Job ID = 6452747 SRX = SRX030151 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T07:35:12 prefetch.2.10.7: 1) Downloading 'SRR071266'... 2020-06-21T07:35:12 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T07:37:15 prefetch.2.10.7: HTTPS download succeed 2020-06-21T07:37:16 prefetch.2.10.7: 'SRR071266' is valid 2020-06-21T07:37:16 prefetch.2.10.7: 1) 'SRR071266' was downloaded successfully Read 25148880 spots for SRR071266/SRR071266.sra Written 25148880 spots for SRR071266/SRR071266.sra 2020-06-21T07:38:32 prefetch.2.10.7: 1) Downloading 'SRR071267'... 2020-06-21T07:38:32 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T07:41:22 prefetch.2.10.7: HTTPS download succeed 2020-06-21T07:41:23 prefetch.2.10.7: 'SRR071267' is valid 2020-06-21T07:41:23 prefetch.2.10.7: 1) 'SRR071267' was downloaded successfully Read 25182685 spots for SRR071267/SRR071267.sra Written 25182685 spots for SRR071267/SRR071267.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: 00:12:08 50331565 reads; of these: 50331565 (100.00%) were unpaired; of these: 3252252 (6.46%) aligned 0 times 34768349 (69.08%) aligned exactly 1 time 12310964 (24.46%) aligned >1 times 93.54% overall alignment rate Time searching: 00:12:08 Overall time: 00:12:08 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 12 files... [bam_rmdupse_core] 39899039 / 47079313 = 0.8475 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 17:00:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX030151/SRX030151.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX030151/SRX030151.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX030151/SRX030151.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX030151/SRX030151.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 17:00:50: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:00:50: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:00:56: 1000000 INFO @ Sun, 21 Jun 2020 17:01:02: 2000000 INFO @ Sun, 21 Jun 2020 17:01:07: 3000000 INFO @ Sun, 21 Jun 2020 17:01:13: 4000000 INFO @ Sun, 21 Jun 2020 17:01:18: 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 17:01:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX030151/SRX030151.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX030151/SRX030151.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX030151/SRX030151.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX030151/SRX030151.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 17:01:20: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:01:20: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:01:24: 6000000 INFO @ Sun, 21 Jun 2020 17:01:26: 1000000 INFO @ Sun, 21 Jun 2020 17:01:30: 7000000 INFO @ Sun, 21 Jun 2020 17:01:31: #1 tag size is determined as 36 bps INFO @ Sun, 21 Jun 2020 17:01:31: #1 tag size = 36 INFO @ Sun, 21 Jun 2020 17:01:31: #1 total tags in treatment: 7180274 INFO @ Sun, 21 Jun 2020 17:01:31: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:01:31: #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 17:01:32: #1 tags after filtering in treatment: 7180273 INFO @ Sun, 21 Jun 2020 17:01:32: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:01:32: #1 finished! INFO @ Sun, 21 Jun 2020 17:01:32: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:01:32: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:01:32: 2000000 INFO @ Sun, 21 Jun 2020 17:01:33: #2 number of paired peaks: 2330 INFO @ Sun, 21 Jun 2020 17:01:33: start model_add_line... INFO @ Sun, 21 Jun 2020 17:01:33: start X-correlation... INFO @ Sun, 21 Jun 2020 17:01:33: end of X-cor INFO @ Sun, 21 Jun 2020 17:01:33: #2 finished! INFO @ Sun, 21 Jun 2020 17:01:33: #2 predicted fragment length is 103 bps INFO @ Sun, 21 Jun 2020 17:01:33: #2 alternative fragment length(s) may be 3,103 bps INFO @ Sun, 21 Jun 2020 17:01:33: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX030151/SRX030151.05_model.r INFO @ Sun, 21 Jun 2020 17:01:33: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:01:33: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 17:01:38: 3000000 INFO @ Sun, 21 Jun 2020 17:01:44: 4000000 INFO @ Sun, 21 Jun 2020 17:01:48: #3 Call peaks for each chromosome... 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 17:01:50: 5000000 INFO @ Sun, 21 Jun 2020 17:01:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX030151/SRX030151.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX030151/SRX030151.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX030151/SRX030151.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX030151/SRX030151.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 17:01:50: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:01:50: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:01:56: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX030151/SRX030151.05_peaks.xls INFO @ Sun, 21 Jun 2020 17:01:56: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX030151/SRX030151.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:01:56: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX030151/SRX030151.05_summits.bed INFO @ Sun, 21 Jun 2020 17:01:56: Done! INFO @ Sun, 21 Jun 2020 17:01:56: 6000000 pass1 - making usageList (954 chroms): 1 millis pass2 - checking and writing primary data (3647 records, 4 fields): 28 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 17:01:57: 1000000 INFO @ Sun, 21 Jun 2020 17:02:03: 7000000 INFO @ Sun, 21 Jun 2020 17:02:03: 2000000 INFO @ Sun, 21 Jun 2020 17:02:04: #1 tag size is determined as 36 bps INFO @ Sun, 21 Jun 2020 17:02:04: #1 tag size = 36 INFO @ Sun, 21 Jun 2020 17:02:04: #1 total tags in treatment: 7180274 INFO @ Sun, 21 Jun 2020 17:02:04: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:02:04: #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 17:02:04: #1 tags after filtering in treatment: 7180273 INFO @ Sun, 21 Jun 2020 17:02:04: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:02:04: #1 finished! INFO @ Sun, 21 Jun 2020 17:02:04: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:02:04: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:02:05: #2 number of paired peaks: 2330 INFO @ Sun, 21 Jun 2020 17:02:05: start model_add_line... INFO @ Sun, 21 Jun 2020 17:02:05: start X-correlation... INFO @ Sun, 21 Jun 2020 17:02:05: end of X-cor INFO @ Sun, 21 Jun 2020 17:02:05: #2 finished! INFO @ Sun, 21 Jun 2020 17:02:05: #2 predicted fragment length is 103 bps INFO @ Sun, 21 Jun 2020 17:02:05: #2 alternative fragment length(s) may be 3,103 bps INFO @ Sun, 21 Jun 2020 17:02:05: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX030151/SRX030151.10_model.r INFO @ Sun, 21 Jun 2020 17:02:05: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:02:05: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 17:02:09: 3000000 INFO @ Sun, 21 Jun 2020 17:02:15: 4000000 INFO @ Sun, 21 Jun 2020 17:02:21: 5000000 INFO @ Sun, 21 Jun 2020 17:02:21: #3 Call peaks for each chromosome... BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 17:02:26: 6000000 INFO @ Sun, 21 Jun 2020 17:02:28: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX030151/SRX030151.10_peaks.xls INFO @ Sun, 21 Jun 2020 17:02:28: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX030151/SRX030151.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:02:28: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX030151/SRX030151.10_summits.bed INFO @ Sun, 21 Jun 2020 17:02:28: Done! pass1 - making usageList (779 chroms): 1 millis pass2 - checking and writing primary data (2092 records, 4 fields): 21 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 17:02:31: 7000000 INFO @ Sun, 21 Jun 2020 17:02:32: #1 tag size is determined as 36 bps INFO @ Sun, 21 Jun 2020 17:02:32: #1 tag size = 36 INFO @ Sun, 21 Jun 2020 17:02:32: #1 total tags in treatment: 7180274 INFO @ Sun, 21 Jun 2020 17:02:32: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:02:32: #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 17:02:32: #1 tags after filtering in treatment: 7180273 INFO @ Sun, 21 Jun 2020 17:02:32: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:02:32: #1 finished! INFO @ Sun, 21 Jun 2020 17:02:32: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:02:32: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:02:33: #2 number of paired peaks: 2330 INFO @ Sun, 21 Jun 2020 17:02:33: start model_add_line... INFO @ Sun, 21 Jun 2020 17:02:33: start X-correlation... INFO @ Sun, 21 Jun 2020 17:02:33: end of X-cor INFO @ Sun, 21 Jun 2020 17:02:33: #2 finished! INFO @ Sun, 21 Jun 2020 17:02:33: #2 predicted fragment length is 103 bps INFO @ Sun, 21 Jun 2020 17:02:33: #2 alternative fragment length(s) may be 3,103 bps INFO @ Sun, 21 Jun 2020 17:02:33: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX030151/SRX030151.20_model.r INFO @ Sun, 21 Jun 2020 17:02:33: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:02:33: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 17:02:49: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 17:02:56: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX030151/SRX030151.20_peaks.xls INFO @ Sun, 21 Jun 2020 17:02:56: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX030151/SRX030151.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:02:56: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX030151/SRX030151.20_summits.bed INFO @ Sun, 21 Jun 2020 17:02:56: Done! pass1 - making usageList (623 chroms): 1 millis pass2 - checking and writing primary data (1424 records, 4 fields): 17 millis CompletedMACS2peakCalling