Job ID = 6458820 SRX = SRX5535392 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T12:44:55 prefetch.2.10.7: 1) Downloading 'SRR8743320'... 2020-06-21T12:44:55 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T12:47:19 prefetch.2.10.7: HTTPS download succeed 2020-06-21T12:47:20 prefetch.2.10.7: 'SRR8743320' is valid 2020-06-21T12:47:20 prefetch.2.10.7: 1) 'SRR8743320' was downloaded successfully Read 19193733 spots for SRR8743320/SRR8743320.sra Written 19193733 spots for SRR8743320/SRR8743320.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: 00:04:57 19193733 reads; of these: 19193733 (100.00%) were unpaired; of these: 624242 (3.25%) aligned 0 times 13481288 (70.24%) aligned exactly 1 time 5088203 (26.51%) aligned >1 times 96.75% overall alignment rate Time searching: 00:04:57 Overall time: 00:04:57 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] 5613841 / 18569491 = 0.3023 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 21:56:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5535392/SRX5535392.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5535392/SRX5535392.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5535392/SRX5535392.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5535392/SRX5535392.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 21:56:57: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:56:57: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:57:03: 1000000 INFO @ Sun, 21 Jun 2020 21:57:08: 2000000 INFO @ Sun, 21 Jun 2020 21:57:14: 3000000 INFO @ Sun, 21 Jun 2020 21:57:19: 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 21:57:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5535392/SRX5535392.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5535392/SRX5535392.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5535392/SRX5535392.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5535392/SRX5535392.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 21:57:24: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:57:24: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:57:24: 5000000 INFO @ Sun, 21 Jun 2020 21:57:30: 1000000 INFO @ Sun, 21 Jun 2020 21:57:30: 6000000 INFO @ Sun, 21 Jun 2020 21:57:36: 2000000 INFO @ Sun, 21 Jun 2020 21:57:36: 7000000 INFO @ Sun, 21 Jun 2020 21:57:41: 3000000 INFO @ Sun, 21 Jun 2020 21:57:42: 8000000 INFO @ Sun, 21 Jun 2020 21:57:47: 4000000 INFO @ Sun, 21 Jun 2020 21:57:47: 9000000 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 21:57:53: 5000000 INFO @ Sun, 21 Jun 2020 21:57:53: 10000000 INFO @ Sun, 21 Jun 2020 21:57:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5535392/SRX5535392.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5535392/SRX5535392.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5535392/SRX5535392.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5535392/SRX5535392.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 21:57:54: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:57:54: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:57:58: 6000000 INFO @ Sun, 21 Jun 2020 21:57:59: 11000000 INFO @ Sun, 21 Jun 2020 21:58:00: 1000000 INFO @ Sun, 21 Jun 2020 21:58:04: 7000000 INFO @ Sun, 21 Jun 2020 21:58:05: 12000000 INFO @ Sun, 21 Jun 2020 21:58:06: 2000000 INFO @ Sun, 21 Jun 2020 21:58:10: 8000000 INFO @ Sun, 21 Jun 2020 21:58:10: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 21:58:10: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 21:58:10: #1 total tags in treatment: 12955650 INFO @ Sun, 21 Jun 2020 21:58:10: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:58:10: #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 21:58:11: #1 tags after filtering in treatment: 12955564 INFO @ Sun, 21 Jun 2020 21:58:11: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:58:11: #1 finished! INFO @ Sun, 21 Jun 2020 21:58:11: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:58:11: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:58:12: 3000000 INFO @ Sun, 21 Jun 2020 21:58:12: #2 number of paired peaks: 1624 INFO @ Sun, 21 Jun 2020 21:58:12: start model_add_line... INFO @ Sun, 21 Jun 2020 21:58:12: start X-correlation... INFO @ Sun, 21 Jun 2020 21:58:12: end of X-cor INFO @ Sun, 21 Jun 2020 21:58:12: #2 finished! INFO @ Sun, 21 Jun 2020 21:58:12: #2 predicted fragment length is 145 bps INFO @ Sun, 21 Jun 2020 21:58:12: #2 alternative fragment length(s) may be 0,20,145,160 bps INFO @ Sun, 21 Jun 2020 21:58:12: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5535392/SRX5535392.05_model.r INFO @ Sun, 21 Jun 2020 21:58:12: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:58:12: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:58:16: 9000000 INFO @ Sun, 21 Jun 2020 21:58:18: 4000000 INFO @ Sun, 21 Jun 2020 21:58:22: 10000000 INFO @ Sun, 21 Jun 2020 21:58:23: 5000000 INFO @ Sun, 21 Jun 2020 21:58:27: 11000000 INFO @ Sun, 21 Jun 2020 21:58:29: 6000000 INFO @ Sun, 21 Jun 2020 21:58:33: 12000000 INFO @ Sun, 21 Jun 2020 21:58:35: 7000000 INFO @ Sun, 21 Jun 2020 21:58:39: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 21:58:39: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 21:58:39: #1 total tags in treatment: 12955650 INFO @ Sun, 21 Jun 2020 21:58:39: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:58:39: #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 21:58:39: #1 tags after filtering in treatment: 12955564 INFO @ Sun, 21 Jun 2020 21:58:39: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:58:39: #1 finished! INFO @ Sun, 21 Jun 2020 21:58:39: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:58:39: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:58:40: #2 number of paired peaks: 1624 INFO @ Sun, 21 Jun 2020 21:58:40: start model_add_line... INFO @ Sun, 21 Jun 2020 21:58:40: start X-correlation... INFO @ Sun, 21 Jun 2020 21:58:40: end of X-cor INFO @ Sun, 21 Jun 2020 21:58:40: #2 finished! INFO @ Sun, 21 Jun 2020 21:58:40: #2 predicted fragment length is 145 bps INFO @ Sun, 21 Jun 2020 21:58:40: #2 alternative fragment length(s) may be 0,20,145,160 bps INFO @ Sun, 21 Jun 2020 21:58:40: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5535392/SRX5535392.10_model.r INFO @ Sun, 21 Jun 2020 21:58:40: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:58:40: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:58:40: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:58:41: 8000000 INFO @ Sun, 21 Jun 2020 21:58:46: 9000000 INFO @ Sun, 21 Jun 2020 21:58:52: 10000000 INFO @ Sun, 21 Jun 2020 21:58:54: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5535392/SRX5535392.05_peaks.xls INFO @ Sun, 21 Jun 2020 21:58:54: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5535392/SRX5535392.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:58:54: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5535392/SRX5535392.05_summits.bed INFO @ Sun, 21 Jun 2020 21:58:54: Done! pass1 - making usageList (537 chroms): 1 millis pass2 - checking and writing primary data (2169 records, 4 fields): 15 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 21:58:57: 11000000 INFO @ Sun, 21 Jun 2020 21:59:02: 12000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 21:59:07: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 21:59:07: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 21:59:07: #1 total tags in treatment: 12955650 INFO @ Sun, 21 Jun 2020 21:59:07: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:59:07: #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 21:59:08: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:59:08: #1 tags after filtering in treatment: 12955564 INFO @ Sun, 21 Jun 2020 21:59:08: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:59:08: #1 finished! INFO @ Sun, 21 Jun 2020 21:59:08: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:59:08: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:59:09: #2 number of paired peaks: 1624 INFO @ Sun, 21 Jun 2020 21:59:09: start model_add_line... INFO @ Sun, 21 Jun 2020 21:59:09: start X-correlation... INFO @ Sun, 21 Jun 2020 21:59:09: end of X-cor INFO @ Sun, 21 Jun 2020 21:59:09: #2 finished! INFO @ Sun, 21 Jun 2020 21:59:09: #2 predicted fragment length is 145 bps INFO @ Sun, 21 Jun 2020 21:59:09: #2 alternative fragment length(s) may be 0,20,145,160 bps INFO @ Sun, 21 Jun 2020 21:59:09: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5535392/SRX5535392.20_model.r INFO @ Sun, 21 Jun 2020 21:59:09: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:59:09: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:59:21: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5535392/SRX5535392.10_peaks.xls INFO @ Sun, 21 Jun 2020 21:59:21: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5535392/SRX5535392.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:59:21: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5535392/SRX5535392.10_summits.bed INFO @ Sun, 21 Jun 2020 21:59:21: Done! pass1 - making usageList (467 chroms): 1 millis pass2 - checking and writing primary data (1081 records, 4 fields): 12 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 21:59:37: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:59:50: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5535392/SRX5535392.20_peaks.xls INFO @ Sun, 21 Jun 2020 21:59:50: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5535392/SRX5535392.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:59:50: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5535392/SRX5535392.20_summits.bed INFO @ Sun, 21 Jun 2020 21:59:50: Done! pass1 - making usageList (369 chroms): 1 millis pass2 - checking and writing primary data (695 records, 4 fields): 11 millis CompletedMACS2peakCalling