Job ID = 10165747 SRX = SRX8832098 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 7752974 spots for SRR12332022/SRR12332022.sra Written 7752974 spots for SRR12332022/SRR12332022.sra fastq に変換しました。 bowtie でマッピング中... Your job 10165978 ("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: 00:01:47 7752974 reads; of these: 7752974 (100.00%) were unpaired; of these: 579538 (7.48%) aligned 0 times 6052507 (78.07%) aligned exactly 1 time 1120929 (14.46%) aligned >1 times 92.52% overall alignment rate Time searching: 00:01:47 Overall time: 00:01:47 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] 2669536 / 7173436 = 0.3721 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 19:49:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832098/SRX8832098.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832098/SRX8832098.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832098/SRX8832098.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832098/SRX8832098.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 19:49:54: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:49:54: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:49:59: 1000000 INFO @ Thu, 08 Oct 2020 19:50:05: 2000000 INFO @ Thu, 08 Oct 2020 19:50:10: 3000000 INFO @ Thu, 08 Oct 2020 19:50:15: 4000000 INFO @ Thu, 08 Oct 2020 19:50:18: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 19:50:18: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 19:50:18: #1 total tags in treatment: 4503900 INFO @ Thu, 08 Oct 2020 19:50:18: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:50:18: #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 19:50:18: #1 tags after filtering in treatment: 4503900 INFO @ Thu, 08 Oct 2020 19:50:18: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:50:18: #1 finished! INFO @ Thu, 08 Oct 2020 19:50:18: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:50:18: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:50:18: #2 number of paired peaks: 3637 INFO @ Thu, 08 Oct 2020 19:50:18: start model_add_line... INFO @ Thu, 08 Oct 2020 19:50:18: start X-correlation... INFO @ Thu, 08 Oct 2020 19:50:18: end of X-cor INFO @ Thu, 08 Oct 2020 19:50:18: #2 finished! INFO @ Thu, 08 Oct 2020 19:50:18: #2 predicted fragment length is 159 bps INFO @ Thu, 08 Oct 2020 19:50:18: #2 alternative fragment length(s) may be 159 bps INFO @ Thu, 08 Oct 2020 19:50:18: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832098/SRX8832098.05_model.r INFO @ Thu, 08 Oct 2020 19:50:18: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:50:18: #3 Pre-compute pvalue-qvalue table... 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 19:50:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832098/SRX8832098.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832098/SRX8832098.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832098/SRX8832098.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832098/SRX8832098.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 19:50:23: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:50:23: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:50:28: 1000000 INFO @ Thu, 08 Oct 2020 19:50:30: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 19:50:34: 2000000 INFO @ Thu, 08 Oct 2020 19:50:36: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832098/SRX8832098.05_peaks.xls INFO @ Thu, 08 Oct 2020 19:50:36: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832098/SRX8832098.05_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:50:36: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832098/SRX8832098.05_summits.bed INFO @ Thu, 08 Oct 2020 19:50:36: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (5936 records, 4 fields): 7 millis CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 19:50:39: 3000000 INFO @ Thu, 08 Oct 2020 19:50:45: 4000000 INFO @ Thu, 08 Oct 2020 19:50:47: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 19:50:47: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 19:50:47: #1 total tags in treatment: 4503900 INFO @ Thu, 08 Oct 2020 19:50:47: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:50:47: #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 19:50:48: #1 tags after filtering in treatment: 4503900 INFO @ Thu, 08 Oct 2020 19:50:48: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:50:48: #1 finished! INFO @ Thu, 08 Oct 2020 19:50:48: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:50:48: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:50:48: #2 number of paired peaks: 3637 INFO @ Thu, 08 Oct 2020 19:50:48: start model_add_line... INFO @ Thu, 08 Oct 2020 19:50:48: start X-correlation... INFO @ Thu, 08 Oct 2020 19:50:48: end of X-cor INFO @ Thu, 08 Oct 2020 19:50:48: #2 finished! INFO @ Thu, 08 Oct 2020 19:50:48: #2 predicted fragment length is 159 bps INFO @ Thu, 08 Oct 2020 19:50:48: #2 alternative fragment length(s) may be 159 bps INFO @ Thu, 08 Oct 2020 19:50:48: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832098/SRX8832098.10_model.r INFO @ Thu, 08 Oct 2020 19:50:48: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:50:48: #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 @ Thu, 08 Oct 2020 19:50:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832098/SRX8832098.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832098/SRX8832098.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832098/SRX8832098.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832098/SRX8832098.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 19:50:53: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:50:53: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:50:58: 1000000 INFO @ Thu, 08 Oct 2020 19:51:01: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 19:51:04: 2000000 INFO @ Thu, 08 Oct 2020 19:51:08: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832098/SRX8832098.10_peaks.xls INFO @ Thu, 08 Oct 2020 19:51:08: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832098/SRX8832098.10_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:51:08: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832098/SRX8832098.10_summits.bed INFO @ Thu, 08 Oct 2020 19:51:08: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (4764 records, 4 fields): 7 millis CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 19:51:09: 3000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 08 Oct 2020 19:51:14: 4000000 INFO @ Thu, 08 Oct 2020 19:51:17: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 19:51:17: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 19:51:17: #1 total tags in treatment: 4503900 INFO @ Thu, 08 Oct 2020 19:51:17: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:51:17: #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 19:51:17: #1 tags after filtering in treatment: 4503900 INFO @ Thu, 08 Oct 2020 19:51:17: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:51:17: #1 finished! INFO @ Thu, 08 Oct 2020 19:51:17: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:51:17: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:51:18: #2 number of paired peaks: 3637 INFO @ Thu, 08 Oct 2020 19:51:18: start model_add_line... INFO @ Thu, 08 Oct 2020 19:51:18: start X-correlation... INFO @ Thu, 08 Oct 2020 19:51:18: end of X-cor INFO @ Thu, 08 Oct 2020 19:51:18: #2 finished! INFO @ Thu, 08 Oct 2020 19:51:18: #2 predicted fragment length is 159 bps INFO @ Thu, 08 Oct 2020 19:51:18: #2 alternative fragment length(s) may be 159 bps INFO @ Thu, 08 Oct 2020 19:51:18: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832098/SRX8832098.20_model.r INFO @ Thu, 08 Oct 2020 19:51:18: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:51:18: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Thu, 08 Oct 2020 19:51:29: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 19:51:35: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832098/SRX8832098.20_peaks.xls INFO @ Thu, 08 Oct 2020 19:51:35: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832098/SRX8832098.20_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:51:35: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832098/SRX8832098.20_summits.bed INFO @ Thu, 08 Oct 2020 19:51:35: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (3623 records, 4 fields): 4 millis CompletedMACS2peakCalling