Job ID = 6368067 SRX = SRX466530 Genome = ce11 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-15T23:58:20 prefetch.2.10.7: 1) Downloading 'SRR1163596'... 2020-06-15T23:58:20 prefetch.2.10.7: Downloading via HTTPS... 2020-06-16T00:00:40 prefetch.2.10.7: HTTPS download succeed 2020-06-16T00:00:40 prefetch.2.10.7: 1) 'SRR1163596' was downloaded successfully Read 16533626 spots for SRR1163596/SRR1163596.sra Written 16533626 spots for SRR1163596/SRR1163596.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: 00:03:42 16533626 reads; of these: 16533626 (100.00%) were unpaired; of these: 943668 (5.71%) aligned 0 times 10277232 (62.16%) aligned exactly 1 time 5312726 (32.13%) aligned >1 times 94.29% overall alignment rate Time searching: 00:03:42 Overall time: 00:03:42 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] 8245735 / 15589958 = 0.5289 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 09:08:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX466530/SRX466530.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX466530/SRX466530.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX466530/SRX466530.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX466530/SRX466530.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 09:08:37: #1 read tag files... INFO @ Tue, 16 Jun 2020 09:08:37: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 09:08:44: 1000000 INFO @ Tue, 16 Jun 2020 09:08:51: 2000000 INFO @ Tue, 16 Jun 2020 09:08:57: 3000000 INFO @ Tue, 16 Jun 2020 09:09:04: 4000000 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 09:09:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX466530/SRX466530.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX466530/SRX466530.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX466530/SRX466530.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX466530/SRX466530.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 09:09:07: #1 read tag files... INFO @ Tue, 16 Jun 2020 09:09:07: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 09:09:11: 5000000 INFO @ Tue, 16 Jun 2020 09:09:13: 1000000 INFO @ Tue, 16 Jun 2020 09:09:19: 6000000 INFO @ Tue, 16 Jun 2020 09:09:20: 2000000 INFO @ Tue, 16 Jun 2020 09:09:26: 7000000 INFO @ Tue, 16 Jun 2020 09:09:26: 3000000 INFO @ Tue, 16 Jun 2020 09:09:28: #1 tag size is determined as 42 bps INFO @ Tue, 16 Jun 2020 09:09:28: #1 tag size = 42 INFO @ Tue, 16 Jun 2020 09:09:28: #1 total tags in treatment: 7344223 INFO @ Tue, 16 Jun 2020 09:09:28: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 09:09:28: #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 09:09:28: #1 tags after filtering in treatment: 7344223 INFO @ Tue, 16 Jun 2020 09:09:28: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 09:09:28: #1 finished! INFO @ Tue, 16 Jun 2020 09:09:28: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 09:09:28: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 09:09:29: #2 number of paired peaks: 3634 INFO @ Tue, 16 Jun 2020 09:09:29: start model_add_line... INFO @ Tue, 16 Jun 2020 09:09:29: start X-correlation... INFO @ Tue, 16 Jun 2020 09:09:29: end of X-cor INFO @ Tue, 16 Jun 2020 09:09:29: #2 finished! INFO @ Tue, 16 Jun 2020 09:09:29: #2 predicted fragment length is 185 bps INFO @ Tue, 16 Jun 2020 09:09:29: #2 alternative fragment length(s) may be 185 bps INFO @ Tue, 16 Jun 2020 09:09:29: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX466530/SRX466530.05_model.r INFO @ Tue, 16 Jun 2020 09:09:29: #3 Call peaks... INFO @ Tue, 16 Jun 2020 09:09:29: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 16 Jun 2020 09:09:32: 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 @ Tue, 16 Jun 2020 09:09:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX466530/SRX466530.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX466530/SRX466530.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX466530/SRX466530.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX466530/SRX466530.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 09:09:37: #1 read tag files... INFO @ Tue, 16 Jun 2020 09:09:37: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 09:09:38: 5000000 INFO @ Tue, 16 Jun 2020 09:09:44: 6000000 INFO @ Tue, 16 Jun 2020 09:09:44: 1000000 INFO @ Tue, 16 Jun 2020 09:09:50: 7000000 INFO @ Tue, 16 Jun 2020 09:09:52: 2000000 INFO @ Tue, 16 Jun 2020 09:09:52: #1 tag size is determined as 42 bps INFO @ Tue, 16 Jun 2020 09:09:52: #1 tag size = 42 INFO @ Tue, 16 Jun 2020 09:09:52: #1 total tags in treatment: 7344223 INFO @ Tue, 16 Jun 2020 09:09:52: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 09:09:52: #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 09:09:52: #1 tags after filtering in treatment: 7344223 INFO @ Tue, 16 Jun 2020 09:09:52: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 09:09:52: #1 finished! INFO @ Tue, 16 Jun 2020 09:09:52: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 09:09:52: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 09:09:53: #2 number of paired peaks: 3634 INFO @ Tue, 16 Jun 2020 09:09:53: start model_add_line... INFO @ Tue, 16 Jun 2020 09:09:53: #3 Call peaks for each chromosome... INFO @ Tue, 16 Jun 2020 09:09:53: start X-correlation... INFO @ Tue, 16 Jun 2020 09:09:53: end of X-cor INFO @ Tue, 16 Jun 2020 09:09:53: #2 finished! INFO @ Tue, 16 Jun 2020 09:09:53: #2 predicted fragment length is 185 bps INFO @ Tue, 16 Jun 2020 09:09:53: #2 alternative fragment length(s) may be 185 bps INFO @ Tue, 16 Jun 2020 09:09:53: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX466530/SRX466530.10_model.r INFO @ Tue, 16 Jun 2020 09:09:53: #3 Call peaks... INFO @ Tue, 16 Jun 2020 09:09:53: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 16 Jun 2020 09:09:58: 3000000 INFO @ Tue, 16 Jun 2020 09:10:04: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX466530/SRX466530.05_peaks.xls INFO @ Tue, 16 Jun 2020 09:10:04: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX466530/SRX466530.05_peaks.narrowPeak INFO @ Tue, 16 Jun 2020 09:10:04: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX466530/SRX466530.05_summits.bed INFO @ Tue, 16 Jun 2020 09:10:04: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (5331 records, 4 fields): 7 millis CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 09:10:05: 4000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 16 Jun 2020 09:10:12: 5000000 INFO @ Tue, 16 Jun 2020 09:10:16: #3 Call peaks for each chromosome... INFO @ Tue, 16 Jun 2020 09:10:19: 6000000 BigWig に変換しました。 INFO @ Tue, 16 Jun 2020 09:10:25: 7000000 INFO @ Tue, 16 Jun 2020 09:10:25: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX466530/SRX466530.10_peaks.xls INFO @ Tue, 16 Jun 2020 09:10:25: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX466530/SRX466530.10_peaks.narrowPeak INFO @ Tue, 16 Jun 2020 09:10:26: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX466530/SRX466530.10_summits.bed INFO @ Tue, 16 Jun 2020 09:10:26: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (3540 records, 4 fields): 5 millis CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 09:10:28: #1 tag size is determined as 42 bps INFO @ Tue, 16 Jun 2020 09:10:28: #1 tag size = 42 INFO @ Tue, 16 Jun 2020 09:10:28: #1 total tags in treatment: 7344223 INFO @ Tue, 16 Jun 2020 09:10:28: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 09:10:28: #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 09:10:28: #1 tags after filtering in treatment: 7344223 INFO @ Tue, 16 Jun 2020 09:10:28: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 09:10:28: #1 finished! INFO @ Tue, 16 Jun 2020 09:10:28: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 09:10:28: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 09:10:28: #2 number of paired peaks: 3634 INFO @ Tue, 16 Jun 2020 09:10:28: start model_add_line... INFO @ Tue, 16 Jun 2020 09:10:29: start X-correlation... INFO @ Tue, 16 Jun 2020 09:10:29: end of X-cor INFO @ Tue, 16 Jun 2020 09:10:29: #2 finished! INFO @ Tue, 16 Jun 2020 09:10:29: #2 predicted fragment length is 185 bps INFO @ Tue, 16 Jun 2020 09:10:29: #2 alternative fragment length(s) may be 185 bps INFO @ Tue, 16 Jun 2020 09:10:29: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX466530/SRX466530.20_model.r INFO @ Tue, 16 Jun 2020 09:10:29: #3 Call peaks... INFO @ Tue, 16 Jun 2020 09:10:29: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 16 Jun 2020 09:10:52: #3 Call peaks for each chromosome... INFO @ Tue, 16 Jun 2020 09:11:03: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX466530/SRX466530.20_peaks.xls INFO @ Tue, 16 Jun 2020 09:11:03: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX466530/SRX466530.20_peaks.narrowPeak INFO @ Tue, 16 Jun 2020 09:11:03: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX466530/SRX466530.20_summits.bed INFO @ Tue, 16 Jun 2020 09:11:03: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (1812 records, 4 fields): 3 millis CompletedMACS2peakCalling