Job ID = 10165637 SRX = SRX7505498 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-10-08T10:31:34 prefetch.2.10.7: 1) Downloading 'SRR10832156'... 2020-10-08T10:31:34 prefetch.2.10.7: Downloading via HTTPS... 2020-10-08T10:32:02 prefetch.2.10.7: HTTPS download succeed 2020-10-08T10:32:03 prefetch.2.10.7: 'SRR10832156' is valid 2020-10-08T10:32:03 prefetch.2.10.7: 1) 'SRR10832156' was downloaded successfully 2020-10-08T10:32:03 prefetch.2.10.7: 'SRR10832156' has 0 unresolved dependencies Read 8993763 spots for SRR10832156/SRR10832156.sra Written 8993763 spots for SRR10832156/SRR10832156.sra fastq に変換しました。 bowtie でマッピング中... Your job 10165707 ("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: 00:01:34 8993763 reads; of these: 8993763 (100.00%) were unpaired; of these: 2620751 (29.14%) aligned 0 times 5673182 (63.08%) aligned exactly 1 time 699830 (7.78%) aligned >1 times 70.86% overall alignment rate Time searching: 00:01:34 Overall time: 00:01:34 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] 4812922 / 6373012 = 0.7552 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 19:35:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX7505498/SRX7505498.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX7505498/SRX7505498.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX7505498/SRX7505498.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX7505498/SRX7505498.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 19:35:36: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:35:36: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:35:42: 1000000 INFO @ Thu, 08 Oct 2020 19:35:45: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 19:35:45: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 19:35:45: #1 total tags in treatment: 1560090 INFO @ Thu, 08 Oct 2020 19:35:45: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:35:45: #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 19:35:45: #1 tags after filtering in treatment: 1560090 INFO @ Thu, 08 Oct 2020 19:35:45: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:35:45: #1 finished! INFO @ Thu, 08 Oct 2020 19:35:45: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:35:45: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:35:45: #2 number of paired peaks: 3996 INFO @ Thu, 08 Oct 2020 19:35:45: start model_add_line... INFO @ Thu, 08 Oct 2020 19:35:45: start X-correlation... INFO @ Thu, 08 Oct 2020 19:35:45: end of X-cor INFO @ Thu, 08 Oct 2020 19:35:45: #2 finished! INFO @ Thu, 08 Oct 2020 19:35:45: #2 predicted fragment length is 263 bps INFO @ Thu, 08 Oct 2020 19:35:45: #2 alternative fragment length(s) may be 263 bps INFO @ Thu, 08 Oct 2020 19:35:45: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX7505498/SRX7505498.05_model.r INFO @ Thu, 08 Oct 2020 19:35:45: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:35:45: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 19:35:50: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 19:35:52: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX7505498/SRX7505498.05_peaks.xls INFO @ Thu, 08 Oct 2020 19:35:52: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX7505498/SRX7505498.05_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:35:52: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX7505498/SRX7505498.05_summits.bed INFO @ Thu, 08 Oct 2020 19:35:52: Done! pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (4193 records, 4 fields): 19 millis CompletedMACS2peakCalling 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 19:36:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX7505498/SRX7505498.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX7505498/SRX7505498.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX7505498/SRX7505498.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX7505498/SRX7505498.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 19:36:03: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:36:03: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:36:10: 1000000 INFO @ Thu, 08 Oct 2020 19:36:13: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 19:36:13: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 19:36:13: #1 total tags in treatment: 1560090 INFO @ Thu, 08 Oct 2020 19:36:13: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:36:13: #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 19:36:13: #1 tags after filtering in treatment: 1560090 INFO @ Thu, 08 Oct 2020 19:36:13: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:36:13: #1 finished! INFO @ Thu, 08 Oct 2020 19:36:13: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:36:13: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:36:14: #2 number of paired peaks: 3996 INFO @ Thu, 08 Oct 2020 19:36:14: start model_add_line... INFO @ Thu, 08 Oct 2020 19:36:14: start X-correlation... INFO @ Thu, 08 Oct 2020 19:36:14: end of X-cor INFO @ Thu, 08 Oct 2020 19:36:14: #2 finished! INFO @ Thu, 08 Oct 2020 19:36:14: #2 predicted fragment length is 263 bps INFO @ Thu, 08 Oct 2020 19:36:14: #2 alternative fragment length(s) may be 263 bps INFO @ Thu, 08 Oct 2020 19:36:14: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX7505498/SRX7505498.10_model.r INFO @ Thu, 08 Oct 2020 19:36:14: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:36:14: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 19:36:19: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 19:36:21: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX7505498/SRX7505498.10_peaks.xls INFO @ Thu, 08 Oct 2020 19:36:21: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX7505498/SRX7505498.10_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:36:21: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX7505498/SRX7505498.10_summits.bed INFO @ Thu, 08 Oct 2020 19:36:21: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (3067 records, 4 fields): 5 millis CompletedMACS2peakCalling 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 19:36:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX7505498/SRX7505498.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX7505498/SRX7505498.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX7505498/SRX7505498.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX7505498/SRX7505498.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 19:36:33: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:36:33: #1 read treatment tags... BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 08 Oct 2020 19:36:38: 1000000 BigWig に変換しました。 INFO @ Thu, 08 Oct 2020 19:36:41: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 19:36:41: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 19:36:41: #1 total tags in treatment: 1560090 INFO @ Thu, 08 Oct 2020 19:36:41: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:36:41: #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 19:36:41: #1 tags after filtering in treatment: 1560090 INFO @ Thu, 08 Oct 2020 19:36:41: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:36:41: #1 finished! INFO @ Thu, 08 Oct 2020 19:36:41: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:36:41: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:36:41: #2 number of paired peaks: 3996 INFO @ Thu, 08 Oct 2020 19:36:41: start model_add_line... INFO @ Thu, 08 Oct 2020 19:36:41: start X-correlation... INFO @ Thu, 08 Oct 2020 19:36:41: end of X-cor INFO @ Thu, 08 Oct 2020 19:36:41: #2 finished! INFO @ Thu, 08 Oct 2020 19:36:41: #2 predicted fragment length is 263 bps INFO @ Thu, 08 Oct 2020 19:36:41: #2 alternative fragment length(s) may be 263 bps INFO @ Thu, 08 Oct 2020 19:36:41: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX7505498/SRX7505498.20_model.r INFO @ Thu, 08 Oct 2020 19:36:41: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:36:41: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 19:36:45: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 19:36:47: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX7505498/SRX7505498.20_peaks.xls INFO @ Thu, 08 Oct 2020 19:36:47: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX7505498/SRX7505498.20_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:36:47: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX7505498/SRX7505498.20_summits.bed INFO @ Thu, 08 Oct 2020 19:36:48: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (1920 records, 4 fields): 3 millis CompletedMACS2peakCalling