Job ID = 6457896 SRX = SRX485202 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T12:12:04 prefetch.2.10.7: 1) Downloading 'SRR1187960'... 2020-06-21T12:12:04 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T12:15:45 prefetch.2.10.7: HTTPS download succeed 2020-06-21T12:15:45 prefetch.2.10.7: 1) 'SRR1187960' was downloaded successfully 2020-06-21T12:15:45 prefetch.2.10.7: 'SRR1187960' has 0 unresolved dependencies Read 26982023 spots for SRR1187960/SRR1187960.sra Written 26982023 spots for SRR1187960/SRR1187960.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: 00:06:10 26982023 reads; of these: 26982023 (100.00%) were unpaired; of these: 4766585 (17.67%) aligned 0 times 14976543 (55.51%) aligned exactly 1 time 7238895 (26.83%) aligned >1 times 82.33% overall alignment rate Time searching: 00:06:10 Overall time: 00:06:10 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] 9773632 / 22215438 = 0.4399 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 21:29:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX485202/SRX485202.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX485202/SRX485202.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX485202/SRX485202.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX485202/SRX485202.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 21:29:57: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:29:57: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:30:03: 1000000 INFO @ Sun, 21 Jun 2020 21:30:09: 2000000 INFO @ Sun, 21 Jun 2020 21:30:16: 3000000 INFO @ Sun, 21 Jun 2020 21:30:23: 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 21:30:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX485202/SRX485202.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX485202/SRX485202.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX485202/SRX485202.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX485202/SRX485202.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 21:30:27: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:30:27: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:30:30: 5000000 INFO @ Sun, 21 Jun 2020 21:30:33: 1000000 INFO @ Sun, 21 Jun 2020 21:30:38: 6000000 INFO @ Sun, 21 Jun 2020 21:30:39: 2000000 INFO @ Sun, 21 Jun 2020 21:30:46: 3000000 INFO @ Sun, 21 Jun 2020 21:30:46: 7000000 INFO @ Sun, 21 Jun 2020 21:30:52: 4000000 INFO @ Sun, 21 Jun 2020 21:30:53: 8000000 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 21:30:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX485202/SRX485202.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX485202/SRX485202.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX485202/SRX485202.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX485202/SRX485202.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 21:30:57: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:30:57: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:30:58: 5000000 INFO @ Sun, 21 Jun 2020 21:31:02: 9000000 INFO @ Sun, 21 Jun 2020 21:31:04: 1000000 INFO @ Sun, 21 Jun 2020 21:31:05: 6000000 INFO @ Sun, 21 Jun 2020 21:31:10: 2000000 INFO @ Sun, 21 Jun 2020 21:31:11: 10000000 INFO @ Sun, 21 Jun 2020 21:31:12: 7000000 INFO @ Sun, 21 Jun 2020 21:31:17: 3000000 INFO @ Sun, 21 Jun 2020 21:31:18: 8000000 INFO @ Sun, 21 Jun 2020 21:31:20: 11000000 INFO @ Sun, 21 Jun 2020 21:31:24: 4000000 INFO @ Sun, 21 Jun 2020 21:31:25: 9000000 INFO @ Sun, 21 Jun 2020 21:31:29: 12000000 INFO @ Sun, 21 Jun 2020 21:31:30: 5000000 INFO @ Sun, 21 Jun 2020 21:31:32: 10000000 INFO @ Sun, 21 Jun 2020 21:31:33: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 21:31:33: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 21:31:33: #1 total tags in treatment: 12441806 INFO @ Sun, 21 Jun 2020 21:31:33: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:31:33: #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 21:31:34: #1 tags after filtering in treatment: 12441765 INFO @ Sun, 21 Jun 2020 21:31:34: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:31:34: #1 finished! INFO @ Sun, 21 Jun 2020 21:31:34: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:31:34: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:31:35: #2 number of paired peaks: 2606 INFO @ Sun, 21 Jun 2020 21:31:35: start model_add_line... INFO @ Sun, 21 Jun 2020 21:31:35: start X-correlation... INFO @ Sun, 21 Jun 2020 21:31:35: end of X-cor INFO @ Sun, 21 Jun 2020 21:31:35: #2 finished! INFO @ Sun, 21 Jun 2020 21:31:35: #2 predicted fragment length is 116 bps INFO @ Sun, 21 Jun 2020 21:31:35: #2 alternative fragment length(s) may be 3,116,146 bps INFO @ Sun, 21 Jun 2020 21:31:35: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX485202/SRX485202.05_model.r INFO @ Sun, 21 Jun 2020 21:31:35: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:31:35: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:31:37: 6000000 INFO @ Sun, 21 Jun 2020 21:31:39: 11000000 INFO @ Sun, 21 Jun 2020 21:31:44: 7000000 INFO @ Sun, 21 Jun 2020 21:31:46: 12000000 INFO @ Sun, 21 Jun 2020 21:31:48: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 21:31:48: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 21:31:48: #1 total tags in treatment: 12441806 INFO @ Sun, 21 Jun 2020 21:31:48: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:31:48: #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 21:31:49: #1 tags after filtering in treatment: 12441765 INFO @ Sun, 21 Jun 2020 21:31:49: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:31:49: #1 finished! INFO @ Sun, 21 Jun 2020 21:31:49: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:31:49: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:31:50: 8000000 INFO @ Sun, 21 Jun 2020 21:31:50: #2 number of paired peaks: 2606 INFO @ Sun, 21 Jun 2020 21:31:50: start model_add_line... INFO @ Sun, 21 Jun 2020 21:31:50: start X-correlation... INFO @ Sun, 21 Jun 2020 21:31:50: end of X-cor INFO @ Sun, 21 Jun 2020 21:31:50: #2 finished! INFO @ Sun, 21 Jun 2020 21:31:50: #2 predicted fragment length is 116 bps INFO @ Sun, 21 Jun 2020 21:31:50: #2 alternative fragment length(s) may be 3,116,146 bps INFO @ Sun, 21 Jun 2020 21:31:50: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX485202/SRX485202.10_model.r INFO @ Sun, 21 Jun 2020 21:31:50: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:31:50: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:31:55: 9000000 INFO @ Sun, 21 Jun 2020 21:32:02: 10000000 INFO @ Sun, 21 Jun 2020 21:32:05: #3 Call peaks for each chromosome... BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 21:32:08: 11000000 INFO @ Sun, 21 Jun 2020 21:32:15: 12000000 INFO @ Sun, 21 Jun 2020 21:32:17: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 21:32:17: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 21:32:17: #1 total tags in treatment: 12441806 INFO @ Sun, 21 Jun 2020 21:32:17: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:32:17: #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 21:32:18: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX485202/SRX485202.05_peaks.xls INFO @ Sun, 21 Jun 2020 21:32:18: #1 tags after filtering in treatment: 12441765 INFO @ Sun, 21 Jun 2020 21:32:18: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:32:18: #1 finished! INFO @ Sun, 21 Jun 2020 21:32:18: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:32:18: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:32:18: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX485202/SRX485202.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:32:18: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX485202/SRX485202.05_summits.bed INFO @ Sun, 21 Jun 2020 21:32:18: Done! pass1 - making usageList (766 chroms): 2 millis pass2 - checking and writing primary data (3623 records, 4 fields): 46 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 21:32:19: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:32:19: #2 number of paired peaks: 2606 INFO @ Sun, 21 Jun 2020 21:32:19: start model_add_line... INFO @ Sun, 21 Jun 2020 21:32:19: start X-correlation... INFO @ Sun, 21 Jun 2020 21:32:19: end of X-cor INFO @ Sun, 21 Jun 2020 21:32:19: #2 finished! INFO @ Sun, 21 Jun 2020 21:32:19: #2 predicted fragment length is 116 bps INFO @ Sun, 21 Jun 2020 21:32:19: #2 alternative fragment length(s) may be 3,116,146 bps INFO @ Sun, 21 Jun 2020 21:32:19: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX485202/SRX485202.20_model.r INFO @ Sun, 21 Jun 2020 21:32:19: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:32:19: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:32:31: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX485202/SRX485202.10_peaks.xls INFO @ Sun, 21 Jun 2020 21:32:31: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX485202/SRX485202.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:32:31: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX485202/SRX485202.10_summits.bed INFO @ Sun, 21 Jun 2020 21:32:31: Done! pass1 - making usageList (586 chroms): 2 millis pass2 - checking and writing primary data (1969 records, 4 fields): 33 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 21:32:48: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:33:00: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX485202/SRX485202.20_peaks.xls INFO @ Sun, 21 Jun 2020 21:33:00: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX485202/SRX485202.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:33:00: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX485202/SRX485202.20_summits.bed INFO @ Sun, 21 Jun 2020 21:33:00: Done! pass1 - making usageList (351 chroms): 2 millis pass2 - checking and writing primary data (876 records, 4 fields): 20 millis CompletedMACS2peakCalling