Job ID = 14172430 SRX = SRX9427705 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: 00:05:05 15421941 reads; of these: 15421941 (100.00%) were unpaired; of these: 518211 (3.36%) aligned 0 times 4571847 (29.65%) aligned exactly 1 time 10331883 (66.99%) aligned >1 times 96.64% overall alignment rate Time searching: 00:05:05 Overall time: 00:05:05 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] 4508769 / 14903730 = 0.3025 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 15:31:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX9427705/SRX9427705.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX9427705/SRX9427705.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX9427705/SRX9427705.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX9427705/SRX9427705.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 15:31:48: #1 read tag files... INFO @ Sat, 11 Dec 2021 15:31:48: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 15:31:54: 1000000 INFO @ Sat, 11 Dec 2021 15:31:59: 2000000 INFO @ Sat, 11 Dec 2021 15:32:04: 3000000 INFO @ Sat, 11 Dec 2021 15:32:09: 4000000 INFO @ Sat, 11 Dec 2021 15:32:14: 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 15:32:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX9427705/SRX9427705.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX9427705/SRX9427705.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX9427705/SRX9427705.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX9427705/SRX9427705.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 15:32:18: #1 read tag files... INFO @ Sat, 11 Dec 2021 15:32:18: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 15:32:19: 6000000 INFO @ Sat, 11 Dec 2021 15:32:23: 1000000 INFO @ Sat, 11 Dec 2021 15:32:24: 7000000 INFO @ Sat, 11 Dec 2021 15:32:29: 2000000 INFO @ Sat, 11 Dec 2021 15:32:29: 8000000 INFO @ Sat, 11 Dec 2021 15:32:35: 3000000 INFO @ Sat, 11 Dec 2021 15:32:35: 9000000 INFO @ Sat, 11 Dec 2021 15:32:40: 4000000 INFO @ Sat, 11 Dec 2021 15:32:41: 10000000 INFO @ Sat, 11 Dec 2021 15:32:43: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 15:32:43: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 15:32:43: #1 total tags in treatment: 10394961 INFO @ Sat, 11 Dec 2021 15:32:43: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 15:32:43: #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 15:32:44: #1 tags after filtering in treatment: 10394961 INFO @ Sat, 11 Dec 2021 15:32:44: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 15:32:44: #1 finished! INFO @ Sat, 11 Dec 2021 15:32:44: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 15:32:44: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 15:32:45: #2 number of paired peaks: 6446 INFO @ Sat, 11 Dec 2021 15:32:45: start model_add_line... INFO @ Sat, 11 Dec 2021 15:32:45: start X-correlation... INFO @ Sat, 11 Dec 2021 15:32:45: end of X-cor INFO @ Sat, 11 Dec 2021 15:32:45: #2 finished! INFO @ Sat, 11 Dec 2021 15:32:45: #2 predicted fragment length is 149 bps INFO @ Sat, 11 Dec 2021 15:32:45: #2 alternative fragment length(s) may be 3,149 bps INFO @ Sat, 11 Dec 2021 15:32:45: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX9427705/SRX9427705.05_model.r INFO @ Sat, 11 Dec 2021 15:32:45: #3 Call peaks... INFO @ Sat, 11 Dec 2021 15:32:45: #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 15:32:46: 5000000 INFO @ Sat, 11 Dec 2021 15:32:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX9427705/SRX9427705.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX9427705/SRX9427705.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX9427705/SRX9427705.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX9427705/SRX9427705.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 15:32:48: #1 read tag files... INFO @ Sat, 11 Dec 2021 15:32:48: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 15:32:52: 6000000 INFO @ Sat, 11 Dec 2021 15:32:53: 1000000 INFO @ Sat, 11 Dec 2021 15:32:57: 7000000 INFO @ Sat, 11 Dec 2021 15:32:58: 2000000 INFO @ Sat, 11 Dec 2021 15:33:03: 3000000 INFO @ Sat, 11 Dec 2021 15:33:04: 8000000 INFO @ Sat, 11 Dec 2021 15:33:07: 4000000 INFO @ Sat, 11 Dec 2021 15:33:09: 9000000 INFO @ Sat, 11 Dec 2021 15:33:12: 5000000 INFO @ Sat, 11 Dec 2021 15:33:13: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 15:33:15: 10000000 INFO @ Sat, 11 Dec 2021 15:33:17: 6000000 INFO @ Sat, 11 Dec 2021 15:33:17: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 15:33:17: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 15:33:17: #1 total tags in treatment: 10394961 INFO @ Sat, 11 Dec 2021 15:33:17: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 15:33:17: #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 15:33:18: #1 tags after filtering in treatment: 10394961 INFO @ Sat, 11 Dec 2021 15:33:18: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 15:33:18: #1 finished! INFO @ Sat, 11 Dec 2021 15:33:18: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 15:33:18: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 15:33:19: #2 number of paired peaks: 6446 INFO @ Sat, 11 Dec 2021 15:33:19: start model_add_line... INFO @ Sat, 11 Dec 2021 15:33:19: start X-correlation... INFO @ Sat, 11 Dec 2021 15:33:19: end of X-cor INFO @ Sat, 11 Dec 2021 15:33:19: #2 finished! INFO @ Sat, 11 Dec 2021 15:33:19: #2 predicted fragment length is 149 bps INFO @ Sat, 11 Dec 2021 15:33:19: #2 alternative fragment length(s) may be 3,149 bps INFO @ Sat, 11 Dec 2021 15:33:19: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX9427705/SRX9427705.10_model.r INFO @ Sat, 11 Dec 2021 15:33:19: #3 Call peaks... INFO @ Sat, 11 Dec 2021 15:33:19: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 15:33:22: 7000000 INFO @ Sat, 11 Dec 2021 15:33:25: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX9427705/SRX9427705.05_peaks.xls INFO @ Sat, 11 Dec 2021 15:33:25: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX9427705/SRX9427705.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 15:33:25: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX9427705/SRX9427705.05_summits.bed INFO @ Sat, 11 Dec 2021 15:33:25: Done! pass1 - making usageList (1133 chroms): 2 millis pass2 - checking and writing primary data (5549 records, 4 fields): 376 millis CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 15:33:27: 8000000 INFO @ Sat, 11 Dec 2021 15:33:32: 9000000 INFO @ Sat, 11 Dec 2021 15:33:37: 10000000 INFO @ Sat, 11 Dec 2021 15:33:39: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 15:33:39: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 15:33:39: #1 total tags in treatment: 10394961 INFO @ Sat, 11 Dec 2021 15:33:39: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 15:33:39: #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 15:33:39: #1 tags after filtering in treatment: 10394961 INFO @ Sat, 11 Dec 2021 15:33:39: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 15:33:39: #1 finished! INFO @ Sat, 11 Dec 2021 15:33:39: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 15:33:39: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 15:33:40: #2 number of paired peaks: 6446 INFO @ Sat, 11 Dec 2021 15:33:40: start model_add_line... INFO @ Sat, 11 Dec 2021 15:33:40: start X-correlation... INFO @ Sat, 11 Dec 2021 15:33:40: end of X-cor INFO @ Sat, 11 Dec 2021 15:33:40: #2 finished! INFO @ Sat, 11 Dec 2021 15:33:40: #2 predicted fragment length is 149 bps INFO @ Sat, 11 Dec 2021 15:33:40: #2 alternative fragment length(s) may be 3,149 bps INFO @ Sat, 11 Dec 2021 15:33:40: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX9427705/SRX9427705.20_model.r INFO @ Sat, 11 Dec 2021 15:33:40: #3 Call peaks... INFO @ Sat, 11 Dec 2021 15:33:40: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 15:33:45: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 15:33:57: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX9427705/SRX9427705.10_peaks.xls INFO @ Sat, 11 Dec 2021 15:33:57: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX9427705/SRX9427705.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 15:33:57: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX9427705/SRX9427705.10_summits.bed INFO @ Sat, 11 Dec 2021 15:33:57: Done! pass1 - making usageList (875 chroms): 2 millis pass2 - checking and writing primary data (2700 records, 4 fields): 27 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 15:34:05: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 15:34:16: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX9427705/SRX9427705.20_peaks.xls INFO @ Sat, 11 Dec 2021 15:34:16: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX9427705/SRX9427705.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 15:34:16: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX9427705/SRX9427705.20_summits.bed INFO @ Sat, 11 Dec 2021 15:34:16: Done! pass1 - making usageList (604 chroms): 1 millis pass2 - checking and writing primary data (1211 records, 4 fields): 17 millis CompletedMACS2peakCalling