Job ID = 5720246 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 23,613,829 reads read : 47,227,658 reads written : 23,613,829 reads 0-length : 23,613,829 rm: cannot remove ‘[DSE]RR*’: No such file or directory 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: 00:03:28 23613829 reads; of these: 23613829 (100.00%) were unpaired; of these: 17943267 (75.99%) aligned 0 times 4942088 (20.93%) aligned exactly 1 time 728474 (3.08%) aligned >1 times 24.01% overall alignment rate Time searching: 00:03:28 Overall time: 00:03:28 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_rmdupse_core] 3716639 / 5670562 = 0.6554 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 @ Wed, 15 Apr 2020 22:58:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX7574650/SRX7574650.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX7574650/SRX7574650.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX7574650/SRX7574650.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX7574650/SRX7574650.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 @ Wed, 15 Apr 2020 22:58:33: #1 read tag files... INFO @ Wed, 15 Apr 2020 22:58:33: #1 read treatment tags... INFO @ Wed, 15 Apr 2020 22:58:38: 1000000 INFO @ Wed, 15 Apr 2020 22:58:44: #1 tag size is determined as 50 bps INFO @ Wed, 15 Apr 2020 22:58:44: #1 tag size = 50 INFO @ Wed, 15 Apr 2020 22:58:44: #1 total tags in treatment: 1953923 INFO @ Wed, 15 Apr 2020 22:58:44: #1 user defined the maximum tags... INFO @ Wed, 15 Apr 2020 22:58:44: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 15 Apr 2020 22:58:44: #1 tags after filtering in treatment: 1953923 INFO @ Wed, 15 Apr 2020 22:58:44: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 15 Apr 2020 22:58:44: #1 finished! INFO @ Wed, 15 Apr 2020 22:58:44: #2 Build Peak Model... INFO @ Wed, 15 Apr 2020 22:58:44: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 15 Apr 2020 22:58:44: #2 number of paired peaks: 2208 INFO @ Wed, 15 Apr 2020 22:58:44: start model_add_line... INFO @ Wed, 15 Apr 2020 22:58:44: start X-correlation... INFO @ Wed, 15 Apr 2020 22:58:44: end of X-cor INFO @ Wed, 15 Apr 2020 22:58:44: #2 finished! INFO @ Wed, 15 Apr 2020 22:58:44: #2 predicted fragment length is 135 bps INFO @ Wed, 15 Apr 2020 22:58:44: #2 alternative fragment length(s) may be 135 bps INFO @ Wed, 15 Apr 2020 22:58:44: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX7574650/SRX7574650.05_model.r INFO @ Wed, 15 Apr 2020 22:58:44: #3 Call peaks... INFO @ Wed, 15 Apr 2020 22:58:44: #3 Pre-compute pvalue-qvalue table... INFO @ Wed, 15 Apr 2020 22:58:48: #3 Call peaks for each chromosome... INFO @ Wed, 15 Apr 2020 22:58:50: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX7574650/SRX7574650.05_peaks.xls INFO @ Wed, 15 Apr 2020 22:58:50: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX7574650/SRX7574650.05_peaks.narrowPeak INFO @ Wed, 15 Apr 2020 22:58:50: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX7574650/SRX7574650.05_summits.bed INFO @ Wed, 15 Apr 2020 22:58:50: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (1081 records, 4 fields): 3 millis CompletedMACS2peakCalling 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 @ Wed, 15 Apr 2020 22:59:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX7574650/SRX7574650.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX7574650/SRX7574650.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX7574650/SRX7574650.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX7574650/SRX7574650.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 @ Wed, 15 Apr 2020 22:59:03: #1 read tag files... INFO @ Wed, 15 Apr 2020 22:59:03: #1 read treatment tags... INFO @ Wed, 15 Apr 2020 22:59:08: 1000000 INFO @ Wed, 15 Apr 2020 22:59:13: #1 tag size is determined as 50 bps INFO @ Wed, 15 Apr 2020 22:59:13: #1 tag size = 50 INFO @ Wed, 15 Apr 2020 22:59:13: #1 total tags in treatment: 1953923 INFO @ Wed, 15 Apr 2020 22:59:13: #1 user defined the maximum tags... INFO @ Wed, 15 Apr 2020 22:59:13: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 15 Apr 2020 22:59:13: #1 tags after filtering in treatment: 1953923 INFO @ Wed, 15 Apr 2020 22:59:13: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 15 Apr 2020 22:59:13: #1 finished! INFO @ Wed, 15 Apr 2020 22:59:13: #2 Build Peak Model... INFO @ Wed, 15 Apr 2020 22:59:13: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 15 Apr 2020 22:59:13: #2 number of paired peaks: 2208 INFO @ Wed, 15 Apr 2020 22:59:13: start model_add_line... INFO @ Wed, 15 Apr 2020 22:59:13: start X-correlation... INFO @ Wed, 15 Apr 2020 22:59:13: end of X-cor INFO @ Wed, 15 Apr 2020 22:59:13: #2 finished! INFO @ Wed, 15 Apr 2020 22:59:13: #2 predicted fragment length is 135 bps INFO @ Wed, 15 Apr 2020 22:59:13: #2 alternative fragment length(s) may be 135 bps INFO @ Wed, 15 Apr 2020 22:59:13: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX7574650/SRX7574650.10_model.r INFO @ Wed, 15 Apr 2020 22:59:13: #3 Call peaks... INFO @ Wed, 15 Apr 2020 22:59:13: #3 Pre-compute pvalue-qvalue table... INFO @ Wed, 15 Apr 2020 22:59:17: #3 Call peaks for each chromosome... INFO @ Wed, 15 Apr 2020 22:59:19: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX7574650/SRX7574650.10_peaks.xls INFO @ Wed, 15 Apr 2020 22:59:19: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX7574650/SRX7574650.10_peaks.narrowPeak INFO @ Wed, 15 Apr 2020 22:59:19: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX7574650/SRX7574650.10_summits.bed INFO @ Wed, 15 Apr 2020 22:59:19: Done! pass1 - making usageList (6 chroms): 0 millis pass2 - checking and writing primary data (287 records, 4 fields): 2 millis CompletedMACS2peakCalling 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 @ Wed, 15 Apr 2020 22:59:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX7574650/SRX7574650.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX7574650/SRX7574650.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX7574650/SRX7574650.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX7574650/SRX7574650.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 @ Wed, 15 Apr 2020 22:59:33: #1 read tag files... INFO @ Wed, 15 Apr 2020 22:59:33: #1 read treatment tags... INFO @ Wed, 15 Apr 2020 22:59:38: 1000000 INFO @ Wed, 15 Apr 2020 22:59:43: #1 tag size is determined as 50 bps INFO @ Wed, 15 Apr 2020 22:59:43: #1 tag size = 50 INFO @ Wed, 15 Apr 2020 22:59:43: #1 total tags in treatment: 1953923 INFO @ Wed, 15 Apr 2020 22:59:43: #1 user defined the maximum tags... INFO @ Wed, 15 Apr 2020 22:59:43: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 15 Apr 2020 22:59:43: #1 tags after filtering in treatment: 1953923 INFO @ Wed, 15 Apr 2020 22:59:43: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 15 Apr 2020 22:59:43: #1 finished! INFO @ Wed, 15 Apr 2020 22:59:43: #2 Build Peak Model... INFO @ Wed, 15 Apr 2020 22:59:43: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 15 Apr 2020 22:59:43: #2 number of paired peaks: 2208 INFO @ Wed, 15 Apr 2020 22:59:43: start model_add_line... INFO @ Wed, 15 Apr 2020 22:59:43: start X-correlation... INFO @ Wed, 15 Apr 2020 22:59:43: end of X-cor INFO @ Wed, 15 Apr 2020 22:59:43: #2 finished! INFO @ Wed, 15 Apr 2020 22:59:43: #2 predicted fragment length is 135 bps INFO @ Wed, 15 Apr 2020 22:59:43: #2 alternative fragment length(s) may be 135 bps INFO @ Wed, 15 Apr 2020 22:59:43: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX7574650/SRX7574650.20_model.r INFO @ Wed, 15 Apr 2020 22:59:43: #3 Call peaks... INFO @ Wed, 15 Apr 2020 22:59:43: #3 Pre-compute pvalue-qvalue table... INFO @ Wed, 15 Apr 2020 22:59:47: #3 Call peaks for each chromosome... INFO @ Wed, 15 Apr 2020 22:59:49: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX7574650/SRX7574650.20_peaks.xls INFO @ Wed, 15 Apr 2020 22:59:49: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX7574650/SRX7574650.20_peaks.narrowPeak INFO @ Wed, 15 Apr 2020 22:59:49: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX7574650/SRX7574650.20_summits.bed INFO @ Wed, 15 Apr 2020 22:59:49: Done! pass1 - making usageList (6 chroms): 0 millis pass2 - checking and writing primary data (99 records, 4 fields): 1 millis CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。