Job ID = 6454876 SRX = SRX2592468 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T09:48:55 prefetch.2.10.7: 1) Downloading 'SRR5289745'... 2020-06-21T09:48:55 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T09:52:17 prefetch.2.10.7: HTTPS download succeed 2020-06-21T09:52:17 prefetch.2.10.7: 1) 'SRR5289745' was downloaded successfully Read 17926342 spots for SRR5289745/SRR5289745.sra Written 17926342 spots for SRR5289745/SRR5289745.sra fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:01 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:03:36 17926342 reads; of these: 17926342 (100.00%) were unpaired; of these: 3135717 (17.49%) aligned 0 times 12048646 (67.21%) aligned exactly 1 time 2741979 (15.30%) aligned >1 times 82.51% overall alignment rate Time searching: 00:03:37 Overall time: 00:03:37 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] 4130947 / 14790625 = 0.2793 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 19:00:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX2592468/SRX2592468.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX2592468/SRX2592468.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX2592468/SRX2592468.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX2592468/SRX2592468.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 19:00:38: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:00:38: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:00:44: 1000000 INFO @ Sun, 21 Jun 2020 19:00:50: 2000000 INFO @ Sun, 21 Jun 2020 19:00:55: 3000000 INFO @ Sun, 21 Jun 2020 19:01:01: 4000000 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 19:01:07: 5000000 INFO @ Sun, 21 Jun 2020 19:01:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX2592468/SRX2592468.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX2592468/SRX2592468.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX2592468/SRX2592468.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX2592468/SRX2592468.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 19:01:08: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:01:08: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:01:13: 6000000 INFO @ Sun, 21 Jun 2020 19:01:14: 1000000 INFO @ Sun, 21 Jun 2020 19:01:20: 7000000 INFO @ Sun, 21 Jun 2020 19:01:21: 2000000 INFO @ Sun, 21 Jun 2020 19:01:26: 8000000 INFO @ Sun, 21 Jun 2020 19:01:27: 3000000 INFO @ Sun, 21 Jun 2020 19:01:33: 9000000 INFO @ Sun, 21 Jun 2020 19:01:33: 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 19:01:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX2592468/SRX2592468.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX2592468/SRX2592468.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX2592468/SRX2592468.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX2592468/SRX2592468.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 19:01:38: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:01:38: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:01:39: 10000000 INFO @ Sun, 21 Jun 2020 19:01:40: 5000000 INFO @ Sun, 21 Jun 2020 19:01:44: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 19:01:44: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 19:01:44: #1 total tags in treatment: 10659678 INFO @ Sun, 21 Jun 2020 19:01:44: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:01:44: #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 19:01:44: #1 tags after filtering in treatment: 10659490 INFO @ Sun, 21 Jun 2020 19:01:44: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:01:44: #1 finished! INFO @ Sun, 21 Jun 2020 19:01:44: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:01:44: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:01:45: 1000000 INFO @ Sun, 21 Jun 2020 19:01:45: #2 number of paired peaks: 7899 INFO @ Sun, 21 Jun 2020 19:01:45: start model_add_line... INFO @ Sun, 21 Jun 2020 19:01:46: start X-correlation... INFO @ Sun, 21 Jun 2020 19:01:46: end of X-cor INFO @ Sun, 21 Jun 2020 19:01:46: #2 finished! INFO @ Sun, 21 Jun 2020 19:01:46: #2 predicted fragment length is 182 bps INFO @ Sun, 21 Jun 2020 19:01:46: #2 alternative fragment length(s) may be 182 bps INFO @ Sun, 21 Jun 2020 19:01:46: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX2592468/SRX2592468.05_model.r INFO @ Sun, 21 Jun 2020 19:01:46: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:01:46: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 19:01:46: 6000000 INFO @ Sun, 21 Jun 2020 19:01:51: 2000000 INFO @ Sun, 21 Jun 2020 19:01:53: 7000000 INFO @ Sun, 21 Jun 2020 19:01:58: 3000000 INFO @ Sun, 21 Jun 2020 19:02:00: 8000000 INFO @ Sun, 21 Jun 2020 19:02:05: 4000000 INFO @ Sun, 21 Jun 2020 19:02:06: 9000000 INFO @ Sun, 21 Jun 2020 19:02:11: 5000000 INFO @ Sun, 21 Jun 2020 19:02:13: 10000000 INFO @ Sun, 21 Jun 2020 19:02:17: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 19:02:17: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 19:02:17: #1 total tags in treatment: 10659678 INFO @ Sun, 21 Jun 2020 19:02:17: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:02:17: #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 19:02:18: #1 tags after filtering in treatment: 10659490 INFO @ Sun, 21 Jun 2020 19:02:18: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:02:18: #1 finished! INFO @ Sun, 21 Jun 2020 19:02:18: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:02:18: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:02:18: 6000000 INFO @ Sun, 21 Jun 2020 19:02:19: #2 number of paired peaks: 7899 INFO @ Sun, 21 Jun 2020 19:02:19: start model_add_line... INFO @ Sun, 21 Jun 2020 19:02:19: start X-correlation... INFO @ Sun, 21 Jun 2020 19:02:19: end of X-cor INFO @ Sun, 21 Jun 2020 19:02:19: #2 finished! INFO @ Sun, 21 Jun 2020 19:02:19: #2 predicted fragment length is 182 bps INFO @ Sun, 21 Jun 2020 19:02:19: #2 alternative fragment length(s) may be 182 bps INFO @ Sun, 21 Jun 2020 19:02:19: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX2592468/SRX2592468.10_model.r INFO @ Sun, 21 Jun 2020 19:02:19: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:02:19: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 19:02:23: #3 Call peaks for each chromosome... BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 19:02:25: 7000000 INFO @ Sun, 21 Jun 2020 19:02:31: 8000000 INFO @ Sun, 21 Jun 2020 19:02:37: 9000000 INFO @ Sun, 21 Jun 2020 19:02:39: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX2592468/SRX2592468.05_peaks.xls INFO @ Sun, 21 Jun 2020 19:02:39: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX2592468/SRX2592468.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:02:39: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX2592468/SRX2592468.05_summits.bed INFO @ Sun, 21 Jun 2020 19:02:39: Done! pass1 - making usageList (180 chroms): 3 millis pass2 - checking and writing primary data (10548 records, 4 fields): 20 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 19:02:44: 10000000 BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 19:02:48: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 19:02:48: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 19:02:48: #1 total tags in treatment: 10659678 INFO @ Sun, 21 Jun 2020 19:02:48: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:02:48: #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 19:02:48: #1 tags after filtering in treatment: 10659490 INFO @ Sun, 21 Jun 2020 19:02:48: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:02:48: #1 finished! INFO @ Sun, 21 Jun 2020 19:02:48: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:02:48: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:02:50: #2 number of paired peaks: 7899 INFO @ Sun, 21 Jun 2020 19:02:50: start model_add_line... INFO @ Sun, 21 Jun 2020 19:02:50: start X-correlation... INFO @ Sun, 21 Jun 2020 19:02:50: end of X-cor INFO @ Sun, 21 Jun 2020 19:02:50: #2 finished! INFO @ Sun, 21 Jun 2020 19:02:50: #2 predicted fragment length is 182 bps INFO @ Sun, 21 Jun 2020 19:02:50: #2 alternative fragment length(s) may be 182 bps INFO @ Sun, 21 Jun 2020 19:02:50: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX2592468/SRX2592468.20_model.r INFO @ Sun, 21 Jun 2020 19:02:50: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:02:50: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 19:02:56: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 19:03:12: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX2592468/SRX2592468.10_peaks.xls INFO @ Sun, 21 Jun 2020 19:03:12: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX2592468/SRX2592468.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:03:12: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX2592468/SRX2592468.10_summits.bed INFO @ Sun, 21 Jun 2020 19:03:12: Done! pass1 - making usageList (138 chroms): 2 millis pass2 - checking and writing primary data (7775 records, 4 fields): 14 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 19:03:28: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 19:03:44: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX2592468/SRX2592468.20_peaks.xls INFO @ Sun, 21 Jun 2020 19:03:44: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX2592468/SRX2592468.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:03:44: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX2592468/SRX2592468.20_summits.bed INFO @ Sun, 21 Jun 2020 19:03:44: Done! pass1 - making usageList (102 chroms): 1 millis pass2 - checking and writing primary data (5323 records, 4 fields): 11 millis CompletedMACS2peakCalling