Job ID = 6456266 SRX = SRX331416 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T10:44:53 prefetch.2.10.7: 1) Downloading 'SRR947653'... 2020-06-21T10:44:53 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T10:48:58 prefetch.2.10.7: HTTPS download succeed 2020-06-21T10:48:58 prefetch.2.10.7: 1) 'SRR947653' was downloaded successfully Read 21296083 spots for SRR947653/SRR947653.sra Written 21296083 spots for SRR947653/SRR947653.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: 00:05:12 21296083 reads; of these: 21296083 (100.00%) were unpaired; of these: 3436168 (16.14%) aligned 0 times 14209518 (66.72%) aligned exactly 1 time 3650397 (17.14%) aligned >1 times 83.86% overall alignment rate Time searching: 00:05:12 Overall time: 00:05:12 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] 4720539 / 17859915 = 0.2643 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 19:59:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX331416/SRX331416.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX331416/SRX331416.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX331416/SRX331416.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX331416/SRX331416.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 19:59:35: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:59:35: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:59:41: 1000000 INFO @ Sun, 21 Jun 2020 19:59:47: 2000000 INFO @ Sun, 21 Jun 2020 19:59:53: 3000000 INFO @ Sun, 21 Jun 2020 19:59:59: 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 20:00:05: 5000000 INFO @ Sun, 21 Jun 2020 20:00:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX331416/SRX331416.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX331416/SRX331416.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX331416/SRX331416.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX331416/SRX331416.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 20:00:05: #1 read tag files... INFO @ Sun, 21 Jun 2020 20:00:05: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 20:00:11: 6000000 INFO @ Sun, 21 Jun 2020 20:00:12: 1000000 INFO @ Sun, 21 Jun 2020 20:00:18: 7000000 INFO @ Sun, 21 Jun 2020 20:00:19: 2000000 INFO @ Sun, 21 Jun 2020 20:00:24: 8000000 INFO @ Sun, 21 Jun 2020 20:00:25: 3000000 INFO @ Sun, 21 Jun 2020 20:00:31: 9000000 INFO @ Sun, 21 Jun 2020 20:00:32: 4000000 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 20:00:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX331416/SRX331416.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX331416/SRX331416.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX331416/SRX331416.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX331416/SRX331416.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 20:00:36: #1 read tag files... INFO @ Sun, 21 Jun 2020 20:00:36: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 20:00:37: 10000000 INFO @ Sun, 21 Jun 2020 20:00:39: 5000000 INFO @ Sun, 21 Jun 2020 20:00:42: 1000000 INFO @ Sun, 21 Jun 2020 20:00:44: 11000000 INFO @ Sun, 21 Jun 2020 20:00:45: 6000000 INFO @ Sun, 21 Jun 2020 20:00:49: 2000000 INFO @ Sun, 21 Jun 2020 20:00:51: 12000000 INFO @ Sun, 21 Jun 2020 20:00:52: 7000000 INFO @ Sun, 21 Jun 2020 20:00:56: 3000000 INFO @ Sun, 21 Jun 2020 20:00:58: 13000000 INFO @ Sun, 21 Jun 2020 20:00:59: 8000000 INFO @ Sun, 21 Jun 2020 20:00:59: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 20:00:59: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 20:00:59: #1 total tags in treatment: 13139376 INFO @ Sun, 21 Jun 2020 20:00:59: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 20:00:59: #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 20:00:59: #1 tags after filtering in treatment: 13139258 INFO @ Sun, 21 Jun 2020 20:00:59: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 20:00:59: #1 finished! INFO @ Sun, 21 Jun 2020 20:00:59: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 20:00:59: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 20:01:01: #2 number of paired peaks: 8735 INFO @ Sun, 21 Jun 2020 20:01:01: start model_add_line... INFO @ Sun, 21 Jun 2020 20:01:01: start X-correlation... INFO @ Sun, 21 Jun 2020 20:01:01: end of X-cor INFO @ Sun, 21 Jun 2020 20:01:01: #2 finished! INFO @ Sun, 21 Jun 2020 20:01:01: #2 predicted fragment length is 247 bps INFO @ Sun, 21 Jun 2020 20:01:01: #2 alternative fragment length(s) may be 247 bps INFO @ Sun, 21 Jun 2020 20:01:01: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX331416/SRX331416.05_model.r INFO @ Sun, 21 Jun 2020 20:01:01: #3 Call peaks... INFO @ Sun, 21 Jun 2020 20:01:01: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 20:01:02: 4000000 INFO @ Sun, 21 Jun 2020 20:01:05: 9000000 INFO @ Sun, 21 Jun 2020 20:01:09: 5000000 INFO @ Sun, 21 Jun 2020 20:01:12: 10000000 INFO @ Sun, 21 Jun 2020 20:01:16: 6000000 INFO @ Sun, 21 Jun 2020 20:01:19: 11000000 INFO @ Sun, 21 Jun 2020 20:01:22: 7000000 INFO @ Sun, 21 Jun 2020 20:01:26: 12000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 20:01:29: 8000000 INFO @ Sun, 21 Jun 2020 20:01:32: 13000000 INFO @ Sun, 21 Jun 2020 20:01:33: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 20:01:33: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 20:01:33: #1 total tags in treatment: 13139376 INFO @ Sun, 21 Jun 2020 20:01:33: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 20:01:33: #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 20:01:34: #1 tags after filtering in treatment: 13139258 INFO @ Sun, 21 Jun 2020 20:01:34: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 20:01:34: #1 finished! INFO @ Sun, 21 Jun 2020 20:01:34: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 20:01:34: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 20:01:35: #2 number of paired peaks: 8735 INFO @ Sun, 21 Jun 2020 20:01:35: start model_add_line... INFO @ Sun, 21 Jun 2020 20:01:35: 9000000 INFO @ Sun, 21 Jun 2020 20:01:35: start X-correlation... INFO @ Sun, 21 Jun 2020 20:01:35: end of X-cor INFO @ Sun, 21 Jun 2020 20:01:35: #2 finished! INFO @ Sun, 21 Jun 2020 20:01:35: #2 predicted fragment length is 247 bps INFO @ Sun, 21 Jun 2020 20:01:35: #2 alternative fragment length(s) may be 247 bps INFO @ Sun, 21 Jun 2020 20:01:35: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX331416/SRX331416.10_model.r INFO @ Sun, 21 Jun 2020 20:01:35: #3 Call peaks... INFO @ Sun, 21 Jun 2020 20:01:35: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 20:01:41: 10000000 INFO @ Sun, 21 Jun 2020 20:01:45: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 20:01:48: 11000000 BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 20:01:54: 12000000 INFO @ Sun, 21 Jun 2020 20:02:00: 13000000 INFO @ Sun, 21 Jun 2020 20:02:01: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 20:02:01: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 20:02:01: #1 total tags in treatment: 13139376 INFO @ Sun, 21 Jun 2020 20:02:01: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 20:02:01: #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 20:02:01: #1 tags after filtering in treatment: 13139258 INFO @ Sun, 21 Jun 2020 20:02:01: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 20:02:01: #1 finished! INFO @ Sun, 21 Jun 2020 20:02:01: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 20:02:01: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 20:02:02: #2 number of paired peaks: 8735 INFO @ Sun, 21 Jun 2020 20:02:02: start model_add_line... INFO @ Sun, 21 Jun 2020 20:02:03: start X-correlation... INFO @ Sun, 21 Jun 2020 20:02:03: end of X-cor INFO @ Sun, 21 Jun 2020 20:02:03: #2 finished! INFO @ Sun, 21 Jun 2020 20:02:03: #2 predicted fragment length is 247 bps INFO @ Sun, 21 Jun 2020 20:02:03: #2 alternative fragment length(s) may be 247 bps INFO @ Sun, 21 Jun 2020 20:02:03: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX331416/SRX331416.20_model.r INFO @ Sun, 21 Jun 2020 20:02:03: #3 Call peaks... INFO @ Sun, 21 Jun 2020 20:02:03: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 20:02:03: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX331416/SRX331416.05_peaks.xls INFO @ Sun, 21 Jun 2020 20:02:03: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX331416/SRX331416.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 20:02:03: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX331416/SRX331416.05_summits.bed INFO @ Sun, 21 Jun 2020 20:02:03: Done! pass1 - making usageList (416 chroms): 2 millis pass2 - checking and writing primary data (9797 records, 4 fields): 20 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 20:02:19: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 20:02:37: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX331416/SRX331416.10_peaks.xls INFO @ Sun, 21 Jun 2020 20:02:37: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX331416/SRX331416.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 20:02:37: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX331416/SRX331416.10_summits.bed INFO @ Sun, 21 Jun 2020 20:02:37: Done! pass1 - making usageList (279 chroms): 2 millis pass2 - checking and writing primary data (8021 records, 4 fields): 15 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 20:02:47: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 20:03:05: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX331416/SRX331416.20_peaks.xls INFO @ Sun, 21 Jun 2020 20:03:05: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX331416/SRX331416.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 20:03:05: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX331416/SRX331416.20_summits.bed INFO @ Sun, 21 Jun 2020 20:03:05: Done! pass1 - making usageList (195 chroms): 2 millis pass2 - checking and writing primary data (6068 records, 4 fields): 13 millis CompletedMACS2peakCalling