Job ID = 6456952 SRX = SRX4158179 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T11:17:09 prefetch.2.10.7: 1) Downloading 'SRR7253459'... 2020-06-21T11:17:09 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T11:19:37 prefetch.2.10.7: HTTPS download succeed 2020-06-21T11:19:37 prefetch.2.10.7: 1) 'SRR7253459' was downloaded successfully Read 16778126 spots for SRR7253459/SRR7253459.sra Written 16778126 spots for SRR7253459/SRR7253459.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: 00:03:51 16778126 reads; of these: 16778126 (100.00%) were unpaired; of these: 339310 (2.02%) aligned 0 times 15338190 (91.42%) aligned exactly 1 time 1100626 (6.56%) aligned >1 times 97.98% overall alignment rate Time searching: 00:03:51 Overall time: 00:03:51 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] 2898798 / 16438816 = 0.1763 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 20:29:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4158179/SRX4158179.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4158179/SRX4158179.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4158179/SRX4158179.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4158179/SRX4158179.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 20:29:14: #1 read tag files... INFO @ Sun, 21 Jun 2020 20:29:14: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 20:29:20: 1000000 INFO @ Sun, 21 Jun 2020 20:29:26: 2000000 INFO @ Sun, 21 Jun 2020 20:29:32: 3000000 INFO @ Sun, 21 Jun 2020 20:29:38: 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 20:29:43: 5000000 INFO @ Sun, 21 Jun 2020 20:29:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4158179/SRX4158179.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4158179/SRX4158179.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4158179/SRX4158179.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4158179/SRX4158179.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 20:29:44: #1 read tag files... INFO @ Sun, 21 Jun 2020 20:29:44: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 20:29:49: 6000000 INFO @ Sun, 21 Jun 2020 20:29:50: 1000000 INFO @ Sun, 21 Jun 2020 20:29:55: 7000000 INFO @ Sun, 21 Jun 2020 20:29:56: 2000000 INFO @ Sun, 21 Jun 2020 20:30:01: 8000000 INFO @ Sun, 21 Jun 2020 20:30:02: 3000000 INFO @ Sun, 21 Jun 2020 20:30:06: 9000000 INFO @ Sun, 21 Jun 2020 20:30:08: 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 20:30:12: 10000000 INFO @ Sun, 21 Jun 2020 20:30:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4158179/SRX4158179.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4158179/SRX4158179.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4158179/SRX4158179.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4158179/SRX4158179.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 20:30:13: #1 read tag files... INFO @ Sun, 21 Jun 2020 20:30:13: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 20:30:15: 5000000 INFO @ Sun, 21 Jun 2020 20:30:19: 11000000 INFO @ Sun, 21 Jun 2020 20:30:20: 1000000 INFO @ Sun, 21 Jun 2020 20:30:21: 6000000 INFO @ Sun, 21 Jun 2020 20:30:25: 12000000 INFO @ Sun, 21 Jun 2020 20:30:27: 7000000 INFO @ Sun, 21 Jun 2020 20:30:27: 2000000 INFO @ Sun, 21 Jun 2020 20:30:31: 13000000 INFO @ Sun, 21 Jun 2020 20:30:33: 8000000 INFO @ Sun, 21 Jun 2020 20:30:34: 3000000 INFO @ Sun, 21 Jun 2020 20:30:35: #1 tag size is determined as 49 bps INFO @ Sun, 21 Jun 2020 20:30:35: #1 tag size = 49 INFO @ Sun, 21 Jun 2020 20:30:35: #1 total tags in treatment: 13540018 INFO @ Sun, 21 Jun 2020 20:30:35: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 20:30:35: #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 20:30:35: #1 tags after filtering in treatment: 13539843 INFO @ Sun, 21 Jun 2020 20:30:35: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 20:30:35: #1 finished! INFO @ Sun, 21 Jun 2020 20:30:35: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 20:30:35: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 20:30:37: #2 number of paired peaks: 11255 INFO @ Sun, 21 Jun 2020 20:30:37: start model_add_line... INFO @ Sun, 21 Jun 2020 20:30:37: start X-correlation... INFO @ Sun, 21 Jun 2020 20:30:37: end of X-cor INFO @ Sun, 21 Jun 2020 20:30:37: #2 finished! INFO @ Sun, 21 Jun 2020 20:30:37: #2 predicted fragment length is 148 bps INFO @ Sun, 21 Jun 2020 20:30:37: #2 alternative fragment length(s) may be 3,148 bps INFO @ Sun, 21 Jun 2020 20:30:37: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX4158179/SRX4158179.05_model.r INFO @ Sun, 21 Jun 2020 20:30:37: #3 Call peaks... INFO @ Sun, 21 Jun 2020 20:30:37: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 20:30:39: 9000000 INFO @ Sun, 21 Jun 2020 20:30:40: 4000000 INFO @ Sun, 21 Jun 2020 20:30:45: 10000000 INFO @ Sun, 21 Jun 2020 20:30:47: 5000000 INFO @ Sun, 21 Jun 2020 20:30:52: 11000000 INFO @ Sun, 21 Jun 2020 20:30:54: 6000000 INFO @ Sun, 21 Jun 2020 20:30:58: 12000000 INFO @ Sun, 21 Jun 2020 20:31:00: 7000000 INFO @ Sun, 21 Jun 2020 20:31:04: 13000000 INFO @ Sun, 21 Jun 2020 20:31:07: 8000000 INFO @ Sun, 21 Jun 2020 20:31:08: #1 tag size is determined as 49 bps INFO @ Sun, 21 Jun 2020 20:31:08: #1 tag size = 49 INFO @ Sun, 21 Jun 2020 20:31:08: #1 total tags in treatment: 13540018 INFO @ Sun, 21 Jun 2020 20:31:08: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 20:31:08: #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 20:31:09: #1 tags after filtering in treatment: 13539843 INFO @ Sun, 21 Jun 2020 20:31:09: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 20:31:09: #1 finished! INFO @ Sun, 21 Jun 2020 20:31:09: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 20:31:09: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 20:31:11: #2 number of paired peaks: 11255 INFO @ Sun, 21 Jun 2020 20:31:11: start model_add_line... INFO @ Sun, 21 Jun 2020 20:31:11: start X-correlation... INFO @ Sun, 21 Jun 2020 20:31:11: end of X-cor INFO @ Sun, 21 Jun 2020 20:31:11: #2 finished! INFO @ Sun, 21 Jun 2020 20:31:11: #2 predicted fragment length is 148 bps INFO @ Sun, 21 Jun 2020 20:31:11: #2 alternative fragment length(s) may be 3,148 bps INFO @ Sun, 21 Jun 2020 20:31:11: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX4158179/SRX4158179.10_model.r INFO @ Sun, 21 Jun 2020 20:31:11: #3 Call peaks... INFO @ Sun, 21 Jun 2020 20:31:11: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 20:31:13: 9000000 INFO @ Sun, 21 Jun 2020 20:31:13: #3 Call peaks for each chromosome... BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 20:31:19: 10000000 INFO @ Sun, 21 Jun 2020 20:31:26: 11000000 INFO @ Sun, 21 Jun 2020 20:31:31: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX4158179/SRX4158179.05_peaks.xls INFO @ Sun, 21 Jun 2020 20:31:31: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX4158179/SRX4158179.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 20:31:31: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX4158179/SRX4158179.05_summits.bed INFO @ Sun, 21 Jun 2020 20:31:31: Done! pass1 - making usageList (71 chroms): 2 millis pass2 - checking and writing primary data (9192 records, 4 fields): 32 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 20:31:32: 12000000 INFO @ Sun, 21 Jun 2020 20:31:38: 13000000 BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 20:31:42: #1 tag size is determined as 49 bps INFO @ Sun, 21 Jun 2020 20:31:42: #1 tag size = 49 INFO @ Sun, 21 Jun 2020 20:31:42: #1 total tags in treatment: 13540018 INFO @ Sun, 21 Jun 2020 20:31:42: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 20:31:42: #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 20:31:42: #1 tags after filtering in treatment: 13539843 INFO @ Sun, 21 Jun 2020 20:31:42: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 20:31:42: #1 finished! INFO @ Sun, 21 Jun 2020 20:31:42: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 20:31:42: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 20:31:44: #2 number of paired peaks: 11255 INFO @ Sun, 21 Jun 2020 20:31:44: start model_add_line... INFO @ Sun, 21 Jun 2020 20:31:45: start X-correlation... INFO @ Sun, 21 Jun 2020 20:31:45: end of X-cor INFO @ Sun, 21 Jun 2020 20:31:45: #2 finished! INFO @ Sun, 21 Jun 2020 20:31:45: #2 predicted fragment length is 148 bps INFO @ Sun, 21 Jun 2020 20:31:45: #2 alternative fragment length(s) may be 3,148 bps INFO @ Sun, 21 Jun 2020 20:31:45: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX4158179/SRX4158179.20_model.r INFO @ Sun, 21 Jun 2020 20:31:45: #3 Call peaks... INFO @ Sun, 21 Jun 2020 20:31:45: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 20:31:46: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 20:32:04: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX4158179/SRX4158179.10_peaks.xls INFO @ Sun, 21 Jun 2020 20:32:04: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX4158179/SRX4158179.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 20:32:04: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX4158179/SRX4158179.10_summits.bed INFO @ Sun, 21 Jun 2020 20:32:04: Done! pass1 - making usageList (51 chroms): 2 millis pass2 - checking and writing primary data (5926 records, 4 fields): 9 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 20:32:18: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 20:32:35: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX4158179/SRX4158179.20_peaks.xls INFO @ Sun, 21 Jun 2020 20:32:35: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX4158179/SRX4158179.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 20:32:35: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX4158179/SRX4158179.20_summits.bed INFO @ Sun, 21 Jun 2020 20:32:35: Done! pass1 - making usageList (36 chroms): 2 millis pass2 - checking and writing primary data (2255 records, 4 fields): 4 millis CompletedMACS2peakCalling