Job ID = 6497548 SRX = SRX554721 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-25T22:14:14 prefetch.2.10.7: 1) Downloading 'SRR1301069'... 2020-06-25T22:14:14 prefetch.2.10.7: Downloading via HTTPS... 2020-06-25T22:15:20 prefetch.2.10.7: HTTPS download succeed 2020-06-25T22:15:21 prefetch.2.10.7: 'SRR1301069' is valid 2020-06-25T22:15:21 prefetch.2.10.7: 1) 'SRR1301069' was downloaded successfully Read 6355171 spots for SRR1301069/SRR1301069.sra Written 6355171 spots for SRR1301069/SRR1301069.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: 00:01:34 6355171 reads; of these: 6355171 (100.00%) were unpaired; of these: 195221 (3.07%) aligned 0 times 5413299 (85.18%) aligned exactly 1 time 746651 (11.75%) aligned >1 times 96.93% overall alignment rate Time searching: 00:01:34 Overall time: 00:01:34 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_rmdupse_core] 858318 / 6159950 = 0.1393 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 @ Fri, 26 Jun 2020 07:19:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX554721/SRX554721.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX554721/SRX554721.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX554721/SRX554721.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX554721/SRX554721.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 @ Fri, 26 Jun 2020 07:19:20: #1 read tag files... INFO @ Fri, 26 Jun 2020 07:19:20: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 07:19:26: 1000000 INFO @ Fri, 26 Jun 2020 07:19:32: 2000000 INFO @ Fri, 26 Jun 2020 07:19:38: 3000000 INFO @ Fri, 26 Jun 2020 07:19:44: 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 @ Fri, 26 Jun 2020 07:19:50: 5000000 INFO @ Fri, 26 Jun 2020 07:19:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX554721/SRX554721.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX554721/SRX554721.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX554721/SRX554721.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX554721/SRX554721.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 @ Fri, 26 Jun 2020 07:19:50: #1 read tag files... INFO @ Fri, 26 Jun 2020 07:19:50: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 07:19:52: #1 tag size is determined as 51 bps INFO @ Fri, 26 Jun 2020 07:19:52: #1 tag size = 51 INFO @ Fri, 26 Jun 2020 07:19:52: #1 total tags in treatment: 5301632 INFO @ Fri, 26 Jun 2020 07:19:52: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 07:19:52: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 26 Jun 2020 07:19:52: #1 tags after filtering in treatment: 5301632 INFO @ Fri, 26 Jun 2020 07:19:52: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 07:19:52: #1 finished! INFO @ Fri, 26 Jun 2020 07:19:52: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 07:19:52: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 07:19:52: #2 number of paired peaks: 2370 INFO @ Fri, 26 Jun 2020 07:19:52: start model_add_line... INFO @ Fri, 26 Jun 2020 07:19:52: start X-correlation... INFO @ Fri, 26 Jun 2020 07:19:52: end of X-cor INFO @ Fri, 26 Jun 2020 07:19:52: #2 finished! INFO @ Fri, 26 Jun 2020 07:19:52: #2 predicted fragment length is 146 bps INFO @ Fri, 26 Jun 2020 07:19:52: #2 alternative fragment length(s) may be 146 bps INFO @ Fri, 26 Jun 2020 07:19:52: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX554721/SRX554721.05_model.r INFO @ Fri, 26 Jun 2020 07:19:52: #3 Call peaks... INFO @ Fri, 26 Jun 2020 07:19:52: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 26 Jun 2020 07:19:56: 1000000 INFO @ Fri, 26 Jun 2020 07:20:02: 2000000 INFO @ Fri, 26 Jun 2020 07:20:06: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 07:20:09: 3000000 INFO @ Fri, 26 Jun 2020 07:20:13: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX554721/SRX554721.05_peaks.xls INFO @ Fri, 26 Jun 2020 07:20:13: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX554721/SRX554721.05_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 07:20:13: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX554721/SRX554721.05_summits.bed INFO @ Fri, 26 Jun 2020 07:20:13: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (3920 records, 4 fields): 5 millis CompletedMACS2peakCalling INFO @ Fri, 26 Jun 2020 07:20:15: 4000000 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 @ Fri, 26 Jun 2020 07:20:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX554721/SRX554721.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX554721/SRX554721.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX554721/SRX554721.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX554721/SRX554721.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 @ Fri, 26 Jun 2020 07:20:20: #1 read tag files... INFO @ Fri, 26 Jun 2020 07:20:20: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 07:20:21: 5000000 INFO @ Fri, 26 Jun 2020 07:20:23: #1 tag size is determined as 51 bps INFO @ Fri, 26 Jun 2020 07:20:23: #1 tag size = 51 INFO @ Fri, 26 Jun 2020 07:20:23: #1 total tags in treatment: 5301632 INFO @ Fri, 26 Jun 2020 07:20:23: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 07:20:23: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 26 Jun 2020 07:20:23: #1 tags after filtering in treatment: 5301632 INFO @ Fri, 26 Jun 2020 07:20:23: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 07:20:23: #1 finished! INFO @ Fri, 26 Jun 2020 07:20:23: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 07:20:23: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 07:20:24: #2 number of paired peaks: 2370 INFO @ Fri, 26 Jun 2020 07:20:24: start model_add_line... INFO @ Fri, 26 Jun 2020 07:20:24: start X-correlation... INFO @ Fri, 26 Jun 2020 07:20:24: end of X-cor INFO @ Fri, 26 Jun 2020 07:20:24: #2 finished! INFO @ Fri, 26 Jun 2020 07:20:24: #2 predicted fragment length is 146 bps INFO @ Fri, 26 Jun 2020 07:20:24: #2 alternative fragment length(s) may be 146 bps INFO @ Fri, 26 Jun 2020 07:20:24: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX554721/SRX554721.10_model.r INFO @ Fri, 26 Jun 2020 07:20:24: #3 Call peaks... INFO @ Fri, 26 Jun 2020 07:20:24: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 26 Jun 2020 07:20:26: 1000000 INFO @ Fri, 26 Jun 2020 07:20:32: 2000000 INFO @ Fri, 26 Jun 2020 07:20:38: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 07:20:39: 3000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 26 Jun 2020 07:20:45: 4000000 INFO @ Fri, 26 Jun 2020 07:20:46: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX554721/SRX554721.10_peaks.xls INFO @ Fri, 26 Jun 2020 07:20:46: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX554721/SRX554721.10_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 07:20:46: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX554721/SRX554721.10_summits.bed INFO @ Fri, 26 Jun 2020 07:20:46: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (2057 records, 4 fields): 5 millis CompletedMACS2peakCalling INFO @ Fri, 26 Jun 2020 07:20:51: 5000000 INFO @ Fri, 26 Jun 2020 07:20:53: #1 tag size is determined as 51 bps INFO @ Fri, 26 Jun 2020 07:20:53: #1 tag size = 51 INFO @ Fri, 26 Jun 2020 07:20:53: #1 total tags in treatment: 5301632 INFO @ Fri, 26 Jun 2020 07:20:53: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 07:20:53: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 26 Jun 2020 07:20:53: #1 tags after filtering in treatment: 5301632 INFO @ Fri, 26 Jun 2020 07:20:53: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 07:20:53: #1 finished! INFO @ Fri, 26 Jun 2020 07:20:53: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 07:20:53: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 07:20:54: #2 number of paired peaks: 2370 INFO @ Fri, 26 Jun 2020 07:20:54: start model_add_line... INFO @ Fri, 26 Jun 2020 07:20:54: start X-correlation... INFO @ Fri, 26 Jun 2020 07:20:54: end of X-cor INFO @ Fri, 26 Jun 2020 07:20:54: #2 finished! INFO @ Fri, 26 Jun 2020 07:20:54: #2 predicted fragment length is 146 bps INFO @ Fri, 26 Jun 2020 07:20:54: #2 alternative fragment length(s) may be 146 bps INFO @ Fri, 26 Jun 2020 07:20:54: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX554721/SRX554721.20_model.r INFO @ Fri, 26 Jun 2020 07:20:54: #3 Call peaks... INFO @ Fri, 26 Jun 2020 07:20:54: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Fri, 26 Jun 2020 07:21:07: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 07:21:13: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX554721/SRX554721.20_peaks.xls INFO @ Fri, 26 Jun 2020 07:21:13: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX554721/SRX554721.20_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 07:21:13: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX554721/SRX554721.20_summits.bed INFO @ Fri, 26 Jun 2020 07:21:13: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (754 records, 4 fields): 3 millis CompletedMACS2peakCalling