Job ID = 6366915 SRX = SRX257660 Genome = ce11 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-15T22:59:23 prefetch.2.10.7: 1) Downloading 'SRR800671'... 2020-06-15T22:59:23 prefetch.2.10.7: Downloading via HTTPS... 2020-06-15T23:00:58 prefetch.2.10.7: HTTPS download succeed 2020-06-15T23:00:58 prefetch.2.10.7: 1) 'SRR800671' was downloaded successfully Read 18668481 spots for SRR800671/SRR800671.sra Written 18668481 spots for SRR800671/SRR800671.sra 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: 00:04:15 18668481 reads; of these: 18668481 (100.00%) were unpaired; of these: 696521 (3.73%) aligned 0 times 14978356 (80.23%) aligned exactly 1 time 2993604 (16.04%) aligned >1 times 96.27% overall alignment rate Time searching: 00:04:15 Overall time: 00:04:15 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] 12306908 / 17971960 = 0.6848 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 @ Tue, 16 Jun 2020 08:10:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX257660/SRX257660.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX257660/SRX257660.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX257660/SRX257660.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX257660/SRX257660.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 @ Tue, 16 Jun 2020 08:10:56: #1 read tag files... INFO @ Tue, 16 Jun 2020 08:10:56: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 08:11:02: 1000000 INFO @ Tue, 16 Jun 2020 08:11:09: 2000000 INFO @ Tue, 16 Jun 2020 08:11:16: 3000000 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 @ Tue, 16 Jun 2020 08:11:23: 4000000 INFO @ Tue, 16 Jun 2020 08:11:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX257660/SRX257660.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX257660/SRX257660.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX257660/SRX257660.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX257660/SRX257660.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 @ Tue, 16 Jun 2020 08:11:26: #1 read tag files... INFO @ Tue, 16 Jun 2020 08:11:26: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 08:11:31: 5000000 INFO @ Tue, 16 Jun 2020 08:11:32: 1000000 INFO @ Tue, 16 Jun 2020 08:11:35: #1 tag size is determined as 51 bps INFO @ Tue, 16 Jun 2020 08:11:35: #1 tag size = 51 INFO @ Tue, 16 Jun 2020 08:11:35: #1 total tags in treatment: 5665052 INFO @ Tue, 16 Jun 2020 08:11:35: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 08:11:35: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 16 Jun 2020 08:11:35: #1 tags after filtering in treatment: 5665052 INFO @ Tue, 16 Jun 2020 08:11:35: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 08:11:35: #1 finished! INFO @ Tue, 16 Jun 2020 08:11:35: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 08:11:35: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 08:11:36: #2 number of paired peaks: 1036 INFO @ Tue, 16 Jun 2020 08:11:36: start model_add_line... INFO @ Tue, 16 Jun 2020 08:11:36: start X-correlation... INFO @ Tue, 16 Jun 2020 08:11:36: end of X-cor INFO @ Tue, 16 Jun 2020 08:11:36: #2 finished! INFO @ Tue, 16 Jun 2020 08:11:36: #2 predicted fragment length is 132 bps INFO @ Tue, 16 Jun 2020 08:11:36: #2 alternative fragment length(s) may be 132 bps INFO @ Tue, 16 Jun 2020 08:11:36: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX257660/SRX257660.05_model.r INFO @ Tue, 16 Jun 2020 08:11:36: #3 Call peaks... INFO @ Tue, 16 Jun 2020 08:11:36: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 16 Jun 2020 08:11:40: 2000000 INFO @ Tue, 16 Jun 2020 08:11:48: 3000000 INFO @ Tue, 16 Jun 2020 08:11:49: #3 Call peaks for each chromosome... 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 @ Tue, 16 Jun 2020 08:11:56: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX257660/SRX257660.05_peaks.xls INFO @ Tue, 16 Jun 2020 08:11:56: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX257660/SRX257660.05_peaks.narrowPeak INFO @ Tue, 16 Jun 2020 08:11:56: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX257660/SRX257660.05_summits.bed INFO @ Tue, 16 Jun 2020 08:11:56: Done! INFO @ Tue, 16 Jun 2020 08:11:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX257660/SRX257660.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX257660/SRX257660.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX257660/SRX257660.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX257660/SRX257660.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 @ Tue, 16 Jun 2020 08:11:56: #1 read tag files... INFO @ Tue, 16 Jun 2020 08:11:56: #1 read treatment tags... pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (1627 records, 4 fields): 4 millis CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 08:11:56: 4000000 INFO @ Tue, 16 Jun 2020 08:12:04: 1000000 INFO @ Tue, 16 Jun 2020 08:12:04: 5000000 INFO @ Tue, 16 Jun 2020 08:12:09: #1 tag size is determined as 51 bps INFO @ Tue, 16 Jun 2020 08:12:09: #1 tag size = 51 INFO @ Tue, 16 Jun 2020 08:12:09: #1 total tags in treatment: 5665052 INFO @ Tue, 16 Jun 2020 08:12:09: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 08:12:09: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 16 Jun 2020 08:12:09: #1 tags after filtering in treatment: 5665052 INFO @ Tue, 16 Jun 2020 08:12:09: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 08:12:09: #1 finished! INFO @ Tue, 16 Jun 2020 08:12:09: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 08:12:09: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 08:12:10: #2 number of paired peaks: 1036 INFO @ Tue, 16 Jun 2020 08:12:10: start model_add_line... INFO @ Tue, 16 Jun 2020 08:12:10: start X-correlation... INFO @ Tue, 16 Jun 2020 08:12:10: end of X-cor INFO @ Tue, 16 Jun 2020 08:12:10: #2 finished! INFO @ Tue, 16 Jun 2020 08:12:10: #2 predicted fragment length is 132 bps INFO @ Tue, 16 Jun 2020 08:12:10: #2 alternative fragment length(s) may be 132 bps INFO @ Tue, 16 Jun 2020 08:12:10: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX257660/SRX257660.10_model.r INFO @ Tue, 16 Jun 2020 08:12:10: #3 Call peaks... INFO @ Tue, 16 Jun 2020 08:12:10: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 16 Jun 2020 08:12:12: 2000000 INFO @ Tue, 16 Jun 2020 08:12:20: 3000000 INFO @ Tue, 16 Jun 2020 08:12:24: #3 Call peaks for each chromosome... BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 16 Jun 2020 08:12:28: 4000000 INFO @ Tue, 16 Jun 2020 08:12:30: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX257660/SRX257660.10_peaks.xls INFO @ Tue, 16 Jun 2020 08:12:30: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX257660/SRX257660.10_peaks.narrowPeak INFO @ Tue, 16 Jun 2020 08:12:30: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX257660/SRX257660.10_summits.bed INFO @ Tue, 16 Jun 2020 08:12:30: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (1056 records, 4 fields): 2 millis CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 08:12:36: 5000000 INFO @ Tue, 16 Jun 2020 08:12:41: #1 tag size is determined as 51 bps INFO @ Tue, 16 Jun 2020 08:12:41: #1 tag size = 51 INFO @ Tue, 16 Jun 2020 08:12:41: #1 total tags in treatment: 5665052 INFO @ Tue, 16 Jun 2020 08:12:41: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 08:12:41: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 16 Jun 2020 08:12:41: #1 tags after filtering in treatment: 5665052 INFO @ Tue, 16 Jun 2020 08:12:41: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 08:12:41: #1 finished! INFO @ Tue, 16 Jun 2020 08:12:41: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 08:12:41: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 08:12:41: #2 number of paired peaks: 1036 INFO @ Tue, 16 Jun 2020 08:12:41: start model_add_line... INFO @ Tue, 16 Jun 2020 08:12:41: start X-correlation... INFO @ Tue, 16 Jun 2020 08:12:41: end of X-cor INFO @ Tue, 16 Jun 2020 08:12:41: #2 finished! INFO @ Tue, 16 Jun 2020 08:12:41: #2 predicted fragment length is 132 bps INFO @ Tue, 16 Jun 2020 08:12:41: #2 alternative fragment length(s) may be 132 bps INFO @ Tue, 16 Jun 2020 08:12:41: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX257660/SRX257660.20_model.r INFO @ Tue, 16 Jun 2020 08:12:41: #3 Call peaks... INFO @ Tue, 16 Jun 2020 08:12:41: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Tue, 16 Jun 2020 08:12:55: #3 Call peaks for each chromosome... INFO @ Tue, 16 Jun 2020 08:13:02: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX257660/SRX257660.20_peaks.xls INFO @ Tue, 16 Jun 2020 08:13:02: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX257660/SRX257660.20_peaks.narrowPeak INFO @ Tue, 16 Jun 2020 08:13:02: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX257660/SRX257660.20_summits.bed INFO @ Tue, 16 Jun 2020 08:13:02: Done! pass1 - making usageList (6 chroms): 0 millis pass2 - checking and writing primary data (649 records, 4 fields): 2 millis CompletedMACS2peakCalling