Job ID = 6451966 SRX = ERX102369 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T07:18:02 prefetch.2.10.7: 1) Downloading 'ERR126232'... 2020-06-21T07:18:02 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T07:33:34 prefetch.2.10.7: HTTPS download succeed 2020-06-21T07:33:34 prefetch.2.10.7: 1) 'ERR126232' was downloaded successfully Read 34684729 spots for ERR126232/ERR126232.sra Written 34684729 spots for ERR126232/ERR126232.sra fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:01 Time loading forward index: 00:00:01 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:11:42 34684729 reads; of these: 34684729 (100.00%) were unpaired; of these: 479630 (1.38%) aligned 0 times 27225459 (78.49%) aligned exactly 1 time 6979640 (20.12%) aligned >1 times 98.62% overall alignment rate Time searching: 00:11:44 Overall time: 00:11:44 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 16 files... [bam_rmdupse_core] 15196127 / 34205099 = 0.4443 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 16:55:49: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/ERX102369/ERX102369.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/ERX102369/ERX102369.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/ERX102369/ERX102369.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/ERX102369/ERX102369.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 16:55:49: #1 read tag files... INFO @ Sun, 21 Jun 2020 16:55:49: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 16:55:56: 1000000 INFO @ Sun, 21 Jun 2020 16:56:02: 2000000 INFO @ Sun, 21 Jun 2020 16:56:09: 3000000 INFO @ Sun, 21 Jun 2020 16:56:15: 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 16:56:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/ERX102369/ERX102369.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/ERX102369/ERX102369.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/ERX102369/ERX102369.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/ERX102369/ERX102369.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 16:56:19: #1 read tag files... INFO @ Sun, 21 Jun 2020 16:56:19: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 16:56:22: 5000000 INFO @ Sun, 21 Jun 2020 16:56:25: 1000000 INFO @ Sun, 21 Jun 2020 16:56:28: 6000000 INFO @ Sun, 21 Jun 2020 16:56:30: 2000000 INFO @ Sun, 21 Jun 2020 16:56:35: 7000000 INFO @ Sun, 21 Jun 2020 16:56:36: 3000000 INFO @ Sun, 21 Jun 2020 16:56:41: 8000000 INFO @ Sun, 21 Jun 2020 16:56:42: 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 16:56:48: 5000000 INFO @ Sun, 21 Jun 2020 16:56:48: 9000000 INFO @ Sun, 21 Jun 2020 16:56:49: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/ERX102369/ERX102369.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/ERX102369/ERX102369.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/ERX102369/ERX102369.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/ERX102369/ERX102369.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 16:56:49: #1 read tag files... INFO @ Sun, 21 Jun 2020 16:56:49: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 16:56:53: 6000000 INFO @ Sun, 21 Jun 2020 16:56:54: 10000000 INFO @ Sun, 21 Jun 2020 16:56:56: 1000000 INFO @ Sun, 21 Jun 2020 16:56:59: 7000000 INFO @ Sun, 21 Jun 2020 16:57:01: 11000000 INFO @ Sun, 21 Jun 2020 16:57:02: 2000000 INFO @ Sun, 21 Jun 2020 16:57:05: 8000000 INFO @ Sun, 21 Jun 2020 16:57:08: 12000000 INFO @ Sun, 21 Jun 2020 16:57:09: 3000000 INFO @ Sun, 21 Jun 2020 16:57:11: 9000000 INFO @ Sun, 21 Jun 2020 16:57:14: 13000000 INFO @ Sun, 21 Jun 2020 16:57:16: 4000000 INFO @ Sun, 21 Jun 2020 16:57:16: 10000000 INFO @ Sun, 21 Jun 2020 16:57:21: 14000000 INFO @ Sun, 21 Jun 2020 16:57:22: 11000000 INFO @ Sun, 21 Jun 2020 16:57:22: 5000000 INFO @ Sun, 21 Jun 2020 16:57:27: 15000000 INFO @ Sun, 21 Jun 2020 16:57:28: 12000000 INFO @ Sun, 21 Jun 2020 16:57:29: 6000000 INFO @ Sun, 21 Jun 2020 16:57:34: 13000000 INFO @ Sun, 21 Jun 2020 16:57:34: 16000000 INFO @ Sun, 21 Jun 2020 16:57:36: 7000000 INFO @ Sun, 21 Jun 2020 16:57:39: 14000000 INFO @ Sun, 21 Jun 2020 16:57:41: 17000000 INFO @ Sun, 21 Jun 2020 16:57:43: 8000000 INFO @ Sun, 21 Jun 2020 16:57:45: 15000000 INFO @ Sun, 21 Jun 2020 16:57:47: 18000000 INFO @ Sun, 21 Jun 2020 16:57:49: 9000000 INFO @ Sun, 21 Jun 2020 16:57:51: 16000000 INFO @ Sun, 21 Jun 2020 16:57:54: 19000000 INFO @ Sun, 21 Jun 2020 16:57:54: #1 tag size is determined as 75 bps INFO @ Sun, 21 Jun 2020 16:57:54: #1 tag size = 75 INFO @ Sun, 21 Jun 2020 16:57:54: #1 total tags in treatment: 19008972 INFO @ Sun, 21 Jun 2020 16:57:54: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 16:57:54: #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 16:57:55: #1 tags after filtering in treatment: 19008831 INFO @ Sun, 21 Jun 2020 16:57:55: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 16:57:55: #1 finished! INFO @ Sun, 21 Jun 2020 16:57:55: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 16:57:55: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 16:57:56: 10000000 INFO @ Sun, 21 Jun 2020 16:57:57: #2 number of paired peaks: 5906 INFO @ Sun, 21 Jun 2020 16:57:57: start model_add_line... INFO @ Sun, 21 Jun 2020 16:57:57: 17000000 INFO @ Sun, 21 Jun 2020 16:57:57: start X-correlation... INFO @ Sun, 21 Jun 2020 16:57:57: end of X-cor INFO @ Sun, 21 Jun 2020 16:57:57: #2 finished! INFO @ Sun, 21 Jun 2020 16:57:57: #2 predicted fragment length is 151 bps INFO @ Sun, 21 Jun 2020 16:57:57: #2 alternative fragment length(s) may be 151 bps INFO @ Sun, 21 Jun 2020 16:57:57: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/ERX102369/ERX102369.05_model.r INFO @ Sun, 21 Jun 2020 16:57:57: #3 Call peaks... INFO @ Sun, 21 Jun 2020 16:57:57: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 16:58:02: 18000000 INFO @ Sun, 21 Jun 2020 16:58:03: 11000000 INFO @ Sun, 21 Jun 2020 16:58:08: 19000000 INFO @ Sun, 21 Jun 2020 16:58:08: #1 tag size is determined as 75 bps INFO @ Sun, 21 Jun 2020 16:58:08: #1 tag size = 75 INFO @ Sun, 21 Jun 2020 16:58:08: #1 total tags in treatment: 19008972 INFO @ Sun, 21 Jun 2020 16:58:08: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 16:58:08: #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 16:58:09: #1 tags after filtering in treatment: 19008831 INFO @ Sun, 21 Jun 2020 16:58:09: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 16:58:09: #1 finished! INFO @ Sun, 21 Jun 2020 16:58:09: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 16:58:09: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 16:58:10: 12000000 INFO @ Sun, 21 Jun 2020 16:58:11: #2 number of paired peaks: 5906 INFO @ Sun, 21 Jun 2020 16:58:11: start model_add_line... INFO @ Sun, 21 Jun 2020 16:58:11: start X-correlation... INFO @ Sun, 21 Jun 2020 16:58:11: end of X-cor INFO @ Sun, 21 Jun 2020 16:58:11: #2 finished! INFO @ Sun, 21 Jun 2020 16:58:11: #2 predicted fragment length is 151 bps INFO @ Sun, 21 Jun 2020 16:58:11: #2 alternative fragment length(s) may be 151 bps INFO @ Sun, 21 Jun 2020 16:58:11: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/ERX102369/ERX102369.10_model.r INFO @ Sun, 21 Jun 2020 16:58:11: #3 Call peaks... INFO @ Sun, 21 Jun 2020 16:58:11: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 16:58:16: 13000000 INFO @ Sun, 21 Jun 2020 16:58:23: 14000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 16:58:30: 15000000 INFO @ Sun, 21 Jun 2020 16:58:36: 16000000 INFO @ Sun, 21 Jun 2020 16:58:43: 17000000 INFO @ Sun, 21 Jun 2020 16:58:47: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 16:58:49: 18000000 INFO @ Sun, 21 Jun 2020 16:58:56: 19000000 INFO @ Sun, 21 Jun 2020 16:58:56: #1 tag size is determined as 75 bps INFO @ Sun, 21 Jun 2020 16:58:56: #1 tag size = 75 INFO @ Sun, 21 Jun 2020 16:58:56: #1 total tags in treatment: 19008972 INFO @ Sun, 21 Jun 2020 16:58:56: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 16:58:56: #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 16:58:57: #1 tags after filtering in treatment: 19008831 INFO @ Sun, 21 Jun 2020 16:58:57: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 16:58:57: #1 finished! INFO @ Sun, 21 Jun 2020 16:58:57: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 16:58:57: #2 looking for paired plus/minus strand peaks... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 16:58:59: #2 number of paired peaks: 5906 INFO @ Sun, 21 Jun 2020 16:58:59: start model_add_line... INFO @ Sun, 21 Jun 2020 16:58:59: start X-correlation... INFO @ Sun, 21 Jun 2020 16:58:59: end of X-cor INFO @ Sun, 21 Jun 2020 16:58:59: #2 finished! INFO @ Sun, 21 Jun 2020 16:58:59: #2 predicted fragment length is 151 bps INFO @ Sun, 21 Jun 2020 16:58:59: #2 alternative fragment length(s) may be 151 bps INFO @ Sun, 21 Jun 2020 16:58:59: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/ERX102369/ERX102369.20_model.r INFO @ Sun, 21 Jun 2020 16:58:59: #3 Call peaks... INFO @ Sun, 21 Jun 2020 16:58:59: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 16:59:01: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 16:59:10: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/ERX102369/ERX102369.05_peaks.xls INFO @ Sun, 21 Jun 2020 16:59:10: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/ERX102369/ERX102369.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 16:59:11: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/ERX102369/ERX102369.05_summits.bed INFO @ Sun, 21 Jun 2020 16:59:11: Done! pass1 - making usageList (321 chroms): 3 millis pass2 - checking and writing primary data (14123 records, 4 fields): 22 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 16:59:25: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/ERX102369/ERX102369.10_peaks.xls INFO @ Sun, 21 Jun 2020 16:59:25: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/ERX102369/ERX102369.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 16:59:25: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/ERX102369/ERX102369.10_summits.bed INFO @ Sun, 21 Jun 2020 16:59:25: Done! pass1 - making usageList (239 chroms): 2 millis pass2 - checking and writing primary data (10762 records, 4 fields): 17 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 16:59:49: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 17:00:12: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/ERX102369/ERX102369.20_peaks.xls INFO @ Sun, 21 Jun 2020 17:00:12: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/ERX102369/ERX102369.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:00:12: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/ERX102369/ERX102369.20_summits.bed INFO @ Sun, 21 Jun 2020 17:00:12: Done! pass1 - making usageList (172 chroms): 2 millis pass2 - checking and writing primary data (7723 records, 4 fields): 13 millis CompletedMACS2peakCalling