Job ID = 6455871 SRX = SRX3020537 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T10:17:51 prefetch.2.10.7: 1) Downloading 'SRR5850408'... 2020-06-21T10:17:51 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T10:18:31 prefetch.2.10.7: HTTPS download succeed 2020-06-21T10:18:31 prefetch.2.10.7: 'SRR5850408' is valid 2020-06-21T10:18:31 prefetch.2.10.7: 1) 'SRR5850408' was downloaded successfully 2020-06-21T10:18:31 prefetch.2.10.7: 'SRR5850408' has 0 unresolved dependencies Read 3382964 spots for SRR5850408/SRR5850408.sra Written 3382964 spots for SRR5850408/SRR5850408.sra 2020-06-21T10:18:54 prefetch.2.10.7: 1) Downloading 'SRR5850409'... 2020-06-21T10:18:54 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T10:19:21 prefetch.2.10.7: HTTPS download succeed 2020-06-21T10:19:21 prefetch.2.10.7: 'SRR5850409' is valid 2020-06-21T10:19:21 prefetch.2.10.7: 1) 'SRR5850409' was downloaded successfully 2020-06-21T10:19:21 prefetch.2.10.7: 'SRR5850409' has 0 unresolved dependencies Read 3356501 spots for SRR5850409/SRR5850409.sra Written 3356501 spots for SRR5850409/SRR5850409.sra 2020-06-21T10:19:44 prefetch.2.10.7: 1) Downloading 'SRR5850410'... 2020-06-21T10:19:44 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T10:20:17 prefetch.2.10.7: HTTPS download succeed 2020-06-21T10:20:17 prefetch.2.10.7: 'SRR5850410' is valid 2020-06-21T10:20:17 prefetch.2.10.7: 1) 'SRR5850410' was downloaded successfully 2020-06-21T10:20:17 prefetch.2.10.7: 'SRR5850410' has 0 unresolved dependencies Read 3345942 spots for SRR5850410/SRR5850410.sra Written 3345942 spots for SRR5850410/SRR5850410.sra 2020-06-21T10:20:40 prefetch.2.10.7: 1) Downloading 'SRR5850411'... 2020-06-21T10:20:40 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T10:21:19 prefetch.2.10.7: HTTPS download succeed 2020-06-21T10:21:19 prefetch.2.10.7: 'SRR5850411' is valid 2020-06-21T10:21:19 prefetch.2.10.7: 1) 'SRR5850411' was downloaded successfully 2020-06-21T10:21:19 prefetch.2.10.7: 'SRR5850411' has 0 unresolved dependencies Read 3330596 spots for SRR5850411/SRR5850411.sra Written 3330596 spots for SRR5850411/SRR5850411.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: 00:03:29 13416003 reads; of these: 13416003 (100.00%) were unpaired; of these: 448711 (3.34%) aligned 0 times 9869387 (73.56%) aligned exactly 1 time 3097905 (23.09%) aligned >1 times 96.66% overall alignment rate Time searching: 00:03:29 Overall time: 00:03:29 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] 2243893 / 12967292 = 0.1730 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 19:28:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3020537/SRX3020537.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3020537/SRX3020537.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3020537/SRX3020537.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3020537/SRX3020537.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 19:28:15: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:28:15: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:28:20: 1000000 INFO @ Sun, 21 Jun 2020 19:28:26: 2000000 INFO @ Sun, 21 Jun 2020 19:28:32: 3000000 INFO @ Sun, 21 Jun 2020 19:28:37: 4000000 INFO @ Sun, 21 Jun 2020 19:28:42: 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 19:28:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3020537/SRX3020537.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3020537/SRX3020537.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3020537/SRX3020537.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3020537/SRX3020537.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 19:28:45: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:28:45: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:28:48: 6000000 INFO @ Sun, 21 Jun 2020 19:28:51: 1000000 INFO @ Sun, 21 Jun 2020 19:28:54: 7000000 INFO @ Sun, 21 Jun 2020 19:28:57: 2000000 INFO @ Sun, 21 Jun 2020 19:29:00: 8000000 INFO @ Sun, 21 Jun 2020 19:29:03: 3000000 INFO @ Sun, 21 Jun 2020 19:29:06: 9000000 INFO @ Sun, 21 Jun 2020 19:29:09: 4000000 INFO @ Sun, 21 Jun 2020 19:29:12: 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 19:29:15: 5000000 INFO @ Sun, 21 Jun 2020 19:29:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3020537/SRX3020537.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3020537/SRX3020537.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3020537/SRX3020537.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3020537/SRX3020537.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 19:29:15: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:29:15: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:29:17: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 19:29:17: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 19:29:17: #1 total tags in treatment: 10723399 INFO @ Sun, 21 Jun 2020 19:29:17: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:29:17: #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 19:29:17: #1 tags after filtering in treatment: 10723270 INFO @ Sun, 21 Jun 2020 19:29:17: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:29:17: #1 finished! INFO @ Sun, 21 Jun 2020 19:29:17: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:29:17: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:29:18: #2 number of paired peaks: 4408 INFO @ Sun, 21 Jun 2020 19:29:18: start model_add_line... INFO @ Sun, 21 Jun 2020 19:29:18: start X-correlation... INFO @ Sun, 21 Jun 2020 19:29:18: end of X-cor INFO @ Sun, 21 Jun 2020 19:29:18: #2 finished! INFO @ Sun, 21 Jun 2020 19:29:18: #2 predicted fragment length is 147 bps INFO @ Sun, 21 Jun 2020 19:29:18: #2 alternative fragment length(s) may be 147 bps INFO @ Sun, 21 Jun 2020 19:29:18: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3020537/SRX3020537.05_model.r INFO @ Sun, 21 Jun 2020 19:29:18: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:29:18: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 19:29:21: 6000000 INFO @ Sun, 21 Jun 2020 19:29:21: 1000000 INFO @ Sun, 21 Jun 2020 19:29:26: 7000000 INFO @ Sun, 21 Jun 2020 19:29:27: 2000000 INFO @ Sun, 21 Jun 2020 19:29:32: 8000000 INFO @ Sun, 21 Jun 2020 19:29:33: 3000000 INFO @ Sun, 21 Jun 2020 19:29:38: 9000000 INFO @ Sun, 21 Jun 2020 19:29:38: 4000000 INFO @ Sun, 21 Jun 2020 19:29:44: 10000000 INFO @ Sun, 21 Jun 2020 19:29:44: 5000000 INFO @ Sun, 21 Jun 2020 19:29:47: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 19:29:49: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 19:29:49: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 19:29:49: #1 total tags in treatment: 10723399 INFO @ Sun, 21 Jun 2020 19:29:49: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:29:49: #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 19:29:49: #1 tags after filtering in treatment: 10723270 INFO @ Sun, 21 Jun 2020 19:29:49: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:29:49: #1 finished! INFO @ Sun, 21 Jun 2020 19:29:49: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:29:49: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:29:50: 6000000 INFO @ Sun, 21 Jun 2020 19:29:50: #2 number of paired peaks: 4408 INFO @ Sun, 21 Jun 2020 19:29:50: start model_add_line... INFO @ Sun, 21 Jun 2020 19:29:50: start X-correlation... INFO @ Sun, 21 Jun 2020 19:29:50: end of X-cor INFO @ Sun, 21 Jun 2020 19:29:50: #2 finished! INFO @ Sun, 21 Jun 2020 19:29:50: #2 predicted fragment length is 147 bps INFO @ Sun, 21 Jun 2020 19:29:50: #2 alternative fragment length(s) may be 147 bps INFO @ Sun, 21 Jun 2020 19:29:50: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3020537/SRX3020537.10_model.r INFO @ Sun, 21 Jun 2020 19:29:50: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:29:50: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 19:29:55: 7000000 INFO @ Sun, 21 Jun 2020 19:30:01: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3020537/SRX3020537.05_peaks.xls INFO @ Sun, 21 Jun 2020 19:30:01: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3020537/SRX3020537.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:30:01: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3020537/SRX3020537.05_summits.bed INFO @ Sun, 21 Jun 2020 19:30:01: Done! INFO @ Sun, 21 Jun 2020 19:30:01: 8000000 pass1 - making usageList (461 chroms): 3 millis pass2 - checking and writing primary data (10411 records, 4 fields): 22 millis CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 19:30:07: 9000000 INFO @ Sun, 21 Jun 2020 19:30:12: 10000000 INFO @ Sun, 21 Jun 2020 19:30:16: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 19:30:16: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 19:30:16: #1 total tags in treatment: 10723399 INFO @ Sun, 21 Jun 2020 19:30:16: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:30:16: #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 19:30:17: #1 tags after filtering in treatment: 10723270 INFO @ Sun, 21 Jun 2020 19:30:17: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:30:17: #1 finished! INFO @ Sun, 21 Jun 2020 19:30:17: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:30:17: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:30:18: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 19:30:18: #2 number of paired peaks: 4408 INFO @ Sun, 21 Jun 2020 19:30:18: start model_add_line... INFO @ Sun, 21 Jun 2020 19:30:18: start X-correlation... INFO @ Sun, 21 Jun 2020 19:30:18: end of X-cor INFO @ Sun, 21 Jun 2020 19:30:18: #2 finished! INFO @ Sun, 21 Jun 2020 19:30:18: #2 predicted fragment length is 147 bps INFO @ Sun, 21 Jun 2020 19:30:18: #2 alternative fragment length(s) may be 147 bps INFO @ Sun, 21 Jun 2020 19:30:18: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3020537/SRX3020537.20_model.r INFO @ Sun, 21 Jun 2020 19:30:18: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:30:18: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 19:30:31: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3020537/SRX3020537.10_peaks.xls INFO @ Sun, 21 Jun 2020 19:30:31: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3020537/SRX3020537.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:30:31: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3020537/SRX3020537.10_summits.bed INFO @ Sun, 21 Jun 2020 19:30:31: Done! pass1 - making usageList (322 chroms): 2 millis pass2 - checking and writing primary data (6613 records, 4 fields): 15 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 19:30:47: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 19:31:01: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3020537/SRX3020537.20_peaks.xls INFO @ Sun, 21 Jun 2020 19:31:01: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3020537/SRX3020537.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:31:02: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3020537/SRX3020537.20_summits.bed INFO @ Sun, 21 Jun 2020 19:31:02: Done! pass1 - making usageList (176 chroms): 1 millis pass2 - checking and writing primary data (2857 records, 4 fields): 9 millis CompletedMACS2peakCalling