Job ID = 6456904 SRX = SRX4053331 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T11:40:25 prefetch.2.10.7: 1) Downloading 'SRR7132382'... 2020-06-21T11:40:25 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T11:40:49 prefetch.2.10.7: HTTPS download succeed 2020-06-21T11:40:49 prefetch.2.10.7: 'SRR7132382' is valid 2020-06-21T11:40:49 prefetch.2.10.7: 1) 'SRR7132382' was downloaded successfully 2020-06-21T11:40:49 prefetch.2.10.7: 'SRR7132382' has 0 unresolved dependencies Read 2125530 spots for SRR7132382/SRR7132382.sra Written 2125530 spots for SRR7132382/SRR7132382.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: 00:00:32 2125530 reads; of these: 2125530 (100.00%) were unpaired; of these: 340229 (16.01%) aligned 0 times 1460907 (68.73%) aligned exactly 1 time 324394 (15.26%) aligned >1 times 83.99% overall alignment rate Time searching: 00:00:32 Overall time: 00:00:32 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] 265608 / 1785301 = 0.1488 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 20:42:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4053331/SRX4053331.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4053331/SRX4053331.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4053331/SRX4053331.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4053331/SRX4053331.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 20:42:30: #1 read tag files... INFO @ Sun, 21 Jun 2020 20:42:30: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 20:42:35: 1000000 INFO @ Sun, 21 Jun 2020 20:42:38: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 20:42:38: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 20:42:38: #1 total tags in treatment: 1519693 INFO @ Sun, 21 Jun 2020 20:42:38: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 20:42:38: #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 20:42:38: #1 tags after filtering in treatment: 1519353 INFO @ Sun, 21 Jun 2020 20:42:38: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 20:42:38: #1 finished! INFO @ Sun, 21 Jun 2020 20:42:38: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 20:42:38: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 20:42:39: #2 number of paired peaks: 6075 INFO @ Sun, 21 Jun 2020 20:42:39: start model_add_line... INFO @ Sun, 21 Jun 2020 20:42:39: start X-correlation... INFO @ Sun, 21 Jun 2020 20:42:39: end of X-cor INFO @ Sun, 21 Jun 2020 20:42:39: #2 finished! INFO @ Sun, 21 Jun 2020 20:42:39: #2 predicted fragment length is 268 bps INFO @ Sun, 21 Jun 2020 20:42:39: #2 alternative fragment length(s) may be 4,268 bps INFO @ Sun, 21 Jun 2020 20:42:39: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX4053331/SRX4053331.05_model.r INFO @ Sun, 21 Jun 2020 20:42:39: #3 Call peaks... INFO @ Sun, 21 Jun 2020 20:42:39: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 20:42:44: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 20:42:46: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX4053331/SRX4053331.05_peaks.xls INFO @ Sun, 21 Jun 2020 20:42:46: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX4053331/SRX4053331.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 20:42:46: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX4053331/SRX4053331.05_summits.bed INFO @ Sun, 21 Jun 2020 20:42:46: Done! pass1 - making usageList (104 chroms): 1 millis pass2 - checking and writing primary data (299 records, 4 fields): 7 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 @ Sun, 21 Jun 2020 20:43:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4053331/SRX4053331.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4053331/SRX4053331.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4053331/SRX4053331.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4053331/SRX4053331.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 20:43:00: #1 read tag files... INFO @ Sun, 21 Jun 2020 20:43:00: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 20:43:05: 1000000 INFO @ Sun, 21 Jun 2020 20:43:09: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 20:43:09: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 20:43:09: #1 total tags in treatment: 1519693 INFO @ Sun, 21 Jun 2020 20:43:09: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 20:43:09: #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 20:43:09: #1 tags after filtering in treatment: 1519353 INFO @ Sun, 21 Jun 2020 20:43:09: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 20:43:09: #1 finished! INFO @ Sun, 21 Jun 2020 20:43:09: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 20:43:09: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 20:43:09: #2 number of paired peaks: 6075 INFO @ Sun, 21 Jun 2020 20:43:09: start model_add_line... INFO @ Sun, 21 Jun 2020 20:43:09: start X-correlation... INFO @ Sun, 21 Jun 2020 20:43:09: end of X-cor INFO @ Sun, 21 Jun 2020 20:43:09: #2 finished! INFO @ Sun, 21 Jun 2020 20:43:09: #2 predicted fragment length is 268 bps INFO @ Sun, 21 Jun 2020 20:43:09: #2 alternative fragment length(s) may be 4,268 bps INFO @ Sun, 21 Jun 2020 20:43:09: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX4053331/SRX4053331.10_model.r INFO @ Sun, 21 Jun 2020 20:43:09: #3 Call peaks... INFO @ Sun, 21 Jun 2020 20:43:09: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 20:43:14: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 20:43:16: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX4053331/SRX4053331.10_peaks.xls INFO @ Sun, 21 Jun 2020 20:43:16: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX4053331/SRX4053331.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 20:43:16: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX4053331/SRX4053331.10_summits.bed INFO @ Sun, 21 Jun 2020 20:43:16: Done! pass1 - making usageList (75 chroms): 1 millis pass2 - checking and writing primary data (146 records, 4 fields): 5 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 @ Sun, 21 Jun 2020 20:43:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4053331/SRX4053331.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4053331/SRX4053331.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4053331/SRX4053331.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4053331/SRX4053331.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 20:43:30: #1 read tag files... INFO @ Sun, 21 Jun 2020 20:43:30: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 20:43:34: 1000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 20:43:38: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 20:43:38: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 20:43:38: #1 total tags in treatment: 1519693 INFO @ Sun, 21 Jun 2020 20:43:38: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 20:43:38: #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 20:43:38: #1 tags after filtering in treatment: 1519353 INFO @ Sun, 21 Jun 2020 20:43:38: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 20:43:38: #1 finished! INFO @ Sun, 21 Jun 2020 20:43:38: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 20:43:38: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 20:43:39: #2 number of paired peaks: 6075 INFO @ Sun, 21 Jun 2020 20:43:39: start model_add_line... INFO @ Sun, 21 Jun 2020 20:43:39: start X-correlation... INFO @ Sun, 21 Jun 2020 20:43:39: end of X-cor INFO @ Sun, 21 Jun 2020 20:43:39: #2 finished! INFO @ Sun, 21 Jun 2020 20:43:39: #2 predicted fragment length is 268 bps INFO @ Sun, 21 Jun 2020 20:43:39: #2 alternative fragment length(s) may be 4,268 bps INFO @ Sun, 21 Jun 2020 20:43:39: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX4053331/SRX4053331.20_model.r INFO @ Sun, 21 Jun 2020 20:43:39: #3 Call peaks... INFO @ Sun, 21 Jun 2020 20:43:39: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 20:43:44: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 20:43:46: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX4053331/SRX4053331.20_peaks.xls INFO @ Sun, 21 Jun 2020 20:43:46: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX4053331/SRX4053331.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 20:43:46: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX4053331/SRX4053331.20_summits.bed INFO @ Sun, 21 Jun 2020 20:43:46: Done! pass1 - making usageList (58 chroms): 1 millis pass2 - checking and writing primary data (84 records, 4 fields): 5 millis CompletedMACS2peakCalling