Job ID = 16433333 SRX = SRX15407770 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: 00:04:19 11771068 reads; of these: 11771068 (100.00%) were unpaired; of these: 916147 (7.78%) aligned 0 times 9420405 (80.03%) aligned exactly 1 time 1434516 (12.19%) aligned >1 times 92.22% overall alignment rate Time searching: 00:04:20 Overall time: 00:04:20 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] 1335182 / 10854921 = 0.1230 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/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 09:47:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX15407770/SRX15407770.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX15407770/SRX15407770.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX15407770/SRX15407770.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX15407770/SRX15407770.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 @ Tue, 02 Aug 2022 09:47:18: #1 read tag files... INFO @ Tue, 02 Aug 2022 09:47:18: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 09:47:24: 1000000 INFO @ Tue, 02 Aug 2022 09:47:30: 2000000 INFO @ Tue, 02 Aug 2022 09:47:36: 3000000 INFO @ Tue, 02 Aug 2022 09:47:42: 4000000 WARNING: Skipping mount /opt/pkg/singularity/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 09:47:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX15407770/SRX15407770.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX15407770/SRX15407770.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX15407770/SRX15407770.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX15407770/SRX15407770.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 @ Tue, 02 Aug 2022 09:47:47: #1 read tag files... INFO @ Tue, 02 Aug 2022 09:47:47: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 09:47:48: 5000000 INFO @ Tue, 02 Aug 2022 09:47:53: 1000000 INFO @ Tue, 02 Aug 2022 09:47:55: 6000000 INFO @ Tue, 02 Aug 2022 09:47:59: 2000000 INFO @ Tue, 02 Aug 2022 09:48:01: 7000000 INFO @ Tue, 02 Aug 2022 09:48:06: 3000000 INFO @ Tue, 02 Aug 2022 09:48:07: 8000000 INFO @ Tue, 02 Aug 2022 09:48:13: 4000000 INFO @ Tue, 02 Aug 2022 09:48:13: 9000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 09:48:17: #1 tag size is determined as 76 bps INFO @ Tue, 02 Aug 2022 09:48:17: #1 tag size = 76 INFO @ Tue, 02 Aug 2022 09:48:17: #1 total tags in treatment: 9519739 INFO @ Tue, 02 Aug 2022 09:48:17: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 09:48:17: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 09:48:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX15407770/SRX15407770.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX15407770/SRX15407770.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX15407770/SRX15407770.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX15407770/SRX15407770.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 @ Tue, 02 Aug 2022 09:48:17: #1 read tag files... INFO @ Tue, 02 Aug 2022 09:48:17: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 09:48:17: #1 tags after filtering in treatment: 9519739 INFO @ Tue, 02 Aug 2022 09:48:17: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 09:48:17: #1 finished! INFO @ Tue, 02 Aug 2022 09:48:17: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 09:48:17: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 09:48:18: #2 number of paired peaks: 1093 INFO @ Tue, 02 Aug 2022 09:48:18: start model_add_line... INFO @ Tue, 02 Aug 2022 09:48:18: start X-correlation... INFO @ Tue, 02 Aug 2022 09:48:18: end of X-cor INFO @ Tue, 02 Aug 2022 09:48:18: #2 finished! INFO @ Tue, 02 Aug 2022 09:48:18: #2 predicted fragment length is 172 bps INFO @ Tue, 02 Aug 2022 09:48:18: #2 alternative fragment length(s) may be 172,596 bps INFO @ Tue, 02 Aug 2022 09:48:18: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX15407770/SRX15407770.05_model.r INFO @ Tue, 02 Aug 2022 09:48:18: #3 Call peaks... INFO @ Tue, 02 Aug 2022 09:48:18: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 09:48:20: 5000000 INFO @ Tue, 02 Aug 2022 09:48:24: 1000000 INFO @ Tue, 02 Aug 2022 09:48:28: 6000000 INFO @ Tue, 02 Aug 2022 09:48:32: 2000000 INFO @ Tue, 02 Aug 2022 09:48:36: 7000000 INFO @ Tue, 02 Aug 2022 09:48:40: 3000000 INFO @ Tue, 02 Aug 2022 09:48:40: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 09:48:44: 8000000 INFO @ Tue, 02 Aug 2022 09:48:48: 4000000 INFO @ Tue, 02 Aug 2022 09:48:51: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX15407770/SRX15407770.05_peaks.xls INFO @ Tue, 02 Aug 2022 09:48:51: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX15407770/SRX15407770.05_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 09:48:51: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX15407770/SRX15407770.05_summits.bed INFO @ Tue, 02 Aug 2022 09:48:51: Done! INFO @ Tue, 02 Aug 2022 09:48:51: 9000000 pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (7694 records, 4 fields): 27 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 09:48:56: 5000000 INFO @ Tue, 02 Aug 2022 09:48:56: #1 tag size is determined as 76 bps INFO @ Tue, 02 Aug 2022 09:48:56: #1 tag size = 76 INFO @ Tue, 02 Aug 2022 09:48:56: #1 total tags in treatment: 9519739 INFO @ Tue, 02 Aug 2022 09:48:56: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 09:48:56: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 09:48:56: #1 tags after filtering in treatment: 9519739 INFO @ Tue, 02 Aug 2022 09:48:56: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 09:48:56: #1 finished! INFO @ Tue, 02 Aug 2022 09:48:56: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 09:48:56: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 09:48:57: #2 number of paired peaks: 1093 INFO @ Tue, 02 Aug 2022 09:48:57: start model_add_line... INFO @ Tue, 02 Aug 2022 09:48:57: start X-correlation... INFO @ Tue, 02 Aug 2022 09:48:57: end of X-cor INFO @ Tue, 02 Aug 2022 09:48:57: #2 finished! INFO @ Tue, 02 Aug 2022 09:48:57: #2 predicted fragment length is 172 bps INFO @ Tue, 02 Aug 2022 09:48:57: #2 alternative fragment length(s) may be 172,596 bps INFO @ Tue, 02 Aug 2022 09:48:57: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX15407770/SRX15407770.10_model.r INFO @ Tue, 02 Aug 2022 09:48:57: #3 Call peaks... INFO @ Tue, 02 Aug 2022 09:48:57: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 09:49:04: 6000000 INFO @ Tue, 02 Aug 2022 09:49:12: 7000000 INFO @ Tue, 02 Aug 2022 09:49:20: 8000000 INFO @ Tue, 02 Aug 2022 09:49:21: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 09:49:28: 9000000 INFO @ Tue, 02 Aug 2022 09:49:32: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX15407770/SRX15407770.10_peaks.xls INFO @ Tue, 02 Aug 2022 09:49:32: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX15407770/SRX15407770.10_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 09:49:32: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX15407770/SRX15407770.10_summits.bed INFO @ Tue, 02 Aug 2022 09:49:32: Done! INFO @ Tue, 02 Aug 2022 09:49:33: #1 tag size is determined as 76 bps INFO @ Tue, 02 Aug 2022 09:49:33: #1 tag size = 76 INFO @ Tue, 02 Aug 2022 09:49:33: #1 total tags in treatment: 9519739 INFO @ Tue, 02 Aug 2022 09:49:33: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 09:49:33: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 09:49:33: #1 tags after filtering in treatment: 9519739 INFO @ Tue, 02 Aug 2022 09:49:33: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 09:49:33: #1 finished! INFO @ Tue, 02 Aug 2022 09:49:33: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 09:49:33: #2 looking for paired plus/minus strand peaks... pass1 - making usageList (7 chroms): 13 millis pass2 - checking and writing primary data (5490 records, 4 fields): 25 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 09:49:34: #2 number of paired peaks: 1093 INFO @ Tue, 02 Aug 2022 09:49:34: start model_add_line... INFO @ Tue, 02 Aug 2022 09:49:34: start X-correlation... INFO @ Tue, 02 Aug 2022 09:49:34: end of X-cor INFO @ Tue, 02 Aug 2022 09:49:34: #2 finished! INFO @ Tue, 02 Aug 2022 09:49:34: #2 predicted fragment length is 172 bps INFO @ Tue, 02 Aug 2022 09:49:34: #2 alternative fragment length(s) may be 172,596 bps INFO @ Tue, 02 Aug 2022 09:49:34: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX15407770/SRX15407770.20_model.r INFO @ Tue, 02 Aug 2022 09:49:34: #3 Call peaks... INFO @ Tue, 02 Aug 2022 09:49:34: #3 Pre-compute pvalue-qvalue table... BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 09:49:57: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 09:50:07: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX15407770/SRX15407770.20_peaks.xls INFO @ Tue, 02 Aug 2022 09:50:07: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX15407770/SRX15407770.20_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 09:50:07: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX15407770/SRX15407770.20_summits.bed INFO @ Tue, 02 Aug 2022 09:50:07: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (3569 records, 4 fields): 21 millis CompletedMACS2peakCalling