021 17:08:52: start model_add_line... INFO @ Sat, 11 Dec 2021 17:08:52: start X-correlation... INFO @ Sat, 11 Dec 2021 17:08:52: end of X-cor INFO @ Sat, 11 Dec 2021 17:08:52: #2 finished! INFO @ Sat, 11 Dec 2021 17:08:52: #2 predicted fragment length is 202 bps INFO @ Sat, 11 Dec 2021 17:08:52: #2 alternative fragment length(s) may be 202 bps INFO @ Sat, 11 Dec 2021 17:08:52: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7434127/SRX7434127.05_model.r INFO @ Sat, 11 Dec 2021 17:08:52: #3 Call peaks... INFO @ Sat, 11 Dec 2021 17:08:52: #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 17:08:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7434127/SRX7434127.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7434127/SRX7434127.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7434127/SRX7434127.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7434127/SRX7434127.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 17:08:57: #1 read tag files... INFO @ Sat, 11 Dec 2021 17:08:57: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 17:09:01: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 17:09:03: 1000000 INFO @ Sat, 11 Dec 2021 17:09:05: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7434127/SRX7434127.05_peaks.xls INFO @ Sat, 11 Dec 2021 17:09:05: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7434127/SRX7434127.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 17:09:05: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7434127/SRX7434127.05_summits.bed INFO @ Sat, 11 Dec 2021 17:09:05: Done! pass1 - making usageList (625 chroms): 2 millis pass2 - checking and writing primary data (2617 records, 4 fields): 37 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 17:09:09: 2000000 INFO @ Sat, 11 Dec 2021 17:09:15: 3000000 INFO @ Sat, 11 Dec 2021 17:09:18: #1 tag size is determined as 51 bps INFO @ Sat, 11 Dec 2021 17:09:18: #1 tag size = 51 INFO @ Sat, 11 Dec 2021 17:09:18: #1 total tags in treatment: 3518903 INFO @ Sat, 11 Dec 2021 17:09:18: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 17:09:18: #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 17:09:18: #1 tags after filtering in treatment: 3518740 INFO @ Sat, 11 Dec 2021 17:09:18: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 17:09:18: #1 finished! INFO @ Sat, 11 Dec 2021 17:09:18: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 17:09:18: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 17:09:18: #2 number of paired peaks: 2295 INFO @ Sat, 11 Dec 2021 17:09:18: start model_add_line... INFO @ Sat, 11 Dec 2021 17:09:18: start X-correlation... INFO @ Sat, 11 Dec 2021 17:09:18: end of X-cor INFO @ Sat, 11 Dec 2021 17:09:18: #2 finished! INFO @ Sat, 11 Dec 2021 17:09:18: #2 predicted fragment length is 202 bps INFO @ Sat, 11 Dec 2021 17:09:18: #2 alternative fragment length(s) may be 202 bps INFO @ Sat, 11 Dec 2021 17:09:18: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7434127/SRX7434127.10_model.r INFO @ Sat, 11 Dec 2021 17:09:18: #3 Call peaks... INFO @ Sat, 11 Dec 2021 17:09:18: #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 @ Sat, 11 Dec 2021 17:09:26: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 17:09:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7434127/SRX7434127.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7434127/SRX7434127.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7434127/SRX7434127.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7434127/SRX7434127.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 17:09:27: #1 read tag files... INFO @ Sat, 11 Dec 2021 17:09:27: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 17:09:30: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7434127/SRX7434127.10_peaks.xls INFO @ Sat, 11 Dec 2021 17:09:30: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7434127/SRX7434127.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 17:09:30: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7434127/SRX7434127.10_summits.bed INFO @ Sat, 11 Dec 2021 17:09:30: Done! pass1 - making usageList (422 chroms): 1 millis pass2 - checking and writing primary data (1717 records, 4 fields): 12 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 17:09:33: 1000000 INFO @ Sat, 11 Dec 2021 17:09:39: 2000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 17:09:45: 3000000 INFO @ Sat, 11 Dec 2021 17:09:48: #1 tag size is determined as 51 bps INFO @ Sat, 11 Dec 2021 17:09:48: #1 tag size = 51 INFO @ Sat, 11 Dec 2021 17:09:48: #1 total tags in treatment: 3518903 INFO @ Sat, 11 Dec 2021 17:09:48: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 17:09:48: #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 17:09:48: #1 tags after filtering in treatment: 3518740 INFO @ Sat, 11 Dec 2021 17:09:48: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 17:09:48: #1 finished! INFO @ Sat, 11 Dec 2021 17:09:48: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 17:09:48: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 17:09:48: #2 number of paired peaks: 2295 INFO @ Sat, 11 Dec 2021 17:09:48: start model_add_line... INFO @ Sat, 11 Dec 2021 17:09:49: start X-correlation... INFO @ Sat, 11 Dec 2021 17:09:49: end of X-cor INFO @ Sat, 11 Dec 2021 17:09:49: #2 finished! INFO @ Sat, 11 Dec 2021 17:09:49: #2 predicted fragment length is 202 bps INFO @ Sat, 11 Dec 2021 17:09:49: #2 alternative fragment length(s) may be 202 bps INFO @ Sat, 11 Dec 2021 17:09:49: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7434127/SRX7434127.20_model.r INFO @ Sat, 11 Dec 2021 17:09:49: #3 Call peaks... INFO @ Sat, 11 Dec 2021 17:09:49: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 17:09:57: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 17:10:01: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7434127/SRX7434127.20_peaks.xls INFO @ Sat, 11 Dec 2021 17:10:01: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7434127/SRX7434127.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 17:10:01: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7434127/SRX7434127.20_summits.bed INFO @ Sat, 11 Dec 2021 17:10:01: Done! pass1 - making usageList (168 chroms): 1 millis pass2 - checking and writing primary data (943 records, 4 fields): 7 millis CompletedMACS2peakCalling