Job ID = 10165755 SRX = SRX8832103 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 14101553 spots for SRR12332027/SRR12332027.sra Written 14101553 spots for SRR12332027/SRR12332027.sra fastq に変換しました。 bowtie でマッピング中... Your job 10166012 ("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: 00:02:59 14101553 reads; of these: 14101553 (100.00%) were unpaired; of these: 966063 (6.85%) aligned 0 times 10864598 (77.05%) aligned exactly 1 time 2270892 (16.10%) aligned >1 times 93.15% overall alignment rate Time searching: 00:02:59 Overall time: 00:02:59 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 8 files... [bam_rmdupse_core] 5240094 / 13135490 = 0.3989 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 19:53:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832103/SRX8832103.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832103/SRX8832103.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832103/SRX8832103.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832103/SRX8832103.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 19:53:42: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:53:42: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:53:48: 1000000 INFO @ Thu, 08 Oct 2020 19:53:53: 2000000 INFO @ Thu, 08 Oct 2020 19:53:58: 3000000 INFO @ Thu, 08 Oct 2020 19:54:03: 4000000 INFO @ Thu, 08 Oct 2020 19:54:08: 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 19:54:13: 6000000 INFO @ Thu, 08 Oct 2020 19:54:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832103/SRX8832103.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832103/SRX8832103.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832103/SRX8832103.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832103/SRX8832103.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 19:54:13: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:54:13: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:54:18: 7000000 INFO @ Thu, 08 Oct 2020 19:54:18: 1000000 INFO @ Thu, 08 Oct 2020 19:54:22: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 19:54:22: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 19:54:22: #1 total tags in treatment: 7895396 INFO @ Thu, 08 Oct 2020 19:54:22: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:54:22: #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 19:54:22: #1 tags after filtering in treatment: 7895396 INFO @ Thu, 08 Oct 2020 19:54:22: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:54:22: #1 finished! INFO @ Thu, 08 Oct 2020 19:54:22: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:54:22: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:54:23: #2 number of paired peaks: 3185 INFO @ Thu, 08 Oct 2020 19:54:23: start model_add_line... INFO @ Thu, 08 Oct 2020 19:54:23: start X-correlation... INFO @ Thu, 08 Oct 2020 19:54:23: end of X-cor INFO @ Thu, 08 Oct 2020 19:54:23: #2 finished! INFO @ Thu, 08 Oct 2020 19:54:23: #2 predicted fragment length is 156 bps INFO @ Thu, 08 Oct 2020 19:54:23: #2 alternative fragment length(s) may be 156 bps INFO @ Thu, 08 Oct 2020 19:54:23: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832103/SRX8832103.05_model.r INFO @ Thu, 08 Oct 2020 19:54:23: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:54:23: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 19:54:23: 2000000 INFO @ Thu, 08 Oct 2020 19:54:28: 3000000 INFO @ Thu, 08 Oct 2020 19:54:33: 4000000 INFO @ Thu, 08 Oct 2020 19:54:38: 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 19:54:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832103/SRX8832103.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832103/SRX8832103.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832103/SRX8832103.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832103/SRX8832103.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 19:54:43: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:54:43: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:54:43: 6000000 INFO @ Thu, 08 Oct 2020 19:54:44: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 19:54:49: 7000000 INFO @ Thu, 08 Oct 2020 19:54:49: 1000000 INFO @ Thu, 08 Oct 2020 19:54:53: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 19:54:53: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 19:54:53: #1 total tags in treatment: 7895396 INFO @ Thu, 08 Oct 2020 19:54:53: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:54:53: #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 19:54:53: #1 tags after filtering in treatment: 7895396 INFO @ Thu, 08 Oct 2020 19:54:53: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:54:53: #1 finished! INFO @ Thu, 08 Oct 2020 19:54:53: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:54:53: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:54:54: 2000000 INFO @ Thu, 08 Oct 2020 19:54:54: #2 number of paired peaks: 3185 INFO @ Thu, 08 Oct 2020 19:54:54: start model_add_line... INFO @ Thu, 08 Oct 2020 19:54:54: start X-correlation... INFO @ Thu, 08 Oct 2020 19:54:54: end of X-cor INFO @ Thu, 08 Oct 2020 19:54:54: #2 finished! INFO @ Thu, 08 Oct 2020 19:54:54: #2 predicted fragment length is 156 bps INFO @ Thu, 08 Oct 2020 19:54:54: #2 alternative fragment length(s) may be 156 bps INFO @ Thu, 08 Oct 2020 19:54:54: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832103/SRX8832103.10_model.r INFO @ Thu, 08 Oct 2020 19:54:54: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:54:54: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 19:54:54: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832103/SRX8832103.05_peaks.xls INFO @ Thu, 08 Oct 2020 19:54:54: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832103/SRX8832103.05_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:54:54: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832103/SRX8832103.05_summits.bed INFO @ Thu, 08 Oct 2020 19:54:54: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (5813 records, 4 fields): 7 millis CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 19:54:59: 3000000 INFO @ Thu, 08 Oct 2020 19:55:04: 4000000 INFO @ Thu, 08 Oct 2020 19:55:09: 5000000 INFO @ Thu, 08 Oct 2020 19:55:14: 6000000 INFO @ Thu, 08 Oct 2020 19:55:15: #3 Call peaks for each chromosome... BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 08 Oct 2020 19:55:18: 7000000 INFO @ Thu, 08 Oct 2020 19:55:23: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 19:55:23: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 19:55:23: #1 total tags in treatment: 7895396 INFO @ Thu, 08 Oct 2020 19:55:23: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:55:23: #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 19:55:23: #1 tags after filtering in treatment: 7895396 INFO @ Thu, 08 Oct 2020 19:55:23: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:55:23: #1 finished! INFO @ Thu, 08 Oct 2020 19:55:23: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:55:23: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:55:24: #2 number of paired peaks: 3185 INFO @ Thu, 08 Oct 2020 19:55:24: start model_add_line... INFO @ Thu, 08 Oct 2020 19:55:24: start X-correlation... INFO @ Thu, 08 Oct 2020 19:55:24: end of X-cor INFO @ Thu, 08 Oct 2020 19:55:24: #2 finished! INFO @ Thu, 08 Oct 2020 19:55:24: #2 predicted fragment length is 156 bps INFO @ Thu, 08 Oct 2020 19:55:24: #2 alternative fragment length(s) may be 156 bps INFO @ Thu, 08 Oct 2020 19:55:24: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832103/SRX8832103.20_model.r INFO @ Thu, 08 Oct 2020 19:55:24: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:55:24: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 19:55:24: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832103/SRX8832103.10_peaks.xls INFO @ Thu, 08 Oct 2020 19:55:25: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832103/SRX8832103.10_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:55:25: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832103/SRX8832103.10_summits.bed INFO @ Thu, 08 Oct 2020 19:55:25: Done! pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (4888 records, 4 fields): 6 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Thu, 08 Oct 2020 19:55:44: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 19:55:54: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832103/SRX8832103.20_peaks.xls INFO @ Thu, 08 Oct 2020 19:55:54: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832103/SRX8832103.20_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:55:54: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832103/SRX8832103.20_summits.bed INFO @ Thu, 08 Oct 2020 19:55:54: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (3785 records, 4 fields): 5 millis CompletedMACS2peakCalling