Job ID = 6457849 SRX = SRX4801813 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T12:14:34 prefetch.2.10.7: 1) Downloading 'SRR7968398'... 2020-06-21T12:14:34 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T12:16:34 prefetch.2.10.7: HTTPS download succeed 2020-06-21T12:16:35 prefetch.2.10.7: 'SRR7968398' is valid 2020-06-21T12:16:35 prefetch.2.10.7: 1) 'SRR7968398' was downloaded successfully Read 13032647 spots for SRR7968398/SRR7968398.sra Written 13032647 spots for SRR7968398/SRR7968398.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: 00:04:43 13032647 reads; of these: 13032647 (100.00%) were unpaired; of these: 360812 (2.77%) aligned 0 times 8979374 (68.90%) aligned exactly 1 time 3692461 (28.33%) aligned >1 times 97.23% overall alignment rate Time searching: 00:04:43 Overall time: 00:04:43 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] 1714523 / 12671835 = 0.1353 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 21:26:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4801813/SRX4801813.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4801813/SRX4801813.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4801813/SRX4801813.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4801813/SRX4801813.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 21:26:03: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:26:03: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:26:12: 1000000 INFO @ Sun, 21 Jun 2020 21:26:20: 2000000 INFO @ Sun, 21 Jun 2020 21:26:28: 3000000 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 21:26:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4801813/SRX4801813.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4801813/SRX4801813.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4801813/SRX4801813.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4801813/SRX4801813.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 21:26:33: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:26:33: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:26:37: 4000000 INFO @ Sun, 21 Jun 2020 21:26:43: 1000000 INFO @ Sun, 21 Jun 2020 21:26:46: 5000000 INFO @ Sun, 21 Jun 2020 21:26:52: 2000000 INFO @ Sun, 21 Jun 2020 21:26:55: 6000000 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 21:27:01: 3000000 INFO @ Sun, 21 Jun 2020 21:27:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4801813/SRX4801813.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4801813/SRX4801813.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4801813/SRX4801813.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4801813/SRX4801813.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 21:27:03: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:27:03: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:27:04: 7000000 INFO @ Sun, 21 Jun 2020 21:27:11: 4000000 INFO @ Sun, 21 Jun 2020 21:27:11: 1000000 INFO @ Sun, 21 Jun 2020 21:27:13: 8000000 INFO @ Sun, 21 Jun 2020 21:27:20: 2000000 INFO @ Sun, 21 Jun 2020 21:27:20: 5000000 INFO @ Sun, 21 Jun 2020 21:27:22: 9000000 INFO @ Sun, 21 Jun 2020 21:27:28: 3000000 INFO @ Sun, 21 Jun 2020 21:27:29: 6000000 INFO @ Sun, 21 Jun 2020 21:27:31: 10000000 INFO @ Sun, 21 Jun 2020 21:27:36: 4000000 INFO @ Sun, 21 Jun 2020 21:27:38: 7000000 INFO @ Sun, 21 Jun 2020 21:27:40: #1 tag size is determined as 68 bps INFO @ Sun, 21 Jun 2020 21:27:40: #1 tag size = 68 INFO @ Sun, 21 Jun 2020 21:27:40: #1 total tags in treatment: 10957312 INFO @ Sun, 21 Jun 2020 21:27:40: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:27:40: #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 21:27:40: #1 tags after filtering in treatment: 10957182 INFO @ Sun, 21 Jun 2020 21:27:40: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:27:40: #1 finished! INFO @ Sun, 21 Jun 2020 21:27:40: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:27:40: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:27:41: #2 number of paired peaks: 2625 INFO @ Sun, 21 Jun 2020 21:27:41: start model_add_line... INFO @ Sun, 21 Jun 2020 21:27:41: start X-correlation... INFO @ Sun, 21 Jun 2020 21:27:41: end of X-cor INFO @ Sun, 21 Jun 2020 21:27:41: #2 finished! INFO @ Sun, 21 Jun 2020 21:27:41: #2 predicted fragment length is 146 bps INFO @ Sun, 21 Jun 2020 21:27:41: #2 alternative fragment length(s) may be 146 bps INFO @ Sun, 21 Jun 2020 21:27:41: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX4801813/SRX4801813.05_model.r INFO @ Sun, 21 Jun 2020 21:27:42: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:27:42: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:27:44: 5000000 INFO @ Sun, 21 Jun 2020 21:27:47: 8000000 INFO @ Sun, 21 Jun 2020 21:27:52: 6000000 INFO @ Sun, 21 Jun 2020 21:27:55: 9000000 INFO @ Sun, 21 Jun 2020 21:27:59: 7000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 21:28:04: 10000000 INFO @ Sun, 21 Jun 2020 21:28:06: 8000000 INFO @ Sun, 21 Jun 2020 21:28:09: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:28:12: #1 tag size is determined as 68 bps INFO @ Sun, 21 Jun 2020 21:28:12: #1 tag size = 68 INFO @ Sun, 21 Jun 2020 21:28:12: #1 total tags in treatment: 10957312 INFO @ Sun, 21 Jun 2020 21:28:12: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:28:12: #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 21:28:13: #1 tags after filtering in treatment: 10957182 INFO @ Sun, 21 Jun 2020 21:28:13: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:28:13: #1 finished! INFO @ Sun, 21 Jun 2020 21:28:13: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:28:13: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:28:14: 9000000 INFO @ Sun, 21 Jun 2020 21:28:14: #2 number of paired peaks: 2625 INFO @ Sun, 21 Jun 2020 21:28:14: start model_add_line... INFO @ Sun, 21 Jun 2020 21:28:14: start X-correlation... INFO @ Sun, 21 Jun 2020 21:28:14: end of X-cor INFO @ Sun, 21 Jun 2020 21:28:14: #2 finished! INFO @ Sun, 21 Jun 2020 21:28:14: #2 predicted fragment length is 146 bps INFO @ Sun, 21 Jun 2020 21:28:14: #2 alternative fragment length(s) may be 146 bps INFO @ Sun, 21 Jun 2020 21:28:14: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX4801813/SRX4801813.10_model.r INFO @ Sun, 21 Jun 2020 21:28:14: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:28:14: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:28:21: 10000000 INFO @ Sun, 21 Jun 2020 21:28:23: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX4801813/SRX4801813.05_peaks.xls INFO @ Sun, 21 Jun 2020 21:28:23: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX4801813/SRX4801813.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:28:23: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX4801813/SRX4801813.05_summits.bed INFO @ Sun, 21 Jun 2020 21:28:23: Done! pass1 - making usageList (571 chroms): 2 millis pass2 - checking and writing primary data (7029 records, 4 fields): 23 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 21:28:27: #1 tag size is determined as 68 bps INFO @ Sun, 21 Jun 2020 21:28:27: #1 tag size = 68 INFO @ Sun, 21 Jun 2020 21:28:27: #1 total tags in treatment: 10957312 INFO @ Sun, 21 Jun 2020 21:28:27: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:28:27: #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 21:28:28: #1 tags after filtering in treatment: 10957182 INFO @ Sun, 21 Jun 2020 21:28:28: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:28:28: #1 finished! INFO @ Sun, 21 Jun 2020 21:28:28: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:28:28: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:28:29: #2 number of paired peaks: 2625 INFO @ Sun, 21 Jun 2020 21:28:29: start model_add_line... INFO @ Sun, 21 Jun 2020 21:28:29: start X-correlation... INFO @ Sun, 21 Jun 2020 21:28:29: end of X-cor INFO @ Sun, 21 Jun 2020 21:28:29: #2 finished! INFO @ Sun, 21 Jun 2020 21:28:29: #2 predicted fragment length is 146 bps INFO @ Sun, 21 Jun 2020 21:28:29: #2 alternative fragment length(s) may be 146 bps INFO @ Sun, 21 Jun 2020 21:28:29: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX4801813/SRX4801813.20_model.r INFO @ Sun, 21 Jun 2020 21:28:29: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:28:29: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 21:28:43: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:28:56: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX4801813/SRX4801813.10_peaks.xls INFO @ Sun, 21 Jun 2020 21:28:56: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX4801813/SRX4801813.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:28:56: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:28:56: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX4801813/SRX4801813.10_summits.bed INFO @ Sun, 21 Jun 2020 21:28:56: Done! pass1 - making usageList (508 chroms): 1 millis pass2 - checking and writing primary data (5047 records, 4 fields): 20 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 21:29:10: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX4801813/SRX4801813.20_peaks.xls INFO @ Sun, 21 Jun 2020 21:29:10: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX4801813/SRX4801813.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:29:10: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX4801813/SRX4801813.20_summits.bed INFO @ Sun, 21 Jun 2020 21:29:10: Done! pass1 - making usageList (367 chroms): 1 millis pass2 - checking and writing primary data (2997 records, 4 fields): 14 millis CompletedMACS2peakCalling