Job ID = 6458861 SRX = SRX5717032 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T12:49:10 prefetch.2.10.7: 1) Downloading 'SRR8936392'... 2020-06-21T12:49:10 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T12:53:37 prefetch.2.10.7: HTTPS download succeed 2020-06-21T12:53:37 prefetch.2.10.7: 1) 'SRR8936392' was downloaded successfully Read 27047648 spots for SRR8936392/SRR8936392.sra Written 27047648 spots for SRR8936392/SRR8936392.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: 00:06:09 27047648 reads; of these: 27047648 (100.00%) were unpaired; of these: 2792282 (10.32%) aligned 0 times 19717538 (72.90%) aligned exactly 1 time 4537828 (16.78%) aligned >1 times 89.68% overall alignment rate Time searching: 00:06:09 Overall time: 00:06:09 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 12 files... [bam_rmdupse_core] 10663797 / 24255366 = 0.4396 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 22:05:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5717032/SRX5717032.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5717032/SRX5717032.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5717032/SRX5717032.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5717032/SRX5717032.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 22:05:33: #1 read tag files... INFO @ Sun, 21 Jun 2020 22:05:33: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 22:05:38: 1000000 INFO @ Sun, 21 Jun 2020 22:05:43: 2000000 INFO @ Sun, 21 Jun 2020 22:05:48: 3000000 INFO @ Sun, 21 Jun 2020 22:05:53: 4000000 INFO @ Sun, 21 Jun 2020 22:05:57: 5000000 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 22:06:02: 6000000 INFO @ Sun, 21 Jun 2020 22:06:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5717032/SRX5717032.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5717032/SRX5717032.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5717032/SRX5717032.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5717032/SRX5717032.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 22:06:03: #1 read tag files... INFO @ Sun, 21 Jun 2020 22:06:03: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 22:06:08: 7000000 INFO @ Sun, 21 Jun 2020 22:06:08: 1000000 INFO @ Sun, 21 Jun 2020 22:06:13: 8000000 INFO @ Sun, 21 Jun 2020 22:06:13: 2000000 INFO @ Sun, 21 Jun 2020 22:06:18: 9000000 INFO @ Sun, 21 Jun 2020 22:06:19: 3000000 INFO @ Sun, 21 Jun 2020 22:06:24: 10000000 INFO @ Sun, 21 Jun 2020 22:06:24: 4000000 INFO @ Sun, 21 Jun 2020 22:06:29: 11000000 INFO @ Sun, 21 Jun 2020 22:06:29: 5000000 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 22:06:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5717032/SRX5717032.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5717032/SRX5717032.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5717032/SRX5717032.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5717032/SRX5717032.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 22:06:33: #1 read tag files... INFO @ Sun, 21 Jun 2020 22:06:33: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 22:06:34: 12000000 INFO @ Sun, 21 Jun 2020 22:06:34: 6000000 INFO @ Sun, 21 Jun 2020 22:06:39: 1000000 INFO @ Sun, 21 Jun 2020 22:06:40: 13000000 INFO @ Sun, 21 Jun 2020 22:06:40: 7000000 INFO @ Sun, 21 Jun 2020 22:06:43: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 22:06:43: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 22:06:43: #1 total tags in treatment: 13591569 INFO @ Sun, 21 Jun 2020 22:06:43: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 22:06:43: #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 22:06:44: #1 tags after filtering in treatment: 13591445 INFO @ Sun, 21 Jun 2020 22:06:44: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 22:06:44: #1 finished! INFO @ Sun, 21 Jun 2020 22:06:44: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 22:06:44: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 22:06:45: #2 number of paired peaks: 3688 INFO @ Sun, 21 Jun 2020 22:06:45: start model_add_line... INFO @ Sun, 21 Jun 2020 22:06:45: start X-correlation... INFO @ Sun, 21 Jun 2020 22:06:45: end of X-cor INFO @ Sun, 21 Jun 2020 22:06:45: #2 finished! INFO @ Sun, 21 Jun 2020 22:06:45: #2 predicted fragment length is 273 bps INFO @ Sun, 21 Jun 2020 22:06:45: #2 alternative fragment length(s) may be 0,20,63,158,208,242,273 bps INFO @ Sun, 21 Jun 2020 22:06:45: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5717032/SRX5717032.05_model.r INFO @ Sun, 21 Jun 2020 22:06:45: #3 Call peaks... INFO @ Sun, 21 Jun 2020 22:06:45: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 22:06:45: 2000000 INFO @ Sun, 21 Jun 2020 22:06:45: 8000000 INFO @ Sun, 21 Jun 2020 22:06:51: 9000000 INFO @ Sun, 21 Jun 2020 22:06:51: 3000000 INFO @ Sun, 21 Jun 2020 22:06:57: 10000000 INFO @ Sun, 21 Jun 2020 22:06:57: 4000000 INFO @ Sun, 21 Jun 2020 22:07:02: 11000000 INFO @ Sun, 21 Jun 2020 22:07:03: 5000000 INFO @ Sun, 21 Jun 2020 22:07:07: 12000000 INFO @ Sun, 21 Jun 2020 22:07:09: 6000000 INFO @ Sun, 21 Jun 2020 22:07:13: 13000000 INFO @ Sun, 21 Jun 2020 22:07:15: 7000000 INFO @ Sun, 21 Jun 2020 22:07:16: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 22:07:16: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 22:07:16: #1 total tags in treatment: 13591569 INFO @ Sun, 21 Jun 2020 22:07:16: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 22:07:16: #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 22:07:17: #1 tags after filtering in treatment: 13591445 INFO @ Sun, 21 Jun 2020 22:07:17: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 22:07:17: #1 finished! INFO @ Sun, 21 Jun 2020 22:07:17: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 22:07:17: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 22:07:18: #2 number of paired peaks: 3688 INFO @ Sun, 21 Jun 2020 22:07:18: start model_add_line... INFO @ Sun, 21 Jun 2020 22:07:18: start X-correlation... INFO @ Sun, 21 Jun 2020 22:07:18: end of X-cor INFO @ Sun, 21 Jun 2020 22:07:18: #2 finished! INFO @ Sun, 21 Jun 2020 22:07:18: #2 predicted fragment length is 273 bps INFO @ Sun, 21 Jun 2020 22:07:18: #2 alternative fragment length(s) may be 0,20,63,158,208,242,273 bps INFO @ Sun, 21 Jun 2020 22:07:18: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5717032/SRX5717032.10_model.r INFO @ Sun, 21 Jun 2020 22:07:18: #3 Call peaks... INFO @ Sun, 21 Jun 2020 22:07:18: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 22:07:20: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 22:07:21: 8000000 INFO @ Sun, 21 Jun 2020 22:07:27: 9000000 INFO @ Sun, 21 Jun 2020 22:07:33: 10000000 INFO @ Sun, 21 Jun 2020 22:07:34: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5717032/SRX5717032.05_peaks.xls INFO @ Sun, 21 Jun 2020 22:07:34: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5717032/SRX5717032.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 22:07:34: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5717032/SRX5717032.05_summits.bed INFO @ Sun, 21 Jun 2020 22:07:34: Done! pass1 - making usageList (226 chroms): 1 millis pass2 - checking and writing primary data (3524 records, 4 fields): 10 millis CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 22:07:39: 11000000 INFO @ Sun, 21 Jun 2020 22:07:45: 12000000 INFO @ Sun, 21 Jun 2020 22:07:50: 13000000 INFO @ Sun, 21 Jun 2020 22:07:52: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 22:07:54: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 22:07:54: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 22:07:54: #1 total tags in treatment: 13591569 INFO @ Sun, 21 Jun 2020 22:07:54: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 22:07:54: #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 22:07:54: #1 tags after filtering in treatment: 13591445 INFO @ Sun, 21 Jun 2020 22:07:54: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 22:07:54: #1 finished! INFO @ Sun, 21 Jun 2020 22:07:54: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 22:07:54: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 22:07:56: #2 number of paired peaks: 3688 INFO @ Sun, 21 Jun 2020 22:07:56: start model_add_line... INFO @ Sun, 21 Jun 2020 22:07:56: start X-correlation... INFO @ Sun, 21 Jun 2020 22:07:56: end of X-cor INFO @ Sun, 21 Jun 2020 22:07:56: #2 finished! INFO @ Sun, 21 Jun 2020 22:07:56: #2 predicted fragment length is 273 bps INFO @ Sun, 21 Jun 2020 22:07:56: #2 alternative fragment length(s) may be 0,20,63,158,208,242,273 bps INFO @ Sun, 21 Jun 2020 22:07:56: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5717032/SRX5717032.20_model.r INFO @ Sun, 21 Jun 2020 22:07:56: #3 Call peaks... INFO @ Sun, 21 Jun 2020 22:07:56: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 22:08:07: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5717032/SRX5717032.10_peaks.xls INFO @ Sun, 21 Jun 2020 22:08:07: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5717032/SRX5717032.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 22:08:07: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5717032/SRX5717032.10_summits.bed INFO @ Sun, 21 Jun 2020 22:08:07: Done! pass1 - making usageList (123 chroms): 1 millis pass2 - checking and writing primary data (1308 records, 4 fields): 5 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 22:08:29: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 22:08:44: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5717032/SRX5717032.20_peaks.xls INFO @ Sun, 21 Jun 2020 22:08:44: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5717032/SRX5717032.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 22:08:44: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5717032/SRX5717032.20_summits.bed INFO @ Sun, 21 Jun 2020 22:08:44: Done! pass1 - making usageList (79 chroms): 1 millis pass2 - checking and writing primary data (234 records, 4 fields): 3 millis CompletedMACS2peakCalling