Job ID = 6452533 SRX = SRX016148 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T08:21:18 prefetch.2.10.7: 1) Downloading 'SRR034704'... 2020-06-21T08:21:18 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T08:23:18 prefetch.2.10.7: HTTPS download succeed 2020-06-21T08:23:18 prefetch.2.10.7: 'SRR034704' is valid 2020-06-21T08:23:18 prefetch.2.10.7: 1) 'SRR034704' was downloaded successfully Read 14946739 spots for SRR034704/SRR034704.sra Written 14946739 spots for SRR034704/SRR034704.sra 2020-06-21T08:24:05 prefetch.2.10.7: 1) Downloading 'SRR034705'... 2020-06-21T08:24:05 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T08:25:52 prefetch.2.10.7: HTTPS download succeed 2020-06-21T08:25:53 prefetch.2.10.7: 'SRR034705' is valid 2020-06-21T08:25:53 prefetch.2.10.7: 1) 'SRR034705' was downloaded successfully Read 12810484 spots for SRR034705/SRR034705.sra Written 12810484 spots for SRR034705/SRR034705.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: 00:04:30 27757223 reads; of these: 27757223 (100.00%) were unpaired; of these: 605083 (2.18%) aligned 0 times 24309915 (87.58%) aligned exactly 1 time 2842225 (10.24%) aligned >1 times 97.82% overall alignment rate Time searching: 00:04:30 Overall time: 00:04:30 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] 19081430 / 27152140 = 0.7028 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 17:35:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX016148/SRX016148.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX016148/SRX016148.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX016148/SRX016148.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX016148/SRX016148.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 17:35:55: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:35:55: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:36:00: 1000000 INFO @ Sun, 21 Jun 2020 17:36:06: 2000000 INFO @ Sun, 21 Jun 2020 17:36:12: 3000000 INFO @ Sun, 21 Jun 2020 17:36:17: 4000000 INFO @ Sun, 21 Jun 2020 17:36:23: 5000000 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 17:36:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX016148/SRX016148.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX016148/SRX016148.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX016148/SRX016148.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX016148/SRX016148.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 17:36:25: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:36:25: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:36:28: 6000000 INFO @ Sun, 21 Jun 2020 17:36:30: 1000000 INFO @ Sun, 21 Jun 2020 17:36:34: 7000000 INFO @ Sun, 21 Jun 2020 17:36:35: 2000000 INFO @ Sun, 21 Jun 2020 17:36:40: 8000000 INFO @ Sun, 21 Jun 2020 17:36:40: #1 tag size is determined as 36 bps INFO @ Sun, 21 Jun 2020 17:36:40: #1 tag size = 36 INFO @ Sun, 21 Jun 2020 17:36:40: #1 total tags in treatment: 8070710 INFO @ Sun, 21 Jun 2020 17:36:40: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:36:40: #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 17:36:40: 3000000 INFO @ Sun, 21 Jun 2020 17:36:41: #1 tags after filtering in treatment: 8070648 INFO @ Sun, 21 Jun 2020 17:36:41: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:36:41: #1 finished! INFO @ Sun, 21 Jun 2020 17:36:41: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:36:41: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:36:41: #2 number of paired peaks: 2674 INFO @ Sun, 21 Jun 2020 17:36:41: start model_add_line... INFO @ Sun, 21 Jun 2020 17:36:41: start X-correlation... INFO @ Sun, 21 Jun 2020 17:36:41: end of X-cor INFO @ Sun, 21 Jun 2020 17:36:41: #2 finished! INFO @ Sun, 21 Jun 2020 17:36:41: #2 predicted fragment length is 294 bps INFO @ Sun, 21 Jun 2020 17:36:41: #2 alternative fragment length(s) may be 294 bps INFO @ Sun, 21 Jun 2020 17:36:41: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX016148/SRX016148.05_model.r INFO @ Sun, 21 Jun 2020 17:36:42: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:36:42: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 17:36:45: 4000000 INFO @ Sun, 21 Jun 2020 17:36:50: 5000000 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 17:36:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX016148/SRX016148.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX016148/SRX016148.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX016148/SRX016148.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX016148/SRX016148.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 17:36:55: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:36:55: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:36:55: 6000000 INFO @ Sun, 21 Jun 2020 17:37:00: 1000000 INFO @ Sun, 21 Jun 2020 17:37:00: 7000000 INFO @ Sun, 21 Jun 2020 17:37:02: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 17:37:05: 2000000 INFO @ Sun, 21 Jun 2020 17:37:06: 8000000 INFO @ Sun, 21 Jun 2020 17:37:06: #1 tag size is determined as 36 bps INFO @ Sun, 21 Jun 2020 17:37:06: #1 tag size = 36 INFO @ Sun, 21 Jun 2020 17:37:06: #1 total tags in treatment: 8070710 INFO @ Sun, 21 Jun 2020 17:37:06: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:37:06: #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 17:37:06: #1 tags after filtering in treatment: 8070648 INFO @ Sun, 21 Jun 2020 17:37:06: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:37:06: #1 finished! INFO @ Sun, 21 Jun 2020 17:37:06: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:37:06: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:37:07: #2 number of paired peaks: 2674 INFO @ Sun, 21 Jun 2020 17:37:07: start model_add_line... INFO @ Sun, 21 Jun 2020 17:37:07: start X-correlation... INFO @ Sun, 21 Jun 2020 17:37:07: end of X-cor INFO @ Sun, 21 Jun 2020 17:37:07: #2 finished! INFO @ Sun, 21 Jun 2020 17:37:07: #2 predicted fragment length is 294 bps INFO @ Sun, 21 Jun 2020 17:37:07: #2 alternative fragment length(s) may be 294 bps INFO @ Sun, 21 Jun 2020 17:37:07: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX016148/SRX016148.10_model.r INFO @ Sun, 21 Jun 2020 17:37:07: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:37:07: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 17:37:10: 3000000 INFO @ Sun, 21 Jun 2020 17:37:12: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX016148/SRX016148.05_peaks.xls INFO @ Sun, 21 Jun 2020 17:37:12: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX016148/SRX016148.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:37:12: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX016148/SRX016148.05_summits.bed INFO @ Sun, 21 Jun 2020 17:37:12: Done! pass1 - making usageList (294 chroms): 1 millis pass2 - checking and writing primary data (8334 records, 4 fields): 16 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 17:37:15: 4000000 INFO @ Sun, 21 Jun 2020 17:37:20: 5000000 INFO @ Sun, 21 Jun 2020 17:37:25: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 17:37:29: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 17:37:30: 7000000 INFO @ Sun, 21 Jun 2020 17:37:35: 8000000 INFO @ Sun, 21 Jun 2020 17:37:35: #1 tag size is determined as 36 bps INFO @ Sun, 21 Jun 2020 17:37:35: #1 tag size = 36 INFO @ Sun, 21 Jun 2020 17:37:35: #1 total tags in treatment: 8070710 INFO @ Sun, 21 Jun 2020 17:37:35: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:37:35: #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 17:37:36: #1 tags after filtering in treatment: 8070648 INFO @ Sun, 21 Jun 2020 17:37:36: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:37:36: #1 finished! INFO @ Sun, 21 Jun 2020 17:37:36: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:37:36: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:37:37: #2 number of paired peaks: 2674 INFO @ Sun, 21 Jun 2020 17:37:37: start model_add_line... INFO @ Sun, 21 Jun 2020 17:37:37: start X-correlation... INFO @ Sun, 21 Jun 2020 17:37:37: end of X-cor INFO @ Sun, 21 Jun 2020 17:37:37: #2 finished! INFO @ Sun, 21 Jun 2020 17:37:37: #2 predicted fragment length is 294 bps INFO @ Sun, 21 Jun 2020 17:37:37: #2 alternative fragment length(s) may be 294 bps INFO @ Sun, 21 Jun 2020 17:37:37: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX016148/SRX016148.20_model.r INFO @ Sun, 21 Jun 2020 17:37:37: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:37:37: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 17:37:40: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX016148/SRX016148.10_peaks.xls INFO @ Sun, 21 Jun 2020 17:37:40: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX016148/SRX016148.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:37:40: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX016148/SRX016148.10_summits.bed INFO @ Sun, 21 Jun 2020 17:37:40: Done! pass1 - making usageList (206 chroms): 2 millis pass2 - checking and writing primary data (5606 records, 4 fields): 12 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 17:37:57: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 17:38:07: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX016148/SRX016148.20_peaks.xls INFO @ Sun, 21 Jun 2020 17:38:07: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX016148/SRX016148.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:38:07: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX016148/SRX016148.20_summits.bed INFO @ Sun, 21 Jun 2020 17:38:07: Done! pass1 - making usageList (120 chroms): 1 millis pass2 - checking and writing primary data (2973 records, 4 fields): 8 millis CompletedMACS2peakCalling