Job ID = 10165863 SRX = SRX8832072 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: 00:03:35 16427403 reads; of these: 16427403 (100.00%) were unpaired; of these: 3935025 (23.95%) aligned 0 times 7499030 (45.65%) aligned exactly 1 time 4993348 (30.40%) aligned >1 times 76.05% overall alignment rate Time searching: 00:03:35 Overall time: 00:03:35 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] 3507937 / 12492378 = 0.2808 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 20:08:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8832072/SRX8832072.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8832072/SRX8832072.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8832072/SRX8832072.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8832072/SRX8832072.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 20:08:51: #1 read tag files... INFO @ Thu, 08 Oct 2020 20:08:51: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 20:08:56: 1000000 INFO @ Thu, 08 Oct 2020 20:09:01: 2000000 INFO @ Thu, 08 Oct 2020 20:09:06: 3000000 INFO @ Thu, 08 Oct 2020 20:09:11: 4000000 INFO @ Thu, 08 Oct 2020 20:09:16: 5000000 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 20:09:21: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8832072/SRX8832072.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8832072/SRX8832072.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8832072/SRX8832072.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8832072/SRX8832072.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 20:09:21: #1 read tag files... INFO @ Thu, 08 Oct 2020 20:09:21: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 20:09:21: 6000000 INFO @ Thu, 08 Oct 2020 20:09:26: 1000000 INFO @ Thu, 08 Oct 2020 20:09:26: 7000000 INFO @ Thu, 08 Oct 2020 20:09:31: 2000000 INFO @ Thu, 08 Oct 2020 20:09:32: 8000000 INFO @ Thu, 08 Oct 2020 20:09:37: 3000000 INFO @ Thu, 08 Oct 2020 20:09:37: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 20:09:37: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 20:09:37: #1 total tags in treatment: 8984441 INFO @ Thu, 08 Oct 2020 20:09:37: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 20:09:37: #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 20:09:37: #1 tags after filtering in treatment: 8984441 INFO @ Thu, 08 Oct 2020 20:09:37: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 20:09:37: #1 finished! INFO @ Thu, 08 Oct 2020 20:09:37: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 20:09:37: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 20:09:38: #2 number of paired peaks: 4085 INFO @ Thu, 08 Oct 2020 20:09:38: start model_add_line... INFO @ Thu, 08 Oct 2020 20:09:38: start X-correlation... INFO @ Thu, 08 Oct 2020 20:09:38: end of X-cor INFO @ Thu, 08 Oct 2020 20:09:38: #2 finished! INFO @ Thu, 08 Oct 2020 20:09:38: #2 predicted fragment length is 116 bps INFO @ Thu, 08 Oct 2020 20:09:38: #2 alternative fragment length(s) may be 4,116 bps INFO @ Thu, 08 Oct 2020 20:09:38: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8832072/SRX8832072.05_model.r INFO @ Thu, 08 Oct 2020 20:09:38: #3 Call peaks... INFO @ Thu, 08 Oct 2020 20:09:38: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 20:09:42: 4000000 INFO @ Thu, 08 Oct 2020 20:09:47: 5000000 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 20:09:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8832072/SRX8832072.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8832072/SRX8832072.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8832072/SRX8832072.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8832072/SRX8832072.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 20:09:51: #1 read tag files... INFO @ Thu, 08 Oct 2020 20:09:51: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 20:09:52: 6000000 INFO @ Thu, 08 Oct 2020 20:09:56: 1000000 INFO @ Thu, 08 Oct 2020 20:09:58: 7000000 INFO @ Thu, 08 Oct 2020 20:10:01: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 20:10:01: 2000000 INFO @ Thu, 08 Oct 2020 20:10:03: 8000000 INFO @ Thu, 08 Oct 2020 20:10:07: 3000000 INFO @ Thu, 08 Oct 2020 20:10:09: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 20:10:09: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 20:10:09: #1 total tags in treatment: 8984441 INFO @ Thu, 08 Oct 2020 20:10:09: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 20:10:09: #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 20:10:09: #1 tags after filtering in treatment: 8984441 INFO @ Thu, 08 Oct 2020 20:10:09: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 20:10:09: #1 finished! INFO @ Thu, 08 Oct 2020 20:10:09: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 20:10:09: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 20:10:10: #2 number of paired peaks: 4085 INFO @ Thu, 08 Oct 2020 20:10:10: start model_add_line... INFO @ Thu, 08 Oct 2020 20:10:10: start X-correlation... INFO @ Thu, 08 Oct 2020 20:10:10: end of X-cor INFO @ Thu, 08 Oct 2020 20:10:10: #2 finished! INFO @ Thu, 08 Oct 2020 20:10:10: #2 predicted fragment length is 116 bps INFO @ Thu, 08 Oct 2020 20:10:10: #2 alternative fragment length(s) may be 4,116 bps INFO @ Thu, 08 Oct 2020 20:10:10: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8832072/SRX8832072.10_model.r INFO @ Thu, 08 Oct 2020 20:10:10: #3 Call peaks... INFO @ Thu, 08 Oct 2020 20:10:10: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 20:10:11: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8832072/SRX8832072.05_peaks.xls INFO @ Thu, 08 Oct 2020 20:10:11: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8832072/SRX8832072.05_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 20:10:11: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8832072/SRX8832072.05_summits.bed INFO @ Thu, 08 Oct 2020 20:10:11: Done! INFO @ Thu, 08 Oct 2020 20:10:12: 4000000 pass1 - making usageList (6 chroms): 2 millis pass2 - checking and writing primary data (7833 records, 4 fields): 8 millis CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 20:10:17: 5000000 INFO @ Thu, 08 Oct 2020 20:10:23: 6000000 INFO @ Thu, 08 Oct 2020 20:10:28: 7000000 INFO @ Thu, 08 Oct 2020 20:10:33: 8000000 INFO @ Thu, 08 Oct 2020 20:10:34: #3 Call peaks for each chromosome... BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 08 Oct 2020 20:10:38: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 20:10:38: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 20:10:38: #1 total tags in treatment: 8984441 INFO @ Thu, 08 Oct 2020 20:10:38: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 20:10:38: #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 20:10:38: #1 tags after filtering in treatment: 8984441 INFO @ Thu, 08 Oct 2020 20:10:38: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 20:10:38: #1 finished! INFO @ Thu, 08 Oct 2020 20:10:38: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 20:10:38: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 20:10:39: #2 number of paired peaks: 4085 INFO @ Thu, 08 Oct 2020 20:10:39: start model_add_line... INFO @ Thu, 08 Oct 2020 20:10:39: start X-correlation... INFO @ Thu, 08 Oct 2020 20:10:39: end of X-cor INFO @ Thu, 08 Oct 2020 20:10:39: #2 finished! INFO @ Thu, 08 Oct 2020 20:10:39: #2 predicted fragment length is 116 bps INFO @ Thu, 08 Oct 2020 20:10:39: #2 alternative fragment length(s) may be 4,116 bps INFO @ Thu, 08 Oct 2020 20:10:39: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8832072/SRX8832072.20_model.r INFO @ Thu, 08 Oct 2020 20:10:39: #3 Call peaks... INFO @ Thu, 08 Oct 2020 20:10:39: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 20:10:44: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8832072/SRX8832072.10_peaks.xls INFO @ Thu, 08 Oct 2020 20:10:45: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8832072/SRX8832072.10_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 20:10:45: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8832072/SRX8832072.10_summits.bed INFO @ Thu, 08 Oct 2020 20:10:45: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (5157 records, 4 fields): 16 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Thu, 08 Oct 2020 20:11:02: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 20:11:13: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8832072/SRX8832072.20_peaks.xls INFO @ Thu, 08 Oct 2020 20:11:13: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8832072/SRX8832072.20_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 20:11:13: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8832072/SRX8832072.20_summits.bed INFO @ Thu, 08 Oct 2020 20:11:14: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (2368 records, 4 fields): 3 millis CompletedMACS2peakCalling