Job ID = 6497569 SRX = SRX747295 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-25T22:10:11 prefetch.2.10.7: 1) Downloading 'SRR1634993'... 2020-06-25T22:10:11 prefetch.2.10.7: Downloading via HTTPS... 2020-06-25T22:10:57 prefetch.2.10.7: HTTPS download succeed 2020-06-25T22:10:57 prefetch.2.10.7: 'SRR1634993' is valid 2020-06-25T22:10:57 prefetch.2.10.7: 1) 'SRR1634993' was downloaded successfully 2020-06-25T22:11:30 prefetch.2.10.7: 'SRR1634993' has 6 unresolved dependencies 2020-06-25T22:11:30 prefetch.2.10.7: 2) Downloading 'ncbi-acc:BX284601.4?vdb-ctx=refseq'... 2020-06-25T22:11:30 prefetch.2.10.7: Downloading via HTTPS... 2020-06-25T22:11:47 prefetch.2.10.7: HTTPS download succeed 2020-06-25T22:11:47 prefetch.2.10.7: 2) 'ncbi-acc:BX284601.4?vdb-ctx=refseq' was downloaded successfully 2020-06-25T22:11:47 prefetch.2.10.7: 3) Downloading 'ncbi-acc:BX284602.4?vdb-ctx=refseq'... 2020-06-25T22:11:47 prefetch.2.10.7: Downloading via HTTPS... 2020-06-25T22:12:05 prefetch.2.10.7: HTTPS download succeed 2020-06-25T22:12:05 prefetch.2.10.7: 3) 'ncbi-acc:BX284602.4?vdb-ctx=refseq' was downloaded successfully 2020-06-25T22:12:05 prefetch.2.10.7: 4) Downloading 'ncbi-acc:BX284603.3?vdb-ctx=refseq'... 2020-06-25T22:12:05 prefetch.2.10.7: Downloading via HTTPS... 2020-06-25T22:12:21 prefetch.2.10.7: HTTPS download succeed 2020-06-25T22:12:21 prefetch.2.10.7: 4) 'ncbi-acc:BX284603.3?vdb-ctx=refseq' was downloaded successfully 2020-06-25T22:12:21 prefetch.2.10.7: 5) Downloading 'ncbi-acc:BX284604.3?vdb-ctx=refseq'... 2020-06-25T22:12:21 prefetch.2.10.7: Downloading via HTTPS... 2020-06-25T22:12:37 prefetch.2.10.7: HTTPS download succeed 2020-06-25T22:12:37 prefetch.2.10.7: 5) 'ncbi-acc:BX284604.3?vdb-ctx=refseq' was downloaded successfully 2020-06-25T22:12:37 prefetch.2.10.7: 6) Downloading 'ncbi-acc:BX284605.4?vdb-ctx=refseq'... 2020-06-25T22:12:37 prefetch.2.10.7: Downloading via HTTPS... 2020-06-25T22:12:50 prefetch.2.10.7: HTTPS download succeed 2020-06-25T22:12:50 prefetch.2.10.7: 6) 'ncbi-acc:BX284605.4?vdb-ctx=refseq' was downloaded successfully 2020-06-25T22:12:50 prefetch.2.10.7: 7) Downloading 'ncbi-acc:BX284606.4?vdb-ctx=refseq'... 2020-06-25T22:12:50 prefetch.2.10.7: Downloading via HTTPS... 2020-06-25T22:13:03 prefetch.2.10.7: HTTPS download succeed 2020-06-25T22:13:03 prefetch.2.10.7: 7) 'ncbi-acc:BX284606.4?vdb-ctx=refseq' was downloaded successfully Read 16180346 spots for SRR1634993/SRR1634993.sra Written 16180346 spots for SRR1634993/SRR1634993.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: 00:00:01 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:02:04 16180346 reads; of these: 16180346 (100.00%) were unpaired; of these: 815211 (5.04%) aligned 0 times 13352956 (82.53%) aligned exactly 1 time 2012179 (12.44%) aligned >1 times 94.96% overall alignment rate Time searching: 00:02:05 Overall time: 00:02:05 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] 2477720 / 15365135 = 0.1613 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 07:18:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX747295/SRX747295.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX747295/SRX747295.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX747295/SRX747295.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX747295/SRX747295.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 07:18:17: #1 read tag files... INFO @ Fri, 26 Jun 2020 07:18:17: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 07:18:22: 1000000 INFO @ Fri, 26 Jun 2020 07:18:27: 2000000 INFO @ Fri, 26 Jun 2020 07:18:32: 3000000 INFO @ Fri, 26 Jun 2020 07:18:36: 4000000 INFO @ Fri, 26 Jun 2020 07:18:41: 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 07:18:46: 6000000 INFO @ Fri, 26 Jun 2020 07:18:51: 7000000 INFO @ Fri, 26 Jun 2020 07:18:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX747295/SRX747295.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX747295/SRX747295.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX747295/SRX747295.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX747295/SRX747295.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 07:18:52: #1 read tag files... INFO @ Fri, 26 Jun 2020 07:18:52: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 07:18:56: 8000000 INFO @ Fri, 26 Jun 2020 07:18:57: 1000000 INFO @ Fri, 26 Jun 2020 07:19:01: 9000000 INFO @ Fri, 26 Jun 2020 07:19:02: 2000000 INFO @ Fri, 26 Jun 2020 07:19:06: 10000000 INFO @ Fri, 26 Jun 2020 07:19:07: 3000000 INFO @ Fri, 26 Jun 2020 07:19:12: 11000000 INFO @ Fri, 26 Jun 2020 07:19:13: 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 07:19:17: 12000000 INFO @ Fri, 26 Jun 2020 07:19:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX747295/SRX747295.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX747295/SRX747295.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX747295/SRX747295.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX747295/SRX747295.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 07:19:17: #1 read tag files... INFO @ Fri, 26 Jun 2020 07:19:17: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 07:19:18: 5000000 INFO @ Fri, 26 Jun 2020 07:19:22: #1 tag size is determined as 36 bps INFO @ Fri, 26 Jun 2020 07:19:22: #1 tag size = 36 INFO @ Fri, 26 Jun 2020 07:19:22: #1 total tags in treatment: 12887415 INFO @ Fri, 26 Jun 2020 07:19:22: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 07:19:22: #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 07:19:22: #1 tags after filtering in treatment: 12887415 INFO @ Fri, 26 Jun 2020 07:19:22: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 07:19:22: #1 finished! INFO @ Fri, 26 Jun 2020 07:19:22: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 07:19:22: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 07:19:23: 1000000 INFO @ Fri, 26 Jun 2020 07:19:23: #2 number of paired peaks: 1216 INFO @ Fri, 26 Jun 2020 07:19:23: start model_add_line... INFO @ Fri, 26 Jun 2020 07:19:23: start X-correlation... INFO @ Fri, 26 Jun 2020 07:19:23: end of X-cor INFO @ Fri, 26 Jun 2020 07:19:23: #2 finished! INFO @ Fri, 26 Jun 2020 07:19:23: #2 predicted fragment length is 130 bps INFO @ Fri, 26 Jun 2020 07:19:23: #2 alternative fragment length(s) may be 130 bps INFO @ Fri, 26 Jun 2020 07:19:23: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX747295/SRX747295.05_model.r INFO @ Fri, 26 Jun 2020 07:19:23: #3 Call peaks... INFO @ Fri, 26 Jun 2020 07:19:23: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 26 Jun 2020 07:19:23: 6000000 INFO @ Fri, 26 Jun 2020 07:19:28: 2000000 INFO @ Fri, 26 Jun 2020 07:19:29: 7000000 INFO @ Fri, 26 Jun 2020 07:19:33: 3000000 INFO @ Fri, 26 Jun 2020 07:19:34: 8000000 INFO @ Fri, 26 Jun 2020 07:19:38: 4000000 INFO @ Fri, 26 Jun 2020 07:19:39: 9000000 INFO @ Fri, 26 Jun 2020 07:19:43: 5000000 INFO @ Fri, 26 Jun 2020 07:19:44: 10000000 INFO @ Fri, 26 Jun 2020 07:19:49: 6000000 INFO @ Fri, 26 Jun 2020 07:19:49: 11000000 INFO @ Fri, 26 Jun 2020 07:19:51: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 07:19:54: 7000000 INFO @ Fri, 26 Jun 2020 07:19:55: 12000000 INFO @ Fri, 26 Jun 2020 07:19:59: 8000000 INFO @ Fri, 26 Jun 2020 07:19:59: #1 tag size is determined as 36 bps INFO @ Fri, 26 Jun 2020 07:19:59: #1 tag size = 36 INFO @ Fri, 26 Jun 2020 07:19:59: #1 total tags in treatment: 12887415 INFO @ Fri, 26 Jun 2020 07:19:59: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 07:19:59: #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 07:20:00: #1 tags after filtering in treatment: 12887415 INFO @ Fri, 26 Jun 2020 07:20:00: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 07:20:00: #1 finished! INFO @ Fri, 26 Jun 2020 07:20:00: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 07:20:00: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 07:20:01: #2 number of paired peaks: 1216 INFO @ Fri, 26 Jun 2020 07:20:01: start model_add_line... INFO @ Fri, 26 Jun 2020 07:20:01: start X-correlation... INFO @ Fri, 26 Jun 2020 07:20:01: end of X-cor INFO @ Fri, 26 Jun 2020 07:20:01: #2 finished! INFO @ Fri, 26 Jun 2020 07:20:01: #2 predicted fragment length is 130 bps INFO @ Fri, 26 Jun 2020 07:20:01: #2 alternative fragment length(s) may be 130 bps INFO @ Fri, 26 Jun 2020 07:20:01: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX747295/SRX747295.10_model.r INFO @ Fri, 26 Jun 2020 07:20:01: #3 Call peaks... INFO @ Fri, 26 Jun 2020 07:20:01: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 26 Jun 2020 07:20:04: 9000000 INFO @ Fri, 26 Jun 2020 07:20:06: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX747295/SRX747295.05_peaks.xls INFO @ Fri, 26 Jun 2020 07:20:06: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX747295/SRX747295.05_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 07:20:06: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX747295/SRX747295.05_summits.bed INFO @ Fri, 26 Jun 2020 07:20:06: Done! pass1 - making usageList (6 chroms): 2 millis pass2 - checking and writing primary data (14237 records, 4 fields): 22 millis CompletedMACS2peakCalling INFO @ Fri, 26 Jun 2020 07:20:09: 10000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 26 Jun 2020 07:20:14: 11000000 INFO @ Fri, 26 Jun 2020 07:20:20: 12000000 INFO @ Fri, 26 Jun 2020 07:20:24: #1 tag size is determined as 36 bps INFO @ Fri, 26 Jun 2020 07:20:24: #1 tag size = 36 INFO @ Fri, 26 Jun 2020 07:20:24: #1 total tags in treatment: 12887415 INFO @ Fri, 26 Jun 2020 07:20:24: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 07:20:24: #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 07:20:24: #1 tags after filtering in treatment: 12887415 INFO @ Fri, 26 Jun 2020 07:20:24: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 07:20:24: #1 finished! INFO @ Fri, 26 Jun 2020 07:20:24: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 07:20:24: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 07:20:25: #2 number of paired peaks: 1216 INFO @ Fri, 26 Jun 2020 07:20:25: start model_add_line... INFO @ Fri, 26 Jun 2020 07:20:25: start X-correlation... INFO @ Fri, 26 Jun 2020 07:20:25: end of X-cor INFO @ Fri, 26 Jun 2020 07:20:25: #2 finished! INFO @ Fri, 26 Jun 2020 07:20:25: #2 predicted fragment length is 130 bps INFO @ Fri, 26 Jun 2020 07:20:25: #2 alternative fragment length(s) may be 130 bps INFO @ Fri, 26 Jun 2020 07:20:25: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX747295/SRX747295.20_model.r INFO @ Fri, 26 Jun 2020 07:20:25: #3 Call peaks... INFO @ Fri, 26 Jun 2020 07:20:25: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 26 Jun 2020 07:20:31: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Fri, 26 Jun 2020 07:20:47: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX747295/SRX747295.10_peaks.xls INFO @ Fri, 26 Jun 2020 07:20:47: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX747295/SRX747295.10_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 07:20:47: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX747295/SRX747295.10_summits.bed INFO @ Fri, 26 Jun 2020 07:20:47: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (7856 records, 4 fields): 9 millis CompletedMACS2peakCalling INFO @ Fri, 26 Jun 2020 07:20:56: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 07:21:11: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX747295/SRX747295.20_peaks.xls INFO @ Fri, 26 Jun 2020 07:21:11: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX747295/SRX747295.20_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 07:21:11: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX747295/SRX747295.20_summits.bed INFO @ Fri, 26 Jun 2020 07:21:11: Done! pass1 - making usageList (6 chroms): 0 millis pass2 - checking and writing primary data (2811 records, 4 fields): 4 millis CompletedMACS2peakCalling