Job ID = 6498311 SRX = SRX467122 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-25T23:28:02 prefetch.2.10.7: 1) Downloading 'SRR1164546'... 2020-06-25T23:28:02 prefetch.2.10.7: Downloading via HTTPS... 2020-06-25T23:30:27 prefetch.2.10.7: HTTPS download succeed 2020-06-25T23:30:27 prefetch.2.10.7: 1) 'SRR1164546' was downloaded successfully Read 16466673 spots for SRR1164546/SRR1164546.sra Written 16466673 spots for SRR1164546/SRR1164546.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: 00:04:41 16466673 reads; of these: 16466673 (100.00%) were unpaired; of these: 1267454 (7.70%) aligned 0 times 11876703 (72.13%) aligned exactly 1 time 3322516 (20.18%) aligned >1 times 92.30% overall alignment rate Time searching: 00:04:41 Overall time: 00:04:41 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 15 sequences. [bam_sort_core] merging from 8 files... [bam_rmdupse_core] 3217561 / 15199219 = 0.2117 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 @ Fri, 26 Jun 2020 08:40:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX467122/SRX467122.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX467122/SRX467122.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX467122/SRX467122.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX467122/SRX467122.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 @ Fri, 26 Jun 2020 08:40:05: #1 read tag files... INFO @ Fri, 26 Jun 2020 08:40:05: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 08:40:13: 1000000 INFO @ Fri, 26 Jun 2020 08:40:21: 2000000 INFO @ Fri, 26 Jun 2020 08:40:28: 3000000 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 @ Fri, 26 Jun 2020 08:40:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX467122/SRX467122.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX467122/SRX467122.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX467122/SRX467122.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX467122/SRX467122.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 @ Fri, 26 Jun 2020 08:40:35: #1 read tag files... INFO @ Fri, 26 Jun 2020 08:40:35: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 08:40:36: 4000000 INFO @ Fri, 26 Jun 2020 08:40:42: 1000000 INFO @ Fri, 26 Jun 2020 08:40:44: 5000000 INFO @ Fri, 26 Jun 2020 08:40:50: 2000000 INFO @ Fri, 26 Jun 2020 08:40:52: 6000000 INFO @ Fri, 26 Jun 2020 08:40:57: 3000000 INFO @ Fri, 26 Jun 2020 08:41:00: 7000000 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 @ Fri, 26 Jun 2020 08:41:04: 4000000 INFO @ Fri, 26 Jun 2020 08:41:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX467122/SRX467122.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX467122/SRX467122.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX467122/SRX467122.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX467122/SRX467122.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 @ Fri, 26 Jun 2020 08:41:05: #1 read tag files... INFO @ Fri, 26 Jun 2020 08:41:05: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 08:41:07: 8000000 INFO @ Fri, 26 Jun 2020 08:41:11: 5000000 INFO @ Fri, 26 Jun 2020 08:41:13: 1000000 INFO @ Fri, 26 Jun 2020 08:41:15: 9000000 INFO @ Fri, 26 Jun 2020 08:41:19: 6000000 INFO @ Fri, 26 Jun 2020 08:41:20: 2000000 INFO @ Fri, 26 Jun 2020 08:41:23: 10000000 INFO @ Fri, 26 Jun 2020 08:41:26: 7000000 INFO @ Fri, 26 Jun 2020 08:41:28: 3000000 INFO @ Fri, 26 Jun 2020 08:41:31: 11000000 INFO @ Fri, 26 Jun 2020 08:41:34: 8000000 INFO @ Fri, 26 Jun 2020 08:41:35: 4000000 INFO @ Fri, 26 Jun 2020 08:41:39: #1 tag size is determined as 50 bps INFO @ Fri, 26 Jun 2020 08:41:39: #1 tag size = 50 INFO @ Fri, 26 Jun 2020 08:41:39: #1 total tags in treatment: 11981658 INFO @ Fri, 26 Jun 2020 08:41:39: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 08:41:39: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 26 Jun 2020 08:41:39: #1 tags after filtering in treatment: 11981658 INFO @ Fri, 26 Jun 2020 08:41:39: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 08:41:39: #1 finished! INFO @ Fri, 26 Jun 2020 08:41:39: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 08:41:39: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 08:41:41: #2 number of paired peaks: 7808 INFO @ Fri, 26 Jun 2020 08:41:41: start model_add_line... INFO @ Fri, 26 Jun 2020 08:41:41: start X-correlation... INFO @ Fri, 26 Jun 2020 08:41:41: end of X-cor INFO @ Fri, 26 Jun 2020 08:41:41: #2 finished! INFO @ Fri, 26 Jun 2020 08:41:41: #2 predicted fragment length is 230 bps INFO @ Fri, 26 Jun 2020 08:41:41: #2 alternative fragment length(s) may be 3,230 bps INFO @ Fri, 26 Jun 2020 08:41:41: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX467122/SRX467122.05_model.r INFO @ Fri, 26 Jun 2020 08:41:41: #3 Call peaks... INFO @ Fri, 26 Jun 2020 08:41:41: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 26 Jun 2020 08:41:41: 9000000 INFO @ Fri, 26 Jun 2020 08:41:42: 5000000 INFO @ Fri, 26 Jun 2020 08:41:48: 10000000 INFO @ Fri, 26 Jun 2020 08:41:49: 6000000 INFO @ Fri, 26 Jun 2020 08:41:55: 11000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 26 Jun 2020 08:41:56: 7000000 INFO @ Fri, 26 Jun 2020 08:42:02: #1 tag size is determined as 50 bps INFO @ Fri, 26 Jun 2020 08:42:02: #1 tag size = 50 INFO @ Fri, 26 Jun 2020 08:42:02: #1 total tags in treatment: 11981658 INFO @ Fri, 26 Jun 2020 08:42:02: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 08:42:02: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 26 Jun 2020 08:42:02: #1 tags after filtering in treatment: 11981658 INFO @ Fri, 26 Jun 2020 08:42:02: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 08:42:02: #1 finished! INFO @ Fri, 26 Jun 2020 08:42:02: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 08:42:02: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 08:42:03: 8000000 INFO @ Fri, 26 Jun 2020 08:42:04: #2 number of paired peaks: 7808 INFO @ Fri, 26 Jun 2020 08:42:04: start model_add_line... INFO @ Fri, 26 Jun 2020 08:42:04: start X-correlation... INFO @ Fri, 26 Jun 2020 08:42:04: end of X-cor INFO @ Fri, 26 Jun 2020 08:42:04: #2 finished! INFO @ Fri, 26 Jun 2020 08:42:04: #2 predicted fragment length is 230 bps INFO @ Fri, 26 Jun 2020 08:42:04: #2 alternative fragment length(s) may be 3,230 bps INFO @ Fri, 26 Jun 2020 08:42:04: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX467122/SRX467122.10_model.r INFO @ Fri, 26 Jun 2020 08:42:04: #3 Call peaks... INFO @ Fri, 26 Jun 2020 08:42:04: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 26 Jun 2020 08:42:10: 9000000 INFO @ Fri, 26 Jun 2020 08:42:16: 10000000 BigWig に変換しました。 INFO @ Fri, 26 Jun 2020 08:42:19: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 08:42:22: 11000000 INFO @ Fri, 26 Jun 2020 08:42:29: #1 tag size is determined as 50 bps INFO @ Fri, 26 Jun 2020 08:42:29: #1 tag size = 50 INFO @ Fri, 26 Jun 2020 08:42:29: #1 total tags in treatment: 11981658 INFO @ Fri, 26 Jun 2020 08:42:29: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 08:42:29: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 26 Jun 2020 08:42:29: #1 tags after filtering in treatment: 11981658 INFO @ Fri, 26 Jun 2020 08:42:29: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 08:42:29: #1 finished! INFO @ Fri, 26 Jun 2020 08:42:29: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 08:42:29: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 08:42:30: #2 number of paired peaks: 7808 INFO @ Fri, 26 Jun 2020 08:42:30: start model_add_line... INFO @ Fri, 26 Jun 2020 08:42:31: start X-correlation... INFO @ Fri, 26 Jun 2020 08:42:31: end of X-cor INFO @ Fri, 26 Jun 2020 08:42:31: #2 finished! INFO @ Fri, 26 Jun 2020 08:42:31: #2 predicted fragment length is 230 bps INFO @ Fri, 26 Jun 2020 08:42:31: #2 alternative fragment length(s) may be 3,230 bps INFO @ Fri, 26 Jun 2020 08:42:31: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX467122/SRX467122.20_model.r INFO @ Fri, 26 Jun 2020 08:42:31: #3 Call peaks... INFO @ Fri, 26 Jun 2020 08:42:31: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 26 Jun 2020 08:42:35: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX467122/SRX467122.05_peaks.xls INFO @ Fri, 26 Jun 2020 08:42:35: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX467122/SRX467122.05_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 08:42:35: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX467122/SRX467122.05_summits.bed INFO @ Fri, 26 Jun 2020 08:42:35: Done! pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (8805 records, 4 fields): 10 millis CompletedMACS2peakCalling INFO @ Fri, 26 Jun 2020 08:42:43: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 08:43:00: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX467122/SRX467122.10_peaks.xls INFO @ Fri, 26 Jun 2020 08:43:00: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX467122/SRX467122.10_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 08:43:00: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX467122/SRX467122.10_summits.bed INFO @ Fri, 26 Jun 2020 08:43:00: Done! pass1 - making usageList (14 chroms): 2 millis pass2 - checking and writing primary data (5852 records, 4 fields): 7 millis CompletedMACS2peakCalling INFO @ Fri, 26 Jun 2020 08:43:11: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 08:43:29: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX467122/SRX467122.20_peaks.xls INFO @ Fri, 26 Jun 2020 08:43:29: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX467122/SRX467122.20_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 08:43:29: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX467122/SRX467122.20_summits.bed INFO @ Fri, 26 Jun 2020 08:43:29: Done! pass1 - making usageList (13 chroms): 1 millis pass2 - checking and writing primary data (3084 records, 4 fields): 5 millis CompletedMACS2peakCalling