Job ID = 10165991 SRX = SRX8832095 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: 00:00:01 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:02:39 12619188 reads; of these: 12619188 (100.00%) were unpaired; of these: 853655 (6.76%) aligned 0 times 9791446 (77.59%) aligned exactly 1 time 1974087 (15.64%) aligned >1 times 93.24% overall alignment rate Time searching: 00:02:40 Overall time: 00:02:40 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] 6905643 / 11765533 = 0.5869 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 20:28:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8832095/SRX8832095.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8832095/SRX8832095.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8832095/SRX8832095.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8832095/SRX8832095.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 20:28:33: #1 read tag files... INFO @ Thu, 08 Oct 2020 20:28:33: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 20:28:38: 1000000 INFO @ Thu, 08 Oct 2020 20:28:43: 2000000 INFO @ Thu, 08 Oct 2020 20:28:48: 3000000 INFO @ Thu, 08 Oct 2020 20:28:53: 4000000 INFO @ Thu, 08 Oct 2020 20:28:58: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 20:28:58: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 20:28:58: #1 total tags in treatment: 4859890 INFO @ Thu, 08 Oct 2020 20:28:58: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 20:28:58: #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 20:28:58: #1 tags after filtering in treatment: 4859890 INFO @ Thu, 08 Oct 2020 20:28:58: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 20:28:58: #1 finished! INFO @ Thu, 08 Oct 2020 20:28:58: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 20:28:58: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 20:28:58: #2 number of paired peaks: 4202 INFO @ Thu, 08 Oct 2020 20:28:58: start model_add_line... INFO @ Thu, 08 Oct 2020 20:28:58: start X-correlation... INFO @ Thu, 08 Oct 2020 20:28:58: end of X-cor INFO @ Thu, 08 Oct 2020 20:28:58: #2 finished! INFO @ Thu, 08 Oct 2020 20:28:58: #2 predicted fragment length is 125 bps INFO @ Thu, 08 Oct 2020 20:28:58: #2 alternative fragment length(s) may be 125 bps INFO @ Thu, 08 Oct 2020 20:28:58: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8832095/SRX8832095.05_model.r INFO @ Thu, 08 Oct 2020 20:28:58: #3 Call peaks... INFO @ Thu, 08 Oct 2020 20:28:58: #3 Pre-compute pvalue-qvalue table... 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 20:29:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8832095/SRX8832095.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8832095/SRX8832095.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8832095/SRX8832095.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8832095/SRX8832095.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 20:29:03: #1 read tag files... INFO @ Thu, 08 Oct 2020 20:29:03: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 20:29:08: 1000000 INFO @ Thu, 08 Oct 2020 20:29:10: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 20:29:13: 2000000 INFO @ Thu, 08 Oct 2020 20:29:16: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8832095/SRX8832095.05_peaks.xls INFO @ Thu, 08 Oct 2020 20:29:16: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8832095/SRX8832095.05_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 20:29:16: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8832095/SRX8832095.05_summits.bed INFO @ Thu, 08 Oct 2020 20:29:16: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (6916 records, 4 fields): 7 millis CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 20:29:18: 3000000 INFO @ Thu, 08 Oct 2020 20:29:23: 4000000 INFO @ Thu, 08 Oct 2020 20:29:28: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 20:29:28: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 20:29:28: #1 total tags in treatment: 4859890 INFO @ Thu, 08 Oct 2020 20:29:28: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 20:29:28: #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 20:29:28: #1 tags after filtering in treatment: 4859890 INFO @ Thu, 08 Oct 2020 20:29:28: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 20:29:28: #1 finished! INFO @ Thu, 08 Oct 2020 20:29:28: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 20:29:28: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 20:29:28: #2 number of paired peaks: 4202 INFO @ Thu, 08 Oct 2020 20:29:28: start model_add_line... INFO @ Thu, 08 Oct 2020 20:29:28: start X-correlation... INFO @ Thu, 08 Oct 2020 20:29:28: end of X-cor INFO @ Thu, 08 Oct 2020 20:29:28: #2 finished! INFO @ Thu, 08 Oct 2020 20:29:28: #2 predicted fragment length is 125 bps INFO @ Thu, 08 Oct 2020 20:29:28: #2 alternative fragment length(s) may be 125 bps INFO @ Thu, 08 Oct 2020 20:29:28: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8832095/SRX8832095.10_model.r INFO @ Thu, 08 Oct 2020 20:29:28: #3 Call peaks... INFO @ Thu, 08 Oct 2020 20:29:28: #3 Pre-compute pvalue-qvalue table... 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 20:29:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8832095/SRX8832095.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8832095/SRX8832095.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8832095/SRX8832095.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8832095/SRX8832095.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 20:29:33: #1 read tag files... INFO @ Thu, 08 Oct 2020 20:29:33: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 20:29:38: 1000000 INFO @ Thu, 08 Oct 2020 20:29:41: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 20:29:43: 2000000 INFO @ Thu, 08 Oct 2020 20:29:47: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8832095/SRX8832095.10_peaks.xls INFO @ Thu, 08 Oct 2020 20:29:47: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8832095/SRX8832095.10_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 20:29:47: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8832095/SRX8832095.10_summits.bed INFO @ Thu, 08 Oct 2020 20:29:47: Done! pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (5744 records, 4 fields): 7 millis CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 20:29:48: 3000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 08 Oct 2020 20:29:53: 4000000 INFO @ Thu, 08 Oct 2020 20:29:58: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 20:29:58: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 20:29:58: #1 total tags in treatment: 4859890 INFO @ Thu, 08 Oct 2020 20:29:58: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 20:29:58: #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 20:29:58: #1 tags after filtering in treatment: 4859890 INFO @ Thu, 08 Oct 2020 20:29:58: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 20:29:58: #1 finished! INFO @ Thu, 08 Oct 2020 20:29:58: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 20:29:58: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 20:29:58: #2 number of paired peaks: 4202 INFO @ Thu, 08 Oct 2020 20:29:58: start model_add_line... INFO @ Thu, 08 Oct 2020 20:29:58: start X-correlation... INFO @ Thu, 08 Oct 2020 20:29:58: end of X-cor INFO @ Thu, 08 Oct 2020 20:29:58: #2 finished! INFO @ Thu, 08 Oct 2020 20:29:58: #2 predicted fragment length is 125 bps INFO @ Thu, 08 Oct 2020 20:29:58: #2 alternative fragment length(s) may be 125 bps INFO @ Thu, 08 Oct 2020 20:29:58: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8832095/SRX8832095.20_model.r INFO @ Thu, 08 Oct 2020 20:29:58: #3 Call peaks... INFO @ Thu, 08 Oct 2020 20:29:58: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Thu, 08 Oct 2020 20:30:10: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 20:30:16: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8832095/SRX8832095.20_peaks.xls INFO @ Thu, 08 Oct 2020 20:30:16: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8832095/SRX8832095.20_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 20:30:16: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8832095/SRX8832095.20_summits.bed INFO @ Thu, 08 Oct 2020 20:30:16: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (4499 records, 4 fields): 7 millis CompletedMACS2peakCalling