Job ID = 6453890 SRX = SRX1550623 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T08:43:47 prefetch.2.10.7: 1) Downloading 'SRR3130916'... 2020-06-21T08:43:47 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T08:44:39 prefetch.2.10.7: HTTPS download succeed 2020-06-21T08:44:39 prefetch.2.10.7: 'SRR3130916' is valid 2020-06-21T08:44:39 prefetch.2.10.7: 1) 'SRR3130916' was downloaded successfully Read 4000000 spots for SRR3130916/SRR3130916.sra Written 4000000 spots for SRR3130916/SRR3130916.sra 2020-06-21T08:45:02 prefetch.2.10.7: 1) Downloading 'SRR3130917'... 2020-06-21T08:45:02 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T08:46:07 prefetch.2.10.7: HTTPS download succeed 2020-06-21T08:46:07 prefetch.2.10.7: 'SRR3130917' is valid 2020-06-21T08:46:07 prefetch.2.10.7: 1) 'SRR3130917' was downloaded successfully Read 4000000 spots for SRR3130917/SRR3130917.sra Written 4000000 spots for SRR3130917/SRR3130917.sra 2020-06-21T08:46:29 prefetch.2.10.7: 1) Downloading 'SRR3130918'... 2020-06-21T08:46:29 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T08:48:00 prefetch.2.10.7: HTTPS download succeed 2020-06-21T08:48:00 prefetch.2.10.7: 'SRR3130918' is valid 2020-06-21T08:48:00 prefetch.2.10.7: 1) 'SRR3130918' was downloaded successfully Read 4000000 spots for SRR3130918/SRR3130918.sra Written 4000000 spots for SRR3130918/SRR3130918.sra 2020-06-21T08:48:22 prefetch.2.10.7: 1) Downloading 'SRR3130919'... 2020-06-21T08:48:22 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T08:49:13 prefetch.2.10.7: HTTPS download succeed 2020-06-21T08:49:13 prefetch.2.10.7: 'SRR3130919' is valid 2020-06-21T08:49:13 prefetch.2.10.7: 1) 'SRR3130919' was downloaded successfully Read 4000000 spots for SRR3130919/SRR3130919.sra Written 4000000 spots for SRR3130919/SRR3130919.sra 2020-06-21T08:49:35 prefetch.2.10.7: 1) Downloading 'SRR3130920'... 2020-06-21T08:49:35 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T08:50:46 prefetch.2.10.7: HTTPS download succeed 2020-06-21T08:50:46 prefetch.2.10.7: 'SRR3130920' is valid 2020-06-21T08:50:46 prefetch.2.10.7: 1) 'SRR3130920' was downloaded successfully Read 4000000 spots for SRR3130920/SRR3130920.sra Written 4000000 spots for SRR3130920/SRR3130920.sra 2020-06-21T08:51:09 prefetch.2.10.7: 1) Downloading 'SRR3130921'... 2020-06-21T08:51:09 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T08:51:45 prefetch.2.10.7: HTTPS download succeed 2020-06-21T08:51:45 prefetch.2.10.7: 'SRR3130921' is valid 2020-06-21T08:51:45 prefetch.2.10.7: 1) 'SRR3130921' was downloaded successfully Read 3058962 spots for SRR3130921/SRR3130921.sra Written 3058962 spots for SRR3130921/SRR3130921.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: 00:03:05 23058962 reads; of these: 23058962 (100.00%) were unpaired; of these: 13289547 (57.63%) aligned 0 times 8587392 (37.24%) aligned exactly 1 time 1182023 (5.13%) aligned >1 times 42.37% overall alignment rate Time searching: 00:03:05 Overall time: 00:03:05 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] 2321427 / 9769415 = 0.2376 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 17:58:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX1550623/SRX1550623.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX1550623/SRX1550623.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX1550623/SRX1550623.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX1550623/SRX1550623.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 17:58:13: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:58:13: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:58:20: 1000000 INFO @ Sun, 21 Jun 2020 17:58:27: 2000000 INFO @ Sun, 21 Jun 2020 17:58:34: 3000000 INFO @ Sun, 21 Jun 2020 17:58:40: 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 17:58:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX1550623/SRX1550623.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX1550623/SRX1550623.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX1550623/SRX1550623.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX1550623/SRX1550623.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 17:58:43: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:58:43: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:58:48: 5000000 INFO @ Sun, 21 Jun 2020 17:58:51: 1000000 INFO @ Sun, 21 Jun 2020 17:58:57: 6000000 INFO @ Sun, 21 Jun 2020 17:59:00: 2000000 INFO @ Sun, 21 Jun 2020 17:59:06: 7000000 INFO @ Sun, 21 Jun 2020 17:59:08: 3000000 INFO @ Sun, 21 Jun 2020 17:59:10: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 17:59:10: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 17:59:10: #1 total tags in treatment: 7447988 INFO @ Sun, 21 Jun 2020 17:59:10: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:59:10: #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 17:59:10: #1 tags after filtering in treatment: 7447918 INFO @ Sun, 21 Jun 2020 17:59:10: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:59:10: #1 finished! INFO @ Sun, 21 Jun 2020 17:59:10: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:59:10: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:59:11: #2 number of paired peaks: 2905 INFO @ Sun, 21 Jun 2020 17:59:11: start model_add_line... BedGraph に変換中... INFO @ Sun, 21 Jun 2020 17:59:11: start X-correlation... INFO @ Sun, 21 Jun 2020 17:59:11: end of X-cor INFO @ Sun, 21 Jun 2020 17:59:11: #2 finished! INFO @ Sun, 21 Jun 2020 17:59:11: #2 predicted fragment length is 218 bps INFO @ Sun, 21 Jun 2020 17:59:11: #2 alternative fragment length(s) may be 2,197,218 bps INFO @ Sun, 21 Jun 2020 17:59:11: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX1550623/SRX1550623.05_model.r INFO @ Sun, 21 Jun 2020 17:59:11: #3 Call peaks... 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 17:59:11: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 17:59:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX1550623/SRX1550623.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX1550623/SRX1550623.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX1550623/SRX1550623.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX1550623/SRX1550623.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 17:59:13: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:59:13: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:59:16: 4000000 INFO @ Sun, 21 Jun 2020 17:59:21: 1000000 INFO @ Sun, 21 Jun 2020 17:59:25: 5000000 INFO @ Sun, 21 Jun 2020 17:59:29: 2000000 INFO @ Sun, 21 Jun 2020 17:59:29: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 17:59:34: 6000000 INFO @ Sun, 21 Jun 2020 17:59:37: 3000000 INFO @ Sun, 21 Jun 2020 17:59:38: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX1550623/SRX1550623.05_peaks.xls INFO @ Sun, 21 Jun 2020 17:59:38: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX1550623/SRX1550623.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:59:38: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX1550623/SRX1550623.05_summits.bed INFO @ Sun, 21 Jun 2020 17:59:38: Done! pass1 - making usageList (332 chroms): 1 millis pass2 - checking and writing primary data (770 records, 4 fields): 10 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 17:59:43: 7000000 INFO @ Sun, 21 Jun 2020 17:59:45: 4000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 17:59:47: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 17:59:47: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 17:59:47: #1 total tags in treatment: 7447988 INFO @ Sun, 21 Jun 2020 17:59:47: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:59:47: #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 17:59:47: #1 tags after filtering in treatment: 7447918 INFO @ Sun, 21 Jun 2020 17:59:47: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:59:47: #1 finished! INFO @ Sun, 21 Jun 2020 17:59:47: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:59:47: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:59:48: #2 number of paired peaks: 2905 INFO @ Sun, 21 Jun 2020 17:59:48: start model_add_line... INFO @ Sun, 21 Jun 2020 17:59:48: start X-correlation... INFO @ Sun, 21 Jun 2020 17:59:48: end of X-cor INFO @ Sun, 21 Jun 2020 17:59:48: #2 finished! INFO @ Sun, 21 Jun 2020 17:59:48: #2 predicted fragment length is 218 bps INFO @ Sun, 21 Jun 2020 17:59:48: #2 alternative fragment length(s) may be 2,197,218 bps INFO @ Sun, 21 Jun 2020 17:59:48: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX1550623/SRX1550623.10_model.r INFO @ Sun, 21 Jun 2020 17:59:48: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:59:48: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 17:59:52: 5000000 INFO @ Sun, 21 Jun 2020 17:59:59: 6000000 BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 18:00:04: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 18:00:05: 7000000 INFO @ Sun, 21 Jun 2020 18:00:08: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 18:00:08: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 18:00:08: #1 total tags in treatment: 7447988 INFO @ Sun, 21 Jun 2020 18:00:08: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:00:08: #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 18:00:09: #1 tags after filtering in treatment: 7447918 INFO @ Sun, 21 Jun 2020 18:00:09: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:00:09: #1 finished! INFO @ Sun, 21 Jun 2020 18:00:09: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:00:09: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:00:09: #2 number of paired peaks: 2905 INFO @ Sun, 21 Jun 2020 18:00:09: start model_add_line... INFO @ Sun, 21 Jun 2020 18:00:09: start X-correlation... INFO @ Sun, 21 Jun 2020 18:00:09: end of X-cor INFO @ Sun, 21 Jun 2020 18:00:09: #2 finished! INFO @ Sun, 21 Jun 2020 18:00:09: #2 predicted fragment length is 218 bps INFO @ Sun, 21 Jun 2020 18:00:09: #2 alternative fragment length(s) may be 2,197,218 bps INFO @ Sun, 21 Jun 2020 18:00:09: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX1550623/SRX1550623.20_model.r INFO @ Sun, 21 Jun 2020 18:00:09: #3 Call peaks... INFO @ Sun, 21 Jun 2020 18:00:09: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 18:00:12: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX1550623/SRX1550623.10_peaks.xls INFO @ Sun, 21 Jun 2020 18:00:12: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX1550623/SRX1550623.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 18:00:12: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX1550623/SRX1550623.10_summits.bed INFO @ Sun, 21 Jun 2020 18:00:12: Done! pass1 - making usageList (174 chroms): 1 millis pass2 - checking and writing primary data (305 records, 4 fields): 5 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 18:00:27: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 18:00:35: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX1550623/SRX1550623.20_peaks.xls INFO @ Sun, 21 Jun 2020 18:00:35: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX1550623/SRX1550623.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 18:00:35: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX1550623/SRX1550623.20_summits.bed INFO @ Sun, 21 Jun 2020 18:00:35: Done! pass1 - making usageList (79 chroms): 1 millis pass2 - checking and writing primary data (119 records, 4 fields): 4 millis CompletedMACS2peakCalling