Job ID = 6452760 SRX = SRX030964 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T07:48:45 prefetch.2.10.7: 1) Downloading 'SRR072393'... 2020-06-21T07:48:45 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T07:50:51 prefetch.2.10.7: HTTPS download succeed 2020-06-21T07:50:52 prefetch.2.10.7: 'SRR072393' is valid 2020-06-21T07:50:52 prefetch.2.10.7: 1) 'SRR072393' was downloaded successfully Read 23804585 spots for SRR072393/SRR072393.sra Written 23804585 spots for SRR072393/SRR072393.sra 2020-06-21T07:52:04 prefetch.2.10.7: 1) Downloading 'SRR072394'... 2020-06-21T07:52:04 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T07:56:57 prefetch.2.10.7: HTTPS download succeed 2020-06-21T07:56:58 prefetch.2.10.7: 'SRR072394' is valid 2020-06-21T07:56:58 prefetch.2.10.7: 1) 'SRR072394' was downloaded successfully Read 22252217 spots for SRR072394/SRR072394.sra Written 22252217 spots for SRR072394/SRR072394.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: 00:06:35 46056802 reads; of these: 46056802 (100.00%) were unpaired; of these: 13436399 (29.17%) aligned 0 times 29522281 (64.10%) aligned exactly 1 time 3098122 (6.73%) aligned >1 times 70.83% overall alignment rate Time searching: 00:06:35 Overall time: 00:06:35 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] 22090007 / 32620403 = 0.6772 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 17:09:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX030964/SRX030964.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX030964/SRX030964.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX030964/SRX030964.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX030964/SRX030964.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 17:09:55: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:09:55: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:10:01: 1000000 INFO @ Sun, 21 Jun 2020 17:10:08: 2000000 INFO @ Sun, 21 Jun 2020 17:10:15: 3000000 INFO @ Sun, 21 Jun 2020 17:10:21: 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 17:10:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX030964/SRX030964.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX030964/SRX030964.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX030964/SRX030964.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX030964/SRX030964.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 17:10:25: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:10:25: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:10:28: 5000000 INFO @ Sun, 21 Jun 2020 17:10:31: 1000000 INFO @ Sun, 21 Jun 2020 17:10:35: 6000000 INFO @ Sun, 21 Jun 2020 17:10:38: 2000000 INFO @ Sun, 21 Jun 2020 17:10:43: 7000000 INFO @ Sun, 21 Jun 2020 17:10:44: 3000000 INFO @ Sun, 21 Jun 2020 17:10:50: 8000000 INFO @ Sun, 21 Jun 2020 17:10:51: 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 17:10:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX030964/SRX030964.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX030964/SRX030964.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX030964/SRX030964.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX030964/SRX030964.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 17:10:55: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:10:55: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:10:57: 9000000 INFO @ Sun, 21 Jun 2020 17:10:58: 5000000 INFO @ Sun, 21 Jun 2020 17:11:02: 1000000 INFO @ Sun, 21 Jun 2020 17:11:04: 10000000 INFO @ Sun, 21 Jun 2020 17:11:05: 6000000 INFO @ Sun, 21 Jun 2020 17:11:08: #1 tag size is determined as 36 bps INFO @ Sun, 21 Jun 2020 17:11:08: #1 tag size = 36 INFO @ Sun, 21 Jun 2020 17:11:08: #1 total tags in treatment: 10530396 INFO @ Sun, 21 Jun 2020 17:11:08: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:11:08: #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 17:11:09: #1 tags after filtering in treatment: 10530374 INFO @ Sun, 21 Jun 2020 17:11:09: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:11:09: #1 finished! INFO @ Sun, 21 Jun 2020 17:11:09: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:11:09: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:11:09: 2000000 INFO @ Sun, 21 Jun 2020 17:11:10: #2 number of paired peaks: 1381 INFO @ Sun, 21 Jun 2020 17:11:10: start model_add_line... INFO @ Sun, 21 Jun 2020 17:11:10: start X-correlation... INFO @ Sun, 21 Jun 2020 17:11:10: end of X-cor INFO @ Sun, 21 Jun 2020 17:11:10: #2 finished! INFO @ Sun, 21 Jun 2020 17:11:10: #2 predicted fragment length is 319 bps INFO @ Sun, 21 Jun 2020 17:11:10: #2 alternative fragment length(s) may be 319 bps INFO @ Sun, 21 Jun 2020 17:11:10: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX030964/SRX030964.05_model.r INFO @ Sun, 21 Jun 2020 17:11:10: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:11:10: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 17:11:11: 7000000 INFO @ Sun, 21 Jun 2020 17:11:17: 3000000 INFO @ Sun, 21 Jun 2020 17:11:18: 8000000 INFO @ Sun, 21 Jun 2020 17:11:24: 4000000 INFO @ Sun, 21 Jun 2020 17:11:25: 9000000 INFO @ Sun, 21 Jun 2020 17:11:31: 5000000 INFO @ Sun, 21 Jun 2020 17:11:32: 10000000 INFO @ Sun, 21 Jun 2020 17:11:36: #1 tag size is determined as 36 bps INFO @ Sun, 21 Jun 2020 17:11:36: #1 tag size = 36 INFO @ Sun, 21 Jun 2020 17:11:36: #1 total tags in treatment: 10530396 INFO @ Sun, 21 Jun 2020 17:11:36: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:11:36: #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 17:11:36: #1 tags after filtering in treatment: 10530374 INFO @ Sun, 21 Jun 2020 17:11:36: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:11:36: #1 finished! INFO @ Sun, 21 Jun 2020 17:11:36: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:11:36: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:11:37: #2 number of paired peaks: 1381 INFO @ Sun, 21 Jun 2020 17:11:37: start model_add_line... INFO @ Sun, 21 Jun 2020 17:11:37: start X-correlation... INFO @ Sun, 21 Jun 2020 17:11:37: end of X-cor INFO @ Sun, 21 Jun 2020 17:11:37: #2 finished! INFO @ Sun, 21 Jun 2020 17:11:37: #2 predicted fragment length is 319 bps INFO @ Sun, 21 Jun 2020 17:11:37: #2 alternative fragment length(s) may be 319 bps INFO @ Sun, 21 Jun 2020 17:11:37: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX030964/SRX030964.10_model.r INFO @ Sun, 21 Jun 2020 17:11:37: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:11:37: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 17:11:38: 6000000 INFO @ Sun, 21 Jun 2020 17:11:38: #3 Call peaks for each chromosome... BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 17:11:45: 7000000 INFO @ Sun, 21 Jun 2020 17:11:51: 8000000 INFO @ Sun, 21 Jun 2020 17:11:52: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX030964/SRX030964.05_peaks.xls INFO @ Sun, 21 Jun 2020 17:11:52: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX030964/SRX030964.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:11:52: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX030964/SRX030964.05_summits.bed INFO @ Sun, 21 Jun 2020 17:11:52: Done! pass1 - making usageList (440 chroms): 2 millis pass2 - checking and writing primary data (6473 records, 4 fields): 16 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 17:11:58: 9000000 INFO @ Sun, 21 Jun 2020 17:12:05: 10000000 INFO @ Sun, 21 Jun 2020 17:12:05: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 17:12:08: #1 tag size is determined as 36 bps INFO @ Sun, 21 Jun 2020 17:12:08: #1 tag size = 36 INFO @ Sun, 21 Jun 2020 17:12:08: #1 total tags in treatment: 10530396 INFO @ Sun, 21 Jun 2020 17:12:08: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:12:08: #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 17:12:08: #1 tags after filtering in treatment: 10530374 INFO @ Sun, 21 Jun 2020 17:12:08: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:12:08: #1 finished! INFO @ Sun, 21 Jun 2020 17:12:08: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:12:08: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:12:09: #2 number of paired peaks: 1381 INFO @ Sun, 21 Jun 2020 17:12:09: start model_add_line... INFO @ Sun, 21 Jun 2020 17:12:09: start X-correlation... INFO @ Sun, 21 Jun 2020 17:12:09: end of X-cor INFO @ Sun, 21 Jun 2020 17:12:09: #2 finished! INFO @ Sun, 21 Jun 2020 17:12:09: #2 predicted fragment length is 319 bps INFO @ Sun, 21 Jun 2020 17:12:09: #2 alternative fragment length(s) may be 319 bps INFO @ Sun, 21 Jun 2020 17:12:09: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX030964/SRX030964.20_model.r INFO @ Sun, 21 Jun 2020 17:12:09: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:12:09: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 17:12:18: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX030964/SRX030964.10_peaks.xls INFO @ Sun, 21 Jun 2020 17:12:18: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX030964/SRX030964.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:12:18: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX030964/SRX030964.10_summits.bed INFO @ Sun, 21 Jun 2020 17:12:18: Done! pass1 - making usageList (400 chroms): 1 millis pass2 - checking and writing primary data (3959 records, 4 fields): 14 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 17:12:36: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 17:12:49: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX030964/SRX030964.20_peaks.xls INFO @ Sun, 21 Jun 2020 17:12:49: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX030964/SRX030964.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:12:49: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX030964/SRX030964.20_summits.bed INFO @ Sun, 21 Jun 2020 17:12:49: Done! pass1 - making usageList (325 chroms): 1 millis pass2 - checking and writing primary data (1838 records, 4 fields): 10 millis CompletedMACS2peakCalling