Job ID = 5720857 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 32,225,795 reads read : 32,225,795 reads written : 32,225,795 rm: cannot remove ‘[DSE]RR*’: No such file or directory 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: 00:10:24 32225795 reads; of these: 32225795 (100.00%) were unpaired; of these: 821388 (2.55%) aligned 0 times 23295637 (72.29%) aligned exactly 1 time 8108770 (25.16%) aligned >1 times 97.45% overall alignment rate Time searching: 00:10:24 Overall time: 00:10:24 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 16 files... [bam_rmdupse_core] 11028407 / 31404407 = 0.3512 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 @ Thu, 16 Apr 2020 02:41:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5436049/SRX5436049.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5436049/SRX5436049.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5436049/SRX5436049.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5436049/SRX5436049.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 @ Thu, 16 Apr 2020 02:41:45: #1 read tag files... INFO @ Thu, 16 Apr 2020 02:41:45: #1 read treatment tags... INFO @ Thu, 16 Apr 2020 02:41:50: 1000000 INFO @ Thu, 16 Apr 2020 02:41:55: 2000000 INFO @ Thu, 16 Apr 2020 02:42:00: 3000000 INFO @ Thu, 16 Apr 2020 02:42:05: 4000000 INFO @ Thu, 16 Apr 2020 02:42:10: 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 @ Thu, 16 Apr 2020 02:42:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5436049/SRX5436049.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5436049/SRX5436049.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5436049/SRX5436049.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5436049/SRX5436049.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 @ Thu, 16 Apr 2020 02:42:15: #1 read tag files... INFO @ Thu, 16 Apr 2020 02:42:15: #1 read treatment tags... INFO @ Thu, 16 Apr 2020 02:42:16: 6000000 INFO @ Thu, 16 Apr 2020 02:42:21: 1000000 INFO @ Thu, 16 Apr 2020 02:42:21: 7000000 INFO @ Thu, 16 Apr 2020 02:42:26: 2000000 INFO @ Thu, 16 Apr 2020 02:42:27: 8000000 INFO @ Thu, 16 Apr 2020 02:42:32: 3000000 INFO @ Thu, 16 Apr 2020 02:42:32: 9000000 INFO @ Thu, 16 Apr 2020 02:42:37: 4000000 INFO @ Thu, 16 Apr 2020 02:42:37: 10000000 INFO @ Thu, 16 Apr 2020 02:42:43: 11000000 INFO @ Thu, 16 Apr 2020 02:42:43: 5000000 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 @ Thu, 16 Apr 2020 02:42:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5436049/SRX5436049.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5436049/SRX5436049.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5436049/SRX5436049.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5436049/SRX5436049.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 @ Thu, 16 Apr 2020 02:42:45: #1 read tag files... INFO @ Thu, 16 Apr 2020 02:42:45: #1 read treatment tags... INFO @ Thu, 16 Apr 2020 02:42:48: 12000000 INFO @ Thu, 16 Apr 2020 02:42:48: 6000000 INFO @ Thu, 16 Apr 2020 02:42:51: 1000000 INFO @ Thu, 16 Apr 2020 02:42:54: 13000000 INFO @ Thu, 16 Apr 2020 02:42:54: 7000000 INFO @ Thu, 16 Apr 2020 02:42:56: 2000000 INFO @ Thu, 16 Apr 2020 02:42:59: 14000000 INFO @ Thu, 16 Apr 2020 02:42:59: 8000000 INFO @ Thu, 16 Apr 2020 02:43:02: 3000000 INFO @ Thu, 16 Apr 2020 02:43:05: 15000000 INFO @ Thu, 16 Apr 2020 02:43:05: 9000000 INFO @ Thu, 16 Apr 2020 02:43:07: 4000000 INFO @ Thu, 16 Apr 2020 02:43:10: 16000000 INFO @ Thu, 16 Apr 2020 02:43:10: 10000000 INFO @ Thu, 16 Apr 2020 02:43:13: 5000000 INFO @ Thu, 16 Apr 2020 02:43:16: 11000000 INFO @ Thu, 16 Apr 2020 02:43:16: 17000000 INFO @ Thu, 16 Apr 2020 02:43:18: 6000000 INFO @ Thu, 16 Apr 2020 02:43:21: 12000000 INFO @ Thu, 16 Apr 2020 02:43:21: 18000000 INFO @ Thu, 16 Apr 2020 02:43:24: 7000000 INFO @ Thu, 16 Apr 2020 02:43:26: 13000000 INFO @ Thu, 16 Apr 2020 02:43:27: 19000000 INFO @ Thu, 16 Apr 2020 02:43:29: 8000000 INFO @ Thu, 16 Apr 2020 02:43:32: 14000000 INFO @ Thu, 16 Apr 2020 02:43:32: 20000000 INFO @ Thu, 16 Apr 2020 02:43:34: #1 tag size is determined as 50 bps INFO @ Thu, 16 Apr 2020 02:43:34: #1 tag size = 50 INFO @ Thu, 16 Apr 2020 02:43:34: #1 total tags in treatment: 20376000 INFO @ Thu, 16 Apr 2020 02:43:34: #1 user defined the maximum tags... INFO @ Thu, 16 Apr 2020 02:43:34: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 16 Apr 2020 02:43:35: #1 tags after filtering in treatment: 20376000 INFO @ Thu, 16 Apr 2020 02:43:35: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 16 Apr 2020 02:43:35: #1 finished! INFO @ Thu, 16 Apr 2020 02:43:35: #2 Build Peak Model... INFO @ Thu, 16 Apr 2020 02:43:35: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 16 Apr 2020 02:43:35: 9000000 INFO @ Thu, 16 Apr 2020 02:43:36: #2 number of paired peaks: 5008 INFO @ Thu, 16 Apr 2020 02:43:36: start model_add_line... INFO @ Thu, 16 Apr 2020 02:43:37: start X-correlation... INFO @ Thu, 16 Apr 2020 02:43:37: end of X-cor INFO @ Thu, 16 Apr 2020 02:43:37: #2 finished! INFO @ Thu, 16 Apr 2020 02:43:37: #2 predicted fragment length is 256 bps INFO @ Thu, 16 Apr 2020 02:43:37: #2 alternative fragment length(s) may be 256 bps INFO @ Thu, 16 Apr 2020 02:43:37: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX5436049/SRX5436049.05_model.r INFO @ Thu, 16 Apr 2020 02:43:37: #3 Call peaks... INFO @ Thu, 16 Apr 2020 02:43:37: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 16 Apr 2020 02:43:37: 15000000 INFO @ Thu, 16 Apr 2020 02:43:40: 10000000 INFO @ Thu, 16 Apr 2020 02:43:43: 16000000 INFO @ Thu, 16 Apr 2020 02:43:46: 11000000 INFO @ Thu, 16 Apr 2020 02:43:48: 17000000 INFO @ Thu, 16 Apr 2020 02:43:51: 12000000 INFO @ Thu, 16 Apr 2020 02:43:54: 18000000 INFO @ Thu, 16 Apr 2020 02:43:56: 13000000 INFO @ Thu, 16 Apr 2020 02:43:59: 19000000 INFO @ Thu, 16 Apr 2020 02:44:02: 14000000 INFO @ Thu, 16 Apr 2020 02:44:05: 20000000 INFO @ Thu, 16 Apr 2020 02:44:07: #1 tag size is determined as 50 bps INFO @ Thu, 16 Apr 2020 02:44:07: #1 tag size = 50 INFO @ Thu, 16 Apr 2020 02:44:07: #1 total tags in treatment: 20376000 INFO @ Thu, 16 Apr 2020 02:44:07: #1 user defined the maximum tags... INFO @ Thu, 16 Apr 2020 02:44:07: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 16 Apr 2020 02:44:07: 15000000 INFO @ Thu, 16 Apr 2020 02:44:07: #1 tags after filtering in treatment: 20376000 INFO @ Thu, 16 Apr 2020 02:44:07: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 16 Apr 2020 02:44:07: #1 finished! INFO @ Thu, 16 Apr 2020 02:44:07: #2 Build Peak Model... INFO @ Thu, 16 Apr 2020 02:44:07: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 16 Apr 2020 02:44:09: #2 number of paired peaks: 5008 INFO @ Thu, 16 Apr 2020 02:44:09: start model_add_line... INFO @ Thu, 16 Apr 2020 02:44:09: start X-correlation... INFO @ Thu, 16 Apr 2020 02:44:09: end of X-cor INFO @ Thu, 16 Apr 2020 02:44:09: #2 finished! INFO @ Thu, 16 Apr 2020 02:44:09: #2 predicted fragment length is 256 bps INFO @ Thu, 16 Apr 2020 02:44:09: #2 alternative fragment length(s) may be 256 bps INFO @ Thu, 16 Apr 2020 02:44:09: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX5436049/SRX5436049.10_model.r INFO @ Thu, 16 Apr 2020 02:44:09: #3 Call peaks... INFO @ Thu, 16 Apr 2020 02:44:09: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 16 Apr 2020 02:44:13: 16000000 INFO @ Thu, 16 Apr 2020 02:44:18: 17000000 INFO @ Thu, 16 Apr 2020 02:44:23: 18000000 INFO @ Thu, 16 Apr 2020 02:44:28: 19000000 INFO @ Thu, 16 Apr 2020 02:44:33: 20000000 INFO @ Thu, 16 Apr 2020 02:44:35: #1 tag size is determined as 50 bps INFO @ Thu, 16 Apr 2020 02:44:35: #1 tag size = 50 INFO @ Thu, 16 Apr 2020 02:44:35: #1 total tags in treatment: 20376000 INFO @ Thu, 16 Apr 2020 02:44:35: #1 user defined the maximum tags... INFO @ Thu, 16 Apr 2020 02:44:35: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 16 Apr 2020 02:44:35: #1 tags after filtering in treatment: 20376000 INFO @ Thu, 16 Apr 2020 02:44:35: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 16 Apr 2020 02:44:35: #1 finished! INFO @ Thu, 16 Apr 2020 02:44:35: #2 Build Peak Model... INFO @ Thu, 16 Apr 2020 02:44:35: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 16 Apr 2020 02:44:37: #3 Call peaks for each chromosome... INFO @ Thu, 16 Apr 2020 02:44:37: #2 number of paired peaks: 5008 INFO @ Thu, 16 Apr 2020 02:44:37: start model_add_line... INFO @ Thu, 16 Apr 2020 02:44:37: start X-correlation... INFO @ Thu, 16 Apr 2020 02:44:37: end of X-cor INFO @ Thu, 16 Apr 2020 02:44:37: #2 finished! INFO @ Thu, 16 Apr 2020 02:44:37: #2 predicted fragment length is 256 bps INFO @ Thu, 16 Apr 2020 02:44:37: #2 alternative fragment length(s) may be 256 bps INFO @ Thu, 16 Apr 2020 02:44:37: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX5436049/SRX5436049.20_model.r INFO @ Thu, 16 Apr 2020 02:44:37: #3 Call peaks... INFO @ Thu, 16 Apr 2020 02:44:37: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 16 Apr 2020 02:44:59: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX5436049/SRX5436049.05_peaks.xls INFO @ Thu, 16 Apr 2020 02:44:59: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX5436049/SRX5436049.05_peaks.narrowPeak INFO @ Thu, 16 Apr 2020 02:44:59: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX5436049/SRX5436049.05_summits.bed INFO @ Thu, 16 Apr 2020 02:44:59: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (10252 records, 4 fields): 11 millis CompletedMACS2peakCalling INFO @ Thu, 16 Apr 2020 02:45:12: #3 Call peaks for each chromosome... INFO @ Thu, 16 Apr 2020 02:45:34: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX5436049/SRX5436049.10_peaks.xls INFO @ Thu, 16 Apr 2020 02:45:34: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX5436049/SRX5436049.10_peaks.narrowPeak INFO @ Thu, 16 Apr 2020 02:45:34: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX5436049/SRX5436049.10_summits.bed INFO @ Thu, 16 Apr 2020 02:45:34: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (8652 records, 4 fields): 9 millis CompletedMACS2peakCalling INFO @ Thu, 16 Apr 2020 02:45:40: #3 Call peaks for each chromosome... INFO @ Thu, 16 Apr 2020 02:46:02: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX5436049/SRX5436049.20_peaks.xls INFO @ Thu, 16 Apr 2020 02:46:02: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX5436049/SRX5436049.20_peaks.narrowPeak INFO @ Thu, 16 Apr 2020 02:46:02: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX5436049/SRX5436049.20_summits.bed INFO @ Thu, 16 Apr 2020 02:46:02: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (6853 records, 4 fields): 8 millis CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。