Job ID = 6530062 SRX = SRX699546 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: 00:02:09 11307076 reads; of these: 11307076 (100.00%) were unpaired; of these: 1100502 (9.73%) aligned 0 times 8779656 (77.65%) aligned exactly 1 time 1426918 (12.62%) aligned >1 times 90.27% overall alignment rate Time searching: 00:02:09 Overall time: 00:02:09 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_rmdupse_core] 677762 / 10206574 = 0.0664 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 03:54:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX699546/SRX699546.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX699546/SRX699546.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX699546/SRX699546.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX699546/SRX699546.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 03:54:09: #1 read tag files... INFO @ Tue, 30 Jun 2020 03:54:09: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 03:54:16: 1000000 INFO @ Tue, 30 Jun 2020 03:54:23: 2000000 INFO @ Tue, 30 Jun 2020 03:54:30: 3000000 INFO @ Tue, 30 Jun 2020 03:54:37: 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 @ Tue, 30 Jun 2020 03:54:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX699546/SRX699546.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX699546/SRX699546.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX699546/SRX699546.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX699546/SRX699546.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 03:54:39: #1 read tag files... INFO @ Tue, 30 Jun 2020 03:54:39: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 03:54:44: 5000000 INFO @ Tue, 30 Jun 2020 03:54:47: 1000000 INFO @ Tue, 30 Jun 2020 03:54:51: 6000000 INFO @ Tue, 30 Jun 2020 03:54:55: 2000000 INFO @ Tue, 30 Jun 2020 03:54:58: 7000000 INFO @ Tue, 30 Jun 2020 03:55:02: 3000000 INFO @ Tue, 30 Jun 2020 03:55:05: 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 03:55:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX699546/SRX699546.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX699546/SRX699546.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX699546/SRX699546.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX699546/SRX699546.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 03:55:09: #1 read tag files... INFO @ Tue, 30 Jun 2020 03:55:09: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 03:55:10: 4000000 INFO @ Tue, 30 Jun 2020 03:55:13: 9000000 INFO @ Tue, 30 Jun 2020 03:55:17: 1000000 INFO @ Tue, 30 Jun 2020 03:55:17: 5000000 INFO @ Tue, 30 Jun 2020 03:55:18: #1 tag size is determined as 36 bps INFO @ Tue, 30 Jun 2020 03:55:18: #1 tag size = 36 INFO @ Tue, 30 Jun 2020 03:55:18: #1 total tags in treatment: 9528812 INFO @ Tue, 30 Jun 2020 03:55:18: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 03:55:18: #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 03:55:18: #1 tags after filtering in treatment: 9528800 INFO @ Tue, 30 Jun 2020 03:55:18: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 03:55:18: #1 finished! INFO @ Tue, 30 Jun 2020 03:55:18: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 03:55:18: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 03:55:19: #2 number of paired peaks: 120 WARNING @ Tue, 30 Jun 2020 03:55:19: Fewer paired peaks (120) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 120 pairs to build model! INFO @ Tue, 30 Jun 2020 03:55:19: start model_add_line... INFO @ Tue, 30 Jun 2020 03:55:19: start X-correlation... INFO @ Tue, 30 Jun 2020 03:55:19: end of X-cor INFO @ Tue, 30 Jun 2020 03:55:19: #2 finished! INFO @ Tue, 30 Jun 2020 03:55:19: #2 predicted fragment length is 78 bps INFO @ Tue, 30 Jun 2020 03:55:19: #2 alternative fragment length(s) may be 78 bps INFO @ Tue, 30 Jun 2020 03:55:19: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX699546/SRX699546.05_model.r INFO @ Tue, 30 Jun 2020 03:55:19: #3 Call peaks... INFO @ Tue, 30 Jun 2020 03:55:19: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 03:55:24: 2000000 INFO @ Tue, 30 Jun 2020 03:55:25: 6000000 INFO @ Tue, 30 Jun 2020 03:55:32: 3000000 INFO @ Tue, 30 Jun 2020 03:55:32: 7000000 INFO @ Tue, 30 Jun 2020 03:55:38: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 03:55:38: 4000000 INFO @ Tue, 30 Jun 2020 03:55:40: 8000000 INFO @ Tue, 30 Jun 2020 03:55:46: 5000000 INFO @ Tue, 30 Jun 2020 03:55:49: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX699546/SRX699546.05_peaks.xls INFO @ Tue, 30 Jun 2020 03:55:49: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX699546/SRX699546.05_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 03:55:49: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX699546/SRX699546.05_summits.bed INFO @ Tue, 30 Jun 2020 03:55:49: Done! INFO @ Tue, 30 Jun 2020 03:55:49: 9000000 pass1 - making usageList (121 chroms): 1 millis pass2 - checking and writing primary data (1309 records, 4 fields): 10 millis CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 03:55:52: 6000000 INFO @ Tue, 30 Jun 2020 03:55:54: #1 tag size is determined as 36 bps INFO @ Tue, 30 Jun 2020 03:55:54: #1 tag size = 36 INFO @ Tue, 30 Jun 2020 03:55:54: #1 total tags in treatment: 9528812 INFO @ Tue, 30 Jun 2020 03:55:54: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 03:55:54: #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 03:55:54: #1 tags after filtering in treatment: 9528800 INFO @ Tue, 30 Jun 2020 03:55:54: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 03:55:54: #1 finished! INFO @ Tue, 30 Jun 2020 03:55:54: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 03:55:54: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 03:55:55: #2 number of paired peaks: 120 WARNING @ Tue, 30 Jun 2020 03:55:55: Fewer paired peaks (120) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 120 pairs to build model! INFO @ Tue, 30 Jun 2020 03:55:55: start model_add_line... INFO @ Tue, 30 Jun 2020 03:55:55: start X-correlation... INFO @ Tue, 30 Jun 2020 03:55:55: end of X-cor INFO @ Tue, 30 Jun 2020 03:55:55: #2 finished! INFO @ Tue, 30 Jun 2020 03:55:55: #2 predicted fragment length is 78 bps INFO @ Tue, 30 Jun 2020 03:55:55: #2 alternative fragment length(s) may be 78 bps INFO @ Tue, 30 Jun 2020 03:55:55: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX699546/SRX699546.10_model.r INFO @ Tue, 30 Jun 2020 03:55:55: #3 Call peaks... INFO @ Tue, 30 Jun 2020 03:55:55: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 03:55:59: 7000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 03:56:06: 8000000 INFO @ Tue, 30 Jun 2020 03:56:14: 9000000 INFO @ Tue, 30 Jun 2020 03:56:14: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 03:56:18: #1 tag size is determined as 36 bps INFO @ Tue, 30 Jun 2020 03:56:18: #1 tag size = 36 INFO @ Tue, 30 Jun 2020 03:56:18: #1 total tags in treatment: 9528812 INFO @ Tue, 30 Jun 2020 03:56:18: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 03:56:18: #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 03:56:18: #1 tags after filtering in treatment: 9528800 INFO @ Tue, 30 Jun 2020 03:56:18: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 03:56:18: #1 finished! INFO @ Tue, 30 Jun 2020 03:56:18: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 03:56:18: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 03:56:19: #2 number of paired peaks: 120 WARNING @ Tue, 30 Jun 2020 03:56:19: Fewer paired peaks (120) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 120 pairs to build model! INFO @ Tue, 30 Jun 2020 03:56:19: start model_add_line... INFO @ Tue, 30 Jun 2020 03:56:19: start X-correlation... INFO @ Tue, 30 Jun 2020 03:56:19: end of X-cor INFO @ Tue, 30 Jun 2020 03:56:19: #2 finished! INFO @ Tue, 30 Jun 2020 03:56:19: #2 predicted fragment length is 78 bps INFO @ Tue, 30 Jun 2020 03:56:19: #2 alternative fragment length(s) may be 78 bps INFO @ Tue, 30 Jun 2020 03:56:19: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX699546/SRX699546.20_model.r INFO @ Tue, 30 Jun 2020 03:56:19: #3 Call peaks... INFO @ Tue, 30 Jun 2020 03:56:19: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 03:56:24: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX699546/SRX699546.10_peaks.xls INFO @ Tue, 30 Jun 2020 03:56:24: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX699546/SRX699546.10_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 03:56:24: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX699546/SRX699546.10_summits.bed INFO @ Tue, 30 Jun 2020 03:56:24: Done! pass1 - making usageList (93 chroms): 1 millis pass2 - checking and writing primary data (342 records, 4 fields): 7 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Tue, 30 Jun 2020 03:56:38: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 03:56:48: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX699546/SRX699546.20_peaks.xls INFO @ Tue, 30 Jun 2020 03:56:48: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX699546/SRX699546.20_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 03:56:48: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX699546/SRX699546.20_summits.bed INFO @ Tue, 30 Jun 2020 03:56:48: Done! pass1 - making usageList (76 chroms): 1 millis pass2 - checking and writing primary data (158 records, 4 fields): 5 millis CompletedMACS2peakCalling