Job ID = 14160227 SRX = SRX8832100 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: 00:03:51 18824022 reads; of these: 18824022 (100.00%) were unpaired; of these: 1062909 (5.65%) aligned 0 times 15355485 (81.57%) aligned exactly 1 time 2405628 (12.78%) aligned >1 times 94.35% overall alignment rate Time searching: 00:03:51 Overall time: 00:03:51 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] 8712944 / 17761113 = 0.4906 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 @ Thu, 09 Dec 2021 01:09:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8832100/SRX8832100.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8832100/SRX8832100.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8832100/SRX8832100.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8832100/SRX8832100.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, 09 Dec 2021 01:09:14: #1 read tag files... INFO @ Thu, 09 Dec 2021 01:09:14: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 01:09:20: 1000000 INFO @ Thu, 09 Dec 2021 01:09:26: 2000000 INFO @ Thu, 09 Dec 2021 01:09:31: 3000000 INFO @ Thu, 09 Dec 2021 01:09:37: 4000000 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 @ Thu, 09 Dec 2021 01:09:43: 5000000 INFO @ Thu, 09 Dec 2021 01:09:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8832100/SRX8832100.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8832100/SRX8832100.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8832100/SRX8832100.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8832100/SRX8832100.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, 09 Dec 2021 01:09:44: #1 read tag files... INFO @ Thu, 09 Dec 2021 01:09:44: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 01:09:49: 6000000 INFO @ Thu, 09 Dec 2021 01:09:49: 1000000 INFO @ Thu, 09 Dec 2021 01:09:55: 2000000 INFO @ Thu, 09 Dec 2021 01:09:55: 7000000 INFO @ Thu, 09 Dec 2021 01:10:00: 3000000 INFO @ Thu, 09 Dec 2021 01:10:01: 8000000 INFO @ Thu, 09 Dec 2021 01:10:06: 4000000 INFO @ Thu, 09 Dec 2021 01:10:07: 9000000 INFO @ Thu, 09 Dec 2021 01:10:08: #1 tag size is determined as 49 bps INFO @ Thu, 09 Dec 2021 01:10:08: #1 tag size = 49 INFO @ Thu, 09 Dec 2021 01:10:08: #1 total tags in treatment: 9048169 INFO @ Thu, 09 Dec 2021 01:10:08: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 01:10:08: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 09 Dec 2021 01:10:08: #1 tags after filtering in treatment: 9048169 INFO @ Thu, 09 Dec 2021 01:10:08: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 01:10:08: #1 finished! INFO @ Thu, 09 Dec 2021 01:10:08: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 01:10:08: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 01:10:09: #2 number of paired peaks: 4235 INFO @ Thu, 09 Dec 2021 01:10:09: start model_add_line... INFO @ Thu, 09 Dec 2021 01:10:09: start X-correlation... INFO @ Thu, 09 Dec 2021 01:10:09: end of X-cor INFO @ Thu, 09 Dec 2021 01:10:09: #2 finished! INFO @ Thu, 09 Dec 2021 01:10:09: #2 predicted fragment length is 151 bps INFO @ Thu, 09 Dec 2021 01:10:09: #2 alternative fragment length(s) may be 151 bps INFO @ Thu, 09 Dec 2021 01:10:09: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8832100/SRX8832100.05_model.r INFO @ Thu, 09 Dec 2021 01:10:09: #3 Call peaks... INFO @ Thu, 09 Dec 2021 01:10:09: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 01:10:11: 5000000 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 @ Thu, 09 Dec 2021 01:10:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8832100/SRX8832100.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8832100/SRX8832100.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8832100/SRX8832100.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8832100/SRX8832100.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, 09 Dec 2021 01:10:14: #1 read tag files... INFO @ Thu, 09 Dec 2021 01:10:14: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 01:10:16: 6000000 INFO @ Thu, 09 Dec 2021 01:10:19: 1000000 INFO @ Thu, 09 Dec 2021 01:10:22: 7000000 INFO @ Thu, 09 Dec 2021 01:10:24: 2000000 INFO @ Thu, 09 Dec 2021 01:10:27: 8000000 INFO @ Thu, 09 Dec 2021 01:10:30: 3000000 INFO @ Thu, 09 Dec 2021 01:10:30: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 01:10:33: 9000000 INFO @ Thu, 09 Dec 2021 01:10:33: #1 tag size is determined as 49 bps INFO @ Thu, 09 Dec 2021 01:10:33: #1 tag size = 49 INFO @ Thu, 09 Dec 2021 01:10:33: #1 total tags in treatment: 9048169 INFO @ Thu, 09 Dec 2021 01:10:33: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 01:10:33: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 09 Dec 2021 01:10:33: #1 tags after filtering in treatment: 9048169 INFO @ Thu, 09 Dec 2021 01:10:33: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 01:10:33: #1 finished! INFO @ Thu, 09 Dec 2021 01:10:33: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 01:10:33: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 01:10:34: #2 number of paired peaks: 4235 INFO @ Thu, 09 Dec 2021 01:10:34: start model_add_line... INFO @ Thu, 09 Dec 2021 01:10:34: start X-correlation... INFO @ Thu, 09 Dec 2021 01:10:34: end of X-cor INFO @ Thu, 09 Dec 2021 01:10:34: #2 finished! INFO @ Thu, 09 Dec 2021 01:10:34: #2 predicted fragment length is 151 bps INFO @ Thu, 09 Dec 2021 01:10:34: #2 alternative fragment length(s) may be 151 bps INFO @ Thu, 09 Dec 2021 01:10:34: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8832100/SRX8832100.10_model.r INFO @ Thu, 09 Dec 2021 01:10:34: #3 Call peaks... INFO @ Thu, 09 Dec 2021 01:10:34: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 01:10:35: 4000000 INFO @ Thu, 09 Dec 2021 01:10:40: 5000000 INFO @ Thu, 09 Dec 2021 01:10:40: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8832100/SRX8832100.05_peaks.xls INFO @ Thu, 09 Dec 2021 01:10:40: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8832100/SRX8832100.05_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 01:10:40: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8832100/SRX8832100.05_summits.bed INFO @ Thu, 09 Dec 2021 01:10:40: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (7603 records, 4 fields): 9 millis CompletedMACS2peakCalling INFO @ Thu, 09 Dec 2021 01:10:45: 6000000 INFO @ Thu, 09 Dec 2021 01:10:50: 7000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 09 Dec 2021 01:10:55: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 01:10:55: 8000000 INFO @ Thu, 09 Dec 2021 01:11:00: 9000000 INFO @ Thu, 09 Dec 2021 01:11:00: #1 tag size is determined as 49 bps INFO @ Thu, 09 Dec 2021 01:11:00: #1 tag size = 49 INFO @ Thu, 09 Dec 2021 01:11:00: #1 total tags in treatment: 9048169 INFO @ Thu, 09 Dec 2021 01:11:00: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 01:11:00: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 09 Dec 2021 01:11:01: #1 tags after filtering in treatment: 9048169 INFO @ Thu, 09 Dec 2021 01:11:01: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 01:11:01: #1 finished! INFO @ Thu, 09 Dec 2021 01:11:01: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 01:11:01: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 01:11:02: #2 number of paired peaks: 4235 INFO @ Thu, 09 Dec 2021 01:11:02: start model_add_line... INFO @ Thu, 09 Dec 2021 01:11:02: start X-correlation... INFO @ Thu, 09 Dec 2021 01:11:02: end of X-cor INFO @ Thu, 09 Dec 2021 01:11:02: #2 finished! INFO @ Thu, 09 Dec 2021 01:11:02: #2 predicted fragment length is 151 bps INFO @ Thu, 09 Dec 2021 01:11:02: #2 alternative fragment length(s) may be 151 bps INFO @ Thu, 09 Dec 2021 01:11:02: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8832100/SRX8832100.20_model.r INFO @ Thu, 09 Dec 2021 01:11:02: #3 Call peaks... INFO @ Thu, 09 Dec 2021 01:11:02: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 01:11:05: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8832100/SRX8832100.10_peaks.xls INFO @ Thu, 09 Dec 2021 01:11:05: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8832100/SRX8832100.10_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 01:11:05: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8832100/SRX8832100.10_summits.bed INFO @ Thu, 09 Dec 2021 01:11:05: Done! pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (6241 records, 4 fields): 7 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Thu, 09 Dec 2021 01:11:23: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 01:11:33: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8832100/SRX8832100.20_peaks.xls INFO @ Thu, 09 Dec 2021 01:11:33: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8832100/SRX8832100.20_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 01:11:33: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8832100/SRX8832100.20_summits.bed INFO @ Thu, 09 Dec 2021 01:11:33: Done! pass1 - making usageList (6 chroms): 2 millis pass2 - checking and writing primary data (4842 records, 4 fields): 6 millis CompletedMACS2peakCalling