Job ID = 10166050 SRX = SRX8832112 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: 00:03:54 17679744 reads; of these: 17679744 (100.00%) were unpaired; of these: 2758296 (15.60%) aligned 0 times 12428172 (70.30%) aligned exactly 1 time 2493276 (14.10%) aligned >1 times 84.40% overall alignment rate Time searching: 00:03:54 Overall time: 00:03:54 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] 3707154 / 14921448 = 0.2484 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 20:35:49: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8832112/SRX8832112.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8832112/SRX8832112.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8832112/SRX8832112.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8832112/SRX8832112.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 20:35:49: #1 read tag files... INFO @ Thu, 08 Oct 2020 20:35:49: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 20:35:54: 1000000 INFO @ Thu, 08 Oct 2020 20:35:59: 2000000 INFO @ Thu, 08 Oct 2020 20:36:03: 3000000 INFO @ Thu, 08 Oct 2020 20:36:08: 4000000 INFO @ Thu, 08 Oct 2020 20:36:13: 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 20:36:18: 6000000 INFO @ Thu, 08 Oct 2020 20:36:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8832112/SRX8832112.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8832112/SRX8832112.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8832112/SRX8832112.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8832112/SRX8832112.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 20:36:19: #1 read tag files... INFO @ Thu, 08 Oct 2020 20:36:19: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 20:36:23: 7000000 INFO @ Thu, 08 Oct 2020 20:36:25: 1000000 INFO @ Thu, 08 Oct 2020 20:36:28: 8000000 INFO @ Thu, 08 Oct 2020 20:36:31: 2000000 INFO @ Thu, 08 Oct 2020 20:36:33: 9000000 INFO @ Thu, 08 Oct 2020 20:36:37: 3000000 INFO @ Thu, 08 Oct 2020 20:36:38: 10000000 INFO @ Thu, 08 Oct 2020 20:36:43: 4000000 INFO @ Thu, 08 Oct 2020 20:36:44: 11000000 INFO @ Thu, 08 Oct 2020 20:36:45: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 20:36:45: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 20:36:45: #1 total tags in treatment: 11214294 INFO @ Thu, 08 Oct 2020 20:36:45: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 20:36:45: #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 20:36:45: #1 tags after filtering in treatment: 11214294 INFO @ Thu, 08 Oct 2020 20:36:45: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 20:36:45: #1 finished! INFO @ Thu, 08 Oct 2020 20:36:45: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 20:36:45: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 20:36:46: #2 number of paired peaks: 2184 INFO @ Thu, 08 Oct 2020 20:36:46: start model_add_line... INFO @ Thu, 08 Oct 2020 20:36:46: start X-correlation... INFO @ Thu, 08 Oct 2020 20:36:46: end of X-cor INFO @ Thu, 08 Oct 2020 20:36:46: #2 finished! INFO @ Thu, 08 Oct 2020 20:36:46: #2 predicted fragment length is 141 bps INFO @ Thu, 08 Oct 2020 20:36:46: #2 alternative fragment length(s) may be 141 bps INFO @ Thu, 08 Oct 2020 20:36:46: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8832112/SRX8832112.05_model.r INFO @ Thu, 08 Oct 2020 20:36:46: #3 Call peaks... INFO @ Thu, 08 Oct 2020 20:36:46: #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 20:36:48: 5000000 INFO @ Thu, 08 Oct 2020 20:36:49: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8832112/SRX8832112.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8832112/SRX8832112.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8832112/SRX8832112.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8832112/SRX8832112.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 20:36:49: #1 read tag files... INFO @ Thu, 08 Oct 2020 20:36:49: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 20:36:54: 6000000 INFO @ Thu, 08 Oct 2020 20:36:55: 1000000 INFO @ Thu, 08 Oct 2020 20:37:00: 7000000 INFO @ Thu, 08 Oct 2020 20:37:01: 2000000 INFO @ Thu, 08 Oct 2020 20:37:06: 8000000 INFO @ Thu, 08 Oct 2020 20:37:06: 3000000 INFO @ Thu, 08 Oct 2020 20:37:11: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 20:37:11: 9000000 INFO @ Thu, 08 Oct 2020 20:37:12: 4000000 INFO @ Thu, 08 Oct 2020 20:37:17: 10000000 INFO @ Thu, 08 Oct 2020 20:37:18: 5000000 INFO @ Thu, 08 Oct 2020 20:37:23: 11000000 INFO @ Thu, 08 Oct 2020 20:37:24: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8832112/SRX8832112.05_peaks.xls INFO @ Thu, 08 Oct 2020 20:37:24: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 20:37:24: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 20:37:24: #1 total tags in treatment: 11214294 INFO @ Thu, 08 Oct 2020 20:37:24: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 20:37:24: #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 20:37:24: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8832112/SRX8832112.05_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 20:37:24: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8832112/SRX8832112.05_summits.bed INFO @ Thu, 08 Oct 2020 20:37:24: Done! INFO @ Thu, 08 Oct 2020 20:37:24: 6000000 INFO @ Thu, 08 Oct 2020 20:37:24: #1 tags after filtering in treatment: 11214294 INFO @ Thu, 08 Oct 2020 20:37:24: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 20:37:24: #1 finished! INFO @ Thu, 08 Oct 2020 20:37:24: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 20:37:24: #2 looking for paired plus/minus strand peaks... pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (8207 records, 4 fields): 9 millis CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 20:37:25: #2 number of paired peaks: 2184 INFO @ Thu, 08 Oct 2020 20:37:25: start model_add_line... INFO @ Thu, 08 Oct 2020 20:37:25: start X-correlation... INFO @ Thu, 08 Oct 2020 20:37:25: end of X-cor INFO @ Thu, 08 Oct 2020 20:37:25: #2 finished! INFO @ Thu, 08 Oct 2020 20:37:25: #2 predicted fragment length is 141 bps INFO @ Thu, 08 Oct 2020 20:37:25: #2 alternative fragment length(s) may be 141 bps INFO @ Thu, 08 Oct 2020 20:37:25: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8832112/SRX8832112.10_model.r INFO @ Thu, 08 Oct 2020 20:37:25: #3 Call peaks... INFO @ Thu, 08 Oct 2020 20:37:25: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 20:37:30: 7000000 INFO @ Thu, 08 Oct 2020 20:37:35: 8000000 INFO @ Thu, 08 Oct 2020 20:37:41: 9000000 INFO @ Thu, 08 Oct 2020 20:37:47: 10000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 08 Oct 2020 20:37:51: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 20:37:52: 11000000 INFO @ Thu, 08 Oct 2020 20:37:54: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 20:37:54: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 20:37:54: #1 total tags in treatment: 11214294 INFO @ Thu, 08 Oct 2020 20:37:54: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 20:37:54: #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 20:37:54: #1 tags after filtering in treatment: 11214294 INFO @ Thu, 08 Oct 2020 20:37:54: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 20:37:54: #1 finished! INFO @ Thu, 08 Oct 2020 20:37:54: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 20:37:54: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 20:37:55: #2 number of paired peaks: 2184 INFO @ Thu, 08 Oct 2020 20:37:55: start model_add_line... INFO @ Thu, 08 Oct 2020 20:37:55: start X-correlation... INFO @ Thu, 08 Oct 2020 20:37:55: end of X-cor INFO @ Thu, 08 Oct 2020 20:37:55: #2 finished! INFO @ Thu, 08 Oct 2020 20:37:55: #2 predicted fragment length is 141 bps INFO @ Thu, 08 Oct 2020 20:37:55: #2 alternative fragment length(s) may be 141 bps INFO @ Thu, 08 Oct 2020 20:37:55: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8832112/SRX8832112.20_model.r INFO @ Thu, 08 Oct 2020 20:37:55: #3 Call peaks... INFO @ Thu, 08 Oct 2020 20:37:55: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 20:38:03: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8832112/SRX8832112.10_peaks.xls INFO @ Thu, 08 Oct 2020 20:38:03: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8832112/SRX8832112.10_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 20:38:03: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8832112/SRX8832112.10_summits.bed INFO @ Thu, 08 Oct 2020 20:38:03: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (6554 records, 4 fields): 7 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Thu, 08 Oct 2020 20:38:22: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 20:38:36: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8832112/SRX8832112.20_peaks.xls INFO @ Thu, 08 Oct 2020 20:38:36: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8832112/SRX8832112.20_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 20:38:36: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8832112/SRX8832112.20_summits.bed INFO @ Thu, 08 Oct 2020 20:38:36: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (4836 records, 4 fields): 6 millis CompletedMACS2peakCalling