Job ID = 6497444 SRX = SRX494942 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-25T21:59:26 prefetch.2.10.7: 1) Downloading 'SRR1198474'... 2020-06-25T21:59:26 prefetch.2.10.7: Downloading via HTTPS... 2020-06-25T22:01:35 prefetch.2.10.7: HTTPS download succeed 2020-06-25T22:01:35 prefetch.2.10.7: 1) 'SRR1198474' was downloaded successfully Read 22264456 spots for SRR1198474/SRR1198474.sra Written 22264456 spots for SRR1198474/SRR1198474.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: 00:05:13 22264456 reads; of these: 22264456 (100.00%) were unpaired; of these: 2367730 (10.63%) aligned 0 times 17278965 (77.61%) aligned exactly 1 time 2617761 (11.76%) aligned >1 times 89.37% overall alignment rate Time searching: 00:05:13 Overall time: 00:05:13 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 12 files... [bam_rmdupse_core] 6668404 / 19896726 = 0.3352 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 07:13:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX494942/SRX494942.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX494942/SRX494942.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX494942/SRX494942.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX494942/SRX494942.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 07:13:16: #1 read tag files... INFO @ Fri, 26 Jun 2020 07:13:16: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 07:13:21: 1000000 INFO @ Fri, 26 Jun 2020 07:13:26: 2000000 INFO @ Fri, 26 Jun 2020 07:13:32: 3000000 INFO @ Fri, 26 Jun 2020 07:13:37: 4000000 INFO @ Fri, 26 Jun 2020 07:13:43: 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 @ Fri, 26 Jun 2020 07:13:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX494942/SRX494942.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX494942/SRX494942.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX494942/SRX494942.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX494942/SRX494942.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 07:13:45: #1 read tag files... INFO @ Fri, 26 Jun 2020 07:13:45: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 07:13:48: 6000000 INFO @ Fri, 26 Jun 2020 07:13:50: 1000000 INFO @ Fri, 26 Jun 2020 07:13:53: 7000000 INFO @ Fri, 26 Jun 2020 07:13:55: 2000000 INFO @ Fri, 26 Jun 2020 07:13:58: 8000000 INFO @ Fri, 26 Jun 2020 07:14:01: 3000000 INFO @ Fri, 26 Jun 2020 07:14:04: 9000000 INFO @ Fri, 26 Jun 2020 07:14:06: 4000000 INFO @ Fri, 26 Jun 2020 07:14:09: 10000000 INFO @ Fri, 26 Jun 2020 07:14:11: 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 @ Fri, 26 Jun 2020 07:14:14: 11000000 INFO @ Fri, 26 Jun 2020 07:14:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX494942/SRX494942.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX494942/SRX494942.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX494942/SRX494942.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX494942/SRX494942.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 07:14:15: #1 read tag files... INFO @ Fri, 26 Jun 2020 07:14:15: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 07:14:17: 6000000 INFO @ Fri, 26 Jun 2020 07:14:20: 12000000 INFO @ Fri, 26 Jun 2020 07:14:20: 1000000 INFO @ Fri, 26 Jun 2020 07:14:22: 7000000 INFO @ Fri, 26 Jun 2020 07:14:25: 13000000 INFO @ Fri, 26 Jun 2020 07:14:25: 2000000 INFO @ Fri, 26 Jun 2020 07:14:26: #1 tag size is determined as 50 bps INFO @ Fri, 26 Jun 2020 07:14:26: #1 tag size = 50 INFO @ Fri, 26 Jun 2020 07:14:26: #1 total tags in treatment: 13228322 INFO @ Fri, 26 Jun 2020 07:14:26: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 07:14:26: #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 07:14:27: #1 tags after filtering in treatment: 13228322 INFO @ Fri, 26 Jun 2020 07:14:27: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 07:14:27: #1 finished! INFO @ Fri, 26 Jun 2020 07:14:27: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 07:14:27: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 07:14:27: 8000000 INFO @ Fri, 26 Jun 2020 07:14:28: #2 number of paired peaks: 3006 INFO @ Fri, 26 Jun 2020 07:14:28: start model_add_line... INFO @ Fri, 26 Jun 2020 07:14:28: start X-correlation... INFO @ Fri, 26 Jun 2020 07:14:28: end of X-cor INFO @ Fri, 26 Jun 2020 07:14:28: #2 finished! INFO @ Fri, 26 Jun 2020 07:14:28: #2 predicted fragment length is 168 bps INFO @ Fri, 26 Jun 2020 07:14:28: #2 alternative fragment length(s) may be 168 bps INFO @ Fri, 26 Jun 2020 07:14:28: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX494942/SRX494942.05_model.r INFO @ Fri, 26 Jun 2020 07:14:29: #3 Call peaks... INFO @ Fri, 26 Jun 2020 07:14:29: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 26 Jun 2020 07:14:31: 3000000 INFO @ Fri, 26 Jun 2020 07:14:33: 9000000 INFO @ Fri, 26 Jun 2020 07:14:36: 4000000 INFO @ Fri, 26 Jun 2020 07:14:38: 10000000 INFO @ Fri, 26 Jun 2020 07:14:42: 5000000 INFO @ Fri, 26 Jun 2020 07:14:44: 11000000 INFO @ Fri, 26 Jun 2020 07:14:47: 6000000 INFO @ Fri, 26 Jun 2020 07:14:49: 12000000 INFO @ Fri, 26 Jun 2020 07:14:52: 7000000 INFO @ Fri, 26 Jun 2020 07:14:55: 13000000 INFO @ Fri, 26 Jun 2020 07:14:56: #1 tag size is determined as 50 bps INFO @ Fri, 26 Jun 2020 07:14:56: #1 tag size = 50 INFO @ Fri, 26 Jun 2020 07:14:56: #1 total tags in treatment: 13228322 INFO @ Fri, 26 Jun 2020 07:14:56: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 07:14:56: #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 07:14:56: #1 tags after filtering in treatment: 13228322 INFO @ Fri, 26 Jun 2020 07:14:56: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 07:14:56: #1 finished! INFO @ Fri, 26 Jun 2020 07:14:56: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 07:14:56: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 07:14:57: 8000000 INFO @ Fri, 26 Jun 2020 07:14:57: #2 number of paired peaks: 3006 INFO @ Fri, 26 Jun 2020 07:14:57: start model_add_line... INFO @ Fri, 26 Jun 2020 07:14:57: start X-correlation... INFO @ Fri, 26 Jun 2020 07:14:58: end of X-cor INFO @ Fri, 26 Jun 2020 07:14:58: #2 finished! INFO @ Fri, 26 Jun 2020 07:14:58: #2 predicted fragment length is 168 bps INFO @ Fri, 26 Jun 2020 07:14:58: #2 alternative fragment length(s) may be 168 bps INFO @ Fri, 26 Jun 2020 07:14:58: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX494942/SRX494942.10_model.r INFO @ Fri, 26 Jun 2020 07:14:58: #3 Call peaks... INFO @ Fri, 26 Jun 2020 07:14:58: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 26 Jun 2020 07:15:02: 9000000 INFO @ Fri, 26 Jun 2020 07:15:06: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 07:15:07: 10000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 26 Jun 2020 07:15:12: 11000000 INFO @ Fri, 26 Jun 2020 07:15:18: 12000000 INFO @ Fri, 26 Jun 2020 07:15:23: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX494942/SRX494942.05_peaks.xls INFO @ Fri, 26 Jun 2020 07:15:23: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX494942/SRX494942.05_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 07:15:23: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX494942/SRX494942.05_summits.bed INFO @ Fri, 26 Jun 2020 07:15:23: Done! INFO @ Fri, 26 Jun 2020 07:15:23: 13000000 pass1 - making usageList (6 chroms): 2 millis pass2 - checking and writing primary data (12053 records, 4 fields): 13 millis CompletedMACS2peakCalling INFO @ Fri, 26 Jun 2020 07:15:24: #1 tag size is determined as 50 bps INFO @ Fri, 26 Jun 2020 07:15:24: #1 tag size = 50 INFO @ Fri, 26 Jun 2020 07:15:24: #1 total tags in treatment: 13228322 INFO @ Fri, 26 Jun 2020 07:15:24: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 07:15:24: #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 07:15:24: #1 tags after filtering in treatment: 13228322 INFO @ Fri, 26 Jun 2020 07:15:24: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 07:15:24: #1 finished! INFO @ Fri, 26 Jun 2020 07:15:24: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 07:15:24: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 07:15:26: #2 number of paired peaks: 3006 INFO @ Fri, 26 Jun 2020 07:15:26: start model_add_line... INFO @ Fri, 26 Jun 2020 07:15:26: start X-correlation... INFO @ Fri, 26 Jun 2020 07:15:26: end of X-cor INFO @ Fri, 26 Jun 2020 07:15:26: #2 finished! INFO @ Fri, 26 Jun 2020 07:15:26: #2 predicted fragment length is 168 bps INFO @ Fri, 26 Jun 2020 07:15:26: #2 alternative fragment length(s) may be 168 bps INFO @ Fri, 26 Jun 2020 07:15:26: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX494942/SRX494942.20_model.r INFO @ Fri, 26 Jun 2020 07:15:26: #3 Call peaks... INFO @ Fri, 26 Jun 2020 07:15:26: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 26 Jun 2020 07:15:34: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Fri, 26 Jun 2020 07:15:51: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX494942/SRX494942.10_peaks.xls INFO @ Fri, 26 Jun 2020 07:15:51: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX494942/SRX494942.10_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 07:15:51: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX494942/SRX494942.10_summits.bed INFO @ Fri, 26 Jun 2020 07:15:51: Done! pass1 - making usageList (6 chroms): 2 millis pass2 - checking and writing primary data (8408 records, 4 fields): 10 millis CompletedMACS2peakCalling INFO @ Fri, 26 Jun 2020 07:16:02: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 07:16:18: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX494942/SRX494942.20_peaks.xls INFO @ Fri, 26 Jun 2020 07:16:19: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX494942/SRX494942.20_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 07:16:19: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX494942/SRX494942.20_summits.bed INFO @ Fri, 26 Jun 2020 07:16:19: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (5058 records, 4 fields): 7 millis CompletedMACS2peakCalling