Job ID = 6497471 SRX = SRX494972 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-25T22:05:28 prefetch.2.10.7: 1) Downloading 'SRR1198504'... 2020-06-25T22:05:42 prefetch.2.10.7: Downloading via HTTPS... 2020-06-25T22:07:42 prefetch.2.10.7: HTTPS download succeed 2020-06-25T22:07:42 prefetch.2.10.7: 1) 'SRR1198504' was downloaded successfully Read 26851729 spots for SRR1198504/SRR1198504.sra Written 26851729 spots for SRR1198504/SRR1198504.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: 00:05:59 26851729 reads; of these: 26851729 (100.00%) were unpaired; of these: 2408765 (8.97%) aligned 0 times 21065480 (78.45%) aligned exactly 1 time 3377484 (12.58%) aligned >1 times 91.03% overall alignment rate Time searching: 00:05:59 Overall time: 00:05:59 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] 16633010 / 24442964 = 0.6805 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 07:19:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX494972/SRX494972.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX494972/SRX494972.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX494972/SRX494972.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX494972/SRX494972.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 07:19:40: #1 read tag files... INFO @ Fri, 26 Jun 2020 07:19:40: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 07:19:46: 1000000 INFO @ Fri, 26 Jun 2020 07:19:52: 2000000 INFO @ Fri, 26 Jun 2020 07:19:58: 3000000 INFO @ Fri, 26 Jun 2020 07:20:03: 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 07:20:09: 5000000 INFO @ Fri, 26 Jun 2020 07:20:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX494972/SRX494972.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX494972/SRX494972.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX494972/SRX494972.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX494972/SRX494972.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 07:20:10: #1 read tag files... INFO @ Fri, 26 Jun 2020 07:20:10: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 07:20:15: 6000000 INFO @ Fri, 26 Jun 2020 07:20:16: 1000000 INFO @ Fri, 26 Jun 2020 07:20:21: 7000000 INFO @ Fri, 26 Jun 2020 07:20:21: 2000000 INFO @ Fri, 26 Jun 2020 07:20:26: #1 tag size is determined as 50 bps INFO @ Fri, 26 Jun 2020 07:20:26: #1 tag size = 50 INFO @ Fri, 26 Jun 2020 07:20:26: #1 total tags in treatment: 7809954 INFO @ Fri, 26 Jun 2020 07:20:26: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 07:20:26: #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 07:20:26: #1 tags after filtering in treatment: 7809954 INFO @ Fri, 26 Jun 2020 07:20:26: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 07:20:26: #1 finished! INFO @ Fri, 26 Jun 2020 07:20:26: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 07:20:26: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 07:20:27: 3000000 INFO @ Fri, 26 Jun 2020 07:20:27: #2 number of paired peaks: 3340 INFO @ Fri, 26 Jun 2020 07:20:27: start model_add_line... INFO @ Fri, 26 Jun 2020 07:20:27: start X-correlation... INFO @ Fri, 26 Jun 2020 07:20:27: end of X-cor INFO @ Fri, 26 Jun 2020 07:20:27: #2 finished! INFO @ Fri, 26 Jun 2020 07:20:27: #2 predicted fragment length is 118 bps INFO @ Fri, 26 Jun 2020 07:20:27: #2 alternative fragment length(s) may be 118 bps INFO @ Fri, 26 Jun 2020 07:20:27: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX494972/SRX494972.05_model.r INFO @ Fri, 26 Jun 2020 07:20:27: #3 Call peaks... INFO @ Fri, 26 Jun 2020 07:20:27: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 26 Jun 2020 07:20:32: 4000000 INFO @ Fri, 26 Jun 2020 07:20:37: 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 07:20:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX494972/SRX494972.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX494972/SRX494972.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX494972/SRX494972.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX494972/SRX494972.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 07:20:40: #1 read tag files... INFO @ Fri, 26 Jun 2020 07:20:40: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 07:20:42: 6000000 INFO @ Fri, 26 Jun 2020 07:20:45: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 07:20:46: 1000000 INFO @ Fri, 26 Jun 2020 07:20:48: 7000000 INFO @ Fri, 26 Jun 2020 07:20:52: #1 tag size is determined as 50 bps INFO @ Fri, 26 Jun 2020 07:20:52: #1 tag size = 50 INFO @ Fri, 26 Jun 2020 07:20:52: #1 total tags in treatment: 7809954 INFO @ Fri, 26 Jun 2020 07:20:52: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 07:20:52: #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 07:20:53: #1 tags after filtering in treatment: 7809954 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 07:20:53: 2000000 INFO @ Fri, 26 Jun 2020 07:20:53: #2 number of paired peaks: 3340 INFO @ Fri, 26 Jun 2020 07:20:53: start model_add_line... INFO @ Fri, 26 Jun 2020 07:20:53: 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 118 bps INFO @ Fri, 26 Jun 2020 07:20:54: #2 alternative fragment length(s) may be 118 bps INFO @ Fri, 26 Jun 2020 07:20:54: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX494972/SRX494972.10_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... INFO @ Fri, 26 Jun 2020 07:20:55: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX494972/SRX494972.05_peaks.xls INFO @ Fri, 26 Jun 2020 07:20:55: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX494972/SRX494972.05_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 07:20:55: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX494972/SRX494972.05_summits.bed INFO @ Fri, 26 Jun 2020 07:20:55: Done! pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (6153 records, 4 fields): 10 millis CompletedMACS2peakCalling INFO @ Fri, 26 Jun 2020 07:20:58: 3000000 INFO @ Fri, 26 Jun 2020 07:21:04: 4000000 INFO @ Fri, 26 Jun 2020 07:21:09: 5000000 INFO @ Fri, 26 Jun 2020 07:21:14: 6000000 INFO @ Fri, 26 Jun 2020 07:21:14: #3 Call peaks for each chromosome... BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 26 Jun 2020 07:21:19: 7000000 INFO @ Fri, 26 Jun 2020 07:21:23: #1 tag size is determined as 50 bps INFO @ Fri, 26 Jun 2020 07:21:23: #1 tag size = 50 INFO @ Fri, 26 Jun 2020 07:21:23: #1 total tags in treatment: 7809954 INFO @ Fri, 26 Jun 2020 07:21:23: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 07:21:23: #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 07:21:24: #1 tags after filtering in treatment: 7809954 INFO @ Fri, 26 Jun 2020 07:21:24: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 07:21:24: #1 finished! INFO @ Fri, 26 Jun 2020 07:21:24: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 07:21:24: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 07:21:24: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX494972/SRX494972.10_peaks.xls INFO @ Fri, 26 Jun 2020 07:21:24: #2 number of paired peaks: 3340 INFO @ Fri, 26 Jun 2020 07:21:24: start model_add_line... INFO @ Fri, 26 Jun 2020 07:21:24: start X-correlation... INFO @ Fri, 26 Jun 2020 07:21:24: end of X-cor INFO @ Fri, 26 Jun 2020 07:21:24: #2 finished! INFO @ Fri, 26 Jun 2020 07:21:24: #2 predicted fragment length is 118 bps INFO @ Fri, 26 Jun 2020 07:21:24: #2 alternative fragment length(s) may be 118 bps INFO @ Fri, 26 Jun 2020 07:21:24: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX494972/SRX494972.20_model.r INFO @ Fri, 26 Jun 2020 07:21:25: #3 Call peaks... INFO @ Fri, 26 Jun 2020 07:21:25: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 26 Jun 2020 07:21:25: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX494972/SRX494972.10_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 07:21:25: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX494972/SRX494972.10_summits.bed INFO @ Fri, 26 Jun 2020 07:21:25: Done! pass1 - making usageList (7 chroms): 9 millis pass2 - checking and writing primary data (4763 records, 4 fields): 13 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Fri, 26 Jun 2020 07:21:46: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 07:21:56: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX494972/SRX494972.20_peaks.xls INFO @ Fri, 26 Jun 2020 07:21:56: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX494972/SRX494972.20_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 07:21:56: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX494972/SRX494972.20_summits.bed INFO @ Fri, 26 Jun 2020 07:21:56: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (3449 records, 4 fields): 14 millis CompletedMACS2peakCalling