Job ID = 6459605 SRX = SRX7277045 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T13:24:19 prefetch.2.10.7: 1) Downloading 'SRR10597310'... 2020-06-21T13:24:19 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T13:26:29 prefetch.2.10.7: HTTPS download succeed 2020-06-21T13:26:29 prefetch.2.10.7: 'SRR10597310' is valid 2020-06-21T13:26:29 prefetch.2.10.7: 1) 'SRR10597310' was downloaded successfully 2020-06-21T13:26:29 prefetch.2.10.7: 'SRR10597310' has 0 unresolved dependencies Read 18857898 spots for SRR10597310/SRR10597310.sra Written 18857898 spots for SRR10597310/SRR10597310.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: 00:04:16 18857898 reads; of these: 18857898 (100.00%) were unpaired; of these: 3412401 (18.10%) aligned 0 times 11451490 (60.73%) aligned exactly 1 time 3994007 (21.18%) aligned >1 times 81.90% overall alignment rate Time searching: 00:04:16 Overall time: 00:04:16 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_sort_core] merging from 8 files... [bam_rmdupse_core] 11278919 / 15445497 = 0.7302 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 22:34:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7277045/SRX7277045.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7277045/SRX7277045.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7277045/SRX7277045.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7277045/SRX7277045.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 22:34:18: #1 read tag files... INFO @ Sun, 21 Jun 2020 22:34:18: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 22:34:24: 1000000 INFO @ Sun, 21 Jun 2020 22:34:30: 2000000 INFO @ Sun, 21 Jun 2020 22:34:36: 3000000 INFO @ Sun, 21 Jun 2020 22:34:41: 4000000 INFO @ Sun, 21 Jun 2020 22:34:42: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 22:34:42: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 22:34:42: #1 total tags in treatment: 4166578 INFO @ Sun, 21 Jun 2020 22:34:42: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 22:34:42: #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 22:34:43: #1 tags after filtering in treatment: 4166560 INFO @ Sun, 21 Jun 2020 22:34:43: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 22:34:43: #1 finished! INFO @ Sun, 21 Jun 2020 22:34:43: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 22:34:43: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 22:34:43: #2 number of paired peaks: 2086 INFO @ Sun, 21 Jun 2020 22:34:43: start model_add_line... INFO @ Sun, 21 Jun 2020 22:34:43: start X-correlation... INFO @ Sun, 21 Jun 2020 22:34:43: end of X-cor INFO @ Sun, 21 Jun 2020 22:34:43: #2 finished! INFO @ Sun, 21 Jun 2020 22:34:43: #2 predicted fragment length is 104 bps INFO @ Sun, 21 Jun 2020 22:34:43: #2 alternative fragment length(s) may be 104,107 bps INFO @ Sun, 21 Jun 2020 22:34:43: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7277045/SRX7277045.05_model.r INFO @ Sun, 21 Jun 2020 22:34:43: #3 Call peaks... INFO @ Sun, 21 Jun 2020 22:34:43: #3 Pre-compute pvalue-qvalue table... 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 22:34:49: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7277045/SRX7277045.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7277045/SRX7277045.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7277045/SRX7277045.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7277045/SRX7277045.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 22:34:49: #1 read tag files... INFO @ Sun, 21 Jun 2020 22:34:49: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 22:34:53: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 22:34:55: 1000000 INFO @ Sun, 21 Jun 2020 22:34:58: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7277045/SRX7277045.05_peaks.xls INFO @ Sun, 21 Jun 2020 22:34:58: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7277045/SRX7277045.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 22:34:58: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7277045/SRX7277045.05_summits.bed INFO @ Sun, 21 Jun 2020 22:34:58: Done! pass1 - making usageList (776 chroms): 2 millis pass2 - checking and writing primary data (3084 records, 4 fields): 23 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 22:35:02: 2000000 INFO @ Sun, 21 Jun 2020 22:35:09: 3000000 INFO @ Sun, 21 Jun 2020 22:35:16: 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 @ Sun, 21 Jun 2020 22:35:17: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 22:35:17: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 22:35:17: #1 total tags in treatment: 4166578 INFO @ Sun, 21 Jun 2020 22:35:17: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 22:35:17: #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 22:35:17: #1 tags after filtering in treatment: 4166560 INFO @ Sun, 21 Jun 2020 22:35:17: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 22:35:17: #1 finished! INFO @ Sun, 21 Jun 2020 22:35:17: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 22:35:17: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 22:35:18: #2 number of paired peaks: 2086 INFO @ Sun, 21 Jun 2020 22:35:18: start model_add_line... INFO @ Sun, 21 Jun 2020 22:35:18: start X-correlation... INFO @ Sun, 21 Jun 2020 22:35:18: end of X-cor INFO @ Sun, 21 Jun 2020 22:35:18: #2 finished! INFO @ Sun, 21 Jun 2020 22:35:18: #2 predicted fragment length is 104 bps INFO @ Sun, 21 Jun 2020 22:35:18: #2 alternative fragment length(s) may be 104,107 bps INFO @ Sun, 21 Jun 2020 22:35:18: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7277045/SRX7277045.10_model.r INFO @ Sun, 21 Jun 2020 22:35:18: #3 Call peaks... INFO @ Sun, 21 Jun 2020 22:35:18: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 22:35:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7277045/SRX7277045.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7277045/SRX7277045.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7277045/SRX7277045.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7277045/SRX7277045.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 22:35:18: #1 read tag files... INFO @ Sun, 21 Jun 2020 22:35:18: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 22:35:24: 1000000 INFO @ Sun, 21 Jun 2020 22:35:27: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 22:35:30: 2000000 INFO @ Sun, 21 Jun 2020 22:35:32: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7277045/SRX7277045.10_peaks.xls INFO @ Sun, 21 Jun 2020 22:35:32: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7277045/SRX7277045.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 22:35:32: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7277045/SRX7277045.10_summits.bed INFO @ Sun, 21 Jun 2020 22:35:32: Done! pass1 - making usageList (619 chroms): 2 millis pass2 - checking and writing primary data (1984 records, 4 fields): 17 millis CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 22:35:36: 3000000 INFO @ Sun, 21 Jun 2020 22:35:42: 4000000 INFO @ Sun, 21 Jun 2020 22:35:43: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 22:35:43: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 22:35:43: #1 total tags in treatment: 4166578 INFO @ Sun, 21 Jun 2020 22:35:43: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 22:35:43: #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 22:35:43: #1 tags after filtering in treatment: 4166560 INFO @ Sun, 21 Jun 2020 22:35:43: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 22:35:43: #1 finished! INFO @ Sun, 21 Jun 2020 22:35:43: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 22:35:43: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 22:35:43: #2 number of paired peaks: 2086 INFO @ Sun, 21 Jun 2020 22:35:43: start model_add_line... INFO @ Sun, 21 Jun 2020 22:35:44: start X-correlation... INFO @ Sun, 21 Jun 2020 22:35:44: end of X-cor INFO @ Sun, 21 Jun 2020 22:35:44: #2 finished! INFO @ Sun, 21 Jun 2020 22:35:44: #2 predicted fragment length is 104 bps INFO @ Sun, 21 Jun 2020 22:35:44: #2 alternative fragment length(s) may be 104,107 bps INFO @ Sun, 21 Jun 2020 22:35:44: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7277045/SRX7277045.20_model.r INFO @ Sun, 21 Jun 2020 22:35:44: #3 Call peaks... INFO @ Sun, 21 Jun 2020 22:35:44: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 22:35:53: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 22:35:58: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7277045/SRX7277045.20_peaks.xls INFO @ Sun, 21 Jun 2020 22:35:58: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7277045/SRX7277045.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 22:35:58: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7277045/SRX7277045.20_summits.bed INFO @ Sun, 21 Jun 2020 22:35:58: Done! pass1 - making usageList (442 chroms): 1 millis pass2 - checking and writing primary data (1082 records, 4 fields): 13 millis CompletedMACS2peakCalling