Job ID = 6509141 SRX = SRX685463 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-26T14:58:14 prefetch.2.10.7: 1) Downloading 'SRR1556385'... 2020-06-26T14:58:14 prefetch.2.10.7: Downloading via HTTPS... 2020-06-26T15:02:03 prefetch.2.10.7: HTTPS download succeed 2020-06-26T15:02:03 prefetch.2.10.7: 1) 'SRR1556385' was downloaded successfully Read 45898739 spots for SRR1556385/SRR1556385.sra Written 45898739 spots for SRR1556385/SRR1556385.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: 00:14:25 45898739 reads; of these: 45898739 (100.00%) were unpaired; of these: 2685461 (5.85%) aligned 0 times 29494241 (64.26%) aligned exactly 1 time 13719037 (29.89%) aligned >1 times 94.15% overall alignment rate Time searching: 00:14:25 Overall time: 00:14:25 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 20 files... [bam_rmdupse_core] 12765470 / 43213278 = 0.2954 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 @ Sat, 27 Jun 2020 00:28:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX685463/SRX685463.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX685463/SRX685463.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX685463/SRX685463.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX685463/SRX685463.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 @ Sat, 27 Jun 2020 00:28:54: #1 read tag files... INFO @ Sat, 27 Jun 2020 00:28:54: #1 read treatment tags... INFO @ Sat, 27 Jun 2020 00:28:59: 1000000 INFO @ Sat, 27 Jun 2020 00:29:04: 2000000 INFO @ Sat, 27 Jun 2020 00:29:10: 3000000 INFO @ Sat, 27 Jun 2020 00:29:15: 4000000 INFO @ Sat, 27 Jun 2020 00:29:20: 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 @ Sat, 27 Jun 2020 00:29:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX685463/SRX685463.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX685463/SRX685463.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX685463/SRX685463.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX685463/SRX685463.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 @ Sat, 27 Jun 2020 00:29:24: #1 read tag files... INFO @ Sat, 27 Jun 2020 00:29:24: #1 read treatment tags... INFO @ Sat, 27 Jun 2020 00:29:25: 6000000 INFO @ Sat, 27 Jun 2020 00:29:29: 1000000 INFO @ Sat, 27 Jun 2020 00:29:30: 7000000 INFO @ Sat, 27 Jun 2020 00:29:35: 2000000 INFO @ Sat, 27 Jun 2020 00:29:35: 8000000 INFO @ Sat, 27 Jun 2020 00:29:40: 3000000 INFO @ Sat, 27 Jun 2020 00:29:40: 9000000 INFO @ Sat, 27 Jun 2020 00:29:45: 4000000 INFO @ Sat, 27 Jun 2020 00:29:45: 10000000 INFO @ Sat, 27 Jun 2020 00:29:50: 5000000 INFO @ Sat, 27 Jun 2020 00:29:51: 11000000 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 @ Sat, 27 Jun 2020 00:29:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX685463/SRX685463.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX685463/SRX685463.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX685463/SRX685463.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX685463/SRX685463.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 @ Sat, 27 Jun 2020 00:29:54: #1 read tag files... INFO @ Sat, 27 Jun 2020 00:29:54: #1 read treatment tags... INFO @ Sat, 27 Jun 2020 00:29:55: 6000000 INFO @ Sat, 27 Jun 2020 00:29:56: 12000000 INFO @ Sat, 27 Jun 2020 00:30:00: 1000000 INFO @ Sat, 27 Jun 2020 00:30:01: 7000000 INFO @ Sat, 27 Jun 2020 00:30:02: 13000000 INFO @ Sat, 27 Jun 2020 00:30:06: 8000000 INFO @ Sat, 27 Jun 2020 00:30:06: 2000000 INFO @ Sat, 27 Jun 2020 00:30:07: 14000000 INFO @ Sat, 27 Jun 2020 00:30:11: 9000000 INFO @ Sat, 27 Jun 2020 00:30:12: 3000000 INFO @ Sat, 27 Jun 2020 00:30:13: 15000000 INFO @ Sat, 27 Jun 2020 00:30:17: 10000000 INFO @ Sat, 27 Jun 2020 00:30:18: 4000000 INFO @ Sat, 27 Jun 2020 00:30:18: 16000000 INFO @ Sat, 27 Jun 2020 00:30:22: 11000000 INFO @ Sat, 27 Jun 2020 00:30:23: 17000000 INFO @ Sat, 27 Jun 2020 00:30:24: 5000000 INFO @ Sat, 27 Jun 2020 00:30:27: 12000000 INFO @ Sat, 27 Jun 2020 00:30:29: 18000000 INFO @ Sat, 27 Jun 2020 00:30:29: 6000000 INFO @ Sat, 27 Jun 2020 00:30:33: 13000000 INFO @ Sat, 27 Jun 2020 00:30:34: 19000000 INFO @ Sat, 27 Jun 2020 00:30:35: 7000000 INFO @ Sat, 27 Jun 2020 00:30:38: 14000000 INFO @ Sat, 27 Jun 2020 00:30:39: 20000000 INFO @ Sat, 27 Jun 2020 00:30:41: 8000000 INFO @ Sat, 27 Jun 2020 00:30:43: 15000000 INFO @ Sat, 27 Jun 2020 00:30:45: 21000000 INFO @ Sat, 27 Jun 2020 00:30:47: 9000000 INFO @ Sat, 27 Jun 2020 00:30:49: 16000000 INFO @ Sat, 27 Jun 2020 00:30:50: 22000000 INFO @ Sat, 27 Jun 2020 00:30:54: 10000000 INFO @ Sat, 27 Jun 2020 00:30:54: 17000000 INFO @ Sat, 27 Jun 2020 00:30:56: 23000000 INFO @ Sat, 27 Jun 2020 00:31:00: 18000000 INFO @ Sat, 27 Jun 2020 00:31:01: 11000000 INFO @ Sat, 27 Jun 2020 00:31:01: 24000000 INFO @ Sat, 27 Jun 2020 00:31:05: 19000000 INFO @ Sat, 27 Jun 2020 00:31:07: 25000000 INFO @ Sat, 27 Jun 2020 00:31:07: 12000000 INFO @ Sat, 27 Jun 2020 00:31:10: 20000000 INFO @ Sat, 27 Jun 2020 00:31:13: 26000000 INFO @ Sat, 27 Jun 2020 00:31:14: 13000000 INFO @ Sat, 27 Jun 2020 00:31:16: 21000000 INFO @ Sat, 27 Jun 2020 00:31:18: 27000000 INFO @ Sat, 27 Jun 2020 00:31:21: 14000000 INFO @ Sat, 27 Jun 2020 00:31:21: 22000000 INFO @ Sat, 27 Jun 2020 00:31:24: 28000000 INFO @ Sat, 27 Jun 2020 00:31:27: 23000000 INFO @ Sat, 27 Jun 2020 00:31:27: 15000000 INFO @ Sat, 27 Jun 2020 00:31:29: 29000000 INFO @ Sat, 27 Jun 2020 00:31:32: 24000000 INFO @ Sat, 27 Jun 2020 00:31:34: 16000000 INFO @ Sat, 27 Jun 2020 00:31:35: 30000000 INFO @ Sat, 27 Jun 2020 00:31:37: #1 tag size is determined as 50 bps INFO @ Sat, 27 Jun 2020 00:31:37: #1 tag size = 50 INFO @ Sat, 27 Jun 2020 00:31:37: #1 total tags in treatment: 30447808 INFO @ Sat, 27 Jun 2020 00:31:37: #1 user defined the maximum tags... INFO @ Sat, 27 Jun 2020 00:31:37: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 27 Jun 2020 00:31:38: 25000000 INFO @ Sat, 27 Jun 2020 00:31:38: #1 tags after filtering in treatment: 30447763 INFO @ Sat, 27 Jun 2020 00:31:38: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 27 Jun 2020 00:31:38: #1 finished! INFO @ Sat, 27 Jun 2020 00:31:38: #2 Build Peak Model... INFO @ Sat, 27 Jun 2020 00:31:38: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 27 Jun 2020 00:31:40: 17000000 INFO @ Sat, 27 Jun 2020 00:31:41: #2 number of paired peaks: 1382 INFO @ Sat, 27 Jun 2020 00:31:41: start model_add_line... INFO @ Sat, 27 Jun 2020 00:31:41: start X-correlation... INFO @ Sat, 27 Jun 2020 00:31:41: end of X-cor INFO @ Sat, 27 Jun 2020 00:31:41: #2 finished! INFO @ Sat, 27 Jun 2020 00:31:41: #2 predicted fragment length is 137 bps INFO @ Sat, 27 Jun 2020 00:31:41: #2 alternative fragment length(s) may be 4,137 bps INFO @ Sat, 27 Jun 2020 00:31:41: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX685463/SRX685463.05_model.r INFO @ Sat, 27 Jun 2020 00:31:41: #3 Call peaks... INFO @ Sat, 27 Jun 2020 00:31:41: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 27 Jun 2020 00:31:43: 26000000 INFO @ Sat, 27 Jun 2020 00:31:47: 18000000 INFO @ Sat, 27 Jun 2020 00:31:49: 27000000 INFO @ Sat, 27 Jun 2020 00:31:53: 19000000 INFO @ Sat, 27 Jun 2020 00:31:54: 28000000 INFO @ Sat, 27 Jun 2020 00:31:59: 20000000 INFO @ Sat, 27 Jun 2020 00:32:00: 29000000 INFO @ Sat, 27 Jun 2020 00:32:05: 30000000 INFO @ Sat, 27 Jun 2020 00:32:05: 21000000 INFO @ Sat, 27 Jun 2020 00:32:08: #1 tag size is determined as 50 bps INFO @ Sat, 27 Jun 2020 00:32:08: #1 tag size = 50 INFO @ Sat, 27 Jun 2020 00:32:08: #1 total tags in treatment: 30447808 INFO @ Sat, 27 Jun 2020 00:32:08: #1 user defined the maximum tags... INFO @ Sat, 27 Jun 2020 00:32:08: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 27 Jun 2020 00:32:09: #1 tags after filtering in treatment: 30447763 INFO @ Sat, 27 Jun 2020 00:32:09: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 27 Jun 2020 00:32:09: #1 finished! INFO @ Sat, 27 Jun 2020 00:32:09: #2 Build Peak Model... INFO @ Sat, 27 Jun 2020 00:32:09: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 27 Jun 2020 00:32:11: #2 number of paired peaks: 1382 INFO @ Sat, 27 Jun 2020 00:32:11: start model_add_line... INFO @ Sat, 27 Jun 2020 00:32:12: start X-correlation... INFO @ Sat, 27 Jun 2020 00:32:12: end of X-cor INFO @ Sat, 27 Jun 2020 00:32:12: #2 finished! INFO @ Sat, 27 Jun 2020 00:32:12: #2 predicted fragment length is 137 bps INFO @ Sat, 27 Jun 2020 00:32:12: #2 alternative fragment length(s) may be 4,137 bps INFO @ Sat, 27 Jun 2020 00:32:12: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX685463/SRX685463.10_model.r INFO @ Sat, 27 Jun 2020 00:32:12: #3 Call peaks... INFO @ Sat, 27 Jun 2020 00:32:12: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 27 Jun 2020 00:32:12: 22000000 INFO @ Sat, 27 Jun 2020 00:32:18: 23000000 INFO @ Sat, 27 Jun 2020 00:32:24: 24000000 INFO @ Sat, 27 Jun 2020 00:32:30: 25000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 27 Jun 2020 00:32:37: 26000000 INFO @ Sat, 27 Jun 2020 00:32:43: 27000000 INFO @ Sat, 27 Jun 2020 00:32:49: 28000000 INFO @ Sat, 27 Jun 2020 00:32:54: #3 Call peaks for each chromosome... INFO @ Sat, 27 Jun 2020 00:32:55: 29000000 INFO @ Sat, 27 Jun 2020 00:33:01: 30000000 INFO @ Sat, 27 Jun 2020 00:33:05: #1 tag size is determined as 50 bps INFO @ Sat, 27 Jun 2020 00:33:05: #1 tag size = 50 INFO @ Sat, 27 Jun 2020 00:33:05: #1 total tags in treatment: 30447808 INFO @ Sat, 27 Jun 2020 00:33:05: #1 user defined the maximum tags... INFO @ Sat, 27 Jun 2020 00:33:05: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 27 Jun 2020 00:33:05: #1 tags after filtering in treatment: 30447763 INFO @ Sat, 27 Jun 2020 00:33:05: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 27 Jun 2020 00:33:05: #1 finished! INFO @ Sat, 27 Jun 2020 00:33:05: #2 Build Peak Model... INFO @ Sat, 27 Jun 2020 00:33:05: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 27 Jun 2020 00:33:08: #2 number of paired peaks: 1382 INFO @ Sat, 27 Jun 2020 00:33:08: start model_add_line... INFO @ Sat, 27 Jun 2020 00:33:08: start X-correlation... INFO @ Sat, 27 Jun 2020 00:33:08: end of X-cor INFO @ Sat, 27 Jun 2020 00:33:08: #2 finished! INFO @ Sat, 27 Jun 2020 00:33:08: #2 predicted fragment length is 137 bps INFO @ Sat, 27 Jun 2020 00:33:08: #2 alternative fragment length(s) may be 4,137 bps INFO @ Sat, 27 Jun 2020 00:33:08: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX685463/SRX685463.20_model.r INFO @ Sat, 27 Jun 2020 00:33:08: #3 Call peaks... INFO @ Sat, 27 Jun 2020 00:33:08: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 27 Jun 2020 00:33:22: #3 Call peaks for each chromosome... INFO @ Sat, 27 Jun 2020 00:33:25: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX685463/SRX685463.05_peaks.xls INFO @ Sat, 27 Jun 2020 00:33:25: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX685463/SRX685463.05_peaks.narrowPeak INFO @ Sat, 27 Jun 2020 00:33:25: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX685463/SRX685463.05_summits.bed INFO @ Sat, 27 Jun 2020 00:33:25: Done! pass1 - making usageList (642 chroms): 3 millis pass2 - checking and writing primary data (11630 records, 4 fields): 29 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Sat, 27 Jun 2020 00:33:54: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX685463/SRX685463.10_peaks.xls INFO @ Sat, 27 Jun 2020 00:33:54: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX685463/SRX685463.10_peaks.narrowPeak INFO @ Sat, 27 Jun 2020 00:33:54: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX685463/SRX685463.10_summits.bed INFO @ Sat, 27 Jun 2020 00:33:54: Done! pass1 - making usageList (614 chroms): 2 millis pass2 - checking and writing primary data (9323 records, 4 fields): 27 millis CompletedMACS2peakCalling INFO @ Sat, 27 Jun 2020 00:34:17: #3 Call peaks for each chromosome... INFO @ Sat, 27 Jun 2020 00:34:47: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX685463/SRX685463.20_peaks.xls INFO @ Sat, 27 Jun 2020 00:34:47: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX685463/SRX685463.20_peaks.narrowPeak INFO @ Sat, 27 Jun 2020 00:34:47: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX685463/SRX685463.20_summits.bed INFO @ Sat, 27 Jun 2020 00:34:47: Done! pass1 - making usageList (572 chroms): 2 millis pass2 - checking and writing primary data (6267 records, 4 fields): 22 millis CompletedMACS2peakCalling