Job ID = 16436141 SRX = SRX13110356 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: 00:04:51 15902738 reads; of these: 15902738 (100.00%) were unpaired; of these: 345685 (2.17%) aligned 0 times 13696423 (86.13%) aligned exactly 1 time 1860630 (11.70%) aligned >1 times 97.83% overall alignment rate Time searching: 00:04:51 Overall time: 00:04:51 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] 3314633 / 15557053 = 0.2131 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 11:07:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX13110356/SRX13110356.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX13110356/SRX13110356.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX13110356/SRX13110356.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX13110356/SRX13110356.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 11:07:01: #1 read tag files... INFO @ Tue, 02 Aug 2022 11:07:01: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 11:07:07: 1000000 INFO @ Tue, 02 Aug 2022 11:07:13: 2000000 INFO @ Tue, 02 Aug 2022 11:07:19: 3000000 INFO @ Tue, 02 Aug 2022 11:07:25: 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 11:07:30: 5000000 INFO @ Tue, 02 Aug 2022 11:07:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX13110356/SRX13110356.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX13110356/SRX13110356.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX13110356/SRX13110356.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX13110356/SRX13110356.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 11:07:31: #1 read tag files... INFO @ Tue, 02 Aug 2022 11:07:31: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 11:07:37: 6000000 INFO @ Tue, 02 Aug 2022 11:07:38: 1000000 INFO @ Tue, 02 Aug 2022 11:07:43: 7000000 INFO @ Tue, 02 Aug 2022 11:07:45: 2000000 INFO @ Tue, 02 Aug 2022 11:07:50: 8000000 INFO @ Tue, 02 Aug 2022 11:07:51: 3000000 INFO @ Tue, 02 Aug 2022 11:07:57: 9000000 INFO @ Tue, 02 Aug 2022 11:07:58: 4000000 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 11:08:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX13110356/SRX13110356.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX13110356/SRX13110356.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX13110356/SRX13110356.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX13110356/SRX13110356.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 11:08:01: #1 read tag files... INFO @ Tue, 02 Aug 2022 11:08:01: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 11:08:03: 10000000 INFO @ Tue, 02 Aug 2022 11:08:04: 5000000 INFO @ Tue, 02 Aug 2022 11:08:07: 1000000 INFO @ Tue, 02 Aug 2022 11:08:10: 11000000 INFO @ Tue, 02 Aug 2022 11:08:11: 6000000 INFO @ Tue, 02 Aug 2022 11:08:14: 2000000 INFO @ Tue, 02 Aug 2022 11:08:16: 12000000 INFO @ Tue, 02 Aug 2022 11:08:17: 7000000 INFO @ Tue, 02 Aug 2022 11:08:18: #1 tag size is determined as 76 bps INFO @ Tue, 02 Aug 2022 11:08:18: #1 tag size = 76 INFO @ Tue, 02 Aug 2022 11:08:18: #1 total tags in treatment: 12242420 INFO @ Tue, 02 Aug 2022 11:08:18: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 11:08:18: #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 11:08:18: #1 tags after filtering in treatment: 12242420 INFO @ Tue, 02 Aug 2022 11:08:18: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 11:08:18: #1 finished! INFO @ Tue, 02 Aug 2022 11:08:18: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 11:08:18: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 11:08:19: #2 number of paired peaks: 1816 INFO @ Tue, 02 Aug 2022 11:08:19: start model_add_line... INFO @ Tue, 02 Aug 2022 11:08:19: start X-correlation... INFO @ Tue, 02 Aug 2022 11:08:19: end of X-cor INFO @ Tue, 02 Aug 2022 11:08:19: #2 finished! INFO @ Tue, 02 Aug 2022 11:08:19: #2 predicted fragment length is 195 bps INFO @ Tue, 02 Aug 2022 11:08:19: #2 alternative fragment length(s) may be 195 bps INFO @ Tue, 02 Aug 2022 11:08:19: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX13110356/SRX13110356.05_model.r INFO @ Tue, 02 Aug 2022 11:08:19: #3 Call peaks... INFO @ Tue, 02 Aug 2022 11:08:19: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 11:08:21: 3000000 INFO @ Tue, 02 Aug 2022 11:08:24: 8000000 INFO @ Tue, 02 Aug 2022 11:08:27: 4000000 INFO @ Tue, 02 Aug 2022 11:08:30: 9000000 INFO @ Tue, 02 Aug 2022 11:08:33: 5000000 INFO @ Tue, 02 Aug 2022 11:08:37: 10000000 INFO @ Tue, 02 Aug 2022 11:08:40: 6000000 INFO @ Tue, 02 Aug 2022 11:08:43: 11000000 INFO @ Tue, 02 Aug 2022 11:08:46: 7000000 INFO @ Tue, 02 Aug 2022 11:08:49: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 11:08:50: 12000000 INFO @ Tue, 02 Aug 2022 11:08:51: #1 tag size is determined as 76 bps INFO @ Tue, 02 Aug 2022 11:08:51: #1 tag size = 76 INFO @ Tue, 02 Aug 2022 11:08:51: #1 total tags in treatment: 12242420 INFO @ Tue, 02 Aug 2022 11:08:51: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 11:08:51: #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 11:08:51: #1 tags after filtering in treatment: 12242420 INFO @ Tue, 02 Aug 2022 11:08:51: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 11:08:51: #1 finished! INFO @ Tue, 02 Aug 2022 11:08:51: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 11:08:51: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 11:08:52: #2 number of paired peaks: 1816 INFO @ Tue, 02 Aug 2022 11:08:52: start model_add_line... INFO @ Tue, 02 Aug 2022 11:08:52: start X-correlation... INFO @ Tue, 02 Aug 2022 11:08:52: end of X-cor INFO @ Tue, 02 Aug 2022 11:08:52: #2 finished! INFO @ Tue, 02 Aug 2022 11:08:52: #2 predicted fragment length is 195 bps INFO @ Tue, 02 Aug 2022 11:08:52: #2 alternative fragment length(s) may be 195 bps INFO @ Tue, 02 Aug 2022 11:08:52: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX13110356/SRX13110356.10_model.r INFO @ Tue, 02 Aug 2022 11:08:52: #3 Call peaks... INFO @ Tue, 02 Aug 2022 11:08:52: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 11:08:53: 8000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 11:08:58: 9000000 INFO @ Tue, 02 Aug 2022 11:09:03: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX13110356/SRX13110356.05_peaks.xls INFO @ Tue, 02 Aug 2022 11:09:03: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX13110356/SRX13110356.05_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 11:09:04: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX13110356/SRX13110356.05_summits.bed INFO @ Tue, 02 Aug 2022 11:09:04: Done! INFO @ Tue, 02 Aug 2022 11:09:04: 10000000 pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (12289 records, 4 fields): 31 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 11:09:10: 11000000 INFO @ Tue, 02 Aug 2022 11:09:15: 12000000 BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 11:09:17: #1 tag size is determined as 76 bps INFO @ Tue, 02 Aug 2022 11:09:17: #1 tag size = 76 INFO @ Tue, 02 Aug 2022 11:09:17: #1 total tags in treatment: 12242420 INFO @ Tue, 02 Aug 2022 11:09:17: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 11:09:17: #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 11:09:17: #1 tags after filtering in treatment: 12242420 INFO @ Tue, 02 Aug 2022 11:09:17: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 11:09:17: #1 finished! INFO @ Tue, 02 Aug 2022 11:09:17: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 11:09:17: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 11:09:18: #2 number of paired peaks: 1816 INFO @ Tue, 02 Aug 2022 11:09:18: start model_add_line... INFO @ Tue, 02 Aug 2022 11:09:18: start X-correlation... INFO @ Tue, 02 Aug 2022 11:09:18: end of X-cor INFO @ Tue, 02 Aug 2022 11:09:18: #2 finished! INFO @ Tue, 02 Aug 2022 11:09:18: #2 predicted fragment length is 195 bps INFO @ Tue, 02 Aug 2022 11:09:18: #2 alternative fragment length(s) may be 195 bps INFO @ Tue, 02 Aug 2022 11:09:18: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX13110356/SRX13110356.20_model.r INFO @ Tue, 02 Aug 2022 11:09:18: #3 Call peaks... INFO @ Tue, 02 Aug 2022 11:09:18: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 11:09:22: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 11:09:37: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX13110356/SRX13110356.10_peaks.xls INFO @ Tue, 02 Aug 2022 11:09:37: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX13110356/SRX13110356.10_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 11:09:37: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX13110356/SRX13110356.10_summits.bed INFO @ Tue, 02 Aug 2022 11:09:37: Done! pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (8991 records, 4 fields): 28 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 11:09:48: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 11:10:02: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX13110356/SRX13110356.20_peaks.xls INFO @ Tue, 02 Aug 2022 11:10:02: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX13110356/SRX13110356.20_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 11:10:02: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX13110356/SRX13110356.20_summits.bed INFO @ Tue, 02 Aug 2022 11:10:02: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (5847 records, 4 fields): 22 millis CompletedMACS2peakCalling