Job ID = 6367514 SRX = SRX331270 Genome = ce11 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-15T23:27:36 prefetch.2.10.7: 1) Downloading 'SRR947502'... 2020-06-15T23:27:36 prefetch.2.10.7: Downloading via HTTPS... 2020-06-15T23:28:10 prefetch.2.10.7: HTTPS download succeed 2020-06-15T23:28:10 prefetch.2.10.7: 'SRR947502' is valid 2020-06-15T23:28:10 prefetch.2.10.7: 1) 'SRR947502' was downloaded successfully Read 2605958 spots for SRR947502/SRR947502.sra Written 2605958 spots for SRR947502/SRR947502.sra 2020-06-15T23:28:29 prefetch.2.10.7: 1) Downloading 'SRR947503'... 2020-06-15T23:28:29 prefetch.2.10.7: Downloading via HTTPS... 2020-06-15T23:28:46 prefetch.2.10.7: HTTPS download succeed 2020-06-15T23:28:46 prefetch.2.10.7: 'SRR947503' is valid 2020-06-15T23:28:46 prefetch.2.10.7: 1) 'SRR947503' was downloaded successfully Read 935443 spots for SRR947503/SRR947503.sra Written 935443 spots for SRR947503/SRR947503.sra 2020-06-15T23:28:59 prefetch.2.10.7: 1) Downloading 'SRR947504'... 2020-06-15T23:28:59 prefetch.2.10.7: Downloading via HTTPS... 2020-06-15T23:29:30 prefetch.2.10.7: HTTPS download succeed 2020-06-15T23:29:31 prefetch.2.10.7: 'SRR947504' is valid 2020-06-15T23:29:31 prefetch.2.10.7: 1) 'SRR947504' was downloaded successfully Read 2732049 spots for SRR947504/SRR947504.sra Written 2732049 spots for SRR947504/SRR947504.sra 2020-06-15T23:29:49 prefetch.2.10.7: 1) Downloading 'SRR947505'... 2020-06-15T23:29:49 prefetch.2.10.7: Downloading via HTTPS... 2020-06-15T23:30:05 prefetch.2.10.7: HTTPS download succeed 2020-06-15T23:30:05 prefetch.2.10.7: 'SRR947505' is valid 2020-06-15T23:30:05 prefetch.2.10.7: 1) 'SRR947505' was downloaded successfully Read 886188 spots for SRR947505/SRR947505.sra Written 886188 spots for SRR947505/SRR947505.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: 00:00:41 7159638 reads; of these: 7159638 (100.00%) were unpaired; of these: 4854604 (67.81%) aligned 0 times 1629175 (22.75%) aligned exactly 1 time 675859 (9.44%) aligned >1 times 32.19% overall alignment rate Time searching: 00:00:41 Overall time: 00:00:41 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] 921388 / 2305034 = 0.3997 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 08:31:46: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX331270/SRX331270.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX331270/SRX331270.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX331270/SRX331270.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX331270/SRX331270.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 08:31:46: #1 read tag files... INFO @ Tue, 16 Jun 2020 08:31:46: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 08:31:51: 1000000 INFO @ Tue, 16 Jun 2020 08:31:53: #1 tag size is determined as 32 bps INFO @ Tue, 16 Jun 2020 08:31:53: #1 tag size = 32 INFO @ Tue, 16 Jun 2020 08:31:53: #1 total tags in treatment: 1383646 INFO @ Tue, 16 Jun 2020 08:31:53: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 08:31:53: #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 08:31:53: #1 tags after filtering in treatment: 1383646 INFO @ Tue, 16 Jun 2020 08:31:53: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 08:31:53: #1 finished! INFO @ Tue, 16 Jun 2020 08:31:53: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 08:31:53: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 08:31:53: #2 number of paired peaks: 1851 INFO @ Tue, 16 Jun 2020 08:31:53: start model_add_line... INFO @ Tue, 16 Jun 2020 08:31:53: start X-correlation... INFO @ Tue, 16 Jun 2020 08:31:53: end of X-cor INFO @ Tue, 16 Jun 2020 08:31:53: #2 finished! INFO @ Tue, 16 Jun 2020 08:31:53: #2 predicted fragment length is 157 bps INFO @ Tue, 16 Jun 2020 08:31:53: #2 alternative fragment length(s) may be 157 bps INFO @ Tue, 16 Jun 2020 08:31:53: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX331270/SRX331270.05_model.r INFO @ Tue, 16 Jun 2020 08:31:53: #3 Call peaks... INFO @ Tue, 16 Jun 2020 08:31:53: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 16 Jun 2020 08:31:57: #3 Call peaks for each chromosome... INFO @ Tue, 16 Jun 2020 08:31:59: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX331270/SRX331270.05_peaks.xls INFO @ Tue, 16 Jun 2020 08:31:59: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX331270/SRX331270.05_peaks.narrowPeak INFO @ Tue, 16 Jun 2020 08:31:59: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX331270/SRX331270.05_summits.bed INFO @ Tue, 16 Jun 2020 08:31:59: Done! pass1 - making usageList (7 chroms): 0 millis pass2 - checking and writing primary data (1826 records, 4 fields): 15 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 @ Tue, 16 Jun 2020 08:32:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX331270/SRX331270.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX331270/SRX331270.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX331270/SRX331270.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX331270/SRX331270.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 08:32:16: #1 read tag files... INFO @ Tue, 16 Jun 2020 08:32:16: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 08:32:22: 1000000 INFO @ Tue, 16 Jun 2020 08:32:24: #1 tag size is determined as 32 bps INFO @ Tue, 16 Jun 2020 08:32:24: #1 tag size = 32 INFO @ Tue, 16 Jun 2020 08:32:24: #1 total tags in treatment: 1383646 INFO @ Tue, 16 Jun 2020 08:32:24: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 08:32:24: #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 08:32:24: #1 tags after filtering in treatment: 1383646 INFO @ Tue, 16 Jun 2020 08:32:24: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 08:32:24: #1 finished! INFO @ Tue, 16 Jun 2020 08:32:24: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 08:32:24: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 08:32:25: #2 number of paired peaks: 1851 INFO @ Tue, 16 Jun 2020 08:32:25: start model_add_line... INFO @ Tue, 16 Jun 2020 08:32:25: start X-correlation... INFO @ Tue, 16 Jun 2020 08:32:25: end of X-cor INFO @ Tue, 16 Jun 2020 08:32:25: #2 finished! INFO @ Tue, 16 Jun 2020 08:32:25: #2 predicted fragment length is 157 bps INFO @ Tue, 16 Jun 2020 08:32:25: #2 alternative fragment length(s) may be 157 bps INFO @ Tue, 16 Jun 2020 08:32:25: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX331270/SRX331270.10_model.r INFO @ Tue, 16 Jun 2020 08:32:25: #3 Call peaks... INFO @ Tue, 16 Jun 2020 08:32:25: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 16 Jun 2020 08:32:29: #3 Call peaks for each chromosome... INFO @ Tue, 16 Jun 2020 08:32:30: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX331270/SRX331270.10_peaks.xls INFO @ Tue, 16 Jun 2020 08:32:30: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX331270/SRX331270.10_peaks.narrowPeak INFO @ Tue, 16 Jun 2020 08:32:30: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX331270/SRX331270.10_summits.bed INFO @ Tue, 16 Jun 2020 08:32:31: Done! pass1 - making usageList (7 chroms): 0 millis pass2 - checking and writing primary data (1514 records, 4 fields): 3 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 @ Tue, 16 Jun 2020 08:32:46: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX331270/SRX331270.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX331270/SRX331270.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX331270/SRX331270.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX331270/SRX331270.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 08:32:46: #1 read tag files... INFO @ Tue, 16 Jun 2020 08:32:46: #1 read treatment tags... BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 16 Jun 2020 08:32:52: 1000000 BigWig に変換しました。 INFO @ Tue, 16 Jun 2020 08:32:54: #1 tag size is determined as 32 bps INFO @ Tue, 16 Jun 2020 08:32:54: #1 tag size = 32 INFO @ Tue, 16 Jun 2020 08:32:54: #1 total tags in treatment: 1383646 INFO @ Tue, 16 Jun 2020 08:32:54: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 08:32:54: #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 08:32:54: #1 tags after filtering in treatment: 1383646 INFO @ Tue, 16 Jun 2020 08:32:54: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 08:32:54: #1 finished! INFO @ Tue, 16 Jun 2020 08:32:54: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 08:32:54: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 08:32:54: #2 number of paired peaks: 1851 INFO @ Tue, 16 Jun 2020 08:32:54: start model_add_line... INFO @ Tue, 16 Jun 2020 08:32:54: start X-correlation... INFO @ Tue, 16 Jun 2020 08:32:54: end of X-cor INFO @ Tue, 16 Jun 2020 08:32:54: #2 finished! INFO @ Tue, 16 Jun 2020 08:32:54: #2 predicted fragment length is 157 bps INFO @ Tue, 16 Jun 2020 08:32:54: #2 alternative fragment length(s) may be 157 bps INFO @ Tue, 16 Jun 2020 08:32:54: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX331270/SRX331270.20_model.r INFO @ Tue, 16 Jun 2020 08:32:54: #3 Call peaks... INFO @ Tue, 16 Jun 2020 08:32:54: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 16 Jun 2020 08:32:58: #3 Call peaks for each chromosome... INFO @ Tue, 16 Jun 2020 08:33:00: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX331270/SRX331270.20_peaks.xls INFO @ Tue, 16 Jun 2020 08:33:00: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX331270/SRX331270.20_peaks.narrowPeak INFO @ Tue, 16 Jun 2020 08:33:00: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX331270/SRX331270.20_summits.bed INFO @ Tue, 16 Jun 2020 08:33:00: Done! pass1 - making usageList (6 chroms): 0 millis pass2 - checking and writing primary data (1235 records, 4 fields): 3 millis CompletedMACS2peakCalling