Job ID = 6452520 SRX = SRX015109 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T07:39:07 prefetch.2.10.7: 1) Downloading 'SRR032455'... 2020-06-21T07:39:07 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T07:40:23 prefetch.2.10.7: HTTPS download succeed 2020-06-21T07:40:23 prefetch.2.10.7: 'SRR032455' is valid 2020-06-21T07:40:23 prefetch.2.10.7: 1) 'SRR032455' was downloaded successfully Read 6451854 spots for SRR032455/SRR032455.sra Written 6451854 spots for SRR032455/SRR032455.sra 2020-06-21T07:40:50 prefetch.2.10.7: 1) Downloading 'SRR032456'... 2020-06-21T07:40:50 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T07:42:01 prefetch.2.10.7: HTTPS download succeed 2020-06-21T07:42:02 prefetch.2.10.7: 'SRR032456' is valid 2020-06-21T07:42:02 prefetch.2.10.7: 1) 'SRR032456' was downloaded successfully Read 9659716 spots for SRR032456/SRR032456.sra Written 9659716 spots for SRR032456/SRR032456.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: 00:02:50 16111570 reads; of these: 16111570 (100.00%) were unpaired; of these: 4038229 (25.06%) aligned 0 times 8981213 (55.74%) aligned exactly 1 time 3092128 (19.19%) aligned >1 times 74.94% overall alignment rate Time searching: 00:02:50 Overall time: 00:02:50 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_rmdupse_core] 1474812 / 12073341 = 0.1222 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 16:48:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX015109/SRX015109.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX015109/SRX015109.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX015109/SRX015109.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX015109/SRX015109.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 16:48:37: #1 read tag files... INFO @ Sun, 21 Jun 2020 16:48:37: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 16:48:42: 1000000 INFO @ Sun, 21 Jun 2020 16:48:48: 2000000 INFO @ Sun, 21 Jun 2020 16:48:53: 3000000 INFO @ Sun, 21 Jun 2020 16:48:59: 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 16:49:04: 5000000 INFO @ Sun, 21 Jun 2020 16:49:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX015109/SRX015109.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX015109/SRX015109.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX015109/SRX015109.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX015109/SRX015109.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 16:49:06: #1 read tag files... INFO @ Sun, 21 Jun 2020 16:49:06: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 16:49:10: 6000000 INFO @ Sun, 21 Jun 2020 16:49:12: 1000000 INFO @ Sun, 21 Jun 2020 16:49:16: 7000000 INFO @ Sun, 21 Jun 2020 16:49:17: 2000000 INFO @ Sun, 21 Jun 2020 16:49:22: 8000000 INFO @ Sun, 21 Jun 2020 16:49:23: 3000000 INFO @ Sun, 21 Jun 2020 16:49:28: 9000000 INFO @ Sun, 21 Jun 2020 16:49:29: 4000000 INFO @ Sun, 21 Jun 2020 16:49:34: 10000000 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 16:49:35: 5000000 INFO @ Sun, 21 Jun 2020 16:49:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX015109/SRX015109.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX015109/SRX015109.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX015109/SRX015109.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX015109/SRX015109.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 16:49:36: #1 read tag files... INFO @ Sun, 21 Jun 2020 16:49:36: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 16:49:37: #1 tag size is determined as 35 bps INFO @ Sun, 21 Jun 2020 16:49:37: #1 tag size = 35 INFO @ Sun, 21 Jun 2020 16:49:37: #1 total tags in treatment: 10598529 INFO @ Sun, 21 Jun 2020 16:49:37: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 16:49:37: #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 16:49:38: #1 tags after filtering in treatment: 10598443 INFO @ Sun, 21 Jun 2020 16:49:38: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 16:49:38: #1 finished! INFO @ Sun, 21 Jun 2020 16:49:38: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 16:49:38: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 16:49:39: #2 number of paired peaks: 1144 INFO @ Sun, 21 Jun 2020 16:49:39: start model_add_line... INFO @ Sun, 21 Jun 2020 16:49:39: start X-correlation... INFO @ Sun, 21 Jun 2020 16:49:39: end of X-cor INFO @ Sun, 21 Jun 2020 16:49:39: #2 finished! INFO @ Sun, 21 Jun 2020 16:49:39: #2 predicted fragment length is 115 bps INFO @ Sun, 21 Jun 2020 16:49:39: #2 alternative fragment length(s) may be 115 bps INFO @ Sun, 21 Jun 2020 16:49:39: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX015109/SRX015109.05_model.r INFO @ Sun, 21 Jun 2020 16:49:39: #3 Call peaks... INFO @ Sun, 21 Jun 2020 16:49:39: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 16:49:41: 6000000 INFO @ Sun, 21 Jun 2020 16:49:42: 1000000 INFO @ Sun, 21 Jun 2020 16:49:47: 7000000 INFO @ Sun, 21 Jun 2020 16:49:48: 2000000 INFO @ Sun, 21 Jun 2020 16:49:53: 8000000 INFO @ Sun, 21 Jun 2020 16:49:54: 3000000 INFO @ Sun, 21 Jun 2020 16:50:00: 9000000 INFO @ Sun, 21 Jun 2020 16:50:00: 4000000 INFO @ Sun, 21 Jun 2020 16:50:02: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 16:50:06: 10000000 INFO @ Sun, 21 Jun 2020 16:50:07: 5000000 INFO @ Sun, 21 Jun 2020 16:50:10: #1 tag size is determined as 35 bps INFO @ Sun, 21 Jun 2020 16:50:10: #1 tag size = 35 INFO @ Sun, 21 Jun 2020 16:50:10: #1 total tags in treatment: 10598529 INFO @ Sun, 21 Jun 2020 16:50:10: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 16:50:10: #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 16:50:10: #1 tags after filtering in treatment: 10598443 INFO @ Sun, 21 Jun 2020 16:50:10: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 16:50:10: #1 finished! INFO @ Sun, 21 Jun 2020 16:50:10: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 16:50:10: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 16:50:11: #2 number of paired peaks: 1144 INFO @ Sun, 21 Jun 2020 16:50:11: start model_add_line... INFO @ Sun, 21 Jun 2020 16:50:11: start X-correlation... INFO @ Sun, 21 Jun 2020 16:50:11: end of X-cor INFO @ Sun, 21 Jun 2020 16:50:11: #2 finished! INFO @ Sun, 21 Jun 2020 16:50:11: #2 predicted fragment length is 115 bps INFO @ Sun, 21 Jun 2020 16:50:11: #2 alternative fragment length(s) may be 115 bps INFO @ Sun, 21 Jun 2020 16:50:11: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX015109/SRX015109.10_model.r INFO @ Sun, 21 Jun 2020 16:50:11: #3 Call peaks... INFO @ Sun, 21 Jun 2020 16:50:11: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 16:50:13: 6000000 INFO @ Sun, 21 Jun 2020 16:50:14: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX015109/SRX015109.05_peaks.xls INFO @ Sun, 21 Jun 2020 16:50:15: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX015109/SRX015109.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 16:50:15: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX015109/SRX015109.05_summits.bed INFO @ Sun, 21 Jun 2020 16:50:15: Done! pass1 - making usageList (444 chroms): 1 millis pass2 - checking and writing primary data (5031 records, 4 fields): 17 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 16:50:19: 7000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 16:50:24: 8000000 INFO @ Sun, 21 Jun 2020 16:50:31: 9000000 INFO @ Sun, 21 Jun 2020 16:50:35: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 16:50:36: 10000000 INFO @ Sun, 21 Jun 2020 16:50:40: #1 tag size is determined as 35 bps INFO @ Sun, 21 Jun 2020 16:50:40: #1 tag size = 35 INFO @ Sun, 21 Jun 2020 16:50:40: #1 total tags in treatment: 10598529 INFO @ Sun, 21 Jun 2020 16:50:40: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 16:50:40: #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 16:50:40: #1 tags after filtering in treatment: 10598443 INFO @ Sun, 21 Jun 2020 16:50:40: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 16:50:40: #1 finished! INFO @ Sun, 21 Jun 2020 16:50:40: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 16:50:40: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 16:50:41: #2 number of paired peaks: 1144 INFO @ Sun, 21 Jun 2020 16:50:41: start model_add_line... INFO @ Sun, 21 Jun 2020 16:50:41: start X-correlation... INFO @ Sun, 21 Jun 2020 16:50:41: end of X-cor INFO @ Sun, 21 Jun 2020 16:50:41: #2 finished! INFO @ Sun, 21 Jun 2020 16:50:41: #2 predicted fragment length is 115 bps INFO @ Sun, 21 Jun 2020 16:50:41: #2 alternative fragment length(s) may be 115 bps INFO @ Sun, 21 Jun 2020 16:50:41: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX015109/SRX015109.20_model.r INFO @ Sun, 21 Jun 2020 16:50:41: #3 Call peaks... INFO @ Sun, 21 Jun 2020 16:50:41: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 16:50:47: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX015109/SRX015109.10_peaks.xls INFO @ Sun, 21 Jun 2020 16:50:47: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX015109/SRX015109.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 16:50:47: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX015109/SRX015109.10_summits.bed INFO @ Sun, 21 Jun 2020 16:50:47: Done! pass1 - making usageList (308 chroms): 1 millis pass2 - checking and writing primary data (3076 records, 4 fields): 13 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 16:51:05: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 16:51:17: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX015109/SRX015109.20_peaks.xls INFO @ Sun, 21 Jun 2020 16:51:17: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX015109/SRX015109.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 16:51:17: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX015109/SRX015109.20_summits.bed INFO @ Sun, 21 Jun 2020 16:51:17: Done! pass1 - making usageList (188 chroms): 1 millis pass2 - checking and writing primary data (1723 records, 4 fields): 8 millis CompletedMACS2peakCalling