Job ID = 6367411 SRX = SRX331170 Genome = ce11 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-15T23:29:35 prefetch.2.10.7: 1) Downloading 'SRR947402'... 2020-06-15T23:29:35 prefetch.2.10.7: Downloading via HTTPS... 2020-06-15T23:31:15 prefetch.2.10.7: HTTPS download succeed 2020-06-15T23:31:15 prefetch.2.10.7: 'SRR947402' is valid 2020-06-15T23:31:15 prefetch.2.10.7: 1) 'SRR947402' was downloaded successfully Read 9164852 spots for SRR947402/SRR947402.sra Written 9164852 spots for SRR947402/SRR947402.sra 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: 00:01:21 9164852 reads; of these: 9164852 (100.00%) were unpaired; of these: 545337 (5.95%) aligned 0 times 7533542 (82.20%) aligned exactly 1 time 1085973 (11.85%) aligned >1 times 94.05% overall alignment rate Time searching: 00:01:21 Overall time: 00:01:21 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] 1859205 / 8619515 = 0.2157 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 @ Tue, 16 Jun 2020 08:35:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX331170/SRX331170.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX331170/SRX331170.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX331170/SRX331170.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX331170/SRX331170.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 @ Tue, 16 Jun 2020 08:35:03: #1 read tag files... INFO @ Tue, 16 Jun 2020 08:35:03: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 08:35:08: 1000000 INFO @ Tue, 16 Jun 2020 08:35:12: 2000000 INFO @ Tue, 16 Jun 2020 08:35:17: 3000000 INFO @ Tue, 16 Jun 2020 08:35:22: 4000000 INFO @ Tue, 16 Jun 2020 08:35:27: 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 @ Tue, 16 Jun 2020 08:35:32: 6000000 INFO @ Tue, 16 Jun 2020 08:35:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX331170/SRX331170.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX331170/SRX331170.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX331170/SRX331170.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX331170/SRX331170.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 @ Tue, 16 Jun 2020 08:35:33: #1 read tag files... INFO @ Tue, 16 Jun 2020 08:35:33: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 08:35:35: #1 tag size is determined as 32 bps INFO @ Tue, 16 Jun 2020 08:35:35: #1 tag size = 32 INFO @ Tue, 16 Jun 2020 08:35:35: #1 total tags in treatment: 6760310 INFO @ Tue, 16 Jun 2020 08:35:35: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 08:35:35: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 16 Jun 2020 08:35:35: #1 tags after filtering in treatment: 6760310 INFO @ Tue, 16 Jun 2020 08:35:35: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 08:35:35: #1 finished! INFO @ Tue, 16 Jun 2020 08:35:35: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 08:35:35: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 08:35:36: #2 number of paired peaks: 1930 INFO @ Tue, 16 Jun 2020 08:35:36: start model_add_line... INFO @ Tue, 16 Jun 2020 08:35:36: start X-correlation... INFO @ Tue, 16 Jun 2020 08:35:36: end of X-cor INFO @ Tue, 16 Jun 2020 08:35:36: #2 finished! INFO @ Tue, 16 Jun 2020 08:35:36: #2 predicted fragment length is 173 bps INFO @ Tue, 16 Jun 2020 08:35:36: #2 alternative fragment length(s) may be 173 bps INFO @ Tue, 16 Jun 2020 08:35:36: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX331170/SRX331170.05_model.r INFO @ Tue, 16 Jun 2020 08:35:36: #3 Call peaks... INFO @ Tue, 16 Jun 2020 08:35:36: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 16 Jun 2020 08:35:38: 1000000 INFO @ Tue, 16 Jun 2020 08:35:44: 2000000 INFO @ Tue, 16 Jun 2020 08:35:49: 3000000 INFO @ Tue, 16 Jun 2020 08:35:55: 4000000 INFO @ Tue, 16 Jun 2020 08:35:55: #3 Call peaks for each chromosome... INFO @ Tue, 16 Jun 2020 08:36:00: 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 @ Tue, 16 Jun 2020 08:36:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX331170/SRX331170.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX331170/SRX331170.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX331170/SRX331170.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX331170/SRX331170.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 @ Tue, 16 Jun 2020 08:36:03: #1 read tag files... INFO @ Tue, 16 Jun 2020 08:36:03: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 08:36:04: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX331170/SRX331170.05_peaks.xls INFO @ Tue, 16 Jun 2020 08:36:04: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX331170/SRX331170.05_peaks.narrowPeak INFO @ Tue, 16 Jun 2020 08:36:04: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX331170/SRX331170.05_summits.bed INFO @ Tue, 16 Jun 2020 08:36:04: Done! pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (6644 records, 4 fields): 8 millis CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 08:36:05: 6000000 INFO @ Tue, 16 Jun 2020 08:36:08: 1000000 INFO @ Tue, 16 Jun 2020 08:36:09: #1 tag size is determined as 32 bps INFO @ Tue, 16 Jun 2020 08:36:09: #1 tag size = 32 INFO @ Tue, 16 Jun 2020 08:36:09: #1 total tags in treatment: 6760310 INFO @ Tue, 16 Jun 2020 08:36:09: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 08:36:09: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 16 Jun 2020 08:36:09: #1 tags after filtering in treatment: 6760310 INFO @ Tue, 16 Jun 2020 08:36:09: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 08:36:09: #1 finished! INFO @ Tue, 16 Jun 2020 08:36:09: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 08:36:09: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 08:36:10: #2 number of paired peaks: 1930 INFO @ Tue, 16 Jun 2020 08:36:10: start model_add_line... INFO @ Tue, 16 Jun 2020 08:36:10: start X-correlation... INFO @ Tue, 16 Jun 2020 08:36:10: end of X-cor INFO @ Tue, 16 Jun 2020 08:36:10: #2 finished! INFO @ Tue, 16 Jun 2020 08:36:10: #2 predicted fragment length is 173 bps INFO @ Tue, 16 Jun 2020 08:36:10: #2 alternative fragment length(s) may be 173 bps INFO @ Tue, 16 Jun 2020 08:36:10: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX331170/SRX331170.10_model.r INFO @ Tue, 16 Jun 2020 08:36:10: #3 Call peaks... INFO @ Tue, 16 Jun 2020 08:36:10: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 16 Jun 2020 08:36:13: 2000000 INFO @ Tue, 16 Jun 2020 08:36:18: 3000000 INFO @ Tue, 16 Jun 2020 08:36:22: 4000000 INFO @ Tue, 16 Jun 2020 08:36:27: 5000000 INFO @ Tue, 16 Jun 2020 08:36:29: #3 Call peaks for each chromosome... INFO @ Tue, 16 Jun 2020 08:36:32: 6000000 INFO @ Tue, 16 Jun 2020 08:36:35: #1 tag size is determined as 32 bps INFO @ Tue, 16 Jun 2020 08:36:35: #1 tag size = 32 INFO @ Tue, 16 Jun 2020 08:36:35: #1 total tags in treatment: 6760310 INFO @ Tue, 16 Jun 2020 08:36:35: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 08:36:35: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 16 Jun 2020 08:36:35: #1 tags after filtering in treatment: 6760310 INFO @ Tue, 16 Jun 2020 08:36:35: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 08:36:35: #1 finished! INFO @ Tue, 16 Jun 2020 08:36:35: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 08:36:35: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 08:36:36: #2 number of paired peaks: 1930 INFO @ Tue, 16 Jun 2020 08:36:36: start model_add_line... INFO @ Tue, 16 Jun 2020 08:36:36: start X-correlation... INFO @ Tue, 16 Jun 2020 08:36:36: end of X-cor INFO @ Tue, 16 Jun 2020 08:36:36: #2 finished! INFO @ Tue, 16 Jun 2020 08:36:36: #2 predicted fragment length is 173 bps INFO @ Tue, 16 Jun 2020 08:36:36: #2 alternative fragment length(s) may be 173 bps INFO @ Tue, 16 Jun 2020 08:36:36: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX331170/SRX331170.20_model.r INFO @ Tue, 16 Jun 2020 08:36:36: #3 Call peaks... INFO @ Tue, 16 Jun 2020 08:36:36: #3 Pre-compute pvalue-qvalue table... BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 16 Jun 2020 08:36:38: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX331170/SRX331170.10_peaks.xls INFO @ Tue, 16 Jun 2020 08:36:38: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX331170/SRX331170.10_peaks.narrowPeak INFO @ Tue, 16 Jun 2020 08:36:38: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX331170/SRX331170.10_summits.bed INFO @ Tue, 16 Jun 2020 08:36:38: Done! pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (4843 records, 4 fields): 6 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Tue, 16 Jun 2020 08:36:55: #3 Call peaks for each chromosome... INFO @ Tue, 16 Jun 2020 08:37:04: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX331170/SRX331170.20_peaks.xls INFO @ Tue, 16 Jun 2020 08:37:04: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX331170/SRX331170.20_peaks.narrowPeak INFO @ Tue, 16 Jun 2020 08:37:04: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX331170/SRX331170.20_summits.bed INFO @ Tue, 16 Jun 2020 08:37:04: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (3194 records, 4 fields): 4 millis CompletedMACS2peakCalling