Job ID = 14158200 SRX = SRX6717198 Genome = ce11 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 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: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:10:45 56491954 reads; of these: 56491954 (100.00%) were unpaired; of these: 55960689 (99.06%) aligned 0 times 470125 (0.83%) aligned exactly 1 time 61140 (0.11%) aligned >1 times 0.94% overall alignment rate Time searching: 00:10:45 Overall time: 00:10:45 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] 229996 / 531265 = 0.4329 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/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 08 Dec 2021 14:55:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX6717198/SRX6717198.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX6717198/SRX6717198.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX6717198/SRX6717198.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX6717198/SRX6717198.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 @ Wed, 08 Dec 2021 14:55:43: #1 read tag files... INFO @ Wed, 08 Dec 2021 14:55:43: #1 read treatment tags... INFO @ Wed, 08 Dec 2021 14:55:47: #1 tag size is determined as 56 bps INFO @ Wed, 08 Dec 2021 14:55:47: #1 tag size = 56 INFO @ Wed, 08 Dec 2021 14:55:47: #1 total tags in treatment: 301269 INFO @ Wed, 08 Dec 2021 14:55:47: #1 user defined the maximum tags... INFO @ Wed, 08 Dec 2021 14:55:47: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 08 Dec 2021 14:55:47: #1 tags after filtering in treatment: 301269 INFO @ Wed, 08 Dec 2021 14:55:47: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 08 Dec 2021 14:55:47: #1 finished! INFO @ Wed, 08 Dec 2021 14:55:47: #2 Build Peak Model... INFO @ Wed, 08 Dec 2021 14:55:47: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 08 Dec 2021 14:55:47: #2 number of paired peaks: 4263 INFO @ Wed, 08 Dec 2021 14:55:47: start model_add_line... INFO @ Wed, 08 Dec 2021 14:55:47: start X-correlation... INFO @ Wed, 08 Dec 2021 14:55:47: end of X-cor INFO @ Wed, 08 Dec 2021 14:55:47: #2 finished! INFO @ Wed, 08 Dec 2021 14:55:47: #2 predicted fragment length is 208 bps INFO @ Wed, 08 Dec 2021 14:55:47: #2 alternative fragment length(s) may be 208 bps INFO @ Wed, 08 Dec 2021 14:55:47: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX6717198/SRX6717198.05_model.r INFO @ Wed, 08 Dec 2021 14:55:47: #3 Call peaks... INFO @ Wed, 08 Dec 2021 14:55:47: #3 Pre-compute pvalue-qvalue table... INFO @ Wed, 08 Dec 2021 14:55:48: #3 Call peaks for each chromosome... INFO @ Wed, 08 Dec 2021 14:55:49: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX6717198/SRX6717198.05_peaks.xls INFO @ Wed, 08 Dec 2021 14:55:49: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX6717198/SRX6717198.05_peaks.narrowPeak INFO @ Wed, 08 Dec 2021 14:55:49: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX6717198/SRX6717198.05_summits.bed INFO @ Wed, 08 Dec 2021 14:55:49: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (2633 records, 4 fields): 5 millis CompletedMACS2peakCalling WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 08 Dec 2021 14:56:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX6717198/SRX6717198.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX6717198/SRX6717198.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX6717198/SRX6717198.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX6717198/SRX6717198.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 @ Wed, 08 Dec 2021 14:56:13: #1 read tag files... INFO @ Wed, 08 Dec 2021 14:56:13: #1 read treatment tags... INFO @ Wed, 08 Dec 2021 14:56:16: #1 tag size is determined as 56 bps INFO @ Wed, 08 Dec 2021 14:56:16: #1 tag size = 56 INFO @ Wed, 08 Dec 2021 14:56:16: #1 total tags in treatment: 301269 INFO @ Wed, 08 Dec 2021 14:56:16: #1 user defined the maximum tags... INFO @ Wed, 08 Dec 2021 14:56:16: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 08 Dec 2021 14:56:16: #1 tags after filtering in treatment: 301269 INFO @ Wed, 08 Dec 2021 14:56:16: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 08 Dec 2021 14:56:16: #1 finished! INFO @ Wed, 08 Dec 2021 14:56:16: #2 Build Peak Model... INFO @ Wed, 08 Dec 2021 14:56:16: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 08 Dec 2021 14:56:16: #2 number of paired peaks: 4263 INFO @ Wed, 08 Dec 2021 14:56:16: start model_add_line... INFO @ Wed, 08 Dec 2021 14:56:16: start X-correlation... INFO @ Wed, 08 Dec 2021 14:56:16: end of X-cor INFO @ Wed, 08 Dec 2021 14:56:16: #2 finished! INFO @ Wed, 08 Dec 2021 14:56:16: #2 predicted fragment length is 208 bps INFO @ Wed, 08 Dec 2021 14:56:16: #2 alternative fragment length(s) may be 208 bps INFO @ Wed, 08 Dec 2021 14:56:16: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX6717198/SRX6717198.10_model.r INFO @ Wed, 08 Dec 2021 14:56:16: #3 Call peaks... INFO @ Wed, 08 Dec 2021 14:56:16: #3 Pre-compute pvalue-qvalue table... INFO @ Wed, 08 Dec 2021 14:56:17: #3 Call peaks for each chromosome... INFO @ Wed, 08 Dec 2021 14:56:18: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX6717198/SRX6717198.10_peaks.xls INFO @ Wed, 08 Dec 2021 14:56:18: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX6717198/SRX6717198.10_peaks.narrowPeak INFO @ Wed, 08 Dec 2021 14:56:18: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX6717198/SRX6717198.10_summits.bed INFO @ Wed, 08 Dec 2021 14:56:18: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (994 records, 4 fields): 5 millis CompletedMACS2peakCalling BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 08 Dec 2021 14:56:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX6717198/SRX6717198.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX6717198/SRX6717198.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX6717198/SRX6717198.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX6717198/SRX6717198.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 @ Wed, 08 Dec 2021 14:56:43: #1 read tag files... INFO @ Wed, 08 Dec 2021 14:56:43: #1 read treatment tags... BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。 INFO @ Wed, 08 Dec 2021 14:56:46: #1 tag size is determined as 56 bps INFO @ Wed, 08 Dec 2021 14:56:46: #1 tag size = 56 INFO @ Wed, 08 Dec 2021 14:56:46: #1 total tags in treatment: 301269 INFO @ Wed, 08 Dec 2021 14:56:46: #1 user defined the maximum tags... INFO @ Wed, 08 Dec 2021 14:56:46: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 08 Dec 2021 14:56:46: #1 tags after filtering in treatment: 301269 INFO @ Wed, 08 Dec 2021 14:56:46: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 08 Dec 2021 14:56:46: #1 finished! INFO @ Wed, 08 Dec 2021 14:56:46: #2 Build Peak Model... INFO @ Wed, 08 Dec 2021 14:56:46: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 08 Dec 2021 14:56:47: #2 number of paired peaks: 4263 INFO @ Wed, 08 Dec 2021 14:56:47: start model_add_line... INFO @ Wed, 08 Dec 2021 14:56:47: start X-correlation... INFO @ Wed, 08 Dec 2021 14:56:47: end of X-cor INFO @ Wed, 08 Dec 2021 14:56:47: #2 finished! INFO @ Wed, 08 Dec 2021 14:56:47: #2 predicted fragment length is 208 bps INFO @ Wed, 08 Dec 2021 14:56:47: #2 alternative fragment length(s) may be 208 bps INFO @ Wed, 08 Dec 2021 14:56:47: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX6717198/SRX6717198.20_model.r INFO @ Wed, 08 Dec 2021 14:56:47: #3 Call peaks... INFO @ Wed, 08 Dec 2021 14:56:47: #3 Pre-compute pvalue-qvalue table... INFO @ Wed, 08 Dec 2021 14:56:48: #3 Call peaks for each chromosome... INFO @ Wed, 08 Dec 2021 14:56:48: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX6717198/SRX6717198.20_peaks.xls INFO @ Wed, 08 Dec 2021 14:56:48: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX6717198/SRX6717198.20_peaks.narrowPeak INFO @ Wed, 08 Dec 2021 14:56:48: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX6717198/SRX6717198.20_summits.bed INFO @ Wed, 08 Dec 2021 14:56:48: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (393 records, 4 fields): 22 millis CompletedMACS2peakCalling