Job ID = 6458264 SRX = SRX5011025 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T12:37:26 prefetch.2.10.7: 1) Downloading 'SRR8191474'... 2020-06-21T12:37:26 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T12:41:16 prefetch.2.10.7: HTTPS download succeed 2020-06-21T12:41:16 prefetch.2.10.7: 1) 'SRR8191474' was downloaded successfully 2020-06-21T12:41:16 prefetch.2.10.7: 'SRR8191474' has 0 unresolved dependencies Read 32117571 spots for SRR8191474/SRR8191474.sra Written 32117571 spots for SRR8191474/SRR8191474.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: 00:08:20 32117571 reads; of these: 32117571 (100.00%) were unpaired; of these: 3828746 (11.92%) aligned 0 times 21155608 (65.87%) aligned exactly 1 time 7133217 (22.21%) aligned >1 times 88.08% overall alignment rate Time searching: 00:08:20 Overall time: 00:08:20 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] 15186388 / 28288825 = 0.5368 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 21:55:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5011025/SRX5011025.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5011025/SRX5011025.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5011025/SRX5011025.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5011025/SRX5011025.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 21:55:28: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:55:28: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:55:34: 1000000 INFO @ Sun, 21 Jun 2020 21:55:40: 2000000 INFO @ Sun, 21 Jun 2020 21:55:46: 3000000 INFO @ Sun, 21 Jun 2020 21:55:52: 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 21:55:57: 5000000 INFO @ Sun, 21 Jun 2020 21:55:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5011025/SRX5011025.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5011025/SRX5011025.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5011025/SRX5011025.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5011025/SRX5011025.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 21:55:59: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:55:59: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:56:04: 6000000 INFO @ Sun, 21 Jun 2020 21:56:04: 1000000 INFO @ Sun, 21 Jun 2020 21:56:10: 2000000 INFO @ Sun, 21 Jun 2020 21:56:10: 7000000 INFO @ Sun, 21 Jun 2020 21:56:16: 3000000 INFO @ Sun, 21 Jun 2020 21:56:16: 8000000 INFO @ Sun, 21 Jun 2020 21:56:21: 4000000 INFO @ Sun, 21 Jun 2020 21:56:22: 9000000 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 21:56:27: 5000000 INFO @ Sun, 21 Jun 2020 21:56:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5011025/SRX5011025.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5011025/SRX5011025.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5011025/SRX5011025.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5011025/SRX5011025.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 21:56:28: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:56:28: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:56:28: 10000000 INFO @ Sun, 21 Jun 2020 21:56:32: 6000000 INFO @ Sun, 21 Jun 2020 21:56:34: 1000000 INFO @ Sun, 21 Jun 2020 21:56:35: 11000000 INFO @ Sun, 21 Jun 2020 21:56:38: 7000000 INFO @ Sun, 21 Jun 2020 21:56:41: 2000000 INFO @ Sun, 21 Jun 2020 21:56:41: 12000000 INFO @ Sun, 21 Jun 2020 21:56:43: 8000000 INFO @ Sun, 21 Jun 2020 21:56:47: 3000000 INFO @ Sun, 21 Jun 2020 21:56:48: 13000000 INFO @ Sun, 21 Jun 2020 21:56:48: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 21:56:48: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 21:56:48: #1 total tags in treatment: 13102437 INFO @ Sun, 21 Jun 2020 21:56:48: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:56:48: #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 21:56:49: #1 tags after filtering in treatment: 13102348 INFO @ Sun, 21 Jun 2020 21:56:49: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:56:49: #1 finished! INFO @ Sun, 21 Jun 2020 21:56:49: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:56:49: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:56:49: 9000000 INFO @ Sun, 21 Jun 2020 21:56:50: #2 number of paired peaks: 2810 INFO @ Sun, 21 Jun 2020 21:56:50: start model_add_line... INFO @ Sun, 21 Jun 2020 21:56:50: start X-correlation... INFO @ Sun, 21 Jun 2020 21:56:50: end of X-cor INFO @ Sun, 21 Jun 2020 21:56:50: #2 finished! INFO @ Sun, 21 Jun 2020 21:56:50: #2 predicted fragment length is 194 bps INFO @ Sun, 21 Jun 2020 21:56:50: #2 alternative fragment length(s) may be 194 bps INFO @ Sun, 21 Jun 2020 21:56:50: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5011025/SRX5011025.05_model.r INFO @ Sun, 21 Jun 2020 21:56:50: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:56:50: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:56:53: 4000000 INFO @ Sun, 21 Jun 2020 21:56:54: 10000000 INFO @ Sun, 21 Jun 2020 21:57:00: 5000000 INFO @ Sun, 21 Jun 2020 21:57:00: 11000000 INFO @ Sun, 21 Jun 2020 21:57:06: 12000000 INFO @ Sun, 21 Jun 2020 21:57:06: 6000000 INFO @ Sun, 21 Jun 2020 21:57:12: 13000000 INFO @ Sun, 21 Jun 2020 21:57:12: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 21:57:12: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 21:57:12: #1 total tags in treatment: 13102437 INFO @ Sun, 21 Jun 2020 21:57:12: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:57:12: #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 21:57:13: #1 tags after filtering in treatment: 13102348 INFO @ Sun, 21 Jun 2020 21:57:13: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:57:13: #1 finished! INFO @ Sun, 21 Jun 2020 21:57:13: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:57:13: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:57:13: 7000000 INFO @ Sun, 21 Jun 2020 21:57:14: #2 number of paired peaks: 2810 INFO @ Sun, 21 Jun 2020 21:57:14: start model_add_line... INFO @ Sun, 21 Jun 2020 21:57:14: start X-correlation... INFO @ Sun, 21 Jun 2020 21:57:14: end of X-cor INFO @ Sun, 21 Jun 2020 21:57:14: #2 finished! INFO @ Sun, 21 Jun 2020 21:57:14: #2 predicted fragment length is 194 bps INFO @ Sun, 21 Jun 2020 21:57:14: #2 alternative fragment length(s) may be 194 bps INFO @ Sun, 21 Jun 2020 21:57:14: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5011025/SRX5011025.10_model.r INFO @ Sun, 21 Jun 2020 21:57:14: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:57:14: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:57:19: 8000000 INFO @ Sun, 21 Jun 2020 21:57:21: #3 Call peaks for each chromosome... BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 21:57:25: 9000000 INFO @ Sun, 21 Jun 2020 21:57:31: 10000000 INFO @ Sun, 21 Jun 2020 21:57:36: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5011025/SRX5011025.05_peaks.xls INFO @ Sun, 21 Jun 2020 21:57:36: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5011025/SRX5011025.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:57:36: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5011025/SRX5011025.05_summits.bed INFO @ Sun, 21 Jun 2020 21:57:36: Done! pass1 - making usageList (775 chroms): 2 millis pass2 - checking and writing primary data (7207 records, 4 fields): 26 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 21:57:37: 11000000 INFO @ Sun, 21 Jun 2020 21:57:43: 12000000 INFO @ Sun, 21 Jun 2020 21:57:46: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 21:57:49: 13000000 INFO @ Sun, 21 Jun 2020 21:57:50: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 21:57:50: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 21:57:50: #1 total tags in treatment: 13102437 INFO @ Sun, 21 Jun 2020 21:57:50: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:57:50: #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 21:57:50: #1 tags after filtering in treatment: 13102348 INFO @ Sun, 21 Jun 2020 21:57:50: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:57:50: #1 finished! INFO @ Sun, 21 Jun 2020 21:57:50: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:57:50: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:57:52: #2 number of paired peaks: 2810 INFO @ Sun, 21 Jun 2020 21:57:52: start model_add_line... INFO @ Sun, 21 Jun 2020 21:57:52: start X-correlation... INFO @ Sun, 21 Jun 2020 21:57:52: end of X-cor INFO @ Sun, 21 Jun 2020 21:57:52: #2 finished! INFO @ Sun, 21 Jun 2020 21:57:52: #2 predicted fragment length is 194 bps INFO @ Sun, 21 Jun 2020 21:57:52: #2 alternative fragment length(s) may be 194 bps INFO @ Sun, 21 Jun 2020 21:57:52: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5011025/SRX5011025.20_model.r INFO @ Sun, 21 Jun 2020 21:57:52: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:57:52: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:58:01: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5011025/SRX5011025.10_peaks.xls INFO @ Sun, 21 Jun 2020 21:58:01: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5011025/SRX5011025.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:58:02: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5011025/SRX5011025.10_summits.bed INFO @ Sun, 21 Jun 2020 21:58:02: Done! pass1 - making usageList (716 chroms): 2 millis pass2 - checking and writing primary data (5029 records, 4 fields): 23 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 21:58:24: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:58:38: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5011025/SRX5011025.20_peaks.xls INFO @ Sun, 21 Jun 2020 21:58:38: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5011025/SRX5011025.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:58:38: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5011025/SRX5011025.20_summits.bed INFO @ Sun, 21 Jun 2020 21:58:38: Done! pass1 - making usageList (587 chroms): 2 millis pass2 - checking and writing primary data (3087 records, 4 fields): 18 millis CompletedMACS2peakCalling