Job ID = 10165947 SRX = SRX8832083 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: 00:03:04 14539728 reads; of these: 14539728 (100.00%) were unpaired; of these: 3951957 (27.18%) aligned 0 times 8897298 (61.19%) aligned exactly 1 time 1690473 (11.63%) aligned >1 times 72.82% overall alignment rate Time searching: 00:03:04 Overall time: 00:03:04 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] 5834548 / 10587771 = 0.5511 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 20:20:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8832083/SRX8832083.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8832083/SRX8832083.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8832083/SRX8832083.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8832083/SRX8832083.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 20:20:12: #1 read tag files... INFO @ Thu, 08 Oct 2020 20:20:12: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 20:20:18: 1000000 INFO @ Thu, 08 Oct 2020 20:20:24: 2000000 INFO @ Thu, 08 Oct 2020 20:20:31: 3000000 INFO @ Thu, 08 Oct 2020 20:20:37: 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 20:20:42: #1 tag size is determined as 49 bps INFO @ Thu, 08 Oct 2020 20:20:42: #1 tag size = 49 INFO @ Thu, 08 Oct 2020 20:20:42: #1 total tags in treatment: 4753223 INFO @ Thu, 08 Oct 2020 20:20:42: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 20:20:42: #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 20:20:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8832083/SRX8832083.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8832083/SRX8832083.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8832083/SRX8832083.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8832083/SRX8832083.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 20:20:42: #1 read tag files... INFO @ Thu, 08 Oct 2020 20:20:42: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 20:20:42: #1 tags after filtering in treatment: 4753223 INFO @ Thu, 08 Oct 2020 20:20:42: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 20:20:42: #1 finished! INFO @ Thu, 08 Oct 2020 20:20:42: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 20:20:42: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 20:20:42: #2 number of paired peaks: 2682 INFO @ Thu, 08 Oct 2020 20:20:42: start model_add_line... INFO @ Thu, 08 Oct 2020 20:20:42: start X-correlation... INFO @ Thu, 08 Oct 2020 20:20:42: end of X-cor INFO @ Thu, 08 Oct 2020 20:20:42: #2 finished! INFO @ Thu, 08 Oct 2020 20:20:42: #2 predicted fragment length is 130 bps INFO @ Thu, 08 Oct 2020 20:20:42: #2 alternative fragment length(s) may be 130 bps INFO @ Thu, 08 Oct 2020 20:20:42: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8832083/SRX8832083.05_model.r INFO @ Thu, 08 Oct 2020 20:20:42: #3 Call peaks... INFO @ Thu, 08 Oct 2020 20:20:42: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 20:20:47: 1000000 INFO @ Thu, 08 Oct 2020 20:20:53: 2000000 INFO @ Thu, 08 Oct 2020 20:20:53: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 20:20:58: 3000000 INFO @ Thu, 08 Oct 2020 20:20:59: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8832083/SRX8832083.05_peaks.xls INFO @ Thu, 08 Oct 2020 20:20:59: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8832083/SRX8832083.05_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 20:20:59: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8832083/SRX8832083.05_summits.bed INFO @ Thu, 08 Oct 2020 20:20:59: Done! pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (5704 records, 4 fields): 6 millis CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 20:21:04: 4000000 INFO @ Thu, 08 Oct 2020 20:21:08: #1 tag size is determined as 49 bps INFO @ Thu, 08 Oct 2020 20:21:08: #1 tag size = 49 INFO @ Thu, 08 Oct 2020 20:21:08: #1 total tags in treatment: 4753223 INFO @ Thu, 08 Oct 2020 20:21:08: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 20:21:08: #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 20:21:08: #1 tags after filtering in treatment: 4753223 INFO @ Thu, 08 Oct 2020 20:21:08: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 20:21:08: #1 finished! INFO @ Thu, 08 Oct 2020 20:21:08: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 20:21:08: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 20:21:08: #2 number of paired peaks: 2682 INFO @ Thu, 08 Oct 2020 20:21:08: start model_add_line... INFO @ Thu, 08 Oct 2020 20:21:08: start X-correlation... INFO @ Thu, 08 Oct 2020 20:21:08: end of X-cor INFO @ Thu, 08 Oct 2020 20:21:08: #2 finished! INFO @ Thu, 08 Oct 2020 20:21:08: #2 predicted fragment length is 130 bps INFO @ Thu, 08 Oct 2020 20:21:08: #2 alternative fragment length(s) may be 130 bps INFO @ Thu, 08 Oct 2020 20:21:08: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8832083/SRX8832083.10_model.r INFO @ Thu, 08 Oct 2020 20:21:08: #3 Call peaks... INFO @ Thu, 08 Oct 2020 20:21:08: #3 Pre-compute pvalue-qvalue table... 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 20:21:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8832083/SRX8832083.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8832083/SRX8832083.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8832083/SRX8832083.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8832083/SRX8832083.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 20:21:12: #1 read tag files... INFO @ Thu, 08 Oct 2020 20:21:12: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 20:21:18: 1000000 INFO @ Thu, 08 Oct 2020 20:21:20: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 20:21:25: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8832083/SRX8832083.10_peaks.xls INFO @ Thu, 08 Oct 2020 20:21:25: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8832083/SRX8832083.10_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 20:21:25: 2000000 INFO @ Thu, 08 Oct 2020 20:21:25: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8832083/SRX8832083.10_summits.bed INFO @ Thu, 08 Oct 2020 20:21:25: Done! pass1 - making usageList (7 chroms): 0 millis pass2 - checking and writing primary data (4462 records, 4 fields): 6 millis CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 20:21:31: 3000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 08 Oct 2020 20:21:38: 4000000 INFO @ Thu, 08 Oct 2020 20:21:43: #1 tag size is determined as 49 bps INFO @ Thu, 08 Oct 2020 20:21:43: #1 tag size = 49 INFO @ Thu, 08 Oct 2020 20:21:43: #1 total tags in treatment: 4753223 INFO @ Thu, 08 Oct 2020 20:21:43: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 20:21:43: #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 20:21:43: #1 tags after filtering in treatment: 4753223 INFO @ Thu, 08 Oct 2020 20:21:43: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 20:21:43: #1 finished! INFO @ Thu, 08 Oct 2020 20:21:43: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 20:21:43: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 20:21:43: #2 number of paired peaks: 2682 INFO @ Thu, 08 Oct 2020 20:21:43: start model_add_line... INFO @ Thu, 08 Oct 2020 20:21:44: start X-correlation... INFO @ Thu, 08 Oct 2020 20:21:44: end of X-cor INFO @ Thu, 08 Oct 2020 20:21:44: #2 finished! INFO @ Thu, 08 Oct 2020 20:21:44: #2 predicted fragment length is 130 bps INFO @ Thu, 08 Oct 2020 20:21:44: #2 alternative fragment length(s) may be 130 bps INFO @ Thu, 08 Oct 2020 20:21:44: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8832083/SRX8832083.20_model.r INFO @ Thu, 08 Oct 2020 20:21:44: #3 Call peaks... INFO @ Thu, 08 Oct 2020 20:21:44: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Thu, 08 Oct 2020 20:21:55: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 20:22:00: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8832083/SRX8832083.20_peaks.xls INFO @ Thu, 08 Oct 2020 20:22:00: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8832083/SRX8832083.20_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 20:22:00: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8832083/SRX8832083.20_summits.bed INFO @ Thu, 08 Oct 2020 20:22:00: Done! pass1 - making usageList (7 chroms): 0 millis pass2 - checking and writing primary data (3034 records, 4 fields): 5 millis CompletedMACS2peakCalling