Job ID = 6368945 SRX = SRX7574649 Genome = ce11 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-16T00:35:35 prefetch.2.10.7: 1) Downloading 'SRR10906496'... 2020-06-16T00:35:35 prefetch.2.10.7: Downloading via HTTPS... 2020-06-16T00:37:43 prefetch.2.10.7: HTTPS download succeed 2020-06-16T00:37:44 prefetch.2.10.7: 'SRR10906496' is valid 2020-06-16T00:37:44 prefetch.2.10.7: 1) 'SRR10906496' was downloaded successfully 2020-06-16T00:37:44 prefetch.2.10.7: 'SRR10906496' has 0 unresolved dependencies Read 21934311 spots for SRR10906496/SRR10906496.sra Written 21934311 spots for SRR10906496/SRR10906496.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: 00:02:56 21934311 reads; of these: 21934311 (100.00%) were unpaired; of these: 15926242 (72.61%) aligned 0 times 5218058 (23.79%) aligned exactly 1 time 790011 (3.60%) aligned >1 times 27.39% overall alignment rate Time searching: 00:02:56 Overall time: 00:02:56 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] 3382501 / 6008069 = 0.5630 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 09:43:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX7574649/SRX7574649.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX7574649/SRX7574649.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX7574649/SRX7574649.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX7574649/SRX7574649.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 09:43:13: #1 read tag files... INFO @ Tue, 16 Jun 2020 09:43:13: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 09:43:20: 1000000 INFO @ Tue, 16 Jun 2020 09:43:27: 2000000 INFO @ Tue, 16 Jun 2020 09:43:31: #1 tag size is determined as 50 bps INFO @ Tue, 16 Jun 2020 09:43:31: #1 tag size = 50 INFO @ Tue, 16 Jun 2020 09:43:31: #1 total tags in treatment: 2625568 INFO @ Tue, 16 Jun 2020 09:43:31: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 09:43:31: #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 09:43:31: #1 tags after filtering in treatment: 2625568 INFO @ Tue, 16 Jun 2020 09:43:31: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 09:43:31: #1 finished! INFO @ Tue, 16 Jun 2020 09:43:31: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 09:43:31: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 09:43:31: #2 number of paired peaks: 1906 INFO @ Tue, 16 Jun 2020 09:43:31: start model_add_line... INFO @ Tue, 16 Jun 2020 09:43:31: start X-correlation... INFO @ Tue, 16 Jun 2020 09:43:31: end of X-cor INFO @ Tue, 16 Jun 2020 09:43:31: #2 finished! INFO @ Tue, 16 Jun 2020 09:43:31: #2 predicted fragment length is 123 bps INFO @ Tue, 16 Jun 2020 09:43:31: #2 alternative fragment length(s) may be 123,130 bps INFO @ Tue, 16 Jun 2020 09:43:31: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX7574649/SRX7574649.05_model.r INFO @ Tue, 16 Jun 2020 09:43:31: #3 Call peaks... INFO @ Tue, 16 Jun 2020 09:43:31: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 16 Jun 2020 09:43:37: #3 Call peaks for each chromosome... INFO @ Tue, 16 Jun 2020 09:43:40: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX7574649/SRX7574649.05_peaks.xls INFO @ Tue, 16 Jun 2020 09:43:40: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX7574649/SRX7574649.05_peaks.narrowPeak INFO @ Tue, 16 Jun 2020 09:43:40: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX7574649/SRX7574649.05_summits.bed INFO @ Tue, 16 Jun 2020 09:43:40: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (1439 records, 4 fields): 2 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 09:43:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX7574649/SRX7574649.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX7574649/SRX7574649.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX7574649/SRX7574649.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX7574649/SRX7574649.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 09:43:43: #1 read tag files... INFO @ Tue, 16 Jun 2020 09:43:43: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 09:43:50: 1000000 INFO @ Tue, 16 Jun 2020 09:43:56: 2000000 INFO @ Tue, 16 Jun 2020 09:44:00: #1 tag size is determined as 50 bps INFO @ Tue, 16 Jun 2020 09:44:00: #1 tag size = 50 INFO @ Tue, 16 Jun 2020 09:44:00: #1 total tags in treatment: 2625568 INFO @ Tue, 16 Jun 2020 09:44:00: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 09:44:00: #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 09:44:00: #1 tags after filtering in treatment: 2625568 INFO @ Tue, 16 Jun 2020 09:44:00: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 09:44:00: #1 finished! INFO @ Tue, 16 Jun 2020 09:44:00: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 09:44:00: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 09:44:00: #2 number of paired peaks: 1906 INFO @ Tue, 16 Jun 2020 09:44:00: start model_add_line... INFO @ Tue, 16 Jun 2020 09:44:00: start X-correlation... INFO @ Tue, 16 Jun 2020 09:44:00: end of X-cor INFO @ Tue, 16 Jun 2020 09:44:00: #2 finished! INFO @ Tue, 16 Jun 2020 09:44:00: #2 predicted fragment length is 123 bps INFO @ Tue, 16 Jun 2020 09:44:00: #2 alternative fragment length(s) may be 123,130 bps INFO @ Tue, 16 Jun 2020 09:44:00: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX7574649/SRX7574649.10_model.r INFO @ Tue, 16 Jun 2020 09:44:00: #3 Call peaks... INFO @ Tue, 16 Jun 2020 09:44:00: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 16 Jun 2020 09:44:06: #3 Call peaks for each chromosome... INFO @ Tue, 16 Jun 2020 09:44:09: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX7574649/SRX7574649.10_peaks.xls INFO @ Tue, 16 Jun 2020 09:44:09: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX7574649/SRX7574649.10_peaks.narrowPeak INFO @ Tue, 16 Jun 2020 09:44:09: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX7574649/SRX7574649.10_summits.bed INFO @ Tue, 16 Jun 2020 09:44:09: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (405 records, 4 fields): 1 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 09:44:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX7574649/SRX7574649.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX7574649/SRX7574649.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX7574649/SRX7574649.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX7574649/SRX7574649.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 09:44:13: #1 read tag files... INFO @ Tue, 16 Jun 2020 09:44:13: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 09:44:19: 1000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 16 Jun 2020 09:44:26: 2000000 INFO @ Tue, 16 Jun 2020 09:44:30: #1 tag size is determined as 50 bps INFO @ Tue, 16 Jun 2020 09:44:30: #1 tag size = 50 INFO @ Tue, 16 Jun 2020 09:44:30: #1 total tags in treatment: 2625568 INFO @ Tue, 16 Jun 2020 09:44:30: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 09:44:30: #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 09:44:30: #1 tags after filtering in treatment: 2625568 INFO @ Tue, 16 Jun 2020 09:44:30: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 09:44:30: #1 finished! INFO @ Tue, 16 Jun 2020 09:44:30: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 09:44:30: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 09:44:30: #2 number of paired peaks: 1906 INFO @ Tue, 16 Jun 2020 09:44:30: start model_add_line... INFO @ Tue, 16 Jun 2020 09:44:30: start X-correlation... INFO @ Tue, 16 Jun 2020 09:44:30: end of X-cor INFO @ Tue, 16 Jun 2020 09:44:30: #2 finished! INFO @ Tue, 16 Jun 2020 09:44:30: #2 predicted fragment length is 123 bps INFO @ Tue, 16 Jun 2020 09:44:30: #2 alternative fragment length(s) may be 123,130 bps INFO @ Tue, 16 Jun 2020 09:44:30: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX7574649/SRX7574649.20_model.r INFO @ Tue, 16 Jun 2020 09:44:30: #3 Call peaks... INFO @ Tue, 16 Jun 2020 09:44:30: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Tue, 16 Jun 2020 09:44:36: #3 Call peaks for each chromosome... INFO @ Tue, 16 Jun 2020 09:44:39: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX7574649/SRX7574649.20_peaks.xls INFO @ Tue, 16 Jun 2020 09:44:39: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX7574649/SRX7574649.20_peaks.narrowPeak INFO @ Tue, 16 Jun 2020 09:44:39: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX7574649/SRX7574649.20_summits.bed INFO @ Tue, 16 Jun 2020 09:44:39: Done! pass1 - making usageList (6 chroms): 0 millis pass2 - checking and writing primary data (115 records, 4 fields): 1 millis CompletedMACS2peakCalling