Job ID = 10166045 SRX = SRX8832108 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: 00:03:23 17070129 reads; of these: 17070129 (100.00%) were unpaired; of these: 2109435 (12.36%) aligned 0 times 12279875 (71.94%) aligned exactly 1 time 2680819 (15.70%) aligned >1 times 87.64% overall alignment rate Time searching: 00:03:23 Overall time: 00:03:23 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] 4515820 / 14960694 = 0.3018 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 20:34:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8832108/SRX8832108.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8832108/SRX8832108.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8832108/SRX8832108.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8832108/SRX8832108.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 20:34:56: #1 read tag files... INFO @ Thu, 08 Oct 2020 20:34:56: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 20:35:02: 1000000 INFO @ Thu, 08 Oct 2020 20:35:07: 2000000 INFO @ Thu, 08 Oct 2020 20:35:12: 3000000 INFO @ Thu, 08 Oct 2020 20:35:16: 4000000 INFO @ Thu, 08 Oct 2020 20:35:21: 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 20:35:26: 6000000 INFO @ Thu, 08 Oct 2020 20:35:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8832108/SRX8832108.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8832108/SRX8832108.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8832108/SRX8832108.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8832108/SRX8832108.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 20:35:27: #1 read tag files... INFO @ Thu, 08 Oct 2020 20:35:27: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 20:35:32: 7000000 INFO @ Thu, 08 Oct 2020 20:35:33: 1000000 INFO @ Thu, 08 Oct 2020 20:35:38: 8000000 INFO @ Thu, 08 Oct 2020 20:35:38: 2000000 INFO @ Thu, 08 Oct 2020 20:35:43: 9000000 INFO @ Thu, 08 Oct 2020 20:35:44: 3000000 INFO @ Thu, 08 Oct 2020 20:35:49: 10000000 INFO @ Thu, 08 Oct 2020 20:35:49: 4000000 INFO @ Thu, 08 Oct 2020 20:35:51: #1 tag size is determined as 49 bps INFO @ Thu, 08 Oct 2020 20:35:51: #1 tag size = 49 INFO @ Thu, 08 Oct 2020 20:35:51: #1 total tags in treatment: 10444874 INFO @ Thu, 08 Oct 2020 20:35:51: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 20:35:51: #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 20:35:52: #1 tags after filtering in treatment: 10444874 INFO @ Thu, 08 Oct 2020 20:35:52: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 20:35:52: #1 finished! INFO @ Thu, 08 Oct 2020 20:35:52: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 20:35:52: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 20:35:52: #2 number of paired peaks: 2631 INFO @ Thu, 08 Oct 2020 20:35:52: start model_add_line... INFO @ Thu, 08 Oct 2020 20:35:53: start X-correlation... INFO @ Thu, 08 Oct 2020 20:35:53: end of X-cor INFO @ Thu, 08 Oct 2020 20:35:53: #2 finished! INFO @ Thu, 08 Oct 2020 20:35:53: #2 predicted fragment length is 150 bps INFO @ Thu, 08 Oct 2020 20:35:53: #2 alternative fragment length(s) may be 150 bps INFO @ Thu, 08 Oct 2020 20:35:53: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8832108/SRX8832108.05_model.r INFO @ Thu, 08 Oct 2020 20:35:53: #3 Call peaks... INFO @ Thu, 08 Oct 2020 20:35:53: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 20:35:55: 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 20:35:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8832108/SRX8832108.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8832108/SRX8832108.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8832108/SRX8832108.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8832108/SRX8832108.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 20:35:58: #1 read tag files... INFO @ Thu, 08 Oct 2020 20:35:58: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 20:36:00: 6000000 INFO @ Thu, 08 Oct 2020 20:36:03: 1000000 INFO @ Thu, 08 Oct 2020 20:36:06: 7000000 INFO @ Thu, 08 Oct 2020 20:36:09: 2000000 INFO @ Thu, 08 Oct 2020 20:36:11: 8000000 INFO @ Thu, 08 Oct 2020 20:36:14: 3000000 INFO @ Thu, 08 Oct 2020 20:36:17: 9000000 INFO @ Thu, 08 Oct 2020 20:36:20: 4000000 INFO @ Thu, 08 Oct 2020 20:36:20: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 20:36:22: 10000000 INFO @ Thu, 08 Oct 2020 20:36:25: #1 tag size is determined as 49 bps INFO @ Thu, 08 Oct 2020 20:36:25: #1 tag size = 49 INFO @ Thu, 08 Oct 2020 20:36:25: #1 total tags in treatment: 10444874 INFO @ Thu, 08 Oct 2020 20:36:25: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 20:36:25: #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 20:36:25: #1 tags after filtering in treatment: 10444874 INFO @ Thu, 08 Oct 2020 20:36:25: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 20:36:25: #1 finished! INFO @ Thu, 08 Oct 2020 20:36:25: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 20:36:25: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 20:36:25: 5000000 INFO @ Thu, 08 Oct 2020 20:36:26: #2 number of paired peaks: 2631 INFO @ Thu, 08 Oct 2020 20:36:26: start model_add_line... INFO @ Thu, 08 Oct 2020 20:36:26: start X-correlation... INFO @ Thu, 08 Oct 2020 20:36:26: end of X-cor INFO @ Thu, 08 Oct 2020 20:36:26: #2 finished! INFO @ Thu, 08 Oct 2020 20:36:26: #2 predicted fragment length is 150 bps INFO @ Thu, 08 Oct 2020 20:36:26: #2 alternative fragment length(s) may be 150 bps INFO @ Thu, 08 Oct 2020 20:36:26: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8832108/SRX8832108.10_model.r INFO @ Thu, 08 Oct 2020 20:36:26: #3 Call peaks... INFO @ Thu, 08 Oct 2020 20:36:26: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 20:36:31: 6000000 INFO @ Thu, 08 Oct 2020 20:36:33: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8832108/SRX8832108.05_peaks.xls INFO @ Thu, 08 Oct 2020 20:36:33: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8832108/SRX8832108.05_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 20:36:33: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8832108/SRX8832108.05_summits.bed INFO @ Thu, 08 Oct 2020 20:36:33: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (8285 records, 4 fields): 10 millis CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 20:36:36: 7000000 INFO @ Thu, 08 Oct 2020 20:36:41: 8000000 INFO @ Thu, 08 Oct 2020 20:36:47: 9000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 08 Oct 2020 20:36:52: 10000000 INFO @ Thu, 08 Oct 2020 20:36:53: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 20:36:54: #1 tag size is determined as 49 bps INFO @ Thu, 08 Oct 2020 20:36:54: #1 tag size = 49 INFO @ Thu, 08 Oct 2020 20:36:54: #1 total tags in treatment: 10444874 INFO @ Thu, 08 Oct 2020 20:36:54: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 20:36:54: #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 20:36:54: #1 tags after filtering in treatment: 10444874 INFO @ Thu, 08 Oct 2020 20:36:54: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 20:36:54: #1 finished! INFO @ Thu, 08 Oct 2020 20:36:54: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 20:36:54: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 20:36:55: #2 number of paired peaks: 2631 INFO @ Thu, 08 Oct 2020 20:36:55: start model_add_line... INFO @ Thu, 08 Oct 2020 20:36:55: start X-correlation... INFO @ Thu, 08 Oct 2020 20:36:55: end of X-cor INFO @ Thu, 08 Oct 2020 20:36:55: #2 finished! INFO @ Thu, 08 Oct 2020 20:36:55: #2 predicted fragment length is 150 bps INFO @ Thu, 08 Oct 2020 20:36:55: #2 alternative fragment length(s) may be 150 bps INFO @ Thu, 08 Oct 2020 20:36:55: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8832108/SRX8832108.20_model.r INFO @ Thu, 08 Oct 2020 20:36:55: #3 Call peaks... INFO @ Thu, 08 Oct 2020 20:36:55: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 20:37:06: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8832108/SRX8832108.10_peaks.xls INFO @ Thu, 08 Oct 2020 20:37:06: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8832108/SRX8832108.10_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 20:37:06: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8832108/SRX8832108.10_summits.bed INFO @ Thu, 08 Oct 2020 20:37:07: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (6624 records, 4 fields): 8 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Thu, 08 Oct 2020 20:37:20: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 20:37:32: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8832108/SRX8832108.20_peaks.xls INFO @ Thu, 08 Oct 2020 20:37:32: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8832108/SRX8832108.20_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 20:37:32: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8832108/SRX8832108.20_summits.bed INFO @ Thu, 08 Oct 2020 20:37:32: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (4886 records, 4 fields): 7 millis CompletedMACS2peakCalling