Job ID = 14160232 SRX = SRX8832104 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: 00:04:02 18341985 reads; of these: 18341985 (100.00%) were unpaired; of these: 801996 (4.37%) aligned 0 times 14611765 (79.66%) aligned exactly 1 time 2928224 (15.96%) aligned >1 times 95.63% overall alignment rate Time searching: 00:04:02 Overall time: 00:04:02 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] 8220027 / 17539989 = 0.4686 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 01:10:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8832104/SRX8832104.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8832104/SRX8832104.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8832104/SRX8832104.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8832104/SRX8832104.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 01:10:24: #1 read tag files... INFO @ Thu, 09 Dec 2021 01:10:24: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 01:10:29: 1000000 INFO @ Thu, 09 Dec 2021 01:10:35: 2000000 INFO @ Thu, 09 Dec 2021 01:10:40: 3000000 INFO @ Thu, 09 Dec 2021 01:10:46: 4000000 INFO @ Thu, 09 Dec 2021 01:10:51: 5000000 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 01:10:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8832104/SRX8832104.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8832104/SRX8832104.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8832104/SRX8832104.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8832104/SRX8832104.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 01:10:54: #1 read tag files... INFO @ Thu, 09 Dec 2021 01:10:54: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 01:10:57: 6000000 INFO @ Thu, 09 Dec 2021 01:11:00: 1000000 INFO @ Thu, 09 Dec 2021 01:11:04: 7000000 INFO @ Thu, 09 Dec 2021 01:11:07: 2000000 INFO @ Thu, 09 Dec 2021 01:11:11: 8000000 INFO @ Thu, 09 Dec 2021 01:11:13: 3000000 INFO @ Thu, 09 Dec 2021 01:11:17: 9000000 INFO @ Thu, 09 Dec 2021 01:11:19: #1 tag size is determined as 50 bps INFO @ Thu, 09 Dec 2021 01:11:19: #1 tag size = 50 INFO @ Thu, 09 Dec 2021 01:11:19: #1 total tags in treatment: 9319962 INFO @ Thu, 09 Dec 2021 01:11:19: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 01:11:19: #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 01:11:19: #1 tags after filtering in treatment: 9319962 INFO @ Thu, 09 Dec 2021 01:11:19: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 01:11:19: #1 finished! INFO @ Thu, 09 Dec 2021 01:11:19: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 01:11:19: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 01:11:20: 4000000 INFO @ Thu, 09 Dec 2021 01:11:20: #2 number of paired peaks: 3609 INFO @ Thu, 09 Dec 2021 01:11:20: start model_add_line... INFO @ Thu, 09 Dec 2021 01:11:20: start X-correlation... INFO @ Thu, 09 Dec 2021 01:11:20: end of X-cor INFO @ Thu, 09 Dec 2021 01:11:20: #2 finished! INFO @ Thu, 09 Dec 2021 01:11:20: #2 predicted fragment length is 157 bps INFO @ Thu, 09 Dec 2021 01:11:20: #2 alternative fragment length(s) may be 157 bps INFO @ Thu, 09 Dec 2021 01:11:20: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8832104/SRX8832104.05_model.r INFO @ Thu, 09 Dec 2021 01:11:20: #3 Call peaks... INFO @ Thu, 09 Dec 2021 01:11:20: #3 Pre-compute pvalue-qvalue table... 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 01:11:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8832104/SRX8832104.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8832104/SRX8832104.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8832104/SRX8832104.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8832104/SRX8832104.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 01:11:24: #1 read tag files... INFO @ Thu, 09 Dec 2021 01:11:24: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 01:11:26: 5000000 INFO @ Thu, 09 Dec 2021 01:11:32: 1000000 INFO @ Thu, 09 Dec 2021 01:11:33: 6000000 INFO @ Thu, 09 Dec 2021 01:11:40: 2000000 INFO @ Thu, 09 Dec 2021 01:11:40: 7000000 INFO @ Thu, 09 Dec 2021 01:11:43: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 01:11:47: 8000000 INFO @ Thu, 09 Dec 2021 01:11:47: 3000000 INFO @ Thu, 09 Dec 2021 01:11:54: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8832104/SRX8832104.05_peaks.xls INFO @ Thu, 09 Dec 2021 01:11:54: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8832104/SRX8832104.05_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 01:11:54: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8832104/SRX8832104.05_summits.bed INFO @ Thu, 09 Dec 2021 01:11:54: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (6493 records, 4 fields): 8 millis CompletedMACS2peakCalling INFO @ Thu, 09 Dec 2021 01:11:54: 9000000 INFO @ Thu, 09 Dec 2021 01:11:55: 4000000 INFO @ Thu, 09 Dec 2021 01:11:57: #1 tag size is determined as 50 bps INFO @ Thu, 09 Dec 2021 01:11:57: #1 tag size = 50 INFO @ Thu, 09 Dec 2021 01:11:57: #1 total tags in treatment: 9319962 INFO @ Thu, 09 Dec 2021 01:11:57: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 01:11:57: #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 01:11:57: #1 tags after filtering in treatment: 9319962 INFO @ Thu, 09 Dec 2021 01:11:57: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 01:11:57: #1 finished! INFO @ Thu, 09 Dec 2021 01:11:57: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 01:11:57: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 01:11:58: #2 number of paired peaks: 3609 INFO @ Thu, 09 Dec 2021 01:11:58: start model_add_line... INFO @ Thu, 09 Dec 2021 01:11:58: start X-correlation... INFO @ Thu, 09 Dec 2021 01:11:58: end of X-cor INFO @ Thu, 09 Dec 2021 01:11:58: #2 finished! INFO @ Thu, 09 Dec 2021 01:11:58: #2 predicted fragment length is 157 bps INFO @ Thu, 09 Dec 2021 01:11:58: #2 alternative fragment length(s) may be 157 bps INFO @ Thu, 09 Dec 2021 01:11:58: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8832104/SRX8832104.10_model.r INFO @ Thu, 09 Dec 2021 01:11:58: #3 Call peaks... INFO @ Thu, 09 Dec 2021 01:11:58: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 01:12:03: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 09 Dec 2021 01:12:10: 6000000 INFO @ Thu, 09 Dec 2021 01:12:17: 7000000 INFO @ Thu, 09 Dec 2021 01:12:19: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Thu, 09 Dec 2021 01:12:25: 8000000 INFO @ Thu, 09 Dec 2021 01:12:29: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8832104/SRX8832104.10_peaks.xls INFO @ Thu, 09 Dec 2021 01:12:29: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8832104/SRX8832104.10_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 01:12:29: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8832104/SRX8832104.10_summits.bed INFO @ Thu, 09 Dec 2021 01:12:29: Done! pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (5357 records, 4 fields): 6 millis CompletedMACS2peakCalling INFO @ Thu, 09 Dec 2021 01:12:32: 9000000 INFO @ Thu, 09 Dec 2021 01:12:34: #1 tag size is determined as 50 bps INFO @ Thu, 09 Dec 2021 01:12:34: #1 tag size = 50 INFO @ Thu, 09 Dec 2021 01:12:34: #1 total tags in treatment: 9319962 INFO @ Thu, 09 Dec 2021 01:12:34: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 01:12:34: #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 01:12:34: #1 tags after filtering in treatment: 9319962 INFO @ Thu, 09 Dec 2021 01:12:34: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 01:12:34: #1 finished! INFO @ Thu, 09 Dec 2021 01:12:34: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 01:12:34: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 01:12:35: #2 number of paired peaks: 3609 INFO @ Thu, 09 Dec 2021 01:12:35: start model_add_line... INFO @ Thu, 09 Dec 2021 01:12:35: start X-correlation... INFO @ Thu, 09 Dec 2021 01:12:35: end of X-cor INFO @ Thu, 09 Dec 2021 01:12:35: #2 finished! INFO @ Thu, 09 Dec 2021 01:12:35: #2 predicted fragment length is 157 bps INFO @ Thu, 09 Dec 2021 01:12:35: #2 alternative fragment length(s) may be 157 bps INFO @ Thu, 09 Dec 2021 01:12:35: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8832104/SRX8832104.20_model.r INFO @ Thu, 09 Dec 2021 01:12:35: #3 Call peaks... INFO @ Thu, 09 Dec 2021 01:12:35: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 01:12:57: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 01:13:06: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8832104/SRX8832104.20_peaks.xls INFO @ Thu, 09 Dec 2021 01:13:06: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8832104/SRX8832104.20_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 01:13:06: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8832104/SRX8832104.20_summits.bed INFO @ Thu, 09 Dec 2021 01:13:06: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (4288 records, 4 fields): 5 millis CompletedMACS2peakCalling