Job ID = 10165875 SRX = SRX8832073 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: 00:00:01 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:04:05 18990401 reads; of these: 18990401 (100.00%) were unpaired; of these: 7730520 (40.71%) aligned 0 times 6287847 (33.11%) aligned exactly 1 time 4972034 (26.18%) aligned >1 times 59.29% overall alignment rate Time searching: 00:04:06 Overall time: 00:04:06 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] 4209195 / 11259881 = 0.3738 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 20:12:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8832073/SRX8832073.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8832073/SRX8832073.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8832073/SRX8832073.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8832073/SRX8832073.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 20:12:55: #1 read tag files... INFO @ Thu, 08 Oct 2020 20:12:55: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 20:12:59: 1000000 INFO @ Thu, 08 Oct 2020 20:13:04: 2000000 INFO @ Thu, 08 Oct 2020 20:13:08: 3000000 INFO @ Thu, 08 Oct 2020 20:13:13: 4000000 INFO @ Thu, 08 Oct 2020 20:13:17: 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 20:13:22: 6000000 INFO @ Thu, 08 Oct 2020 20:13:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8832073/SRX8832073.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8832073/SRX8832073.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8832073/SRX8832073.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8832073/SRX8832073.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 20:13:24: #1 read tag files... INFO @ Thu, 08 Oct 2020 20:13:24: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 20:13:27: 7000000 INFO @ Thu, 08 Oct 2020 20:13:27: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 20:13:27: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 20:13:27: #1 total tags in treatment: 7050686 INFO @ Thu, 08 Oct 2020 20:13:27: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 20:13:27: #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 20:13:27: #1 tags after filtering in treatment: 7050686 INFO @ Thu, 08 Oct 2020 20:13:27: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 20:13:27: #1 finished! INFO @ Thu, 08 Oct 2020 20:13:27: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 20:13:27: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 20:13:28: #2 number of paired peaks: 4863 INFO @ Thu, 08 Oct 2020 20:13:28: start model_add_line... INFO @ Thu, 08 Oct 2020 20:13:28: start X-correlation... INFO @ Thu, 08 Oct 2020 20:13:28: end of X-cor INFO @ Thu, 08 Oct 2020 20:13:28: #2 finished! INFO @ Thu, 08 Oct 2020 20:13:28: #2 predicted fragment length is 129 bps INFO @ Thu, 08 Oct 2020 20:13:28: #2 alternative fragment length(s) may be 129 bps INFO @ Thu, 08 Oct 2020 20:13:28: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8832073/SRX8832073.05_model.r INFO @ Thu, 08 Oct 2020 20:13:28: #3 Call peaks... INFO @ Thu, 08 Oct 2020 20:13:28: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 20:13:29: 1000000 INFO @ Thu, 08 Oct 2020 20:13:34: 2000000 INFO @ Thu, 08 Oct 2020 20:13:38: 3000000 INFO @ Thu, 08 Oct 2020 20:13:43: 4000000 INFO @ Thu, 08 Oct 2020 20:13:47: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 20:13:48: 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 20:13:52: 6000000 INFO @ Thu, 08 Oct 2020 20:13:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8832073/SRX8832073.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8832073/SRX8832073.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8832073/SRX8832073.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8832073/SRX8832073.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 20:13:54: #1 read tag files... INFO @ Thu, 08 Oct 2020 20:13:54: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 20:13:56: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8832073/SRX8832073.05_peaks.xls INFO @ Thu, 08 Oct 2020 20:13:56: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8832073/SRX8832073.05_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 20:13:56: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8832073/SRX8832073.05_summits.bed INFO @ Thu, 08 Oct 2020 20:13:56: Done! INFO @ Thu, 08 Oct 2020 20:13:57: 7000000 INFO @ Thu, 08 Oct 2020 20:13:57: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 20:13:57: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 20:13:57: #1 total tags in treatment: 7050686 INFO @ Thu, 08 Oct 2020 20:13:57: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 20:13:57: #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 20:13:57: #1 tags after filtering in treatment: 7050686 INFO @ Thu, 08 Oct 2020 20:13:57: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 20:13:57: #1 finished! INFO @ Thu, 08 Oct 2020 20:13:57: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 20:13:57: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 20:13:58: #2 number of paired peaks: 4863 INFO @ Thu, 08 Oct 2020 20:13:58: start model_add_line... INFO @ Thu, 08 Oct 2020 20:13:58: start X-correlation... INFO @ Thu, 08 Oct 2020 20:13:58: end of X-cor INFO @ Thu, 08 Oct 2020 20:13:58: #2 finished! INFO @ Thu, 08 Oct 2020 20:13:58: #2 predicted fragment length is 129 bps INFO @ Thu, 08 Oct 2020 20:13:58: #2 alternative fragment length(s) may be 129 bps INFO @ Thu, 08 Oct 2020 20:13:58: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8832073/SRX8832073.10_model.r INFO @ Thu, 08 Oct 2020 20:13:58: #3 Call peaks... INFO @ Thu, 08 Oct 2020 20:13:58: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 20:13:59: 1000000 pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (7756 records, 4 fields): 8 millis CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 20:14:04: 2000000 INFO @ Thu, 08 Oct 2020 20:14:08: 3000000 INFO @ Thu, 08 Oct 2020 20:14:13: 4000000 INFO @ Thu, 08 Oct 2020 20:14:17: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 20:14:18: 5000000 INFO @ Thu, 08 Oct 2020 20:14:22: 6000000 INFO @ Thu, 08 Oct 2020 20:14:25: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8832073/SRX8832073.10_peaks.xls INFO @ Thu, 08 Oct 2020 20:14:25: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8832073/SRX8832073.10_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 20:14:25: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8832073/SRX8832073.10_summits.bed INFO @ Thu, 08 Oct 2020 20:14:25: Done! INFO @ Thu, 08 Oct 2020 20:14:27: 7000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 08 Oct 2020 20:14:27: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 20:14:27: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 20:14:27: #1 total tags in treatment: 7050686 INFO @ Thu, 08 Oct 2020 20:14:27: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 20:14:27: #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 20:14:27: #1 tags after filtering in treatment: 7050686 INFO @ Thu, 08 Oct 2020 20:14:27: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 20:14:27: #1 finished! INFO @ Thu, 08 Oct 2020 20:14:27: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 20:14:27: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 20:14:28: #2 number of paired peaks: 4863 INFO @ Thu, 08 Oct 2020 20:14:28: start model_add_line... INFO @ Thu, 08 Oct 2020 20:14:28: start X-correlation... INFO @ Thu, 08 Oct 2020 20:14:28: end of X-cor INFO @ Thu, 08 Oct 2020 20:14:28: #2 finished! INFO @ Thu, 08 Oct 2020 20:14:28: #2 predicted fragment length is 129 bps INFO @ Thu, 08 Oct 2020 20:14:28: #2 alternative fragment length(s) may be 129 bps INFO @ Thu, 08 Oct 2020 20:14:28: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8832073/SRX8832073.20_model.r INFO @ Thu, 08 Oct 2020 20:14:28: #3 Call peaks... INFO @ Thu, 08 Oct 2020 20:14:28: #3 Pre-compute pvalue-qvalue table... pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (5314 records, 4 fields): 7 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Thu, 08 Oct 2020 20:14:47: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 20:14:56: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8832073/SRX8832073.20_peaks.xls INFO @ Thu, 08 Oct 2020 20:14:56: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8832073/SRX8832073.20_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 20:14:56: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8832073/SRX8832073.20_summits.bed INFO @ Thu, 08 Oct 2020 20:14:56: Done! pass1 - making usageList (6 chroms): 2 millis pass2 - checking and writing primary data (2801 records, 4 fields): 4 millis CompletedMACS2peakCalling