Job ID = 10165910 SRX = SRX8832078 Genome = ce11 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: 00:03:59 20915804 reads; of these: 20915804 (100.00%) were unpaired; of these: 9771670 (46.72%) aligned 0 times 6211185 (29.70%) aligned exactly 1 time 4932949 (23.58%) aligned >1 times 53.28% overall alignment rate Time searching: 00:03:59 Overall time: 00:03:59 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 7 sequences. [bam_sort_core] merging from 8 files... [bam_rmdupse_core] 3841252 / 11144134 = 0.3447 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/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Thu, 08 Oct 2020 20:15:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8832078/SRX8832078.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8832078/SRX8832078.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8832078/SRX8832078.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8832078/SRX8832078.bam'] # control file = None # effective genome size = 9.00e+07 # 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 @ Thu, 08 Oct 2020 20:15:37: #1 read tag files... INFO @ Thu, 08 Oct 2020 20:15:37: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 20:15:43: 1000000 INFO @ Thu, 08 Oct 2020 20:15:50: 2000000 INFO @ Thu, 08 Oct 2020 20:15:56: 3000000 INFO @ Thu, 08 Oct 2020 20:16:02: 4000000 WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Thu, 08 Oct 2020 20:16:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8832078/SRX8832078.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8832078/SRX8832078.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8832078/SRX8832078.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8832078/SRX8832078.bam'] # control file = None # effective genome size = 9.00e+07 # 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 @ Thu, 08 Oct 2020 20:16:08: #1 read tag files... INFO @ Thu, 08 Oct 2020 20:16:08: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 20:16:09: 5000000 INFO @ Thu, 08 Oct 2020 20:16:15: 1000000 INFO @ Thu, 08 Oct 2020 20:16:16: 6000000 INFO @ Thu, 08 Oct 2020 20:16:22: 2000000 INFO @ Thu, 08 Oct 2020 20:16:22: 7000000 INFO @ Thu, 08 Oct 2020 20:16:25: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 20:16:25: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 20:16:25: #1 total tags in treatment: 7302882 INFO @ Thu, 08 Oct 2020 20:16:25: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 20:16:25: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 08 Oct 2020 20:16:25: #1 tags after filtering in treatment: 7302882 INFO @ Thu, 08 Oct 2020 20:16:25: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 20:16:25: #1 finished! INFO @ Thu, 08 Oct 2020 20:16:25: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 20:16:25: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 20:16:25: #2 number of paired peaks: 4640 INFO @ Thu, 08 Oct 2020 20:16:25: start model_add_line... INFO @ Thu, 08 Oct 2020 20:16:26: start X-correlation... INFO @ Thu, 08 Oct 2020 20:16:26: end of X-cor INFO @ Thu, 08 Oct 2020 20:16:26: #2 finished! INFO @ Thu, 08 Oct 2020 20:16:26: #2 predicted fragment length is 141 bps INFO @ Thu, 08 Oct 2020 20:16:26: #2 alternative fragment length(s) may be 141 bps INFO @ Thu, 08 Oct 2020 20:16:26: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8832078/SRX8832078.05_model.r INFO @ Thu, 08 Oct 2020 20:16:26: #3 Call peaks... INFO @ Thu, 08 Oct 2020 20:16:26: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 20:16:29: 3000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Thu, 08 Oct 2020 20:16:35: 4000000 INFO @ Thu, 08 Oct 2020 20:16:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8832078/SRX8832078.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8832078/SRX8832078.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8832078/SRX8832078.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8832078/SRX8832078.bam'] # control file = None # effective genome size = 9.00e+07 # 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 @ Thu, 08 Oct 2020 20:16:37: #1 read tag files... INFO @ Thu, 08 Oct 2020 20:16:37: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 20:16:42: 5000000 INFO @ Thu, 08 Oct 2020 20:16:43: 1000000 INFO @ Thu, 08 Oct 2020 20:16:47: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 20:16:49: 6000000 INFO @ Thu, 08 Oct 2020 20:16:50: 2000000 INFO @ Thu, 08 Oct 2020 20:16:56: 3000000 INFO @ Thu, 08 Oct 2020 20:16:56: 7000000 INFO @ Thu, 08 Oct 2020 20:16:58: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 20:16:58: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 20:16:58: #1 total tags in treatment: 7302882 INFO @ Thu, 08 Oct 2020 20:16:58: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 20:16:58: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 08 Oct 2020 20:16:58: #1 tags after filtering in treatment: 7302882 INFO @ Thu, 08 Oct 2020 20:16:58: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 20:16:58: #1 finished! INFO @ Thu, 08 Oct 2020 20:16:58: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 20:16:58: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 20:16:59: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8832078/SRX8832078.05_peaks.xls INFO @ Thu, 08 Oct 2020 20:16:59: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8832078/SRX8832078.05_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 20:16:59: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8832078/SRX8832078.05_summits.bed INFO @ Thu, 08 Oct 2020 20:16:59: Done! INFO @ Thu, 08 Oct 2020 20:16:59: #2 number of paired peaks: 4640 INFO @ Thu, 08 Oct 2020 20:16:59: start model_add_line... INFO @ Thu, 08 Oct 2020 20:16:59: start X-correlation... INFO @ Thu, 08 Oct 2020 20:16:59: end of X-cor INFO @ Thu, 08 Oct 2020 20:16:59: #2 finished! INFO @ Thu, 08 Oct 2020 20:16:59: #2 predicted fragment length is 141 bps INFO @ Thu, 08 Oct 2020 20:16:59: #2 alternative fragment length(s) may be 141 bps INFO @ Thu, 08 Oct 2020 20:16:59: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8832078/SRX8832078.10_model.r INFO @ Thu, 08 Oct 2020 20:16:59: #3 Call peaks... INFO @ Thu, 08 Oct 2020 20:16:59: #3 Pre-compute pvalue-qvalue table... pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (7505 records, 4 fields): 8 millis CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 20:17:02: 4000000 INFO @ Thu, 08 Oct 2020 20:17:08: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 08 Oct 2020 20:17:13: 6000000 INFO @ Thu, 08 Oct 2020 20:17:19: 7000000 INFO @ Thu, 08 Oct 2020 20:17:20: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 20:17:21: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 20:17:21: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 20:17:21: #1 total tags in treatment: 7302882 INFO @ Thu, 08 Oct 2020 20:17:21: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 20:17:21: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 08 Oct 2020 20:17:21: #1 tags after filtering in treatment: 7302882 INFO @ Thu, 08 Oct 2020 20:17:21: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 20:17:21: #1 finished! INFO @ Thu, 08 Oct 2020 20:17:21: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 20:17:21: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 20:17:22: #2 number of paired peaks: 4640 INFO @ Thu, 08 Oct 2020 20:17:22: start model_add_line... INFO @ Thu, 08 Oct 2020 20:17:22: start X-correlation... INFO @ Thu, 08 Oct 2020 20:17:22: end of X-cor INFO @ Thu, 08 Oct 2020 20:17:22: #2 finished! INFO @ Thu, 08 Oct 2020 20:17:22: #2 predicted fragment length is 141 bps INFO @ Thu, 08 Oct 2020 20:17:22: #2 alternative fragment length(s) may be 141 bps INFO @ Thu, 08 Oct 2020 20:17:22: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8832078/SRX8832078.20_model.r INFO @ Thu, 08 Oct 2020 20:17:22: #3 Call peaks... INFO @ Thu, 08 Oct 2020 20:17:22: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Thu, 08 Oct 2020 20:17:30: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8832078/SRX8832078.10_peaks.xls INFO @ Thu, 08 Oct 2020 20:17:30: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8832078/SRX8832078.10_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 20:17:30: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8832078/SRX8832078.10_summits.bed INFO @ Thu, 08 Oct 2020 20:17:30: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (5032 records, 4 fields): 5 millis CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 20:17:43: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 20:17:52: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8832078/SRX8832078.20_peaks.xls INFO @ Thu, 08 Oct 2020 20:17:52: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8832078/SRX8832078.20_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 20:17:52: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8832078/SRX8832078.20_summits.bed INFO @ Thu, 08 Oct 2020 20:17:52: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (2577 records, 4 fields): 14 millis CompletedMACS2peakCalling