Job ID = 6497559 SRX = SRX743642 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-25T22:51:43 prefetch.2.10.7: 1) Downloading 'SRR1630857'... 2020-06-25T22:51:43 prefetch.2.10.7: Downloading via HTTPS... 2020-06-25T22:52:36 prefetch.2.10.7: HTTPS download succeed 2020-06-25T22:52:37 prefetch.2.10.7: 'SRR1630857' is valid 2020-06-25T22:52:37 prefetch.2.10.7: 1) 'SRR1630857' was downloaded successfully Read 8858052 spots for SRR1630857/SRR1630857.sra Written 8858052 spots for SRR1630857/SRR1630857.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: 00:02:24 8858052 reads; of these: 8858052 (100.00%) were unpaired; of these: 118362 (1.34%) aligned 0 times 8063780 (91.03%) aligned exactly 1 time 675910 (7.63%) aligned >1 times 98.66% overall alignment rate Time searching: 00:02:24 Overall time: 00:02:24 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] 1043883 / 8739690 = 0.1194 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 07:58:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX743642/SRX743642.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX743642/SRX743642.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX743642/SRX743642.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX743642/SRX743642.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 07:58:24: #1 read tag files... INFO @ Fri, 26 Jun 2020 07:58:24: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 07:58:32: 1000000 INFO @ Fri, 26 Jun 2020 07:58:39: 2000000 INFO @ Fri, 26 Jun 2020 07:58:47: 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 @ Fri, 26 Jun 2020 07:58:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX743642/SRX743642.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX743642/SRX743642.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX743642/SRX743642.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX743642/SRX743642.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 07:58:54: #1 read tag files... INFO @ Fri, 26 Jun 2020 07:58:54: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 07:58:54: 4000000 INFO @ Fri, 26 Jun 2020 07:59:02: 1000000 INFO @ Fri, 26 Jun 2020 07:59:03: 5000000 INFO @ Fri, 26 Jun 2020 07:59:10: 2000000 INFO @ Fri, 26 Jun 2020 07:59:12: 6000000 INFO @ Fri, 26 Jun 2020 07:59:18: 3000000 INFO @ Fri, 26 Jun 2020 07:59:21: 7000000 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 07:59:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX743642/SRX743642.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX743642/SRX743642.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX743642/SRX743642.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX743642/SRX743642.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 07:59:24: #1 read tag files... INFO @ Fri, 26 Jun 2020 07:59:24: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 07:59:25: 4000000 INFO @ Fri, 26 Jun 2020 07:59:27: #1 tag size is determined as 52 bps INFO @ Fri, 26 Jun 2020 07:59:27: #1 tag size = 52 INFO @ Fri, 26 Jun 2020 07:59:27: #1 total tags in treatment: 7695807 INFO @ Fri, 26 Jun 2020 07:59:27: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 07:59:27: #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 07:59:27: #1 tags after filtering in treatment: 7695807 INFO @ Fri, 26 Jun 2020 07:59:27: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 07:59:27: #1 finished! INFO @ Fri, 26 Jun 2020 07:59:27: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 07:59:27: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 07:59:28: #2 number of paired peaks: 1929 INFO @ Fri, 26 Jun 2020 07:59:28: start model_add_line... INFO @ Fri, 26 Jun 2020 07:59:28: start X-correlation... INFO @ Fri, 26 Jun 2020 07:59:28: end of X-cor INFO @ Fri, 26 Jun 2020 07:59:28: #2 finished! INFO @ Fri, 26 Jun 2020 07:59:28: #2 predicted fragment length is 205 bps INFO @ Fri, 26 Jun 2020 07:59:28: #2 alternative fragment length(s) may be 3,205,223 bps INFO @ Fri, 26 Jun 2020 07:59:28: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX743642/SRX743642.05_model.r INFO @ Fri, 26 Jun 2020 07:59:28: #3 Call peaks... INFO @ Fri, 26 Jun 2020 07:59:28: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 26 Jun 2020 07:59:32: 1000000 INFO @ Fri, 26 Jun 2020 07:59:33: 5000000 INFO @ Fri, 26 Jun 2020 07:59:40: 2000000 INFO @ Fri, 26 Jun 2020 07:59:40: 6000000 INFO @ Fri, 26 Jun 2020 07:59:47: 3000000 INFO @ Fri, 26 Jun 2020 07:59:48: 7000000 INFO @ Fri, 26 Jun 2020 07:59:50: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 07:59:53: #1 tag size is determined as 52 bps INFO @ Fri, 26 Jun 2020 07:59:53: #1 tag size = 52 INFO @ Fri, 26 Jun 2020 07:59:53: #1 total tags in treatment: 7695807 INFO @ Fri, 26 Jun 2020 07:59:53: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 07:59:53: #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 07:59:53: #1 tags after filtering in treatment: 7695807 INFO @ Fri, 26 Jun 2020 07:59:53: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 07:59:53: #1 finished! INFO @ Fri, 26 Jun 2020 07:59:53: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 07:59:53: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 07:59:54: #2 number of paired peaks: 1929 INFO @ Fri, 26 Jun 2020 07:59:54: start model_add_line... INFO @ Fri, 26 Jun 2020 07:59:54: start X-correlation... INFO @ Fri, 26 Jun 2020 07:59:54: end of X-cor INFO @ Fri, 26 Jun 2020 07:59:54: #2 finished! INFO @ Fri, 26 Jun 2020 07:59:54: #2 predicted fragment length is 205 bps INFO @ Fri, 26 Jun 2020 07:59:54: #2 alternative fragment length(s) may be 3,205,223 bps INFO @ Fri, 26 Jun 2020 07:59:54: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX743642/SRX743642.10_model.r INFO @ Fri, 26 Jun 2020 07:59:54: #3 Call peaks... INFO @ Fri, 26 Jun 2020 07:59:54: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 26 Jun 2020 07:59:54: 4000000 INFO @ Fri, 26 Jun 2020 08:00:01: 5000000 INFO @ Fri, 26 Jun 2020 08:00:02: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX743642/SRX743642.05_peaks.xls INFO @ Fri, 26 Jun 2020 08:00:02: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX743642/SRX743642.05_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 08:00:02: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX743642/SRX743642.05_summits.bed INFO @ Fri, 26 Jun 2020 08:00:02: Done! pass1 - making usageList (6 chroms): 2 millis pass2 - checking and writing primary data (7963 records, 4 fields): 9 millis CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 26 Jun 2020 08:00:08: 6000000 INFO @ Fri, 26 Jun 2020 08:00:15: 7000000 INFO @ Fri, 26 Jun 2020 08:00:16: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 08:00:20: #1 tag size is determined as 52 bps INFO @ Fri, 26 Jun 2020 08:00:20: #1 tag size = 52 INFO @ Fri, 26 Jun 2020 08:00:20: #1 total tags in treatment: 7695807 INFO @ Fri, 26 Jun 2020 08:00:20: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 08:00:20: #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 08:00:20: #1 tags after filtering in treatment: 7695807 INFO @ Fri, 26 Jun 2020 08:00:20: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 08:00:20: #1 finished! INFO @ Fri, 26 Jun 2020 08:00:20: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 08:00:20: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 08:00:21: #2 number of paired peaks: 1929 INFO @ Fri, 26 Jun 2020 08:00:21: start model_add_line... INFO @ Fri, 26 Jun 2020 08:00:21: start X-correlation... INFO @ Fri, 26 Jun 2020 08:00:21: end of X-cor INFO @ Fri, 26 Jun 2020 08:00:21: #2 finished! INFO @ Fri, 26 Jun 2020 08:00:21: #2 predicted fragment length is 205 bps INFO @ Fri, 26 Jun 2020 08:00:21: #2 alternative fragment length(s) may be 3,205,223 bps INFO @ Fri, 26 Jun 2020 08:00:21: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX743642/SRX743642.20_model.r INFO @ Fri, 26 Jun 2020 08:00:21: #3 Call peaks... INFO @ Fri, 26 Jun 2020 08:00:21: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Fri, 26 Jun 2020 08:00:27: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX743642/SRX743642.10_peaks.xls INFO @ Fri, 26 Jun 2020 08:00:27: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX743642/SRX743642.10_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 08:00:27: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX743642/SRX743642.10_summits.bed INFO @ Fri, 26 Jun 2020 08:00:27: Done! pass1 - making usageList (6 chroms): 2 millis pass2 - checking and writing primary data (3432 records, 4 fields): 5 millis CompletedMACS2peakCalling INFO @ Fri, 26 Jun 2020 08:00:43: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 08:00:54: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX743642/SRX743642.20_peaks.xls INFO @ Fri, 26 Jun 2020 08:00:54: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX743642/SRX743642.20_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 08:00:54: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX743642/SRX743642.20_summits.bed INFO @ Fri, 26 Jun 2020 08:00:54: Done! pass1 - making usageList (6 chroms): 0 millis pass2 - checking and writing primary data (492 records, 4 fields): 2 millis CompletedMACS2peakCalling