Job ID = 10165737 SRX = SRX8832090 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 19789477 spots for SRR12332048/SRR12332048.sra Written 19789477 spots for SRR12332048/SRR12332048.sra fastq に変換しました。 bowtie でマッピング中... Your job 10165987 ("srTce11") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:04:04 19789477 reads; of these: 19789477 (100.00%) were unpaired; of these: 1345728 (6.80%) aligned 0 times 16180048 (81.76%) aligned exactly 1 time 2263701 (11.44%) aligned >1 times 93.20% overall alignment rate Time searching: 00:04:04 Overall time: 00:04:04 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] 10695457 / 18443749 = 0.5799 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 @ Thu, 08 Oct 2020 19:52:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832090/SRX8832090.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832090/SRX8832090.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832090/SRX8832090.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832090/SRX8832090.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 @ Thu, 08 Oct 2020 19:52:18: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:52:18: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:52:23: 1000000 INFO @ Thu, 08 Oct 2020 19:52:28: 2000000 INFO @ Thu, 08 Oct 2020 19:52:33: 3000000 INFO @ Thu, 08 Oct 2020 19:52:39: 4000000 INFO @ Thu, 08 Oct 2020 19:52:44: 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 @ Thu, 08 Oct 2020 19:52:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832090/SRX8832090.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832090/SRX8832090.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832090/SRX8832090.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832090/SRX8832090.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 @ Thu, 08 Oct 2020 19:52:48: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:52:48: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:52:49: 6000000 INFO @ Thu, 08 Oct 2020 19:52:53: 1000000 INFO @ Thu, 08 Oct 2020 19:52:55: 7000000 INFO @ Thu, 08 Oct 2020 19:52:59: 2000000 INFO @ Thu, 08 Oct 2020 19:52:59: #1 tag size is determined as 49 bps INFO @ Thu, 08 Oct 2020 19:52:59: #1 tag size = 49 INFO @ Thu, 08 Oct 2020 19:52:59: #1 total tags in treatment: 7748292 INFO @ Thu, 08 Oct 2020 19:52:59: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:52:59: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 08 Oct 2020 19:52:59: #1 tags after filtering in treatment: 7748292 INFO @ Thu, 08 Oct 2020 19:52:59: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:52:59: #1 finished! INFO @ Thu, 08 Oct 2020 19:52:59: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:52:59: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:53:00: #2 number of paired peaks: 4975 INFO @ Thu, 08 Oct 2020 19:53:00: start model_add_line... INFO @ Thu, 08 Oct 2020 19:53:00: start X-correlation... INFO @ Thu, 08 Oct 2020 19:53:00: end of X-cor INFO @ Thu, 08 Oct 2020 19:53:00: #2 finished! INFO @ Thu, 08 Oct 2020 19:53:00: #2 predicted fragment length is 144 bps INFO @ Thu, 08 Oct 2020 19:53:00: #2 alternative fragment length(s) may be 144 bps INFO @ Thu, 08 Oct 2020 19:53:00: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832090/SRX8832090.05_model.r INFO @ Thu, 08 Oct 2020 19:53:00: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:53:00: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 19:53:04: 3000000 INFO @ Thu, 08 Oct 2020 19:53:10: 4000000 INFO @ Thu, 08 Oct 2020 19:53:15: 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 @ Thu, 08 Oct 2020 19:53:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832090/SRX8832090.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832090/SRX8832090.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832090/SRX8832090.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832090/SRX8832090.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 @ Thu, 08 Oct 2020 19:53:18: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:53:18: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:53:20: 6000000 INFO @ Thu, 08 Oct 2020 19:53:21: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 19:53:23: 1000000 INFO @ Thu, 08 Oct 2020 19:53:26: 7000000 INFO @ Thu, 08 Oct 2020 19:53:29: 2000000 INFO @ Thu, 08 Oct 2020 19:53:31: #1 tag size is determined as 49 bps INFO @ Thu, 08 Oct 2020 19:53:31: #1 tag size = 49 INFO @ Thu, 08 Oct 2020 19:53:31: #1 total tags in treatment: 7748292 INFO @ Thu, 08 Oct 2020 19:53:31: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:53:31: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 08 Oct 2020 19:53:31: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832090/SRX8832090.05_peaks.xls INFO @ Thu, 08 Oct 2020 19:53:31: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832090/SRX8832090.05_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:53:31: #1 tags after filtering in treatment: 7748292 INFO @ Thu, 08 Oct 2020 19:53:31: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:53:31: #1 finished! INFO @ Thu, 08 Oct 2020 19:53:31: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:53:31: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:53:31: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832090/SRX8832090.05_summits.bed INFO @ Thu, 08 Oct 2020 19:53:31: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (8246 records, 4 fields): 11 millis CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 19:53:32: #2 number of paired peaks: 4975 INFO @ Thu, 08 Oct 2020 19:53:32: start model_add_line... INFO @ Thu, 08 Oct 2020 19:53:32: start X-correlation... INFO @ Thu, 08 Oct 2020 19:53:32: end of X-cor INFO @ Thu, 08 Oct 2020 19:53:32: #2 finished! INFO @ Thu, 08 Oct 2020 19:53:32: #2 predicted fragment length is 144 bps INFO @ Thu, 08 Oct 2020 19:53:32: #2 alternative fragment length(s) may be 144 bps INFO @ Thu, 08 Oct 2020 19:53:32: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832090/SRX8832090.10_model.r INFO @ Thu, 08 Oct 2020 19:53:32: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:53:32: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 19:53:35: 3000000 INFO @ Thu, 08 Oct 2020 19:53:40: 4000000 INFO @ Thu, 08 Oct 2020 19:53:45: 5000000 INFO @ Thu, 08 Oct 2020 19:53:51: 6000000 INFO @ Thu, 08 Oct 2020 19:53:52: #3 Call peaks for each chromosome... BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 08 Oct 2020 19:53:56: 7000000 INFO @ Thu, 08 Oct 2020 19:54:00: #1 tag size is determined as 49 bps INFO @ Thu, 08 Oct 2020 19:54:00: #1 tag size = 49 INFO @ Thu, 08 Oct 2020 19:54:00: #1 total tags in treatment: 7748292 INFO @ Thu, 08 Oct 2020 19:54:00: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:54:00: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 08 Oct 2020 19:54:00: #1 tags after filtering in treatment: 7748292 INFO @ Thu, 08 Oct 2020 19:54:00: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:54:00: #1 finished! INFO @ Thu, 08 Oct 2020 19:54:00: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:54:00: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:54:01: #2 number of paired peaks: 4975 INFO @ Thu, 08 Oct 2020 19:54:01: start model_add_line... INFO @ Thu, 08 Oct 2020 19:54:01: start X-correlation... INFO @ Thu, 08 Oct 2020 19:54:01: end of X-cor INFO @ Thu, 08 Oct 2020 19:54:01: #2 finished! INFO @ Thu, 08 Oct 2020 19:54:01: #2 predicted fragment length is 144 bps INFO @ Thu, 08 Oct 2020 19:54:01: #2 alternative fragment length(s) may be 144 bps INFO @ Thu, 08 Oct 2020 19:54:01: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832090/SRX8832090.20_model.r INFO @ Thu, 08 Oct 2020 19:54:01: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:54:01: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 19:54:02: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832090/SRX8832090.10_peaks.xls INFO @ Thu, 08 Oct 2020 19:54:02: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832090/SRX8832090.10_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:54:02: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832090/SRX8832090.10_summits.bed INFO @ Thu, 08 Oct 2020 19:54:02: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (7011 records, 4 fields): 9 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Thu, 08 Oct 2020 19:54:21: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 19:54:31: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832090/SRX8832090.20_peaks.xls INFO @ Thu, 08 Oct 2020 19:54:31: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832090/SRX8832090.20_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:54:31: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832090/SRX8832090.20_summits.bed INFO @ Thu, 08 Oct 2020 19:54:31: Done! pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (5589 records, 4 fields): 7 millis CompletedMACS2peakCalling