Job ID = 10165967 SRX = SRX8832085 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: 00:05:04 21461172 reads; of these: 21461172 (100.00%) were unpaired; of these: 2284818 (10.65%) aligned 0 times 16025592 (74.67%) aligned exactly 1 time 3150762 (14.68%) aligned >1 times 89.35% overall alignment rate Time searching: 00:05:04 Overall time: 00:05:04 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] 11315087 / 19176354 = 0.5901 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 20:27:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8832085/SRX8832085.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8832085/SRX8832085.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8832085/SRX8832085.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8832085/SRX8832085.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 20:27:32: #1 read tag files... INFO @ Thu, 08 Oct 2020 20:27:32: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 20:27:38: 1000000 INFO @ Thu, 08 Oct 2020 20:27:43: 2000000 INFO @ Thu, 08 Oct 2020 20:27:48: 3000000 INFO @ Thu, 08 Oct 2020 20:27:53: 4000000 INFO @ Thu, 08 Oct 2020 20:27:59: 5000000 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 20:28:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8832085/SRX8832085.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8832085/SRX8832085.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8832085/SRX8832085.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8832085/SRX8832085.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 20:28:02: #1 read tag files... INFO @ Thu, 08 Oct 2020 20:28:02: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 20:28:04: 6000000 INFO @ Thu, 08 Oct 2020 20:28:08: 1000000 INFO @ Thu, 08 Oct 2020 20:28:10: 7000000 INFO @ Thu, 08 Oct 2020 20:28:14: 2000000 INFO @ Thu, 08 Oct 2020 20:28:15: #1 tag size is determined as 49 bps INFO @ Thu, 08 Oct 2020 20:28:15: #1 tag size = 49 INFO @ Thu, 08 Oct 2020 20:28:15: #1 total tags in treatment: 7861267 INFO @ Thu, 08 Oct 2020 20:28:15: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 20:28:15: #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 20:28:15: #1 tags after filtering in treatment: 7861267 INFO @ Thu, 08 Oct 2020 20:28:15: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 20:28:15: #1 finished! INFO @ Thu, 08 Oct 2020 20:28:15: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 20:28:15: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 20:28:16: #2 number of paired peaks: 3421 INFO @ Thu, 08 Oct 2020 20:28:16: start model_add_line... INFO @ Thu, 08 Oct 2020 20:28:16: start X-correlation... INFO @ Thu, 08 Oct 2020 20:28:16: end of X-cor INFO @ Thu, 08 Oct 2020 20:28:16: #2 finished! INFO @ Thu, 08 Oct 2020 20:28:16: #2 predicted fragment length is 144 bps INFO @ Thu, 08 Oct 2020 20:28:16: #2 alternative fragment length(s) may be 144 bps INFO @ Thu, 08 Oct 2020 20:28:16: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8832085/SRX8832085.05_model.r INFO @ Thu, 08 Oct 2020 20:28:16: #3 Call peaks... INFO @ Thu, 08 Oct 2020 20:28:16: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 20:28:20: 3000000 INFO @ Thu, 08 Oct 2020 20:28:25: 4000000 INFO @ Thu, 08 Oct 2020 20:28:30: 5000000 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 20:28:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8832085/SRX8832085.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8832085/SRX8832085.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8832085/SRX8832085.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8832085/SRX8832085.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 20:28:32: #1 read tag files... INFO @ Thu, 08 Oct 2020 20:28:32: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 20:28:36: 6000000 INFO @ Thu, 08 Oct 2020 20:28:37: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 20:28:38: 1000000 INFO @ Thu, 08 Oct 2020 20:28:42: 7000000 INFO @ Thu, 08 Oct 2020 20:28:44: 2000000 INFO @ Thu, 08 Oct 2020 20:28:46: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8832085/SRX8832085.05_peaks.xls INFO @ Thu, 08 Oct 2020 20:28:46: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8832085/SRX8832085.05_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 20:28:46: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8832085/SRX8832085.05_summits.bed INFO @ Thu, 08 Oct 2020 20:28:46: Done! pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (5769 records, 4 fields): 8 millis CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 20:28:47: #1 tag size is determined as 49 bps INFO @ Thu, 08 Oct 2020 20:28:47: #1 tag size = 49 INFO @ Thu, 08 Oct 2020 20:28:47: #1 total tags in treatment: 7861267 INFO @ Thu, 08 Oct 2020 20:28:47: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 20:28:47: #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 20:28:47: #1 tags after filtering in treatment: 7861267 INFO @ Thu, 08 Oct 2020 20:28:47: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 20:28:47: #1 finished! INFO @ Thu, 08 Oct 2020 20:28:47: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 20:28:47: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 20:28:48: #2 number of paired peaks: 3421 INFO @ Thu, 08 Oct 2020 20:28:48: start model_add_line... INFO @ Thu, 08 Oct 2020 20:28:48: start X-correlation... INFO @ Thu, 08 Oct 2020 20:28:48: end of X-cor INFO @ Thu, 08 Oct 2020 20:28:48: #2 finished! INFO @ Thu, 08 Oct 2020 20:28:48: #2 predicted fragment length is 144 bps INFO @ Thu, 08 Oct 2020 20:28:48: #2 alternative fragment length(s) may be 144 bps INFO @ Thu, 08 Oct 2020 20:28:48: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8832085/SRX8832085.10_model.r INFO @ Thu, 08 Oct 2020 20:28:48: #3 Call peaks... INFO @ Thu, 08 Oct 2020 20:28:48: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 20:28:50: 3000000 INFO @ Thu, 08 Oct 2020 20:28:55: 4000000 INFO @ Thu, 08 Oct 2020 20:29:00: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 08 Oct 2020 20:29:06: 6000000 INFO @ Thu, 08 Oct 2020 20:29:07: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 20:29:11: 7000000 INFO @ Thu, 08 Oct 2020 20:29:15: #1 tag size is determined as 49 bps INFO @ Thu, 08 Oct 2020 20:29:15: #1 tag size = 49 INFO @ Thu, 08 Oct 2020 20:29:15: #1 total tags in treatment: 7861267 INFO @ Thu, 08 Oct 2020 20:29:15: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 20:29:15: #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 20:29:15: #1 tags after filtering in treatment: 7861267 INFO @ Thu, 08 Oct 2020 20:29:15: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 20:29:15: #1 finished! INFO @ Thu, 08 Oct 2020 20:29:15: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 20:29:15: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 20:29:16: #2 number of paired peaks: 3421 INFO @ Thu, 08 Oct 2020 20:29:16: start model_add_line... INFO @ Thu, 08 Oct 2020 20:29:16: start X-correlation... INFO @ Thu, 08 Oct 2020 20:29:16: end of X-cor INFO @ Thu, 08 Oct 2020 20:29:16: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8832085/SRX8832085.10_peaks.xls INFO @ Thu, 08 Oct 2020 20:29:16: #2 finished! INFO @ Thu, 08 Oct 2020 20:29:16: #2 predicted fragment length is 144 bps INFO @ Thu, 08 Oct 2020 20:29:16: #2 alternative fragment length(s) may be 144 bps INFO @ Thu, 08 Oct 2020 20:29:16: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8832085/SRX8832085.20_model.r INFO @ Thu, 08 Oct 2020 20:29:16: #3 Call peaks... INFO @ Thu, 08 Oct 2020 20:29:16: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 20:29:16: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8832085/SRX8832085.10_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 20:29:16: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8832085/SRX8832085.10_summits.bed INFO @ Thu, 08 Oct 2020 20:29:16: Done! pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (4859 records, 4 fields): 6 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Thu, 08 Oct 2020 20:29:36: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 20:29:45: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8832085/SRX8832085.20_peaks.xls INFO @ Thu, 08 Oct 2020 20:29:45: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8832085/SRX8832085.20_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 20:29:45: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8832085/SRX8832085.20_summits.bed INFO @ Thu, 08 Oct 2020 20:29:45: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (3744 records, 4 fields): 5 millis CompletedMACS2peakCalling