Job ID = 14171724 SRX = SRX9986131 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: 00:03:00 15682129 reads; of these: 15682129 (100.00%) were unpaired; of these: 1596973 (10.18%) aligned 0 times 12074665 (77.00%) aligned exactly 1 time 2010491 (12.82%) aligned >1 times 89.82% overall alignment rate Time searching: 00:03:00 Overall time: 00:03:00 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] 4291229 / 14085156 = 0.3047 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 12:42:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX9986131/SRX9986131.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX9986131/SRX9986131.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX9986131/SRX9986131.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX9986131/SRX9986131.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 12:42:44: #1 read tag files... INFO @ Sat, 11 Dec 2021 12:42:44: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 12:42:49: 1000000 INFO @ Sat, 11 Dec 2021 12:42:54: 2000000 INFO @ Sat, 11 Dec 2021 12:42:59: 3000000 INFO @ Sat, 11 Dec 2021 12:43:03: 4000000 INFO @ Sat, 11 Dec 2021 12:43:08: 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 12:43:13: 6000000 INFO @ Sat, 11 Dec 2021 12:43:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX9986131/SRX9986131.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX9986131/SRX9986131.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX9986131/SRX9986131.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX9986131/SRX9986131.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 12:43:14: #1 read tag files... INFO @ Sat, 11 Dec 2021 12:43:14: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 12:43:18: 7000000 INFO @ Sat, 11 Dec 2021 12:43:19: 1000000 INFO @ Sat, 11 Dec 2021 12:43:24: 8000000 INFO @ Sat, 11 Dec 2021 12:43:25: 2000000 INFO @ Sat, 11 Dec 2021 12:43:29: 9000000 INFO @ Sat, 11 Dec 2021 12:43:30: 3000000 INFO @ Sat, 11 Dec 2021 12:43:33: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 12:43:33: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 12:43:33: #1 total tags in treatment: 9793927 INFO @ Sat, 11 Dec 2021 12:43:33: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 12:43:33: #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 12:43:34: #1 tags after filtering in treatment: 9793755 INFO @ Sat, 11 Dec 2021 12:43:34: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 12:43:34: #1 finished! INFO @ Sat, 11 Dec 2021 12:43:34: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 12:43:34: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 12:43:35: #2 number of paired peaks: 1055 INFO @ Sat, 11 Dec 2021 12:43:35: start model_add_line... INFO @ Sat, 11 Dec 2021 12:43:35: start X-correlation... INFO @ Sat, 11 Dec 2021 12:43:35: end of X-cor INFO @ Sat, 11 Dec 2021 12:43:35: #2 finished! INFO @ Sat, 11 Dec 2021 12:43:35: #2 predicted fragment length is 220 bps INFO @ Sat, 11 Dec 2021 12:43:35: #2 alternative fragment length(s) may be 4,220 bps INFO @ Sat, 11 Dec 2021 12:43:35: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX9986131/SRX9986131.05_model.r INFO @ Sat, 11 Dec 2021 12:43:35: #3 Call peaks... INFO @ Sat, 11 Dec 2021 12:43:35: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 12:43:35: 4000000 INFO @ Sat, 11 Dec 2021 12:43:40: 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 12:43:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX9986131/SRX9986131.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX9986131/SRX9986131.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX9986131/SRX9986131.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX9986131/SRX9986131.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 12:43:44: #1 read tag files... INFO @ Sat, 11 Dec 2021 12:43:44: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 12:43:45: 6000000 INFO @ Sat, 11 Dec 2021 12:43:49: 1000000 INFO @ Sat, 11 Dec 2021 12:43:50: 7000000 INFO @ Sat, 11 Dec 2021 12:43:55: 2000000 INFO @ Sat, 11 Dec 2021 12:43:56: 8000000 INFO @ Sat, 11 Dec 2021 12:43:56: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 12:44:00: 3000000 INFO @ Sat, 11 Dec 2021 12:44:01: 9000000 INFO @ Sat, 11 Dec 2021 12:44:05: 4000000 INFO @ Sat, 11 Dec 2021 12:44:05: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 12:44:05: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 12:44:05: #1 total tags in treatment: 9793927 INFO @ Sat, 11 Dec 2021 12:44:05: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 12:44:05: #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 12:44:06: #1 tags after filtering in treatment: 9793755 INFO @ Sat, 11 Dec 2021 12:44:06: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 12:44:06: #1 finished! INFO @ Sat, 11 Dec 2021 12:44:06: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 12:44:06: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 12:44:07: #2 number of paired peaks: 1055 INFO @ Sat, 11 Dec 2021 12:44:07: start model_add_line... INFO @ Sat, 11 Dec 2021 12:44:07: start X-correlation... INFO @ Sat, 11 Dec 2021 12:44:07: end of X-cor INFO @ Sat, 11 Dec 2021 12:44:07: #2 finished! INFO @ Sat, 11 Dec 2021 12:44:07: #2 predicted fragment length is 220 bps INFO @ Sat, 11 Dec 2021 12:44:07: #2 alternative fragment length(s) may be 4,220 bps INFO @ Sat, 11 Dec 2021 12:44:07: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX9986131/SRX9986131.10_model.r INFO @ Sat, 11 Dec 2021 12:44:07: #3 Call peaks... INFO @ Sat, 11 Dec 2021 12:44:07: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 12:44:07: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX9986131/SRX9986131.05_peaks.xls INFO @ Sat, 11 Dec 2021 12:44:07: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX9986131/SRX9986131.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 12:44:07: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX9986131/SRX9986131.05_summits.bed INFO @ Sat, 11 Dec 2021 12:44:07: Done! pass1 - making usageList (79 chroms): 1 millis pass2 - checking and writing primary data (5606 records, 4 fields): 8 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 12:44:10: 5000000 INFO @ Sat, 11 Dec 2021 12:44:15: 6000000 INFO @ Sat, 11 Dec 2021 12:44:20: 7000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 12:44:25: 8000000 INFO @ Sat, 11 Dec 2021 12:44:28: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 12:44:30: 9000000 INFO @ Sat, 11 Dec 2021 12:44:34: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 12:44:34: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 12:44:34: #1 total tags in treatment: 9793927 INFO @ Sat, 11 Dec 2021 12:44:34: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 12:44:34: #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 12:44:35: #1 tags after filtering in treatment: 9793755 INFO @ Sat, 11 Dec 2021 12:44:35: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 12:44:35: #1 finished! INFO @ Sat, 11 Dec 2021 12:44:35: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 12:44:35: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 12:44:35: #2 number of paired peaks: 1055 INFO @ Sat, 11 Dec 2021 12:44:35: start model_add_line... INFO @ Sat, 11 Dec 2021 12:44:35: start X-correlation... INFO @ Sat, 11 Dec 2021 12:44:35: end of X-cor INFO @ Sat, 11 Dec 2021 12:44:35: #2 finished! INFO @ Sat, 11 Dec 2021 12:44:35: #2 predicted fragment length is 220 bps INFO @ Sat, 11 Dec 2021 12:44:35: #2 alternative fragment length(s) may be 4,220 bps INFO @ Sat, 11 Dec 2021 12:44:35: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX9986131/SRX9986131.20_model.r INFO @ Sat, 11 Dec 2021 12:44:35: #3 Call peaks... INFO @ Sat, 11 Dec 2021 12:44:35: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 12:44:39: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX9986131/SRX9986131.10_peaks.xls INFO @ Sat, 11 Dec 2021 12:44:39: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX9986131/SRX9986131.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 12:44:39: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX9986131/SRX9986131.10_summits.bed INFO @ Sat, 11 Dec 2021 12:44:39: Done! pass1 - making usageList (52 chroms): 1 millis pass2 - checking and writing primary data (1898 records, 4 fields): 4 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 12:44:57: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 12:45:07: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX9986131/SRX9986131.20_peaks.xls INFO @ Sat, 11 Dec 2021 12:45:07: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX9986131/SRX9986131.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 12:45:07: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX9986131/SRX9986131.20_summits.bed INFO @ Sat, 11 Dec 2021 12:45:07: Done! pass1 - making usageList (32 chroms): 1 millis pass2 - checking and writing primary data (386 records, 4 fields): 2 millis CompletedMACS2peakCalling