Job ID = 6530055 SRX = SRX6827254 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 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: 00:06:48 36391993 reads; of these: 36391993 (100.00%) were unpaired; of these: 14725974 (40.46%) aligned 0 times 18743807 (51.51%) aligned exactly 1 time 2922212 (8.03%) aligned >1 times 59.54% overall alignment rate Time searching: 00:06:48 Overall time: 00:06:48 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] 3402657 / 21666019 = 0.1571 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 @ Tue, 30 Jun 2020 03:27:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX6827254/SRX6827254.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX6827254/SRX6827254.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX6827254/SRX6827254.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX6827254/SRX6827254.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 @ Tue, 30 Jun 2020 03:27:28: #1 read tag files... INFO @ Tue, 30 Jun 2020 03:27:28: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 03:27:35: 1000000 INFO @ Tue, 30 Jun 2020 03:27:43: 2000000 INFO @ Tue, 30 Jun 2020 03:27:50: 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 @ Tue, 30 Jun 2020 03:27:57: 4000000 INFO @ Tue, 30 Jun 2020 03:27:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX6827254/SRX6827254.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX6827254/SRX6827254.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX6827254/SRX6827254.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX6827254/SRX6827254.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 @ Tue, 30 Jun 2020 03:27:58: #1 read tag files... INFO @ Tue, 30 Jun 2020 03:27:58: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 03:28:04: 5000000 INFO @ Tue, 30 Jun 2020 03:28:05: 1000000 INFO @ Tue, 30 Jun 2020 03:28:11: 6000000 INFO @ Tue, 30 Jun 2020 03:28:12: 2000000 INFO @ Tue, 30 Jun 2020 03:28:18: 7000000 INFO @ Tue, 30 Jun 2020 03:28:19: 3000000 INFO @ Tue, 30 Jun 2020 03:28:25: 4000000 INFO @ Tue, 30 Jun 2020 03:28:25: 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 @ Tue, 30 Jun 2020 03:28:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX6827254/SRX6827254.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX6827254/SRX6827254.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX6827254/SRX6827254.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX6827254/SRX6827254.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 @ Tue, 30 Jun 2020 03:28:28: #1 read tag files... INFO @ Tue, 30 Jun 2020 03:28:28: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 03:28:32: 5000000 INFO @ Tue, 30 Jun 2020 03:28:33: 9000000 INFO @ Tue, 30 Jun 2020 03:28:36: 1000000 INFO @ Tue, 30 Jun 2020 03:28:38: 6000000 INFO @ Tue, 30 Jun 2020 03:28:40: 10000000 INFO @ Tue, 30 Jun 2020 03:28:43: 2000000 INFO @ Tue, 30 Jun 2020 03:28:45: 7000000 INFO @ Tue, 30 Jun 2020 03:28:48: 11000000 INFO @ Tue, 30 Jun 2020 03:28:50: 3000000 INFO @ Tue, 30 Jun 2020 03:28:51: 8000000 INFO @ Tue, 30 Jun 2020 03:28:55: 12000000 INFO @ Tue, 30 Jun 2020 03:28:58: 9000000 INFO @ Tue, 30 Jun 2020 03:28:58: 4000000 INFO @ Tue, 30 Jun 2020 03:29:03: 13000000 INFO @ Tue, 30 Jun 2020 03:29:04: 10000000 INFO @ Tue, 30 Jun 2020 03:29:05: 5000000 INFO @ Tue, 30 Jun 2020 03:29:10: 14000000 INFO @ Tue, 30 Jun 2020 03:29:11: 11000000 INFO @ Tue, 30 Jun 2020 03:29:13: 6000000 INFO @ Tue, 30 Jun 2020 03:29:17: 12000000 INFO @ Tue, 30 Jun 2020 03:29:18: 15000000 INFO @ Tue, 30 Jun 2020 03:29:20: 7000000 INFO @ Tue, 30 Jun 2020 03:29:23: 13000000 INFO @ Tue, 30 Jun 2020 03:29:25: 16000000 INFO @ Tue, 30 Jun 2020 03:29:27: 8000000 INFO @ Tue, 30 Jun 2020 03:29:29: 14000000 INFO @ Tue, 30 Jun 2020 03:29:32: 17000000 INFO @ Tue, 30 Jun 2020 03:29:34: 9000000 INFO @ Tue, 30 Jun 2020 03:29:35: 15000000 INFO @ Tue, 30 Jun 2020 03:29:39: 18000000 INFO @ Tue, 30 Jun 2020 03:29:41: 10000000 INFO @ Tue, 30 Jun 2020 03:29:41: #1 tag size is determined as 51 bps INFO @ Tue, 30 Jun 2020 03:29:41: #1 tag size = 51 INFO @ Tue, 30 Jun 2020 03:29:41: #1 total tags in treatment: 18263362 INFO @ Tue, 30 Jun 2020 03:29:41: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 03:29:41: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 03:29:41: 16000000 INFO @ Tue, 30 Jun 2020 03:29:42: #1 tags after filtering in treatment: 18263319 INFO @ Tue, 30 Jun 2020 03:29:42: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 03:29:42: #1 finished! INFO @ Tue, 30 Jun 2020 03:29:42: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 03:29:42: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 03:29:43: #2 number of paired peaks: 156 WARNING @ Tue, 30 Jun 2020 03:29:43: Fewer paired peaks (156) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 156 pairs to build model! INFO @ Tue, 30 Jun 2020 03:29:43: start model_add_line... INFO @ Tue, 30 Jun 2020 03:29:43: start X-correlation... INFO @ Tue, 30 Jun 2020 03:29:43: end of X-cor INFO @ Tue, 30 Jun 2020 03:29:43: #2 finished! INFO @ Tue, 30 Jun 2020 03:29:43: #2 predicted fragment length is 188 bps INFO @ Tue, 30 Jun 2020 03:29:43: #2 alternative fragment length(s) may be 188 bps INFO @ Tue, 30 Jun 2020 03:29:43: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX6827254/SRX6827254.05_model.r INFO @ Tue, 30 Jun 2020 03:29:43: #3 Call peaks... INFO @ Tue, 30 Jun 2020 03:29:43: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 03:29:47: 17000000 INFO @ Tue, 30 Jun 2020 03:29:48: 11000000 INFO @ Tue, 30 Jun 2020 03:29:53: 18000000 INFO @ Tue, 30 Jun 2020 03:29:54: 12000000 INFO @ Tue, 30 Jun 2020 03:29:55: #1 tag size is determined as 51 bps INFO @ Tue, 30 Jun 2020 03:29:55: #1 tag size = 51 INFO @ Tue, 30 Jun 2020 03:29:55: #1 total tags in treatment: 18263362 INFO @ Tue, 30 Jun 2020 03:29:55: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 03:29:55: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 03:29:56: #1 tags after filtering in treatment: 18263319 INFO @ Tue, 30 Jun 2020 03:29:56: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 03:29:56: #1 finished! INFO @ Tue, 30 Jun 2020 03:29:56: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 03:29:56: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 03:29:57: #2 number of paired peaks: 156 WARNING @ Tue, 30 Jun 2020 03:29:57: Fewer paired peaks (156) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 156 pairs to build model! INFO @ Tue, 30 Jun 2020 03:29:57: start model_add_line... INFO @ Tue, 30 Jun 2020 03:29:57: start X-correlation... INFO @ Tue, 30 Jun 2020 03:29:57: end of X-cor INFO @ Tue, 30 Jun 2020 03:29:57: #2 finished! INFO @ Tue, 30 Jun 2020 03:29:57: #2 predicted fragment length is 188 bps INFO @ Tue, 30 Jun 2020 03:29:57: #2 alternative fragment length(s) may be 188 bps INFO @ Tue, 30 Jun 2020 03:29:57: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX6827254/SRX6827254.10_model.r INFO @ Tue, 30 Jun 2020 03:29:57: #3 Call peaks... INFO @ Tue, 30 Jun 2020 03:29:57: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 03:30:01: 13000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 03:30:08: 14000000 INFO @ Tue, 30 Jun 2020 03:30:16: 15000000 INFO @ Tue, 30 Jun 2020 03:30:22: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 03:30:22: 16000000 INFO @ Tue, 30 Jun 2020 03:30:29: 17000000 INFO @ Tue, 30 Jun 2020 03:30:34: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 03:30:35: 18000000 INFO @ Tue, 30 Jun 2020 03:30:37: #1 tag size is determined as 51 bps INFO @ Tue, 30 Jun 2020 03:30:37: #1 tag size = 51 INFO @ Tue, 30 Jun 2020 03:30:37: #1 total tags in treatment: 18263362 INFO @ Tue, 30 Jun 2020 03:30:37: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 03:30:37: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 03:30:37: #1 tags after filtering in treatment: 18263319 INFO @ Tue, 30 Jun 2020 03:30:37: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 03:30:37: #1 finished! INFO @ Tue, 30 Jun 2020 03:30:37: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 03:30:37: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 03:30:39: #2 number of paired peaks: 156 WARNING @ Tue, 30 Jun 2020 03:30:39: Fewer paired peaks (156) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 156 pairs to build model! INFO @ Tue, 30 Jun 2020 03:30:39: start model_add_line... INFO @ Tue, 30 Jun 2020 03:30:39: start X-correlation... INFO @ Tue, 30 Jun 2020 03:30:39: end of X-cor INFO @ Tue, 30 Jun 2020 03:30:39: #2 finished! INFO @ Tue, 30 Jun 2020 03:30:39: #2 predicted fragment length is 188 bps INFO @ Tue, 30 Jun 2020 03:30:39: #2 alternative fragment length(s) may be 188 bps INFO @ Tue, 30 Jun 2020 03:30:39: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX6827254/SRX6827254.20_model.r INFO @ Tue, 30 Jun 2020 03:30:39: #3 Call peaks... INFO @ Tue, 30 Jun 2020 03:30:39: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 03:30:44: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX6827254/SRX6827254.05_peaks.xls INFO @ Tue, 30 Jun 2020 03:30:44: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX6827254/SRX6827254.05_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 03:30:44: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX6827254/SRX6827254.05_summits.bed INFO @ Tue, 30 Jun 2020 03:30:44: Done! pass1 - making usageList (330 chroms): 4 millis pass2 - checking and writing primary data (18526 records, 4 fields): 39 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Tue, 30 Jun 2020 03:30:54: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX6827254/SRX6827254.10_peaks.xls INFO @ Tue, 30 Jun 2020 03:30:54: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX6827254/SRX6827254.10_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 03:30:54: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX6827254/SRX6827254.10_summits.bed INFO @ Tue, 30 Jun 2020 03:30:54: Done! pass1 - making usageList (248 chroms): 2 millis pass2 - checking and writing primary data (8163 records, 4 fields): 23 millis CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 03:31:17: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 03:31:38: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX6827254/SRX6827254.20_peaks.xls INFO @ Tue, 30 Jun 2020 03:31:38: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX6827254/SRX6827254.20_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 03:31:38: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX6827254/SRX6827254.20_summits.bed INFO @ Tue, 30 Jun 2020 03:31:38: Done! pass1 - making usageList (153 chroms): 1 millis pass2 - checking and writing primary data (2278 records, 4 fields): 12 millis CompletedMACS2peakCalling