Job ID = 10165833 SRX = SRX8832070 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: 00:03:00 13358170 reads; of these: 13358170 (100.00%) were unpaired; of these: 372785 (2.79%) aligned 0 times 11237444 (84.12%) aligned exactly 1 time 1747941 (13.09%) aligned >1 times 97.21% overall alignment rate Time searching: 00:03:00 Overall time: 00:03:00 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] 1614015 / 12985385 = 0.1243 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 20:03:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8832070/SRX8832070.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8832070/SRX8832070.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8832070/SRX8832070.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8832070/SRX8832070.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 20:03:56: #1 read tag files... INFO @ Thu, 08 Oct 2020 20:03:56: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 20:04:01: 1000000 INFO @ Thu, 08 Oct 2020 20:04:06: 2000000 INFO @ Thu, 08 Oct 2020 20:04:11: 3000000 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 20:04:16: 4000000 INFO @ Thu, 08 Oct 2020 20:04:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8832070/SRX8832070.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8832070/SRX8832070.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8832070/SRX8832070.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8832070/SRX8832070.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 20:04:19: #1 read tag files... INFO @ Thu, 08 Oct 2020 20:04:19: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 20:04:20: 5000000 INFO @ Thu, 08 Oct 2020 20:04:24: 1000000 INFO @ Thu, 08 Oct 2020 20:04:26: 6000000 INFO @ Thu, 08 Oct 2020 20:04:29: 2000000 INFO @ Thu, 08 Oct 2020 20:04:31: 7000000 INFO @ Thu, 08 Oct 2020 20:04:34: 3000000 INFO @ Thu, 08 Oct 2020 20:04:36: 8000000 INFO @ Thu, 08 Oct 2020 20:04:40: 4000000 INFO @ Thu, 08 Oct 2020 20:04:41: 9000000 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 20:04:45: 5000000 INFO @ Thu, 08 Oct 2020 20:04:46: 10000000 INFO @ Thu, 08 Oct 2020 20:04:50: 6000000 INFO @ Thu, 08 Oct 2020 20:04:51: 11000000 INFO @ Thu, 08 Oct 2020 20:04:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8832070/SRX8832070.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8832070/SRX8832070.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8832070/SRX8832070.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8832070/SRX8832070.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 20:04:53: #1 read tag files... INFO @ Thu, 08 Oct 2020 20:04:53: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 20:04:53: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 20:04:53: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 20:04:53: #1 total tags in treatment: 11371370 INFO @ Thu, 08 Oct 2020 20:04:53: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 20:04:53: #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 20:04:54: #1 tags after filtering in treatment: 11371370 INFO @ Thu, 08 Oct 2020 20:04:54: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 20:04:54: #1 finished! INFO @ Thu, 08 Oct 2020 20:04:54: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 20:04:54: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 20:04:55: #2 number of paired peaks: 2091 INFO @ Thu, 08 Oct 2020 20:04:55: start model_add_line... INFO @ Thu, 08 Oct 2020 20:04:55: start X-correlation... INFO @ Thu, 08 Oct 2020 20:04:55: end of X-cor INFO @ Thu, 08 Oct 2020 20:04:55: #2 finished! INFO @ Thu, 08 Oct 2020 20:04:55: #2 predicted fragment length is 157 bps INFO @ Thu, 08 Oct 2020 20:04:55: #2 alternative fragment length(s) may be 4,157 bps INFO @ Thu, 08 Oct 2020 20:04:55: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8832070/SRX8832070.05_model.r INFO @ Thu, 08 Oct 2020 20:04:55: #3 Call peaks... INFO @ Thu, 08 Oct 2020 20:04:55: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 20:04:55: 7000000 INFO @ Thu, 08 Oct 2020 20:04:59: 1000000 INFO @ Thu, 08 Oct 2020 20:05:00: 8000000 INFO @ Thu, 08 Oct 2020 20:05:04: 2000000 INFO @ Thu, 08 Oct 2020 20:05:05: 9000000 INFO @ Thu, 08 Oct 2020 20:05:09: 3000000 INFO @ Thu, 08 Oct 2020 20:05:10: 10000000 INFO @ Thu, 08 Oct 2020 20:05:14: 4000000 INFO @ Thu, 08 Oct 2020 20:05:15: 11000000 INFO @ Thu, 08 Oct 2020 20:05:17: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 20:05:17: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 20:05:17: #1 total tags in treatment: 11371370 INFO @ Thu, 08 Oct 2020 20:05:17: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 20:05:17: #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 20:05:17: #1 tags after filtering in treatment: 11371370 INFO @ Thu, 08 Oct 2020 20:05:17: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 20:05:17: #1 finished! INFO @ Thu, 08 Oct 2020 20:05:17: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 20:05:17: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 20:05:18: #2 number of paired peaks: 2091 INFO @ Thu, 08 Oct 2020 20:05:18: start model_add_line... INFO @ Thu, 08 Oct 2020 20:05:18: start X-correlation... INFO @ Thu, 08 Oct 2020 20:05:18: end of X-cor INFO @ Thu, 08 Oct 2020 20:05:18: #2 finished! INFO @ Thu, 08 Oct 2020 20:05:18: #2 predicted fragment length is 157 bps INFO @ Thu, 08 Oct 2020 20:05:18: #2 alternative fragment length(s) may be 4,157 bps INFO @ Thu, 08 Oct 2020 20:05:18: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8832070/SRX8832070.10_model.r INFO @ Thu, 08 Oct 2020 20:05:18: #3 Call peaks... INFO @ Thu, 08 Oct 2020 20:05:18: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 20:05:19: 5000000 INFO @ Thu, 08 Oct 2020 20:05:22: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 20:05:24: 6000000 INFO @ Thu, 08 Oct 2020 20:05:29: 7000000 INFO @ Thu, 08 Oct 2020 20:05:34: 8000000 INFO @ Thu, 08 Oct 2020 20:05:36: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8832070/SRX8832070.05_peaks.xls INFO @ Thu, 08 Oct 2020 20:05:37: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8832070/SRX8832070.05_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 20:05:37: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8832070/SRX8832070.05_summits.bed INFO @ Thu, 08 Oct 2020 20:05:37: Done! INFO @ Thu, 08 Oct 2020 20:05:39: 9000000 INFO @ Thu, 08 Oct 2020 20:05:44: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 20:05:44: 10000000 BedGraph に変換しました。 BigWig に変換中... pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (8189 records, 4 fields): 9 millis CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 20:05:49: 11000000 INFO @ Thu, 08 Oct 2020 20:05:51: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 20:05:51: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 20:05:51: #1 total tags in treatment: 11371370 INFO @ Thu, 08 Oct 2020 20:05:51: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 20:05:51: #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 20:05:51: #1 tags after filtering in treatment: 11371370 INFO @ Thu, 08 Oct 2020 20:05:51: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 20:05:51: #1 finished! INFO @ Thu, 08 Oct 2020 20:05:51: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 20:05:51: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 20:05:52: #2 number of paired peaks: 2091 INFO @ Thu, 08 Oct 2020 20:05:52: start model_add_line... INFO @ Thu, 08 Oct 2020 20:05:52: start X-correlation... INFO @ Thu, 08 Oct 2020 20:05:52: end of X-cor INFO @ Thu, 08 Oct 2020 20:05:52: #2 finished! INFO @ Thu, 08 Oct 2020 20:05:52: #2 predicted fragment length is 157 bps INFO @ Thu, 08 Oct 2020 20:05:52: #2 alternative fragment length(s) may be 4,157 bps INFO @ Thu, 08 Oct 2020 20:05:52: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8832070/SRX8832070.20_model.r INFO @ Thu, 08 Oct 2020 20:05:52: #3 Call peaks... INFO @ Thu, 08 Oct 2020 20:05:52: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 20:05:57: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8832070/SRX8832070.10_peaks.xls INFO @ Thu, 08 Oct 2020 20:05:57: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8832070/SRX8832070.10_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 20:05:57: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8832070/SRX8832070.10_summits.bed INFO @ Thu, 08 Oct 2020 20:05:57: Done! BigWig に変換しました。 pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (6183 records, 4 fields): 7 millis CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 20:06:19: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 20:06:33: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8832070/SRX8832070.20_peaks.xls INFO @ Thu, 08 Oct 2020 20:06:33: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8832070/SRX8832070.20_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 20:06:33: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8832070/SRX8832070.20_summits.bed INFO @ Thu, 08 Oct 2020 20:06:33: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (3769 records, 4 fields): 6 millis CompletedMACS2peakCalling