Job ID = 6509139 SRX = SRX685461 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-26T15:27:07 prefetch.2.10.7: 1) Downloading 'SRR1556383'... 2020-06-26T15:27:07 prefetch.2.10.7: Downloading via HTTPS... 2020-06-26T15:31:12 prefetch.2.10.7: HTTPS download succeed 2020-06-26T15:31:12 prefetch.2.10.7: 1) 'SRR1556383' was downloaded successfully Read 45975116 spots for SRR1556383/SRR1556383.sra Written 45975116 spots for SRR1556383/SRR1556383.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: 00:15:32 45975116 reads; of these: 45975116 (100.00%) were unpaired; of these: 3477348 (7.56%) aligned 0 times 29995351 (65.24%) aligned exactly 1 time 12502417 (27.19%) aligned >1 times 92.44% overall alignment rate Time searching: 00:15:32 Overall time: 00:15:32 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] 17965426 / 42497768 = 0.4227 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 00:58:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX685461/SRX685461.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX685461/SRX685461.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX685461/SRX685461.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX685461/SRX685461.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 00:58:39: #1 read tag files... INFO @ Sat, 27 Jun 2020 00:58:39: #1 read treatment tags... INFO @ Sat, 27 Jun 2020 00:58:45: 1000000 INFO @ Sat, 27 Jun 2020 00:58:50: 2000000 INFO @ Sat, 27 Jun 2020 00:58:56: 3000000 INFO @ Sat, 27 Jun 2020 00:59:01: 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 @ Sat, 27 Jun 2020 00:59:07: 5000000 INFO @ Sat, 27 Jun 2020 00:59:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX685461/SRX685461.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX685461/SRX685461.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX685461/SRX685461.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX685461/SRX685461.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 00:59:09: #1 read tag files... INFO @ Sat, 27 Jun 2020 00:59:09: #1 read treatment tags... INFO @ Sat, 27 Jun 2020 00:59:13: 6000000 INFO @ Sat, 27 Jun 2020 00:59:15: 1000000 INFO @ Sat, 27 Jun 2020 00:59:19: 7000000 INFO @ Sat, 27 Jun 2020 00:59:21: 2000000 INFO @ Sat, 27 Jun 2020 00:59:25: 8000000 INFO @ Sat, 27 Jun 2020 00:59:26: 3000000 INFO @ Sat, 27 Jun 2020 00:59:31: 9000000 INFO @ Sat, 27 Jun 2020 00:59:32: 4000000 INFO @ Sat, 27 Jun 2020 00:59:37: 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 @ Sat, 27 Jun 2020 00:59:38: 5000000 INFO @ Sat, 27 Jun 2020 00:59:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX685461/SRX685461.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX685461/SRX685461.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX685461/SRX685461.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX685461/SRX685461.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 00:59:39: #1 read tag files... INFO @ Sat, 27 Jun 2020 00:59:39: #1 read treatment tags... INFO @ Sat, 27 Jun 2020 00:59:43: 11000000 INFO @ Sat, 27 Jun 2020 00:59:44: 6000000 INFO @ Sat, 27 Jun 2020 00:59:46: 1000000 INFO @ Sat, 27 Jun 2020 00:59:49: 12000000 INFO @ Sat, 27 Jun 2020 00:59:50: 7000000 INFO @ Sat, 27 Jun 2020 00:59:52: 2000000 INFO @ Sat, 27 Jun 2020 00:59:55: 13000000 INFO @ Sat, 27 Jun 2020 00:59:56: 8000000 INFO @ Sat, 27 Jun 2020 00:59:58: 3000000 INFO @ Sat, 27 Jun 2020 01:00:01: 14000000 INFO @ Sat, 27 Jun 2020 01:00:02: 9000000 INFO @ Sat, 27 Jun 2020 01:00:04: 4000000 INFO @ Sat, 27 Jun 2020 01:00:07: 15000000 INFO @ Sat, 27 Jun 2020 01:00:09: 10000000 INFO @ Sat, 27 Jun 2020 01:00:10: 5000000 INFO @ Sat, 27 Jun 2020 01:00:13: 16000000 INFO @ Sat, 27 Jun 2020 01:00:15: 11000000 INFO @ Sat, 27 Jun 2020 01:00:16: 6000000 INFO @ Sat, 27 Jun 2020 01:00:19: 17000000 INFO @ Sat, 27 Jun 2020 01:00:21: 12000000 INFO @ Sat, 27 Jun 2020 01:00:22: 7000000 INFO @ Sat, 27 Jun 2020 01:00:25: 18000000 INFO @ Sat, 27 Jun 2020 01:00:27: 13000000 INFO @ Sat, 27 Jun 2020 01:00:29: 8000000 INFO @ Sat, 27 Jun 2020 01:00:31: 19000000 INFO @ Sat, 27 Jun 2020 01:00:33: 14000000 INFO @ Sat, 27 Jun 2020 01:00:35: 9000000 INFO @ Sat, 27 Jun 2020 01:00:38: 20000000 INFO @ Sat, 27 Jun 2020 01:00:39: 15000000 INFO @ Sat, 27 Jun 2020 01:00:41: 10000000 INFO @ Sat, 27 Jun 2020 01:00:45: 21000000 INFO @ Sat, 27 Jun 2020 01:00:46: 16000000 INFO @ Sat, 27 Jun 2020 01:00:48: 11000000 INFO @ Sat, 27 Jun 2020 01:00:51: 22000000 INFO @ Sat, 27 Jun 2020 01:00:52: 17000000 INFO @ Sat, 27 Jun 2020 01:00:54: 12000000 INFO @ Sat, 27 Jun 2020 01:00:58: 18000000 INFO @ Sat, 27 Jun 2020 01:00:58: 23000000 INFO @ Sat, 27 Jun 2020 01:01:00: 13000000 INFO @ Sat, 27 Jun 2020 01:01:04: 19000000 INFO @ Sat, 27 Jun 2020 01:01:04: 24000000 INFO @ Sat, 27 Jun 2020 01:01:07: 14000000 INFO @ Sat, 27 Jun 2020 01:01:08: #1 tag size is determined as 50 bps INFO @ Sat, 27 Jun 2020 01:01:08: #1 tag size = 50 INFO @ Sat, 27 Jun 2020 01:01:08: #1 total tags in treatment: 24532342 INFO @ Sat, 27 Jun 2020 01:01:08: #1 user defined the maximum tags... INFO @ Sat, 27 Jun 2020 01:01:08: #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 01:01:09: #1 tags after filtering in treatment: 24532284 INFO @ Sat, 27 Jun 2020 01:01:09: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 27 Jun 2020 01:01:09: #1 finished! INFO @ Sat, 27 Jun 2020 01:01:09: #2 Build Peak Model... INFO @ Sat, 27 Jun 2020 01:01:09: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 27 Jun 2020 01:01:11: 20000000 INFO @ Sat, 27 Jun 2020 01:01:11: #2 number of paired peaks: 2191 INFO @ Sat, 27 Jun 2020 01:01:11: start model_add_line... INFO @ Sat, 27 Jun 2020 01:01:11: start X-correlation... INFO @ Sat, 27 Jun 2020 01:01:11: end of X-cor INFO @ Sat, 27 Jun 2020 01:01:11: #2 finished! INFO @ Sat, 27 Jun 2020 01:01:11: #2 predicted fragment length is 116 bps INFO @ Sat, 27 Jun 2020 01:01:11: #2 alternative fragment length(s) may be 3,116 bps INFO @ Sat, 27 Jun 2020 01:01:11: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX685461/SRX685461.05_model.r INFO @ Sat, 27 Jun 2020 01:01:11: #3 Call peaks... INFO @ Sat, 27 Jun 2020 01:01:11: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 27 Jun 2020 01:01:13: 15000000 INFO @ Sat, 27 Jun 2020 01:01:18: 21000000 INFO @ Sat, 27 Jun 2020 01:01:20: 16000000 INFO @ Sat, 27 Jun 2020 01:01:26: 22000000 INFO @ Sat, 27 Jun 2020 01:01:26: 17000000 INFO @ Sat, 27 Jun 2020 01:01:32: 23000000 INFO @ Sat, 27 Jun 2020 01:01:32: 18000000 INFO @ Sat, 27 Jun 2020 01:01:39: 19000000 INFO @ Sat, 27 Jun 2020 01:01:39: 24000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 27 Jun 2020 01:01:43: #1 tag size is determined as 50 bps INFO @ Sat, 27 Jun 2020 01:01:43: #1 tag size = 50 INFO @ Sat, 27 Jun 2020 01:01:43: #1 total tags in treatment: 24532342 INFO @ Sat, 27 Jun 2020 01:01:43: #1 user defined the maximum tags... INFO @ Sat, 27 Jun 2020 01:01:43: #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 01:01:43: #1 tags after filtering in treatment: 24532284 INFO @ Sat, 27 Jun 2020 01:01:43: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 27 Jun 2020 01:01:43: #1 finished! INFO @ Sat, 27 Jun 2020 01:01:43: #2 Build Peak Model... INFO @ Sat, 27 Jun 2020 01:01:43: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 27 Jun 2020 01:01:45: 20000000 INFO @ Sat, 27 Jun 2020 01:01:46: #2 number of paired peaks: 2191 INFO @ Sat, 27 Jun 2020 01:01:46: start model_add_line... INFO @ Sat, 27 Jun 2020 01:01:46: start X-correlation... INFO @ Sat, 27 Jun 2020 01:01:46: end of X-cor INFO @ Sat, 27 Jun 2020 01:01:46: #2 finished! INFO @ Sat, 27 Jun 2020 01:01:46: #2 predicted fragment length is 116 bps INFO @ Sat, 27 Jun 2020 01:01:46: #2 alternative fragment length(s) may be 3,116 bps INFO @ Sat, 27 Jun 2020 01:01:46: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX685461/SRX685461.10_model.r INFO @ Sat, 27 Jun 2020 01:01:46: #3 Call peaks... INFO @ Sat, 27 Jun 2020 01:01:46: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 27 Jun 2020 01:01:52: 21000000 INFO @ Sat, 27 Jun 2020 01:01:58: 22000000 INFO @ Sat, 27 Jun 2020 01:02:04: 23000000 INFO @ Sat, 27 Jun 2020 01:02:09: 24000000 INFO @ Sat, 27 Jun 2020 01:02:11: #3 Call peaks for each chromosome... INFO @ Sat, 27 Jun 2020 01:02:13: #1 tag size is determined as 50 bps INFO @ Sat, 27 Jun 2020 01:02:13: #1 tag size = 50 INFO @ Sat, 27 Jun 2020 01:02:13: #1 total tags in treatment: 24532342 INFO @ Sat, 27 Jun 2020 01:02:13: #1 user defined the maximum tags... INFO @ Sat, 27 Jun 2020 01:02:13: #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 01:02:14: #1 tags after filtering in treatment: 24532284 INFO @ Sat, 27 Jun 2020 01:02:14: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 27 Jun 2020 01:02:14: #1 finished! INFO @ Sat, 27 Jun 2020 01:02:14: #2 Build Peak Model... INFO @ Sat, 27 Jun 2020 01:02:14: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 27 Jun 2020 01:02:16: #2 number of paired peaks: 2191 INFO @ Sat, 27 Jun 2020 01:02:16: start model_add_line... INFO @ Sat, 27 Jun 2020 01:02:16: start X-correlation... INFO @ Sat, 27 Jun 2020 01:02:16: end of X-cor INFO @ Sat, 27 Jun 2020 01:02:16: #2 finished! INFO @ Sat, 27 Jun 2020 01:02:16: #2 predicted fragment length is 116 bps INFO @ Sat, 27 Jun 2020 01:02:16: #2 alternative fragment length(s) may be 3,116 bps INFO @ Sat, 27 Jun 2020 01:02:16: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX685461/SRX685461.20_model.r INFO @ Sat, 27 Jun 2020 01:02:16: #3 Call peaks... INFO @ Sat, 27 Jun 2020 01:02:16: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 27 Jun 2020 01:02:39: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX685461/SRX685461.05_peaks.xls INFO @ Sat, 27 Jun 2020 01:02:39: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX685461/SRX685461.05_peaks.narrowPeak INFO @ Sat, 27 Jun 2020 01:02:39: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX685461/SRX685461.05_summits.bed INFO @ Sat, 27 Jun 2020 01:02:39: Done! pass1 - making usageList (661 chroms): 3 millis pass2 - checking and writing primary data (10375 records, 4 fields): 33 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Sat, 27 Jun 2020 01:02:45: #3 Call peaks for each chromosome... INFO @ Sat, 27 Jun 2020 01:03:12: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX685461/SRX685461.10_peaks.xls INFO @ Sat, 27 Jun 2020 01:03:12: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX685461/SRX685461.10_peaks.narrowPeak INFO @ Sat, 27 Jun 2020 01:03:12: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX685461/SRX685461.10_summits.bed INFO @ Sat, 27 Jun 2020 01:03:12: Done! pass1 - making usageList (625 chroms): 4 millis pass2 - checking and writing primary data (6682 records, 4 fields): 27 millis CompletedMACS2peakCalling INFO @ Sat, 27 Jun 2020 01:03:17: #3 Call peaks for each chromosome... INFO @ Sat, 27 Jun 2020 01:03:44: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX685461/SRX685461.20_peaks.xls INFO @ Sat, 27 Jun 2020 01:03:44: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX685461/SRX685461.20_peaks.narrowPeak INFO @ Sat, 27 Jun 2020 01:03:44: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX685461/SRX685461.20_summits.bed INFO @ Sat, 27 Jun 2020 01:03:44: Done! pass1 - making usageList (582 chroms): 2 millis pass2 - checking and writing primary data (3149 records, 4 fields): 21 millis CompletedMACS2peakCalling