Job ID = 6497557 SRX = SRX743640 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-25T22:47:13 prefetch.2.10.7: 1) Downloading 'SRR1630855'... 2020-06-25T22:47:13 prefetch.2.10.7: Downloading via HTTPS... 2020-06-25T22:49:53 prefetch.2.10.7: HTTPS download succeed 2020-06-25T22:49:53 prefetch.2.10.7: 1) 'SRR1630855' was downloaded successfully Read 15677259 spots for SRR1630855/SRR1630855.sra Written 15677259 spots for SRR1630855/SRR1630855.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: 00:03:46 15677259 reads; of these: 15677259 (100.00%) were unpaired; of these: 4597826 (29.33%) aligned 0 times 9577267 (61.09%) aligned exactly 1 time 1502166 (9.58%) aligned >1 times 70.67% overall alignment rate Time searching: 00:03:46 Overall time: 00:03:46 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] 3044253 / 11079433 = 0.2748 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 07:58:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX743640/SRX743640.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX743640/SRX743640.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX743640/SRX743640.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX743640/SRX743640.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 07:58:02: #1 read tag files... INFO @ Fri, 26 Jun 2020 07:58:02: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 07:58:08: 1000000 INFO @ Fri, 26 Jun 2020 07:58:15: 2000000 INFO @ Fri, 26 Jun 2020 07:58:21: 3000000 INFO @ Fri, 26 Jun 2020 07:58:28: 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 07:58:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX743640/SRX743640.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX743640/SRX743640.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX743640/SRX743640.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX743640/SRX743640.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 07:58:32: #1 read tag files... INFO @ Fri, 26 Jun 2020 07:58:32: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 07:58:35: 5000000 INFO @ Fri, 26 Jun 2020 07:58:40: 1000000 INFO @ Fri, 26 Jun 2020 07:58:42: 6000000 INFO @ Fri, 26 Jun 2020 07:58:49: 2000000 INFO @ Fri, 26 Jun 2020 07:58:49: 7000000 INFO @ Fri, 26 Jun 2020 07:58:57: 8000000 INFO @ Fri, 26 Jun 2020 07:58:57: #1 tag size is determined as 52 bps INFO @ Fri, 26 Jun 2020 07:58:57: #1 tag size = 52 INFO @ Fri, 26 Jun 2020 07:58:57: #1 total tags in treatment: 8035180 INFO @ Fri, 26 Jun 2020 07:58:57: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 07:58:57: #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 07:58:57: #1 tags after filtering in treatment: 8035180 INFO @ Fri, 26 Jun 2020 07:58:57: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 07:58:57: #1 finished! INFO @ Fri, 26 Jun 2020 07:58:57: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 07:58:57: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 07:58:57: 3000000 INFO @ Fri, 26 Jun 2020 07:58:58: #2 number of paired peaks: 1065 INFO @ Fri, 26 Jun 2020 07:58:58: start model_add_line... INFO @ Fri, 26 Jun 2020 07:58:58: start X-correlation... INFO @ Fri, 26 Jun 2020 07:58:58: end of X-cor INFO @ Fri, 26 Jun 2020 07:58:58: #2 finished! INFO @ Fri, 26 Jun 2020 07:58:58: #2 predicted fragment length is 117 bps INFO @ Fri, 26 Jun 2020 07:58:58: #2 alternative fragment length(s) may be 4,117 bps INFO @ Fri, 26 Jun 2020 07:58:58: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX743640/SRX743640.05_model.r INFO @ Fri, 26 Jun 2020 07:58:58: #3 Call peaks... INFO @ Fri, 26 Jun 2020 07:58:58: #3 Pre-compute pvalue-qvalue table... 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 07:59:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX743640/SRX743640.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX743640/SRX743640.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX743640/SRX743640.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX743640/SRX743640.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 07:59:02: #1 read tag files... INFO @ Fri, 26 Jun 2020 07:59:02: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 07:59:06: 4000000 INFO @ Fri, 26 Jun 2020 07:59:10: 1000000 INFO @ Fri, 26 Jun 2020 07:59:15: 5000000 INFO @ Fri, 26 Jun 2020 07:59:18: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 07:59:19: 2000000 INFO @ Fri, 26 Jun 2020 07:59:23: 6000000 INFO @ Fri, 26 Jun 2020 07:59:27: 3000000 INFO @ Fri, 26 Jun 2020 07:59:29: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX743640/SRX743640.05_peaks.xls INFO @ Fri, 26 Jun 2020 07:59:29: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX743640/SRX743640.05_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 07:59:29: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX743640/SRX743640.05_summits.bed INFO @ Fri, 26 Jun 2020 07:59:29: Done! pass1 - making usageList (6 chroms): 3 millis pass2 - checking and writing primary data (13614 records, 4 fields): 15 millis CompletedMACS2peakCalling INFO @ Fri, 26 Jun 2020 07:59:32: 7000000 INFO @ Fri, 26 Jun 2020 07:59:36: 4000000 INFO @ Fri, 26 Jun 2020 07:59:40: 8000000 INFO @ Fri, 26 Jun 2020 07:59:40: #1 tag size is determined as 52 bps INFO @ Fri, 26 Jun 2020 07:59:40: #1 tag size = 52 INFO @ Fri, 26 Jun 2020 07:59:40: #1 total tags in treatment: 8035180 INFO @ Fri, 26 Jun 2020 07:59:40: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 07:59:40: #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 07:59:40: #1 tags after filtering in treatment: 8035180 INFO @ Fri, 26 Jun 2020 07:59:40: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 07:59:40: #1 finished! INFO @ Fri, 26 Jun 2020 07:59:40: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 07:59:40: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 07:59:41: #2 number of paired peaks: 1065 INFO @ Fri, 26 Jun 2020 07:59:41: start model_add_line... INFO @ Fri, 26 Jun 2020 07:59:41: start X-correlation... INFO @ Fri, 26 Jun 2020 07:59:41: end of X-cor INFO @ Fri, 26 Jun 2020 07:59:41: #2 finished! INFO @ Fri, 26 Jun 2020 07:59:41: #2 predicted fragment length is 117 bps INFO @ Fri, 26 Jun 2020 07:59:41: #2 alternative fragment length(s) may be 4,117 bps INFO @ Fri, 26 Jun 2020 07:59:41: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX743640/SRX743640.10_model.r INFO @ Fri, 26 Jun 2020 07:59:41: #3 Call peaks... INFO @ Fri, 26 Jun 2020 07:59:41: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 26 Jun 2020 07:59:44: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 26 Jun 2020 07:59:52: 6000000 INFO @ Fri, 26 Jun 2020 08:00:00: 7000000 INFO @ Fri, 26 Jun 2020 08:00:03: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 08:00:08: 8000000 INFO @ Fri, 26 Jun 2020 08:00:08: #1 tag size is determined as 52 bps INFO @ Fri, 26 Jun 2020 08:00:08: #1 tag size = 52 INFO @ Fri, 26 Jun 2020 08:00:08: #1 total tags in treatment: 8035180 INFO @ Fri, 26 Jun 2020 08:00:08: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 08:00:08: #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 08:00:09: #1 tags after filtering in treatment: 8035180 INFO @ Fri, 26 Jun 2020 08:00:09: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 08:00:09: #1 finished! INFO @ Fri, 26 Jun 2020 08:00:09: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 08:00:09: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 08:00:09: #2 number of paired peaks: 1065 INFO @ Fri, 26 Jun 2020 08:00:09: start model_add_line... INFO @ Fri, 26 Jun 2020 08:00:09: start X-correlation... INFO @ Fri, 26 Jun 2020 08:00:09: end of X-cor INFO @ Fri, 26 Jun 2020 08:00:09: #2 finished! INFO @ Fri, 26 Jun 2020 08:00:09: #2 predicted fragment length is 117 bps INFO @ Fri, 26 Jun 2020 08:00:09: #2 alternative fragment length(s) may be 4,117 bps INFO @ Fri, 26 Jun 2020 08:00:09: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX743640/SRX743640.20_model.r INFO @ Fri, 26 Jun 2020 08:00:09: #3 Call peaks... INFO @ Fri, 26 Jun 2020 08:00:09: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Fri, 26 Jun 2020 08:00:15: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX743640/SRX743640.10_peaks.xls INFO @ Fri, 26 Jun 2020 08:00:15: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX743640/SRX743640.10_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 08:00:15: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX743640/SRX743640.10_summits.bed INFO @ Fri, 26 Jun 2020 08:00:15: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (5631 records, 4 fields): 7 millis CompletedMACS2peakCalling INFO @ Fri, 26 Jun 2020 08:00:31: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 08:00:43: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX743640/SRX743640.20_peaks.xls INFO @ Fri, 26 Jun 2020 08:00:43: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX743640/SRX743640.20_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 08:00:43: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX743640/SRX743640.20_summits.bed INFO @ Fri, 26 Jun 2020 08:00:43: Done! pass1 - making usageList (6 chroms): 0 millis pass2 - checking and writing primary data (1125 records, 4 fields): 3 millis CompletedMACS2peakCalling