Job ID = 6529164 SRX = SRX025464 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: 00:00:01 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:06:41 31022681 reads; of these: 31022681 (100.00%) were unpaired; of these: 520953 (1.68%) aligned 0 times 25442162 (82.01%) aligned exactly 1 time 5059566 (16.31%) aligned >1 times 98.32% overall alignment rate Time searching: 00:06:42 Overall time: 00:06:42 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 8 files... [bam_rmdupse_core] 12854415 / 30501728 = 0.4214 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 01:38:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX025464/SRX025464.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX025464/SRX025464.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX025464/SRX025464.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX025464/SRX025464.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 01:38:57: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:38:57: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:39:03: 1000000 INFO @ Tue, 30 Jun 2020 01:39:08: 2000000 INFO @ Tue, 30 Jun 2020 01:39:14: 3000000 INFO @ Tue, 30 Jun 2020 01:39:19: 4000000 INFO @ Tue, 30 Jun 2020 01:39:24: 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 @ Tue, 30 Jun 2020 01:39:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX025464/SRX025464.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX025464/SRX025464.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX025464/SRX025464.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX025464/SRX025464.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 01:39:27: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:39:27: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:39:30: 6000000 INFO @ Tue, 30 Jun 2020 01:39:33: 1000000 INFO @ Tue, 30 Jun 2020 01:39:37: 7000000 INFO @ Tue, 30 Jun 2020 01:39:40: 2000000 INFO @ Tue, 30 Jun 2020 01:39:43: 8000000 INFO @ Tue, 30 Jun 2020 01:39:47: 3000000 INFO @ Tue, 30 Jun 2020 01:39:50: 9000000 INFO @ Tue, 30 Jun 2020 01:39:53: 4000000 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 01:39:56: 10000000 INFO @ Tue, 30 Jun 2020 01:39:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX025464/SRX025464.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX025464/SRX025464.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX025464/SRX025464.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX025464/SRX025464.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 01:39:57: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:39:57: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:40:00: 5000000 INFO @ Tue, 30 Jun 2020 01:40:03: 11000000 INFO @ Tue, 30 Jun 2020 01:40:03: 1000000 INFO @ Tue, 30 Jun 2020 01:40:06: 6000000 INFO @ Tue, 30 Jun 2020 01:40:09: 12000000 INFO @ Tue, 30 Jun 2020 01:40:10: 2000000 INFO @ Tue, 30 Jun 2020 01:40:13: 7000000 INFO @ Tue, 30 Jun 2020 01:40:16: 13000000 INFO @ Tue, 30 Jun 2020 01:40:17: 3000000 INFO @ Tue, 30 Jun 2020 01:40:19: 8000000 INFO @ Tue, 30 Jun 2020 01:40:22: 14000000 INFO @ Tue, 30 Jun 2020 01:40:23: 4000000 INFO @ Tue, 30 Jun 2020 01:40:26: 9000000 INFO @ Tue, 30 Jun 2020 01:40:29: 15000000 INFO @ Tue, 30 Jun 2020 01:40:30: 5000000 INFO @ Tue, 30 Jun 2020 01:40:33: 10000000 INFO @ Tue, 30 Jun 2020 01:40:34: 16000000 INFO @ Tue, 30 Jun 2020 01:40:37: 6000000 INFO @ Tue, 30 Jun 2020 01:40:39: 11000000 INFO @ Tue, 30 Jun 2020 01:40:40: 17000000 INFO @ Tue, 30 Jun 2020 01:40:43: 7000000 INFO @ Tue, 30 Jun 2020 01:40:45: #1 tag size is determined as 36 bps INFO @ Tue, 30 Jun 2020 01:40:45: #1 tag size = 36 INFO @ Tue, 30 Jun 2020 01:40:45: #1 total tags in treatment: 17647313 INFO @ Tue, 30 Jun 2020 01:40:45: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:40:45: #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 01:40:45: #1 tags after filtering in treatment: 17647295 INFO @ Tue, 30 Jun 2020 01:40:45: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 01:40:45: #1 finished! INFO @ Tue, 30 Jun 2020 01:40:45: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:40:45: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:40:46: 12000000 INFO @ Tue, 30 Jun 2020 01:40:46: #2 number of paired peaks: 288 WARNING @ Tue, 30 Jun 2020 01:40:46: Fewer paired peaks (288) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 288 pairs to build model! INFO @ Tue, 30 Jun 2020 01:40:46: start model_add_line... INFO @ Tue, 30 Jun 2020 01:40:46: start X-correlation... INFO @ Tue, 30 Jun 2020 01:40:46: end of X-cor INFO @ Tue, 30 Jun 2020 01:40:46: #2 finished! INFO @ Tue, 30 Jun 2020 01:40:46: #2 predicted fragment length is 181 bps INFO @ Tue, 30 Jun 2020 01:40:46: #2 alternative fragment length(s) may be 181 bps INFO @ Tue, 30 Jun 2020 01:40:46: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX025464/SRX025464.05_model.r INFO @ Tue, 30 Jun 2020 01:40:46: #3 Call peaks... INFO @ Tue, 30 Jun 2020 01:40:46: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 01:40:50: 8000000 INFO @ Tue, 30 Jun 2020 01:40:52: 13000000 INFO @ Tue, 30 Jun 2020 01:40:56: 9000000 INFO @ Tue, 30 Jun 2020 01:40:59: 14000000 INFO @ Tue, 30 Jun 2020 01:41:03: 10000000 INFO @ Tue, 30 Jun 2020 01:41:05: 15000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 01:41:09: 11000000 INFO @ Tue, 30 Jun 2020 01:41:12: 16000000 INFO @ Tue, 30 Jun 2020 01:41:16: 12000000 INFO @ Tue, 30 Jun 2020 01:41:18: 17000000 INFO @ Tue, 30 Jun 2020 01:41:20: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 01:41:22: 13000000 INFO @ Tue, 30 Jun 2020 01:41:23: #1 tag size is determined as 36 bps INFO @ Tue, 30 Jun 2020 01:41:23: #1 tag size = 36 INFO @ Tue, 30 Jun 2020 01:41:23: #1 total tags in treatment: 17647313 INFO @ Tue, 30 Jun 2020 01:41:23: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:41:23: #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 01:41:23: #1 tags after filtering in treatment: 17647295 INFO @ Tue, 30 Jun 2020 01:41:23: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 01:41:23: #1 finished! INFO @ Tue, 30 Jun 2020 01:41:23: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:41:23: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:41:24: #2 number of paired peaks: 288 WARNING @ Tue, 30 Jun 2020 01:41:24: Fewer paired peaks (288) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 288 pairs to build model! INFO @ Tue, 30 Jun 2020 01:41:24: start model_add_line... INFO @ Tue, 30 Jun 2020 01:41:24: start X-correlation... INFO @ Tue, 30 Jun 2020 01:41:24: end of X-cor INFO @ Tue, 30 Jun 2020 01:41:24: #2 finished! INFO @ Tue, 30 Jun 2020 01:41:24: #2 predicted fragment length is 181 bps INFO @ Tue, 30 Jun 2020 01:41:24: #2 alternative fragment length(s) may be 181 bps INFO @ Tue, 30 Jun 2020 01:41:24: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX025464/SRX025464.10_model.r INFO @ Tue, 30 Jun 2020 01:41:24: #3 Call peaks... INFO @ Tue, 30 Jun 2020 01:41:24: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 01:41:28: 14000000 INFO @ Tue, 30 Jun 2020 01:41:34: 15000000 INFO @ Tue, 30 Jun 2020 01:41:38: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX025464/SRX025464.05_peaks.xls INFO @ Tue, 30 Jun 2020 01:41:38: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX025464/SRX025464.05_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 01:41:38: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX025464/SRX025464.05_summits.bed INFO @ Tue, 30 Jun 2020 01:41:38: Done! pass1 - making usageList (556 chroms): 1 millis pass2 - checking and writing primary data (2788 records, 4 fields): 16 millis CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 01:41:40: 16000000 BigWig に変換しました。 INFO @ Tue, 30 Jun 2020 01:41:46: 17000000 INFO @ Tue, 30 Jun 2020 01:41:50: #1 tag size is determined as 36 bps INFO @ Tue, 30 Jun 2020 01:41:50: #1 tag size = 36 INFO @ Tue, 30 Jun 2020 01:41:50: #1 total tags in treatment: 17647313 INFO @ Tue, 30 Jun 2020 01:41:50: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:41:50: #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 01:41:51: #1 tags after filtering in treatment: 17647295 INFO @ Tue, 30 Jun 2020 01:41:51: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 01:41:51: #1 finished! INFO @ Tue, 30 Jun 2020 01:41:51: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:41:51: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:41:52: #2 number of paired peaks: 288 WARNING @ Tue, 30 Jun 2020 01:41:52: Fewer paired peaks (288) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 288 pairs to build model! INFO @ Tue, 30 Jun 2020 01:41:52: start model_add_line... INFO @ Tue, 30 Jun 2020 01:41:52: start X-correlation... INFO @ Tue, 30 Jun 2020 01:41:52: end of X-cor INFO @ Tue, 30 Jun 2020 01:41:52: #2 finished! INFO @ Tue, 30 Jun 2020 01:41:52: #2 predicted fragment length is 181 bps INFO @ Tue, 30 Jun 2020 01:41:52: #2 alternative fragment length(s) may be 181 bps INFO @ Tue, 30 Jun 2020 01:41:52: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX025464/SRX025464.20_model.r INFO @ Tue, 30 Jun 2020 01:41:52: #3 Call peaks... INFO @ Tue, 30 Jun 2020 01:41:52: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 01:41:58: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 01:42:13: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX025464/SRX025464.10_peaks.xls INFO @ Tue, 30 Jun 2020 01:42:13: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX025464/SRX025464.10_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 01:42:13: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX025464/SRX025464.10_summits.bed INFO @ Tue, 30 Jun 2020 01:42:13: Done! pass1 - making usageList (438 chroms): 2 millis pass2 - checking and writing primary data (1282 records, 4 fields): 12 millis CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 01:42:26: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 01:42:41: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX025464/SRX025464.20_peaks.xls INFO @ Tue, 30 Jun 2020 01:42:41: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX025464/SRX025464.20_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 01:42:41: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX025464/SRX025464.20_summits.bed INFO @ Tue, 30 Jun 2020 01:42:41: Done! pass1 - making usageList (277 chroms): 1 millis pass2 - checking and writing primary data (562 records, 4 fields): 9 millis CompletedMACS2peakCalling