Job ID = 14171773 SRX = SRX9986147 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: 00:03:22 11685877 reads; of these: 11685877 (100.00%) were unpaired; of these: 1144142 (9.79%) aligned 0 times 8251853 (70.61%) aligned exactly 1 time 2289882 (19.60%) aligned >1 times 90.21% overall alignment rate Time searching: 00:03:22 Overall time: 00:03:23 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] 2325346 / 10541735 = 0.2206 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 12:51:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX9986147/SRX9986147.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX9986147/SRX9986147.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX9986147/SRX9986147.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX9986147/SRX9986147.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 12:51:37: #1 read tag files... INFO @ Sat, 11 Dec 2021 12:51:37: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 12:51:42: 1000000 INFO @ Sat, 11 Dec 2021 12:51:47: 2000000 INFO @ Sat, 11 Dec 2021 12:51:52: 3000000 INFO @ Sat, 11 Dec 2021 12:51:57: 4000000 INFO @ Sat, 11 Dec 2021 12:52:03: 5000000 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 12:52:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX9986147/SRX9986147.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX9986147/SRX9986147.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX9986147/SRX9986147.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX9986147/SRX9986147.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 12:52:07: #1 read tag files... INFO @ Sat, 11 Dec 2021 12:52:07: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 12:52:08: 6000000 INFO @ Sat, 11 Dec 2021 12:52:12: 1000000 INFO @ Sat, 11 Dec 2021 12:52:14: 7000000 INFO @ Sat, 11 Dec 2021 12:52:18: 2000000 INFO @ Sat, 11 Dec 2021 12:52:19: 8000000 INFO @ Sat, 11 Dec 2021 12:52:21: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 12:52:21: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 12:52:21: #1 total tags in treatment: 8216389 INFO @ Sat, 11 Dec 2021 12:52:21: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 12:52:21: #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 12:52:21: #1 tags after filtering in treatment: 8216258 INFO @ Sat, 11 Dec 2021 12:52:21: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 12:52:21: #1 finished! INFO @ Sat, 11 Dec 2021 12:52:21: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 12:52:21: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 12:52:22: #2 number of paired peaks: 1964 INFO @ Sat, 11 Dec 2021 12:52:22: start model_add_line... INFO @ Sat, 11 Dec 2021 12:52:22: start X-correlation... INFO @ Sat, 11 Dec 2021 12:52:22: end of X-cor INFO @ Sat, 11 Dec 2021 12:52:22: #2 finished! INFO @ Sat, 11 Dec 2021 12:52:22: #2 predicted fragment length is 141 bps INFO @ Sat, 11 Dec 2021 12:52:22: #2 alternative fragment length(s) may be 21,37,96,141,290,471 bps INFO @ Sat, 11 Dec 2021 12:52:22: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX9986147/SRX9986147.05_model.r INFO @ Sat, 11 Dec 2021 12:52:22: #3 Call peaks... INFO @ Sat, 11 Dec 2021 12:52:22: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 12:52:23: 3000000 INFO @ Sat, 11 Dec 2021 12:52:29: 4000000 INFO @ Sat, 11 Dec 2021 12:52:34: 5000000 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 12:52:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX9986147/SRX9986147.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX9986147/SRX9986147.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX9986147/SRX9986147.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX9986147/SRX9986147.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 12:52:37: #1 read tag files... INFO @ Sat, 11 Dec 2021 12:52:37: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 12:52:39: 6000000 INFO @ Sat, 11 Dec 2021 12:52:40: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 12:52:42: 1000000 INFO @ Sat, 11 Dec 2021 12:52:45: 7000000 INFO @ Sat, 11 Dec 2021 12:52:48: 2000000 INFO @ Sat, 11 Dec 2021 12:52:49: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX9986147/SRX9986147.05_peaks.xls INFO @ Sat, 11 Dec 2021 12:52:49: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX9986147/SRX9986147.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 12:52:49: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX9986147/SRX9986147.05_summits.bed INFO @ Sat, 11 Dec 2021 12:52:49: Done! pass1 - making usageList (125 chroms): 1 millis pass2 - checking and writing primary data (608 records, 4 fields): 5 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 12:52:50: 8000000 INFO @ Sat, 11 Dec 2021 12:52:52: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 12:52:52: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 12:52:52: #1 total tags in treatment: 8216389 INFO @ Sat, 11 Dec 2021 12:52:52: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 12:52:52: #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 12:52:52: #1 tags after filtering in treatment: 8216258 INFO @ Sat, 11 Dec 2021 12:52:52: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 12:52:52: #1 finished! INFO @ Sat, 11 Dec 2021 12:52:52: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 12:52:52: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 12:52:53: #2 number of paired peaks: 1964 INFO @ Sat, 11 Dec 2021 12:52:53: start model_add_line... INFO @ Sat, 11 Dec 2021 12:52:53: start X-correlation... INFO @ Sat, 11 Dec 2021 12:52:53: end of X-cor INFO @ Sat, 11 Dec 2021 12:52:53: #2 finished! INFO @ Sat, 11 Dec 2021 12:52:53: #2 predicted fragment length is 141 bps INFO @ Sat, 11 Dec 2021 12:52:53: #2 alternative fragment length(s) may be 21,37,96,141,290,471 bps INFO @ Sat, 11 Dec 2021 12:52:53: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX9986147/SRX9986147.10_model.r INFO @ Sat, 11 Dec 2021 12:52:53: #3 Call peaks... INFO @ Sat, 11 Dec 2021 12:52:53: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 12:52:53: 3000000 INFO @ Sat, 11 Dec 2021 12:52:58: 4000000 INFO @ Sat, 11 Dec 2021 12:53:03: 5000000 INFO @ Sat, 11 Dec 2021 12:53:09: 6000000 INFO @ Sat, 11 Dec 2021 12:53:10: #3 Call peaks for each chromosome... BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 12:53:14: 7000000 INFO @ Sat, 11 Dec 2021 12:53:18: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX9986147/SRX9986147.10_peaks.xls INFO @ Sat, 11 Dec 2021 12:53:18: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX9986147/SRX9986147.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 12:53:18: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX9986147/SRX9986147.10_summits.bed INFO @ Sat, 11 Dec 2021 12:53:18: Done! pass1 - making usageList (74 chroms): 1 millis pass2 - checking and writing primary data (187 records, 4 fields): 4 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 12:53:19: 8000000 INFO @ Sat, 11 Dec 2021 12:53:20: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 12:53:20: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 12:53:20: #1 total tags in treatment: 8216389 INFO @ Sat, 11 Dec 2021 12:53:20: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 12:53:20: #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 12:53:20: #1 tags after filtering in treatment: 8216258 INFO @ Sat, 11 Dec 2021 12:53:20: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 12:53:20: #1 finished! INFO @ Sat, 11 Dec 2021 12:53:20: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 12:53:20: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 12:53:21: #2 number of paired peaks: 1964 INFO @ Sat, 11 Dec 2021 12:53:21: start model_add_line... INFO @ Sat, 11 Dec 2021 12:53:21: start X-correlation... INFO @ Sat, 11 Dec 2021 12:53:21: end of X-cor INFO @ Sat, 11 Dec 2021 12:53:21: #2 finished! INFO @ Sat, 11 Dec 2021 12:53:21: #2 predicted fragment length is 141 bps INFO @ Sat, 11 Dec 2021 12:53:21: #2 alternative fragment length(s) may be 21,37,96,141,290,471 bps INFO @ Sat, 11 Dec 2021 12:53:21: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX9986147/SRX9986147.20_model.r INFO @ Sat, 11 Dec 2021 12:53:21: #3 Call peaks... INFO @ Sat, 11 Dec 2021 12:53:21: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 12:53:39: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 12:53:47: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX9986147/SRX9986147.20_peaks.xls INFO @ Sat, 11 Dec 2021 12:53:47: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX9986147/SRX9986147.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 12:53:47: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX9986147/SRX9986147.20_summits.bed INFO @ Sat, 11 Dec 2021 12:53:47: Done! pass1 - making usageList (39 chroms): 1 millis pass2 - checking and writing primary data (61 records, 4 fields): 2 millis CompletedMACS2peakCalling