Job ID = 6530106 SRX = SRX969919 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: 00:00:00 48165 reads; of these: 48165 (100.00%) were unpaired; of these: 39852 (82.74%) aligned 0 times 6549 (13.60%) aligned exactly 1 time 1764 (3.66%) aligned >1 times 17.26% overall alignment rate Time searching: 00:00:00 Overall time: 00:00:00 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] 37 / 8313 = 0.0045 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 03:19:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX969919/SRX969919.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX969919/SRX969919.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX969919/SRX969919.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX969919/SRX969919.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 03:19:05: #1 read tag files... INFO @ Tue, 30 Jun 2020 03:19:05: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 03:19:05: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 03:19:05: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 03:19:05: #1 total tags in treatment: 8276 INFO @ Tue, 30 Jun 2020 03:19:05: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 03:19:05: #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 03:19:05: #1 tags after filtering in treatment: 8105 INFO @ Tue, 30 Jun 2020 03:19:05: #1 Redundant rate of treatment: 0.02 INFO @ Tue, 30 Jun 2020 03:19:05: #1 finished! INFO @ Tue, 30 Jun 2020 03:19:05: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 03:19:05: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 03:19:05: #2 number of paired peaks: 115 WARNING @ Tue, 30 Jun 2020 03:19:05: Fewer paired peaks (115) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 115 pairs to build model! INFO @ Tue, 30 Jun 2020 03:19:05: start model_add_line... INFO @ Tue, 30 Jun 2020 03:19:05: start X-correlation... INFO @ Tue, 30 Jun 2020 03:19:05: end of X-cor INFO @ Tue, 30 Jun 2020 03:19:05: #2 finished! INFO @ Tue, 30 Jun 2020 03:19:05: #2 predicted fragment length is 345 bps INFO @ Tue, 30 Jun 2020 03:19:05: #2 alternative fragment length(s) may be 9,36,156,177,212,230,257,266,308,332,345,399,446,486,527 bps INFO @ Tue, 30 Jun 2020 03:19:05: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX969919/SRX969919.05_model.r INFO @ Tue, 30 Jun 2020 03:19:05: #3 Call peaks... INFO @ Tue, 30 Jun 2020 03:19:05: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 03:19:05: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 03:19:05: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX969919/SRX969919.05_peaks.xls INFO @ Tue, 30 Jun 2020 03:19:05: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX969919/SRX969919.05_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 03:19:05: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX969919/SRX969919.05_summits.bed INFO @ Tue, 30 Jun 2020 03:19:05: Done! pass1 - making usageList (1 chroms): 1 millis pass2 - checking and writing primary data (1 records, 4 fields): 1 millis CompletedMACS2peakCalling 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 03:19:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX969919/SRX969919.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX969919/SRX969919.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX969919/SRX969919.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX969919/SRX969919.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 03:19:35: #1 read tag files... INFO @ Tue, 30 Jun 2020 03:19:35: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 03:19:35: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 03:19:35: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 03:19:35: #1 total tags in treatment: 8276 INFO @ Tue, 30 Jun 2020 03:19:35: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 03:19:35: #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 03:19:35: #1 tags after filtering in treatment: 8105 INFO @ Tue, 30 Jun 2020 03:19:35: #1 Redundant rate of treatment: 0.02 INFO @ Tue, 30 Jun 2020 03:19:35: #1 finished! INFO @ Tue, 30 Jun 2020 03:19:35: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 03:19:35: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 03:19:35: #2 number of paired peaks: 115 WARNING @ Tue, 30 Jun 2020 03:19:35: Fewer paired peaks (115) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 115 pairs to build model! INFO @ Tue, 30 Jun 2020 03:19:35: start model_add_line... INFO @ Tue, 30 Jun 2020 03:19:35: start X-correlation... INFO @ Tue, 30 Jun 2020 03:19:35: end of X-cor INFO @ Tue, 30 Jun 2020 03:19:35: #2 finished! INFO @ Tue, 30 Jun 2020 03:19:35: #2 predicted fragment length is 345 bps INFO @ Tue, 30 Jun 2020 03:19:35: #2 alternative fragment length(s) may be 9,36,156,177,212,230,257,266,308,332,345,399,446,486,527 bps INFO @ Tue, 30 Jun 2020 03:19:35: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX969919/SRX969919.10_model.r INFO @ Tue, 30 Jun 2020 03:19:35: #3 Call peaks... INFO @ Tue, 30 Jun 2020 03:19:35: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 03:19:35: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 03:19:35: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX969919/SRX969919.10_peaks.xls INFO @ Tue, 30 Jun 2020 03:19:35: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX969919/SRX969919.10_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 03:19:35: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX969919/SRX969919.10_summits.bed INFO @ Tue, 30 Jun 2020 03:19:35: Done! pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling 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 BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。 INFO @ Tue, 30 Jun 2020 03:20:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX969919/SRX969919.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX969919/SRX969919.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX969919/SRX969919.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX969919/SRX969919.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 03:20:05: #1 read tag files... INFO @ Tue, 30 Jun 2020 03:20:05: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 03:20:05: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 03:20:05: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 03:20:05: #1 total tags in treatment: 8276 INFO @ Tue, 30 Jun 2020 03:20:05: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 03:20:05: #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 03:20:05: #1 tags after filtering in treatment: 8105 INFO @ Tue, 30 Jun 2020 03:20:05: #1 Redundant rate of treatment: 0.02 INFO @ Tue, 30 Jun 2020 03:20:05: #1 finished! INFO @ Tue, 30 Jun 2020 03:20:05: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 03:20:05: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 03:20:05: #2 number of paired peaks: 115 WARNING @ Tue, 30 Jun 2020 03:20:05: Fewer paired peaks (115) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 115 pairs to build model! INFO @ Tue, 30 Jun 2020 03:20:05: start model_add_line... INFO @ Tue, 30 Jun 2020 03:20:05: start X-correlation... INFO @ Tue, 30 Jun 2020 03:20:05: end of X-cor INFO @ Tue, 30 Jun 2020 03:20:05: #2 finished! INFO @ Tue, 30 Jun 2020 03:20:05: #2 predicted fragment length is 345 bps INFO @ Tue, 30 Jun 2020 03:20:05: #2 alternative fragment length(s) may be 9,36,156,177,212,230,257,266,308,332,345,399,446,486,527 bps INFO @ Tue, 30 Jun 2020 03:20:05: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX969919/SRX969919.20_model.r INFO @ Tue, 30 Jun 2020 03:20:05: #3 Call peaks... INFO @ Tue, 30 Jun 2020 03:20:05: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 03:20:05: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 03:20:05: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX969919/SRX969919.20_peaks.xls INFO @ Tue, 30 Jun 2020 03:20:05: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX969919/SRX969919.20_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 03:20:05: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX969919/SRX969919.20_summits.bed INFO @ Tue, 30 Jun 2020 03:20:05: Done! pass1 - making usageList (0 chroms): 3 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling