Job ID = 6452490 SRX = SRX013097 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T07:37:42 prefetch.2.10.7: 1) Downloading 'SRR030363'... 2020-06-21T07:37:42 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T07:38:18 prefetch.2.10.7: HTTPS download succeed 2020-06-21T07:38:18 prefetch.2.10.7: 'SRR030363' is valid 2020-06-21T07:38:18 prefetch.2.10.7: 1) 'SRR030363' was downloaded successfully Read 2217974 spots for SRR030363/SRR030363.sra Written 2217974 spots for SRR030363/SRR030363.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: 00:00:29 2217974 reads; of these: 2217974 (100.00%) were unpaired; of these: 426654 (19.24%) aligned 0 times 1056548 (47.64%) aligned exactly 1 time 734772 (33.13%) aligned >1 times 80.76% overall alignment rate Time searching: 00:00:29 Overall time: 00:00:29 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] 135921 / 1791320 = 0.0759 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 16:39:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX013097/SRX013097.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX013097/SRX013097.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX013097/SRX013097.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX013097/SRX013097.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 16:39:53: #1 read tag files... INFO @ Sun, 21 Jun 2020 16:39:53: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 16:39:58: 1000000 INFO @ Sun, 21 Jun 2020 16:40:02: #1 tag size is determined as 36 bps INFO @ Sun, 21 Jun 2020 16:40:02: #1 tag size = 36 INFO @ Sun, 21 Jun 2020 16:40:02: #1 total tags in treatment: 1655399 INFO @ Sun, 21 Jun 2020 16:40:02: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 16:40:02: #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 16:40:02: #1 tags after filtering in treatment: 1655287 INFO @ Sun, 21 Jun 2020 16:40:02: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 16:40:02: #1 finished! INFO @ Sun, 21 Jun 2020 16:40:02: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 16:40:02: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 16:40:03: #2 number of paired peaks: 1348 INFO @ Sun, 21 Jun 2020 16:40:03: start model_add_line... INFO @ Sun, 21 Jun 2020 16:40:03: start X-correlation... INFO @ Sun, 21 Jun 2020 16:40:03: end of X-cor INFO @ Sun, 21 Jun 2020 16:40:03: #2 finished! INFO @ Sun, 21 Jun 2020 16:40:03: #2 predicted fragment length is 129 bps INFO @ Sun, 21 Jun 2020 16:40:03: #2 alternative fragment length(s) may be 93,129,556 bps INFO @ Sun, 21 Jun 2020 16:40:03: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX013097/SRX013097.05_model.r INFO @ Sun, 21 Jun 2020 16:40:03: #3 Call peaks... INFO @ Sun, 21 Jun 2020 16:40:03: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 16:40:07: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 16:40:09: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX013097/SRX013097.05_peaks.xls INFO @ Sun, 21 Jun 2020 16:40:09: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX013097/SRX013097.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 16:40:09: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX013097/SRX013097.05_summits.bed INFO @ Sun, 21 Jun 2020 16:40:09: Done! pass1 - making usageList (337 chroms): 1 millis pass2 - checking and writing primary data (725 records, 4 fields): 12 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 16:40:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX013097/SRX013097.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX013097/SRX013097.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX013097/SRX013097.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX013097/SRX013097.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 16:40:23: #1 read tag files... INFO @ Sun, 21 Jun 2020 16:40:23: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 16:40:28: 1000000 INFO @ Sun, 21 Jun 2020 16:40:32: #1 tag size is determined as 36 bps INFO @ Sun, 21 Jun 2020 16:40:32: #1 tag size = 36 INFO @ Sun, 21 Jun 2020 16:40:32: #1 total tags in treatment: 1655399 INFO @ Sun, 21 Jun 2020 16:40:32: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 16:40:32: #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 16:40:33: #1 tags after filtering in treatment: 1655287 INFO @ Sun, 21 Jun 2020 16:40:33: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 16:40:33: #1 finished! INFO @ Sun, 21 Jun 2020 16:40:33: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 16:40:33: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 16:40:33: #2 number of paired peaks: 1348 INFO @ Sun, 21 Jun 2020 16:40:33: start model_add_line... INFO @ Sun, 21 Jun 2020 16:40:33: start X-correlation... INFO @ Sun, 21 Jun 2020 16:40:33: end of X-cor INFO @ Sun, 21 Jun 2020 16:40:33: #2 finished! INFO @ Sun, 21 Jun 2020 16:40:33: #2 predicted fragment length is 129 bps INFO @ Sun, 21 Jun 2020 16:40:33: #2 alternative fragment length(s) may be 93,129,556 bps INFO @ Sun, 21 Jun 2020 16:40:33: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX013097/SRX013097.10_model.r INFO @ Sun, 21 Jun 2020 16:40:33: #3 Call peaks... INFO @ Sun, 21 Jun 2020 16:40:33: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 16:40:37: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 16:40:39: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX013097/SRX013097.10_peaks.xls INFO @ Sun, 21 Jun 2020 16:40:39: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX013097/SRX013097.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 16:40:39: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX013097/SRX013097.10_summits.bed INFO @ Sun, 21 Jun 2020 16:40:39: Done! pass1 - making usageList (203 chroms): 1 millis pass2 - checking and writing primary data (353 records, 4 fields): 9 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 16:40:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX013097/SRX013097.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX013097/SRX013097.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX013097/SRX013097.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX013097/SRX013097.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 16:40:53: #1 read tag files... INFO @ Sun, 21 Jun 2020 16:40:53: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 16:40:59: 1000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 16:41:03: #1 tag size is determined as 36 bps INFO @ Sun, 21 Jun 2020 16:41:03: #1 tag size = 36 INFO @ Sun, 21 Jun 2020 16:41:03: #1 total tags in treatment: 1655399 INFO @ Sun, 21 Jun 2020 16:41:03: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 16:41:03: #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 16:41:03: #1 tags after filtering in treatment: 1655287 INFO @ Sun, 21 Jun 2020 16:41:03: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 16:41:03: #1 finished! INFO @ Sun, 21 Jun 2020 16:41:03: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 16:41:03: #2 looking for paired plus/minus strand peaks... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 16:41:04: #2 number of paired peaks: 1348 INFO @ Sun, 21 Jun 2020 16:41:04: start model_add_line... INFO @ Sun, 21 Jun 2020 16:41:04: start X-correlation... INFO @ Sun, 21 Jun 2020 16:41:04: end of X-cor INFO @ Sun, 21 Jun 2020 16:41:04: #2 finished! INFO @ Sun, 21 Jun 2020 16:41:04: #2 predicted fragment length is 129 bps INFO @ Sun, 21 Jun 2020 16:41:04: #2 alternative fragment length(s) may be 93,129,556 bps INFO @ Sun, 21 Jun 2020 16:41:04: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX013097/SRX013097.20_model.r INFO @ Sun, 21 Jun 2020 16:41:04: #3 Call peaks... INFO @ Sun, 21 Jun 2020 16:41:04: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 16:41:08: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 16:41:10: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX013097/SRX013097.20_peaks.xls INFO @ Sun, 21 Jun 2020 16:41:10: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX013097/SRX013097.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 16:41:10: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX013097/SRX013097.20_summits.bed INFO @ Sun, 21 Jun 2020 16:41:10: Done! pass1 - making usageList (90 chroms): 1 millis pass2 - checking and writing primary data (139 records, 4 fields): 17 millis CompletedMACS2peakCalling