Job ID = 6458962 SRX = SRX5827830 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T12:49:22 prefetch.2.10.7: 1) Downloading 'SRR9051581'... 2020-06-21T12:49:22 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T12:50:37 prefetch.2.10.7: HTTPS download succeed 2020-06-21T12:50:38 prefetch.2.10.7: 'SRR9051581' is valid 2020-06-21T12:50:38 prefetch.2.10.7: 1) 'SRR9051581' was downloaded successfully 2020-06-21T12:50:38 prefetch.2.10.7: 'SRR9051581' has 0 unresolved dependencies Read 11757221 spots for SRR9051581/SRR9051581.sra Written 11757221 spots for SRR9051581/SRR9051581.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: 00:00:01 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:02:28 11757221 reads; of these: 11757221 (100.00%) were unpaired; of these: 3304903 (28.11%) aligned 0 times 7012053 (59.64%) aligned exactly 1 time 1440265 (12.25%) aligned >1 times 71.89% overall alignment rate Time searching: 00:02:29 Overall time: 00:02:29 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 1870 sequences. [bam_rmdupse_core] 5448481 / 8452318 = 0.6446 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 @ Sun, 21 Jun 2020 21:56:46: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5827830/SRX5827830.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5827830/SRX5827830.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5827830/SRX5827830.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5827830/SRX5827830.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Sun, 21 Jun 2020 21:56:46: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:56:46: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:56:51: 1000000 INFO @ Sun, 21 Jun 2020 21:56:57: 2000000 INFO @ Sun, 21 Jun 2020 21:57:03: 3000000 INFO @ Sun, 21 Jun 2020 21:57:03: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 21:57:03: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 21:57:03: #1 total tags in treatment: 3003837 INFO @ Sun, 21 Jun 2020 21:57:03: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:57:03: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 21 Jun 2020 21:57:04: #1 tags after filtering in treatment: 3003787 INFO @ Sun, 21 Jun 2020 21:57:04: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:57:04: #1 finished! INFO @ Sun, 21 Jun 2020 21:57:04: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:57:04: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:57:04: #2 number of paired peaks: 1134 INFO @ Sun, 21 Jun 2020 21:57:04: start model_add_line... INFO @ Sun, 21 Jun 2020 21:57:04: start X-correlation... INFO @ Sun, 21 Jun 2020 21:57:04: end of X-cor INFO @ Sun, 21 Jun 2020 21:57:04: #2 finished! INFO @ Sun, 21 Jun 2020 21:57:04: #2 predicted fragment length is 104 bps INFO @ Sun, 21 Jun 2020 21:57:04: #2 alternative fragment length(s) may be 104 bps INFO @ Sun, 21 Jun 2020 21:57:04: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5827830/SRX5827830.05_model.r INFO @ Sun, 21 Jun 2020 21:57:04: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:57:04: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:57:11: #3 Call peaks for each chromosome... 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 @ Sun, 21 Jun 2020 21:57:14: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5827830/SRX5827830.05_peaks.xls INFO @ Sun, 21 Jun 2020 21:57:14: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5827830/SRX5827830.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:57:14: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5827830/SRX5827830.05_summits.bed INFO @ Sun, 21 Jun 2020 21:57:14: Done! pass1 - making usageList (459 chroms): 1 millis pass2 - checking and writing primary data (1569 records, 4 fields): 27 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 21:57:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5827830/SRX5827830.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5827830/SRX5827830.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5827830/SRX5827830.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5827830/SRX5827830.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Sun, 21 Jun 2020 21:57:16: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:57:16: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:57:21: 1000000 INFO @ Sun, 21 Jun 2020 21:57:27: 2000000 INFO @ Sun, 21 Jun 2020 21:57:34: 3000000 INFO @ Sun, 21 Jun 2020 21:57:34: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 21:57:34: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 21:57:34: #1 total tags in treatment: 3003837 INFO @ Sun, 21 Jun 2020 21:57:34: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:57:34: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 21 Jun 2020 21:57:35: #1 tags after filtering in treatment: 3003787 INFO @ Sun, 21 Jun 2020 21:57:35: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:57:35: #1 finished! INFO @ Sun, 21 Jun 2020 21:57:35: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:57:35: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:57:35: #2 number of paired peaks: 1134 INFO @ Sun, 21 Jun 2020 21:57:35: start model_add_line... INFO @ Sun, 21 Jun 2020 21:57:35: start X-correlation... INFO @ Sun, 21 Jun 2020 21:57:35: end of X-cor INFO @ Sun, 21 Jun 2020 21:57:35: #2 finished! INFO @ Sun, 21 Jun 2020 21:57:35: #2 predicted fragment length is 104 bps INFO @ Sun, 21 Jun 2020 21:57:35: #2 alternative fragment length(s) may be 104 bps INFO @ Sun, 21 Jun 2020 21:57:35: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5827830/SRX5827830.10_model.r INFO @ Sun, 21 Jun 2020 21:57:35: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:57:35: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:57:42: #3 Call peaks for each chromosome... 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 @ Sun, 21 Jun 2020 21:57:45: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5827830/SRX5827830.10_peaks.xls INFO @ Sun, 21 Jun 2020 21:57:45: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5827830/SRX5827830.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:57:45: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5827830/SRX5827830.10_summits.bed INFO @ Sun, 21 Jun 2020 21:57:45: Done! pass1 - making usageList (341 chroms): 2 millis pass2 - checking and writing primary data (815 records, 4 fields): 19 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 21:57:46: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5827830/SRX5827830.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5827830/SRX5827830.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5827830/SRX5827830.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5827830/SRX5827830.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Sun, 21 Jun 2020 21:57:46: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:57:46: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:57:51: 1000000 INFO @ Sun, 21 Jun 2020 21:57:57: 2000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 21:58:03: 3000000 INFO @ Sun, 21 Jun 2020 21:58:03: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 21:58:03: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 21:58:03: #1 total tags in treatment: 3003837 INFO @ Sun, 21 Jun 2020 21:58:03: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:58:03: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 21 Jun 2020 21:58:04: #1 tags after filtering in treatment: 3003787 INFO @ Sun, 21 Jun 2020 21:58:04: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:58:04: #1 finished! INFO @ Sun, 21 Jun 2020 21:58:04: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:58:04: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:58:04: #2 number of paired peaks: 1134 INFO @ Sun, 21 Jun 2020 21:58:04: start model_add_line... INFO @ Sun, 21 Jun 2020 21:58:04: start X-correlation... INFO @ Sun, 21 Jun 2020 21:58:04: end of X-cor INFO @ Sun, 21 Jun 2020 21:58:04: #2 finished! INFO @ Sun, 21 Jun 2020 21:58:04: #2 predicted fragment length is 104 bps INFO @ Sun, 21 Jun 2020 21:58:04: #2 alternative fragment length(s) may be 104 bps INFO @ Sun, 21 Jun 2020 21:58:04: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5827830/SRX5827830.20_model.r INFO @ Sun, 21 Jun 2020 21:58:04: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:58:04: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:58:11: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 21:58:14: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5827830/SRX5827830.20_peaks.xls INFO @ Sun, 21 Jun 2020 21:58:14: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5827830/SRX5827830.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:58:14: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5827830/SRX5827830.20_summits.bed INFO @ Sun, 21 Jun 2020 21:58:14: Done! pass1 - making usageList (111 chroms): 1 millis pass2 - checking and writing primary data (274 records, 4 fields): 8 millis CompletedMACS2peakCalling