Job ID = 14172782 SRX = SRX3293003 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: 00:07:22 20146663 reads; of these: 20146663 (100.00%) were unpaired; of these: 837007 (4.15%) aligned 0 times 17954910 (89.12%) aligned exactly 1 time 1354746 (6.72%) aligned >1 times 95.85% overall alignment rate Time searching: 00:07:22 Overall time: 00:07:22 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] 8666164 / 19309656 = 0.4488 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 17:07:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3293003/SRX3293003.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3293003/SRX3293003.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3293003/SRX3293003.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3293003/SRX3293003.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 17:07:10: #1 read tag files... INFO @ Sat, 11 Dec 2021 17:07:10: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 17:07:16: 1000000 INFO @ Sat, 11 Dec 2021 17:07:22: 2000000 INFO @ Sat, 11 Dec 2021 17:07:27: 3000000 INFO @ Sat, 11 Dec 2021 17:07:33: 4000000 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 17:07:38: 5000000 INFO @ Sat, 11 Dec 2021 17:07:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3293003/SRX3293003.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3293003/SRX3293003.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3293003/SRX3293003.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3293003/SRX3293003.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 17:07:40: #1 read tag files... INFO @ Sat, 11 Dec 2021 17:07:40: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 17:07:44: 6000000 INFO @ Sat, 11 Dec 2021 17:07:48: 1000000 INFO @ Sat, 11 Dec 2021 17:07:50: 7000000 INFO @ Sat, 11 Dec 2021 17:07:55: 2000000 INFO @ Sat, 11 Dec 2021 17:07:56: 8000000 INFO @ Sat, 11 Dec 2021 17:08:02: 3000000 INFO @ Sat, 11 Dec 2021 17:08:03: 9000000 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 17:08:09: 10000000 INFO @ Sat, 11 Dec 2021 17:08:10: 4000000 INFO @ Sat, 11 Dec 2021 17:08:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3293003/SRX3293003.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3293003/SRX3293003.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3293003/SRX3293003.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3293003/SRX3293003.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 17:08:10: #1 read tag files... INFO @ Sat, 11 Dec 2021 17:08:10: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 17:08:13: #1 tag size is determined as 101 bps INFO @ Sat, 11 Dec 2021 17:08:13: #1 tag size = 101 INFO @ Sat, 11 Dec 2021 17:08:13: #1 total tags in treatment: 10643492 INFO @ Sat, 11 Dec 2021 17:08:13: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 17:08:13: #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 17:08:13: #1 tags after filtering in treatment: 10643070 INFO @ Sat, 11 Dec 2021 17:08:13: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 17:08:13: #1 finished! INFO @ Sat, 11 Dec 2021 17:08:13: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 17:08:13: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 17:08:15: #2 number of paired peaks: 10012 INFO @ Sat, 11 Dec 2021 17:08:15: start model_add_line... INFO @ Sat, 11 Dec 2021 17:08:15: start X-correlation... INFO @ Sat, 11 Dec 2021 17:08:15: end of X-cor INFO @ Sat, 11 Dec 2021 17:08:15: #2 finished! INFO @ Sat, 11 Dec 2021 17:08:15: #2 predicted fragment length is 296 bps INFO @ Sat, 11 Dec 2021 17:08:15: #2 alternative fragment length(s) may be 296 bps INFO @ Sat, 11 Dec 2021 17:08:15: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3293003/SRX3293003.05_model.r INFO @ Sat, 11 Dec 2021 17:08:15: #3 Call peaks... INFO @ Sat, 11 Dec 2021 17:08:15: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 17:08:16: 1000000 INFO @ Sat, 11 Dec 2021 17:08:17: 5000000 INFO @ Sat, 11 Dec 2021 17:08:22: 2000000 INFO @ Sat, 11 Dec 2021 17:08:25: 6000000 INFO @ Sat, 11 Dec 2021 17:08:28: 3000000 INFO @ Sat, 11 Dec 2021 17:08:32: 7000000 INFO @ Sat, 11 Dec 2021 17:08:34: 4000000 INFO @ Sat, 11 Dec 2021 17:08:39: 8000000 INFO @ Sat, 11 Dec 2021 17:08:40: 5000000 INFO @ Sat, 11 Dec 2021 17:08:46: 6000000 INFO @ Sat, 11 Dec 2021 17:08:47: 9000000 INFO @ Sat, 11 Dec 2021 17:08:52: 7000000 INFO @ Sat, 11 Dec 2021 17:08:54: 10000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 17:08:58: 8000000 INFO @ Sat, 11 Dec 2021 17:08:59: #1 tag size is determined as 101 bps INFO @ Sat, 11 Dec 2021 17:08:59: #1 tag size = 101 INFO @ Sat, 11 Dec 2021 17:08:59: #1 total tags in treatment: 10643492 INFO @ Sat, 11 Dec 2021 17:08:59: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 17:08:59: #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 17:08:59: #1 tags after filtering in treatment: 10643070 INFO @ Sat, 11 Dec 2021 17:08:59: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 17:08:59: #1 finished! INFO @ Sat, 11 Dec 2021 17:08:59: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 17:08:59: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 17:09:01: #2 number of paired peaks: 10012 INFO @ Sat, 11 Dec 2021 17:09:01: start model_add_line... INFO @ Sat, 11 Dec 2021 17:09:01: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 17:09:01: start X-correlation... INFO @ Sat, 11 Dec 2021 17:09:01: end of X-cor INFO @ Sat, 11 Dec 2021 17:09:01: #2 finished! INFO @ Sat, 11 Dec 2021 17:09:01: #2 predicted fragment length is 296 bps INFO @ Sat, 11 Dec 2021 17:09:01: #2 alternative fragment length(s) may be 296 bps INFO @ Sat, 11 Dec 2021 17:09:01: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3293003/SRX3293003.10_model.r INFO @ Sat, 11 Dec 2021 17:09:01: #3 Call peaks... INFO @ Sat, 11 Dec 2021 17:09:01: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 17:09:04: 9000000 INFO @ Sat, 11 Dec 2021 17:09:10: 10000000 INFO @ Sat, 11 Dec 2021 17:09:14: #1 tag size is determined as 101 bps INFO @ Sat, 11 Dec 2021 17:09:14: #1 tag size = 101 INFO @ Sat, 11 Dec 2021 17:09:14: #1 total tags in treatment: 10643492 INFO @ Sat, 11 Dec 2021 17:09:14: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 17:09:14: #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 17:09:14: #1 tags after filtering in treatment: 10643070 INFO @ Sat, 11 Dec 2021 17:09:14: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 17:09:14: #1 finished! INFO @ Sat, 11 Dec 2021 17:09:14: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 17:09:14: #2 looking for paired plus/minus strand peaks... BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 17:09:15: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3293003/SRX3293003.05_peaks.xls INFO @ Sat, 11 Dec 2021 17:09:15: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3293003/SRX3293003.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 17:09:15: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3293003/SRX3293003.05_summits.bed INFO @ Sat, 11 Dec 2021 17:09:15: Done! pass1 - making usageList (55 chroms): 1 millis pass2 - checking and writing primary data (9120 records, 4 fields): 12 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 17:09:16: #2 number of paired peaks: 10012 INFO @ Sat, 11 Dec 2021 17:09:16: start model_add_line... INFO @ Sat, 11 Dec 2021 17:09:16: start X-correlation... INFO @ Sat, 11 Dec 2021 17:09:16: end of X-cor INFO @ Sat, 11 Dec 2021 17:09:16: #2 finished! INFO @ Sat, 11 Dec 2021 17:09:16: #2 predicted fragment length is 296 bps INFO @ Sat, 11 Dec 2021 17:09:16: #2 alternative fragment length(s) may be 296 bps INFO @ Sat, 11 Dec 2021 17:09:16: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3293003/SRX3293003.20_model.r INFO @ Sat, 11 Dec 2021 17:09:16: #3 Call peaks... INFO @ Sat, 11 Dec 2021 17:09:16: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 17:09:46: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 17:10:01: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3293003/SRX3293003.10_peaks.xls INFO @ Sat, 11 Dec 2021 17:10:01: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3293003/SRX3293003.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 17:10:01: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3293003/SRX3293003.10_summits.bed INFO @ Sat, 11 Dec 2021 17:10:01: Done! pass1 - making usageList (40 chroms): 1 millis pass2 - checking and writing primary data (7581 records, 4 fields): 10 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 17:10:02: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 17:10:16: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3293003/SRX3293003.20_peaks.xls INFO @ Sat, 11 Dec 2021 17:10:16: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3293003/SRX3293003.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 17:10:16: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3293003/SRX3293003.20_summits.bed INFO @ Sat, 11 Dec 2021 17:10:16: Done! pass1 - making usageList (28 chroms): 1 millis pass2 - checking and writing primary data (6098 records, 4 fields): 9 millis CompletedMACS2peakCalling