Job ID = 6454906 SRX = SRX2592491 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T09:51:40 prefetch.2.10.7: 1) Downloading 'SRR5289768'... 2020-06-21T09:51:40 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T09:55:47 prefetch.2.10.7: HTTPS download succeed 2020-06-21T09:55:47 prefetch.2.10.7: 1) 'SRR5289768' was downloaded successfully Read 18753737 spots for SRR5289768/SRR5289768.sra Written 18753737 spots for SRR5289768/SRR5289768.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: 00:03:49 18753737 reads; of these: 18753737 (100.00%) were unpaired; of these: 3475359 (18.53%) aligned 0 times 13405416 (71.48%) aligned exactly 1 time 1872962 (9.99%) aligned >1 times 81.47% overall alignment rate Time searching: 00:03:49 Overall time: 00:03:49 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] 4888178 / 15278378 = 0.3199 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 19:04:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX2592491/SRX2592491.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX2592491/SRX2592491.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX2592491/SRX2592491.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX2592491/SRX2592491.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 19:04:47: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:04:47: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:04:53: 1000000 INFO @ Sun, 21 Jun 2020 19:04:59: 2000000 INFO @ Sun, 21 Jun 2020 19:05:04: 3000000 INFO @ Sun, 21 Jun 2020 19:05:10: 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 19:05:16: 5000000 INFO @ Sun, 21 Jun 2020 19:05:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX2592491/SRX2592491.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX2592491/SRX2592491.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX2592491/SRX2592491.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX2592491/SRX2592491.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 19:05:17: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:05:17: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:05:22: 6000000 INFO @ Sun, 21 Jun 2020 19:05:23: 1000000 INFO @ Sun, 21 Jun 2020 19:05:28: 7000000 INFO @ Sun, 21 Jun 2020 19:05:29: 2000000 INFO @ Sun, 21 Jun 2020 19:05:34: 8000000 INFO @ Sun, 21 Jun 2020 19:05:35: 3000000 INFO @ Sun, 21 Jun 2020 19:05:40: 9000000 INFO @ Sun, 21 Jun 2020 19:05:40: 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 19:05:46: 10000000 INFO @ Sun, 21 Jun 2020 19:05:46: 5000000 INFO @ Sun, 21 Jun 2020 19:05:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX2592491/SRX2592491.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX2592491/SRX2592491.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX2592491/SRX2592491.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX2592491/SRX2592491.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 19:05:47: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:05:47: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:05:48: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 19:05:48: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 19:05:48: #1 total tags in treatment: 10390200 INFO @ Sun, 21 Jun 2020 19:05:48: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:05:48: #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 19:05:49: #1 tags after filtering in treatment: 10390031 INFO @ Sun, 21 Jun 2020 19:05:49: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:05:49: #1 finished! INFO @ Sun, 21 Jun 2020 19:05:49: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:05:49: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:05:50: #2 number of paired peaks: 7711 INFO @ Sun, 21 Jun 2020 19:05:50: start model_add_line... INFO @ Sun, 21 Jun 2020 19:05:50: start X-correlation... INFO @ Sun, 21 Jun 2020 19:05:50: end of X-cor INFO @ Sun, 21 Jun 2020 19:05:50: #2 finished! INFO @ Sun, 21 Jun 2020 19:05:50: #2 predicted fragment length is 205 bps INFO @ Sun, 21 Jun 2020 19:05:50: #2 alternative fragment length(s) may be 205 bps INFO @ Sun, 21 Jun 2020 19:05:50: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX2592491/SRX2592491.05_model.r INFO @ Sun, 21 Jun 2020 19:05:50: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:05:50: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 19:05:52: 6000000 INFO @ Sun, 21 Jun 2020 19:05:53: 1000000 INFO @ Sun, 21 Jun 2020 19:05:59: 7000000 INFO @ Sun, 21 Jun 2020 19:05:59: 2000000 INFO @ Sun, 21 Jun 2020 19:06:05: 8000000 INFO @ Sun, 21 Jun 2020 19:06:06: 3000000 INFO @ Sun, 21 Jun 2020 19:06:12: 4000000 INFO @ Sun, 21 Jun 2020 19:06:12: 9000000 INFO @ Sun, 21 Jun 2020 19:06:18: 5000000 INFO @ Sun, 21 Jun 2020 19:06:18: 10000000 INFO @ Sun, 21 Jun 2020 19:06:21: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 19:06:21: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 19:06:21: #1 total tags in treatment: 10390200 INFO @ Sun, 21 Jun 2020 19:06:21: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:06:21: #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 19:06:22: #1 tags after filtering in treatment: 10390031 INFO @ Sun, 21 Jun 2020 19:06:22: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:06:22: #1 finished! INFO @ Sun, 21 Jun 2020 19:06:22: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:06:22: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:06:23: #2 number of paired peaks: 7711 INFO @ Sun, 21 Jun 2020 19:06:23: start model_add_line... INFO @ Sun, 21 Jun 2020 19:06:23: start X-correlation... INFO @ Sun, 21 Jun 2020 19:06:23: end of X-cor INFO @ Sun, 21 Jun 2020 19:06:23: #2 finished! INFO @ Sun, 21 Jun 2020 19:06:23: #2 predicted fragment length is 205 bps INFO @ Sun, 21 Jun 2020 19:06:23: #2 alternative fragment length(s) may be 205 bps INFO @ Sun, 21 Jun 2020 19:06:23: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX2592491/SRX2592491.10_model.r INFO @ Sun, 21 Jun 2020 19:06:23: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:06:23: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 19:06:24: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 19:06:25: 6000000 INFO @ Sun, 21 Jun 2020 19:06:31: 7000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 19:06:36: 8000000 INFO @ Sun, 21 Jun 2020 19:06:39: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX2592491/SRX2592491.05_peaks.xls INFO @ Sun, 21 Jun 2020 19:06:39: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX2592491/SRX2592491.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:06:39: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX2592491/SRX2592491.05_summits.bed INFO @ Sun, 21 Jun 2020 19:06:39: Done! pass1 - making usageList (112 chroms): 2 millis pass2 - checking and writing primary data (10410 records, 4 fields): 15 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 19:06:43: 9000000 INFO @ Sun, 21 Jun 2020 19:06:48: 10000000 INFO @ Sun, 21 Jun 2020 19:06:51: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 19:06:51: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 19:06:51: #1 total tags in treatment: 10390200 INFO @ Sun, 21 Jun 2020 19:06:51: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:06:51: #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 19:06:51: #1 tags after filtering in treatment: 10390031 INFO @ Sun, 21 Jun 2020 19:06:51: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:06:51: #1 finished! INFO @ Sun, 21 Jun 2020 19:06:51: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:06:51: #2 looking for paired plus/minus strand peaks... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 19:06:53: #2 number of paired peaks: 7711 INFO @ Sun, 21 Jun 2020 19:06:53: start model_add_line... INFO @ Sun, 21 Jun 2020 19:06:53: start X-correlation... INFO @ Sun, 21 Jun 2020 19:06:53: end of X-cor INFO @ Sun, 21 Jun 2020 19:06:53: #2 finished! INFO @ Sun, 21 Jun 2020 19:06:53: #2 predicted fragment length is 205 bps INFO @ Sun, 21 Jun 2020 19:06:53: #2 alternative fragment length(s) may be 205 bps INFO @ Sun, 21 Jun 2020 19:06:53: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX2592491/SRX2592491.20_model.r INFO @ Sun, 21 Jun 2020 19:06:53: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:06:53: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 19:06:56: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 19:07:10: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX2592491/SRX2592491.10_peaks.xls INFO @ Sun, 21 Jun 2020 19:07:10: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX2592491/SRX2592491.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:07:10: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX2592491/SRX2592491.10_summits.bed INFO @ Sun, 21 Jun 2020 19:07:10: Done! pass1 - making usageList (85 chroms): 2 millis pass2 - checking and writing primary data (8278 records, 4 fields): 13 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 19:07:26: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 19:07:40: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX2592491/SRX2592491.20_peaks.xls INFO @ Sun, 21 Jun 2020 19:07:40: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX2592491/SRX2592491.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:07:40: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX2592491/SRX2592491.20_summits.bed INFO @ Sun, 21 Jun 2020 19:07:40: Done! pass1 - making usageList (64 chroms): 2 millis pass2 - checking and writing primary data (5967 records, 4 fields): 18 millis CompletedMACS2peakCalling