Job ID = 6456214 SRX = SRX331371 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T10:43:38 prefetch.2.10.7: 1) Downloading 'SRR947608'... 2020-06-21T10:43:38 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T10:47:02 prefetch.2.10.7: HTTPS download succeed 2020-06-21T10:47:03 prefetch.2.10.7: 'SRR947608' is valid 2020-06-21T10:47:03 prefetch.2.10.7: 1) 'SRR947608' was downloaded successfully Read 14370950 spots for SRR947608/SRR947608.sra Written 14370950 spots for SRR947608/SRR947608.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: 00:03:07 14370950 reads; of these: 14370950 (100.00%) were unpaired; of these: 961118 (6.69%) aligned 0 times 12643830 (87.98%) aligned exactly 1 time 766002 (5.33%) aligned >1 times 93.31% overall alignment rate Time searching: 00:03:07 Overall time: 00:03:07 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] 1738951 / 13409832 = 0.1297 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 19:54:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX331371/SRX331371.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX331371/SRX331371.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX331371/SRX331371.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX331371/SRX331371.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 19:54:54: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:54:54: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:55:00: 1000000 INFO @ Sun, 21 Jun 2020 19:55:06: 2000000 INFO @ Sun, 21 Jun 2020 19:55:12: 3000000 INFO @ Sun, 21 Jun 2020 19:55:18: 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 19:55:24: 5000000 INFO @ Sun, 21 Jun 2020 19:55:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX331371/SRX331371.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX331371/SRX331371.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX331371/SRX331371.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX331371/SRX331371.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 19:55:24: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:55:24: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:55:31: 6000000 INFO @ Sun, 21 Jun 2020 19:55:31: 1000000 INFO @ Sun, 21 Jun 2020 19:55:38: 7000000 INFO @ Sun, 21 Jun 2020 19:55:39: 2000000 INFO @ Sun, 21 Jun 2020 19:55:45: 8000000 INFO @ Sun, 21 Jun 2020 19:55:46: 3000000 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 19:55:53: 9000000 INFO @ Sun, 21 Jun 2020 19:55:54: 4000000 INFO @ Sun, 21 Jun 2020 19:55:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX331371/SRX331371.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX331371/SRX331371.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX331371/SRX331371.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX331371/SRX331371.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 19:55:54: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:55:54: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:56:00: 10000000 INFO @ Sun, 21 Jun 2020 19:56:01: 5000000 INFO @ Sun, 21 Jun 2020 19:56:01: 1000000 INFO @ Sun, 21 Jun 2020 19:56:08: 11000000 INFO @ Sun, 21 Jun 2020 19:56:09: 2000000 INFO @ Sun, 21 Jun 2020 19:56:09: 6000000 INFO @ Sun, 21 Jun 2020 19:56:13: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 19:56:13: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 19:56:13: #1 total tags in treatment: 11670881 INFO @ Sun, 21 Jun 2020 19:56:13: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:56:13: #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 19:56:13: #1 tags after filtering in treatment: 11670679 INFO @ Sun, 21 Jun 2020 19:56:13: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:56:13: #1 finished! INFO @ Sun, 21 Jun 2020 19:56:13: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:56:13: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:56:15: #2 number of paired peaks: 4304 INFO @ Sun, 21 Jun 2020 19:56:15: start model_add_line... INFO @ Sun, 21 Jun 2020 19:56:15: start X-correlation... INFO @ Sun, 21 Jun 2020 19:56:15: end of X-cor INFO @ Sun, 21 Jun 2020 19:56:15: #2 finished! INFO @ Sun, 21 Jun 2020 19:56:15: #2 predicted fragment length is 198 bps INFO @ Sun, 21 Jun 2020 19:56:15: #2 alternative fragment length(s) may be 198 bps INFO @ Sun, 21 Jun 2020 19:56:15: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX331371/SRX331371.05_model.r INFO @ Sun, 21 Jun 2020 19:56:15: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:56:15: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 19:56:16: 3000000 INFO @ Sun, 21 Jun 2020 19:56:16: 7000000 INFO @ Sun, 21 Jun 2020 19:56:23: 4000000 INFO @ Sun, 21 Jun 2020 19:56:24: 8000000 INFO @ Sun, 21 Jun 2020 19:56:31: 5000000 INFO @ Sun, 21 Jun 2020 19:56:32: 9000000 INFO @ Sun, 21 Jun 2020 19:56:38: 6000000 INFO @ Sun, 21 Jun 2020 19:56:40: 10000000 INFO @ Sun, 21 Jun 2020 19:56:45: 7000000 INFO @ Sun, 21 Jun 2020 19:56:47: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 19:56:47: 11000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 19:56:52: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 19:56:52: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 19:56:52: #1 total tags in treatment: 11670881 INFO @ Sun, 21 Jun 2020 19:56:52: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:56:52: #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 19:56:53: 8000000 INFO @ Sun, 21 Jun 2020 19:56:53: #1 tags after filtering in treatment: 11670679 INFO @ Sun, 21 Jun 2020 19:56:53: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:56:53: #1 finished! INFO @ Sun, 21 Jun 2020 19:56:53: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:56:53: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:56:54: #2 number of paired peaks: 4304 INFO @ Sun, 21 Jun 2020 19:56:54: start model_add_line... INFO @ Sun, 21 Jun 2020 19:56:54: start X-correlation... INFO @ Sun, 21 Jun 2020 19:56:54: end of X-cor INFO @ Sun, 21 Jun 2020 19:56:54: #2 finished! INFO @ Sun, 21 Jun 2020 19:56:54: #2 predicted fragment length is 198 bps INFO @ Sun, 21 Jun 2020 19:56:54: #2 alternative fragment length(s) may be 198 bps INFO @ Sun, 21 Jun 2020 19:56:54: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX331371/SRX331371.10_model.r INFO @ Sun, 21 Jun 2020 19:56:54: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:56:54: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 19:56:59: 9000000 INFO @ Sun, 21 Jun 2020 19:57:04: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX331371/SRX331371.05_peaks.xls INFO @ Sun, 21 Jun 2020 19:57:04: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX331371/SRX331371.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:57:04: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX331371/SRX331371.05_summits.bed INFO @ Sun, 21 Jun 2020 19:57:04: Done! pass1 - making usageList (75 chroms): 2 millis pass2 - checking and writing primary data (8049 records, 4 fields): 12 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 19:57:06: 10000000 INFO @ Sun, 21 Jun 2020 19:57:12: 11000000 BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 19:57:16: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 19:57:16: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 19:57:16: #1 total tags in treatment: 11670881 INFO @ Sun, 21 Jun 2020 19:57:16: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:57:16: #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 19:57:16: #1 tags after filtering in treatment: 11670679 INFO @ Sun, 21 Jun 2020 19:57:16: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:57:16: #1 finished! INFO @ Sun, 21 Jun 2020 19:57:16: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:57:16: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:57:18: #2 number of paired peaks: 4304 INFO @ Sun, 21 Jun 2020 19:57:18: start model_add_line... INFO @ Sun, 21 Jun 2020 19:57:18: start X-correlation... INFO @ Sun, 21 Jun 2020 19:57:18: end of X-cor INFO @ Sun, 21 Jun 2020 19:57:18: #2 finished! INFO @ Sun, 21 Jun 2020 19:57:18: #2 predicted fragment length is 198 bps INFO @ Sun, 21 Jun 2020 19:57:18: #2 alternative fragment length(s) may be 198 bps INFO @ Sun, 21 Jun 2020 19:57:18: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX331371/SRX331371.20_model.r INFO @ Sun, 21 Jun 2020 19:57:18: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:57:18: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 19:57:26: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 19:57:42: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX331371/SRX331371.10_peaks.xls INFO @ Sun, 21 Jun 2020 19:57:42: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX331371/SRX331371.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:57:42: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX331371/SRX331371.10_summits.bed INFO @ Sun, 21 Jun 2020 19:57:42: Done! pass1 - making usageList (53 chroms): 1 millis pass2 - checking and writing primary data (4838 records, 4 fields): 9 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 19:57:51: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 19:58:06: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX331371/SRX331371.20_peaks.xls INFO @ Sun, 21 Jun 2020 19:58:06: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX331371/SRX331371.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:58:06: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX331371/SRX331371.20_summits.bed INFO @ Sun, 21 Jun 2020 19:58:06: Done! pass1 - making usageList (32 chroms): 1 millis pass2 - checking and writing primary data (2215 records, 4 fields): 4 millis CompletedMACS2peakCalling