Job ID = 6454362 SRX = SRX201897 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T09:07:40 prefetch.2.10.7: 1) Downloading 'SRR609687'... 2020-06-21T09:07:40 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T09:15:27 prefetch.2.10.7: HTTPS download succeed 2020-06-21T09:15:27 prefetch.2.10.7: 1) 'SRR609687' was downloaded successfully Read 33841224 spots for SRR609687/SRR609687.sra Written 33841224 spots for SRR609687/SRR609687.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: 00:00:01 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:09:06 33841224 reads; of these: 33841224 (100.00%) were unpaired; of these: 1576553 (4.66%) aligned 0 times 25715150 (75.99%) aligned exactly 1 time 6549521 (19.35%) aligned >1 times 95.34% overall alignment rate Time searching: 00:09:07 Overall time: 00:09:07 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 16 files... [bam_rmdupse_core] 12507773 / 32264671 = 0.3877 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 18:34:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX201897/SRX201897.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX201897/SRX201897.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX201897/SRX201897.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX201897/SRX201897.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 18:34:26: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:34:26: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:34:31: 1000000 INFO @ Sun, 21 Jun 2020 18:34:36: 2000000 INFO @ Sun, 21 Jun 2020 18:34:41: 3000000 INFO @ Sun, 21 Jun 2020 18:34:46: 4000000 INFO @ Sun, 21 Jun 2020 18:34:52: 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 18:34:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX201897/SRX201897.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX201897/SRX201897.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX201897/SRX201897.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX201897/SRX201897.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 18:34:56: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:34:56: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:34:57: 6000000 INFO @ Sun, 21 Jun 2020 18:35:02: 1000000 INFO @ Sun, 21 Jun 2020 18:35:02: 7000000 INFO @ Sun, 21 Jun 2020 18:35:07: 2000000 INFO @ Sun, 21 Jun 2020 18:35:07: 8000000 INFO @ Sun, 21 Jun 2020 18:35:12: 9000000 INFO @ Sun, 21 Jun 2020 18:35:12: 3000000 INFO @ Sun, 21 Jun 2020 18:35:18: 10000000 INFO @ Sun, 21 Jun 2020 18:35:18: 4000000 INFO @ Sun, 21 Jun 2020 18:35:23: 11000000 INFO @ Sun, 21 Jun 2020 18:35:23: 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 18:35:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX201897/SRX201897.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX201897/SRX201897.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX201897/SRX201897.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX201897/SRX201897.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 18:35:26: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:35:26: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:35:28: 12000000 INFO @ Sun, 21 Jun 2020 18:35:28: 6000000 INFO @ Sun, 21 Jun 2020 18:35:31: 1000000 INFO @ Sun, 21 Jun 2020 18:35:33: 13000000 INFO @ Sun, 21 Jun 2020 18:35:34: 7000000 INFO @ Sun, 21 Jun 2020 18:35:37: 2000000 INFO @ Sun, 21 Jun 2020 18:35:38: 14000000 INFO @ Sun, 21 Jun 2020 18:35:39: 8000000 INFO @ Sun, 21 Jun 2020 18:35:42: 3000000 INFO @ Sun, 21 Jun 2020 18:35:44: 15000000 INFO @ Sun, 21 Jun 2020 18:35:44: 9000000 INFO @ Sun, 21 Jun 2020 18:35:47: 4000000 INFO @ Sun, 21 Jun 2020 18:35:49: 16000000 INFO @ Sun, 21 Jun 2020 18:35:50: 10000000 INFO @ Sun, 21 Jun 2020 18:35:52: 5000000 INFO @ Sun, 21 Jun 2020 18:35:55: 17000000 INFO @ Sun, 21 Jun 2020 18:35:55: 11000000 INFO @ Sun, 21 Jun 2020 18:35:58: 6000000 INFO @ Sun, 21 Jun 2020 18:36:00: 18000000 INFO @ Sun, 21 Jun 2020 18:36:01: 12000000 INFO @ Sun, 21 Jun 2020 18:36:03: 7000000 INFO @ Sun, 21 Jun 2020 18:36:05: 19000000 INFO @ Sun, 21 Jun 2020 18:36:06: 13000000 INFO @ Sun, 21 Jun 2020 18:36:08: 8000000 INFO @ Sun, 21 Jun 2020 18:36:10: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 18:36:10: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 18:36:10: #1 total tags in treatment: 19756898 INFO @ Sun, 21 Jun 2020 18:36:10: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:36:10: #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 18:36:10: #1 tags after filtering in treatment: 19756827 INFO @ Sun, 21 Jun 2020 18:36:10: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:36:10: #1 finished! INFO @ Sun, 21 Jun 2020 18:36:10: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:36:10: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:36:11: 14000000 INFO @ Sun, 21 Jun 2020 18:36:12: #2 number of paired peaks: 3495 INFO @ Sun, 21 Jun 2020 18:36:12: start model_add_line... INFO @ Sun, 21 Jun 2020 18:36:12: start X-correlation... INFO @ Sun, 21 Jun 2020 18:36:12: end of X-cor INFO @ Sun, 21 Jun 2020 18:36:12: #2 finished! INFO @ Sun, 21 Jun 2020 18:36:12: #2 predicted fragment length is 224 bps INFO @ Sun, 21 Jun 2020 18:36:12: #2 alternative fragment length(s) may be 224 bps INFO @ Sun, 21 Jun 2020 18:36:12: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX201897/SRX201897.05_model.r INFO @ Sun, 21 Jun 2020 18:36:12: #3 Call peaks... INFO @ Sun, 21 Jun 2020 18:36:12: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 18:36:14: 9000000 INFO @ Sun, 21 Jun 2020 18:36:16: 15000000 INFO @ Sun, 21 Jun 2020 18:36:19: 10000000 INFO @ Sun, 21 Jun 2020 18:36:22: 16000000 INFO @ Sun, 21 Jun 2020 18:36:24: 11000000 INFO @ Sun, 21 Jun 2020 18:36:27: 17000000 INFO @ Sun, 21 Jun 2020 18:36:29: 12000000 INFO @ Sun, 21 Jun 2020 18:36:33: 18000000 INFO @ Sun, 21 Jun 2020 18:36:34: 13000000 INFO @ Sun, 21 Jun 2020 18:36:38: 19000000 INFO @ Sun, 21 Jun 2020 18:36:40: 14000000 INFO @ Sun, 21 Jun 2020 18:36:42: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 18:36:42: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 18:36:42: #1 total tags in treatment: 19756898 INFO @ Sun, 21 Jun 2020 18:36:42: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:36:42: #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 18:36:43: #1 tags after filtering in treatment: 19756827 INFO @ Sun, 21 Jun 2020 18:36:43: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:36:43: #1 finished! INFO @ Sun, 21 Jun 2020 18:36:43: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:36:43: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:36:45: #2 number of paired peaks: 3495 INFO @ Sun, 21 Jun 2020 18:36:45: start model_add_line... INFO @ Sun, 21 Jun 2020 18:36:45: 15000000 INFO @ Sun, 21 Jun 2020 18:36:45: start X-correlation... INFO @ Sun, 21 Jun 2020 18:36:45: end of X-cor INFO @ Sun, 21 Jun 2020 18:36:45: #2 finished! INFO @ Sun, 21 Jun 2020 18:36:45: #2 predicted fragment length is 224 bps INFO @ Sun, 21 Jun 2020 18:36:45: #2 alternative fragment length(s) may be 224 bps INFO @ Sun, 21 Jun 2020 18:36:45: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX201897/SRX201897.10_model.r INFO @ Sun, 21 Jun 2020 18:36:45: #3 Call peaks... INFO @ Sun, 21 Jun 2020 18:36:45: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 18:36:50: 16000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 18:36:56: 17000000 INFO @ Sun, 21 Jun 2020 18:37:01: 18000000 INFO @ Sun, 21 Jun 2020 18:37:06: 19000000 INFO @ Sun, 21 Jun 2020 18:37:10: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 18:37:10: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 18:37:10: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 18:37:10: #1 total tags in treatment: 19756898 INFO @ Sun, 21 Jun 2020 18:37:10: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:37:10: #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 18:37:11: #1 tags after filtering in treatment: 19756827 INFO @ Sun, 21 Jun 2020 18:37:11: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:37:11: #1 finished! INFO @ Sun, 21 Jun 2020 18:37:11: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:37:11: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:37:12: #2 number of paired peaks: 3495 INFO @ Sun, 21 Jun 2020 18:37:12: start model_add_line... INFO @ Sun, 21 Jun 2020 18:37:13: start X-correlation... INFO @ Sun, 21 Jun 2020 18:37:13: end of X-cor INFO @ Sun, 21 Jun 2020 18:37:13: #2 finished! INFO @ Sun, 21 Jun 2020 18:37:13: #2 predicted fragment length is 224 bps INFO @ Sun, 21 Jun 2020 18:37:13: #2 alternative fragment length(s) may be 224 bps INFO @ Sun, 21 Jun 2020 18:37:13: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX201897/SRX201897.20_model.r INFO @ Sun, 21 Jun 2020 18:37:13: #3 Call peaks... INFO @ Sun, 21 Jun 2020 18:37:13: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 18:37:34: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX201897/SRX201897.05_peaks.xls INFO @ Sun, 21 Jun 2020 18:37:34: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX201897/SRX201897.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 18:37:35: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX201897/SRX201897.05_summits.bed INFO @ Sun, 21 Jun 2020 18:37:35: Done! pass1 - making usageList (582 chroms): 2 millis pass2 - checking and writing primary data (9295 records, 4 fields): 27 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 18:37:42: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 18:38:06: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX201897/SRX201897.10_peaks.xls INFO @ Sun, 21 Jun 2020 18:38:06: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX201897/SRX201897.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 18:38:07: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX201897/SRX201897.10_summits.bed INFO @ Sun, 21 Jun 2020 18:38:07: Done! pass1 - making usageList (508 chroms): 2 millis pass2 - checking and writing primary data (7874 records, 4 fields): 22 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 18:38:09: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 18:38:33: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX201897/SRX201897.20_peaks.xls INFO @ Sun, 21 Jun 2020 18:38:33: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX201897/SRX201897.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 18:38:33: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX201897/SRX201897.20_summits.bed INFO @ Sun, 21 Jun 2020 18:38:33: Done! pass1 - making usageList (418 chroms): 2 millis pass2 - checking and writing primary data (6399 records, 4 fields): 19 millis CompletedMACS2peakCalling