Job ID = 6498093 SRX = SRX326971 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-25T23:09:03 prefetch.2.10.7: 1) Downloading 'SRR942044'... 2020-06-25T23:09:03 prefetch.2.10.7: Downloading via HTTPS... 2020-06-25T23:11:24 prefetch.2.10.7: HTTPS download succeed 2020-06-25T23:11:24 prefetch.2.10.7: 1) 'SRR942044' was downloaded successfully Read 12682484 spots for SRR942044/SRR942044.sra Written 12682484 spots for SRR942044/SRR942044.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 12682484 reads; of these: 12682484 (100.00%) were unpaired; of these: 401306 (3.16%) aligned 0 times 8473116 (66.81%) aligned exactly 1 time 3808062 (30.03%) aligned >1 times 96.84% 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: 15 sequences. [bam_sort_core] merging from 8 files... [bam_rmdupse_core] 1622434 / 12281178 = 0.1321 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 08:20:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX326971/SRX326971.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX326971/SRX326971.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX326971/SRX326971.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX326971/SRX326971.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 08:20:35: #1 read tag files... INFO @ Fri, 26 Jun 2020 08:20:35: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 08:20:42: 1000000 INFO @ Fri, 26 Jun 2020 08:20:49: 2000000 INFO @ Fri, 26 Jun 2020 08:20:56: 3000000 INFO @ Fri, 26 Jun 2020 08:21:03: 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 @ Fri, 26 Jun 2020 08:21:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX326971/SRX326971.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX326971/SRX326971.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX326971/SRX326971.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX326971/SRX326971.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 08:21:06: #1 read tag files... INFO @ Fri, 26 Jun 2020 08:21:06: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 08:21:10: 5000000 INFO @ Fri, 26 Jun 2020 08:21:13: 1000000 INFO @ Fri, 26 Jun 2020 08:21:17: 6000000 INFO @ Fri, 26 Jun 2020 08:21:20: 2000000 INFO @ Fri, 26 Jun 2020 08:21:24: 7000000 INFO @ Fri, 26 Jun 2020 08:21:27: 3000000 INFO @ Fri, 26 Jun 2020 08:21:31: 8000000 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 08:21:33: 4000000 INFO @ Fri, 26 Jun 2020 08:21:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX326971/SRX326971.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX326971/SRX326971.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX326971/SRX326971.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX326971/SRX326971.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 08:21:35: #1 read tag files... INFO @ Fri, 26 Jun 2020 08:21:35: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 08:21:38: 9000000 INFO @ Fri, 26 Jun 2020 08:21:40: 5000000 INFO @ Fri, 26 Jun 2020 08:21:42: 1000000 INFO @ Fri, 26 Jun 2020 08:21:45: 10000000 INFO @ Fri, 26 Jun 2020 08:21:47: 6000000 INFO @ Fri, 26 Jun 2020 08:21:49: 2000000 INFO @ Fri, 26 Jun 2020 08:21:50: #1 tag size is determined as 49 bps INFO @ Fri, 26 Jun 2020 08:21:50: #1 tag size = 49 INFO @ Fri, 26 Jun 2020 08:21:50: #1 total tags in treatment: 10658744 INFO @ Fri, 26 Jun 2020 08:21:50: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 08:21:50: #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 08:21:50: #1 tags after filtering in treatment: 10658744 INFO @ Fri, 26 Jun 2020 08:21:50: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 08:21:50: #1 finished! INFO @ Fri, 26 Jun 2020 08:21:50: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 08:21:50: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 08:21:51: #2 number of paired peaks: 2009 INFO @ Fri, 26 Jun 2020 08:21:51: start model_add_line... INFO @ Fri, 26 Jun 2020 08:21:52: start X-correlation... INFO @ Fri, 26 Jun 2020 08:21:52: end of X-cor INFO @ Fri, 26 Jun 2020 08:21:52: #2 finished! INFO @ Fri, 26 Jun 2020 08:21:52: #2 predicted fragment length is 160 bps INFO @ Fri, 26 Jun 2020 08:21:52: #2 alternative fragment length(s) may be 160,595 bps INFO @ Fri, 26 Jun 2020 08:21:52: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX326971/SRX326971.05_model.r INFO @ Fri, 26 Jun 2020 08:21:52: #3 Call peaks... INFO @ Fri, 26 Jun 2020 08:21:52: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 26 Jun 2020 08:21:53: 7000000 INFO @ Fri, 26 Jun 2020 08:21:56: 3000000 INFO @ Fri, 26 Jun 2020 08:22:00: 8000000 INFO @ Fri, 26 Jun 2020 08:22:02: 4000000 INFO @ Fri, 26 Jun 2020 08:22:06: 9000000 INFO @ Fri, 26 Jun 2020 08:22:09: 5000000 INFO @ Fri, 26 Jun 2020 08:22:13: 10000000 INFO @ Fri, 26 Jun 2020 08:22:15: 6000000 INFO @ Fri, 26 Jun 2020 08:22:17: #1 tag size is determined as 49 bps INFO @ Fri, 26 Jun 2020 08:22:17: #1 tag size = 49 INFO @ Fri, 26 Jun 2020 08:22:17: #1 total tags in treatment: 10658744 INFO @ Fri, 26 Jun 2020 08:22:17: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 08:22:17: #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 08:22:17: #1 tags after filtering in treatment: 10658744 INFO @ Fri, 26 Jun 2020 08:22:17: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 08:22:17: #1 finished! INFO @ Fri, 26 Jun 2020 08:22:17: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 08:22:17: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 08:22:18: #2 number of paired peaks: 2009 INFO @ Fri, 26 Jun 2020 08:22:18: start model_add_line... INFO @ Fri, 26 Jun 2020 08:22:18: start X-correlation... INFO @ Fri, 26 Jun 2020 08:22:18: end of X-cor INFO @ Fri, 26 Jun 2020 08:22:18: #2 finished! INFO @ Fri, 26 Jun 2020 08:22:18: #2 predicted fragment length is 160 bps INFO @ Fri, 26 Jun 2020 08:22:18: #2 alternative fragment length(s) may be 160,595 bps INFO @ Fri, 26 Jun 2020 08:22:18: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX326971/SRX326971.10_model.r INFO @ Fri, 26 Jun 2020 08:22:18: #3 Call peaks... INFO @ Fri, 26 Jun 2020 08:22:18: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 26 Jun 2020 08:22:22: 7000000 INFO @ Fri, 26 Jun 2020 08:22:22: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 08:22:28: 8000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 26 Jun 2020 08:22:34: 9000000 INFO @ Fri, 26 Jun 2020 08:22:37: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX326971/SRX326971.05_peaks.xls INFO @ Fri, 26 Jun 2020 08:22:37: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX326971/SRX326971.05_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 08:22:37: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX326971/SRX326971.05_summits.bed INFO @ Fri, 26 Jun 2020 08:22:37: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (7336 records, 4 fields): 10 millis CompletedMACS2peakCalling INFO @ Fri, 26 Jun 2020 08:22:40: 10000000 INFO @ Fri, 26 Jun 2020 08:22:44: #1 tag size is determined as 49 bps INFO @ Fri, 26 Jun 2020 08:22:44: #1 tag size = 49 INFO @ Fri, 26 Jun 2020 08:22:44: #1 total tags in treatment: 10658744 INFO @ Fri, 26 Jun 2020 08:22:44: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 08:22:44: #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 08:22:44: #1 tags after filtering in treatment: 10658744 INFO @ Fri, 26 Jun 2020 08:22:44: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 08:22:44: #1 finished! INFO @ Fri, 26 Jun 2020 08:22:44: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 08:22:44: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 08:22:45: #2 number of paired peaks: 2009 INFO @ Fri, 26 Jun 2020 08:22:45: start model_add_line... INFO @ Fri, 26 Jun 2020 08:22:46: start X-correlation... INFO @ Fri, 26 Jun 2020 08:22:46: end of X-cor INFO @ Fri, 26 Jun 2020 08:22:46: #2 finished! INFO @ Fri, 26 Jun 2020 08:22:46: #2 predicted fragment length is 160 bps INFO @ Fri, 26 Jun 2020 08:22:46: #2 alternative fragment length(s) may be 160,595 bps INFO @ Fri, 26 Jun 2020 08:22:46: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX326971/SRX326971.20_model.r INFO @ Fri, 26 Jun 2020 08:22:46: #3 Call peaks... INFO @ Fri, 26 Jun 2020 08:22:46: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 26 Jun 2020 08:22:48: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Fri, 26 Jun 2020 08:23:02: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX326971/SRX326971.10_peaks.xls INFO @ Fri, 26 Jun 2020 08:23:02: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX326971/SRX326971.10_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 08:23:02: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX326971/SRX326971.10_summits.bed INFO @ Fri, 26 Jun 2020 08:23:02: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (5228 records, 4 fields): 8 millis CompletedMACS2peakCalling INFO @ Fri, 26 Jun 2020 08:23:16: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 08:23:31: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX326971/SRX326971.20_peaks.xls INFO @ Fri, 26 Jun 2020 08:23:31: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX326971/SRX326971.20_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 08:23:31: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX326971/SRX326971.20_summits.bed INFO @ Fri, 26 Jun 2020 08:23:31: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (3341 records, 4 fields): 6 millis CompletedMACS2peakCalling