Job ID = 10166039 SRX = SRX8832109 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: 00:03:25 16589313 reads; of these: 16589313 (100.00%) were unpaired; of these: 3167832 (19.10%) aligned 0 times 10909238 (65.76%) aligned exactly 1 time 2512243 (15.14%) aligned >1 times 80.90% overall alignment rate Time searching: 00:03:25 Overall time: 00:03:25 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] 4587872 / 13421481 = 0.3418 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 20:34:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8832109/SRX8832109.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8832109/SRX8832109.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8832109/SRX8832109.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8832109/SRX8832109.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 20:34:11: #1 read tag files... INFO @ Thu, 08 Oct 2020 20:34:11: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 20:34:16: 1000000 INFO @ Thu, 08 Oct 2020 20:34:22: 2000000 INFO @ Thu, 08 Oct 2020 20:34:27: 3000000 INFO @ Thu, 08 Oct 2020 20:34:32: 4000000 INFO @ Thu, 08 Oct 2020 20:34:37: 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 20:34:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8832109/SRX8832109.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8832109/SRX8832109.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8832109/SRX8832109.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8832109/SRX8832109.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 20:34:41: #1 read tag files... INFO @ Thu, 08 Oct 2020 20:34:41: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 20:34:43: 6000000 INFO @ Thu, 08 Oct 2020 20:34:47: 1000000 INFO @ Thu, 08 Oct 2020 20:34:49: 7000000 INFO @ Thu, 08 Oct 2020 20:34:53: 2000000 INFO @ Thu, 08 Oct 2020 20:34:55: 8000000 INFO @ Thu, 08 Oct 2020 20:34:59: 3000000 INFO @ Thu, 08 Oct 2020 20:34:59: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 20:34:59: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 20:34:59: #1 total tags in treatment: 8833609 INFO @ Thu, 08 Oct 2020 20:34:59: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 20:34:59: #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 20:35:00: #1 tags after filtering in treatment: 8833609 INFO @ Thu, 08 Oct 2020 20:35:00: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 20:35:00: #1 finished! INFO @ Thu, 08 Oct 2020 20:35:00: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 20:35:00: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 20:35:00: #2 number of paired peaks: 4756 INFO @ Thu, 08 Oct 2020 20:35:00: start model_add_line... INFO @ Thu, 08 Oct 2020 20:35:01: start X-correlation... INFO @ Thu, 08 Oct 2020 20:35:01: end of X-cor INFO @ Thu, 08 Oct 2020 20:35:01: #2 finished! INFO @ Thu, 08 Oct 2020 20:35:01: #2 predicted fragment length is 167 bps INFO @ Thu, 08 Oct 2020 20:35:01: #2 alternative fragment length(s) may be 167 bps INFO @ Thu, 08 Oct 2020 20:35:01: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8832109/SRX8832109.05_model.r INFO @ Thu, 08 Oct 2020 20:35:01: #3 Call peaks... INFO @ Thu, 08 Oct 2020 20:35:01: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 20:35:04: 4000000 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 20:35:10: 5000000 INFO @ Thu, 08 Oct 2020 20:35:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8832109/SRX8832109.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8832109/SRX8832109.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8832109/SRX8832109.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8832109/SRX8832109.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 20:35:11: #1 read tag files... INFO @ Thu, 08 Oct 2020 20:35:11: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 20:35:16: 6000000 INFO @ Thu, 08 Oct 2020 20:35:17: 1000000 INFO @ Thu, 08 Oct 2020 20:35:21: 7000000 INFO @ Thu, 08 Oct 2020 20:35:23: 2000000 INFO @ Thu, 08 Oct 2020 20:35:23: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 20:35:27: 8000000 INFO @ Thu, 08 Oct 2020 20:35:28: 3000000 INFO @ Thu, 08 Oct 2020 20:35:32: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 20:35:32: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 20:35:32: #1 total tags in treatment: 8833609 INFO @ Thu, 08 Oct 2020 20:35:32: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 20:35:32: #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 20:35:32: #1 tags after filtering in treatment: 8833609 INFO @ Thu, 08 Oct 2020 20:35:32: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 20:35:32: #1 finished! INFO @ Thu, 08 Oct 2020 20:35:32: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 20:35:32: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 20:35:33: #2 number of paired peaks: 4756 INFO @ Thu, 08 Oct 2020 20:35:33: start model_add_line... INFO @ Thu, 08 Oct 2020 20:35:33: start X-correlation... INFO @ Thu, 08 Oct 2020 20:35:33: end of X-cor INFO @ Thu, 08 Oct 2020 20:35:33: #2 finished! INFO @ Thu, 08 Oct 2020 20:35:33: #2 predicted fragment length is 167 bps INFO @ Thu, 08 Oct 2020 20:35:33: #2 alternative fragment length(s) may be 167 bps INFO @ Thu, 08 Oct 2020 20:35:33: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8832109/SRX8832109.10_model.r INFO @ Thu, 08 Oct 2020 20:35:33: #3 Call peaks... INFO @ Thu, 08 Oct 2020 20:35:33: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 20:35:34: 4000000 INFO @ Thu, 08 Oct 2020 20:35:34: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8832109/SRX8832109.05_peaks.xls INFO @ Thu, 08 Oct 2020 20:35:34: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8832109/SRX8832109.05_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 20:35:34: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8832109/SRX8832109.05_summits.bed INFO @ Thu, 08 Oct 2020 20:35:34: Done! pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (9249 records, 4 fields): 10 millis CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 20:35:40: 5000000 INFO @ Thu, 08 Oct 2020 20:35:45: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 08 Oct 2020 20:35:51: 7000000 INFO @ Thu, 08 Oct 2020 20:35:56: 8000000 INFO @ Thu, 08 Oct 2020 20:35:57: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 20:36:01: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 20:36:01: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 20:36:01: #1 total tags in treatment: 8833609 INFO @ Thu, 08 Oct 2020 20:36:01: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 20:36:01: #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 20:36:01: #1 tags after filtering in treatment: 8833609 INFO @ Thu, 08 Oct 2020 20:36:01: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 20:36:01: #1 finished! INFO @ Thu, 08 Oct 2020 20:36:01: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 20:36:01: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 20:36:02: #2 number of paired peaks: 4756 INFO @ Thu, 08 Oct 2020 20:36:02: start model_add_line... INFO @ Thu, 08 Oct 2020 20:36:02: start X-correlation... INFO @ Thu, 08 Oct 2020 20:36:02: end of X-cor INFO @ Thu, 08 Oct 2020 20:36:02: #2 finished! INFO @ Thu, 08 Oct 2020 20:36:02: #2 predicted fragment length is 167 bps INFO @ Thu, 08 Oct 2020 20:36:02: #2 alternative fragment length(s) may be 167 bps INFO @ Thu, 08 Oct 2020 20:36:02: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8832109/SRX8832109.20_model.r INFO @ Thu, 08 Oct 2020 20:36:02: #3 Call peaks... INFO @ Thu, 08 Oct 2020 20:36:02: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Thu, 08 Oct 2020 20:36:09: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8832109/SRX8832109.10_peaks.xls INFO @ Thu, 08 Oct 2020 20:36:09: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8832109/SRX8832109.10_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 20:36:09: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8832109/SRX8832109.10_summits.bed INFO @ Thu, 08 Oct 2020 20:36:09: Done! pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (7681 records, 4 fields): 8 millis CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 20:36:26: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 20:36:37: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8832109/SRX8832109.20_peaks.xls INFO @ Thu, 08 Oct 2020 20:36:37: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8832109/SRX8832109.20_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 20:36:37: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8832109/SRX8832109.20_summits.bed INFO @ Thu, 08 Oct 2020 20:36:37: Done! pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (5965 records, 4 fields): 6 millis CompletedMACS2peakCalling