Job ID = 14167214 SRX = SRX8491176 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 5294970 spots for SRR11946768/SRR11946768.sra Written 5294970 spots for SRR11946768/SRR11946768.sra fastq に変換しました。 bowtie でマッピング中... Your job 14167932 ("srTdm6") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:00:52 5294970 reads; of these: 5294970 (100.00%) were unpaired; of these: 1566190 (29.58%) aligned 0 times 3717535 (70.21%) aligned exactly 1 time 11245 (0.21%) aligned >1 times 70.42% overall alignment rate Time searching: 00:00:52 Overall time: 00:00:52 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_rmdupse_core] 543221 / 3728780 = 0.1457 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/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Fri, 10 Dec 2021 11:46:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX8491176/SRX8491176.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX8491176/SRX8491176.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX8491176/SRX8491176.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX8491176/SRX8491176.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 @ Fri, 10 Dec 2021 11:46:41: #1 read tag files... INFO @ Fri, 10 Dec 2021 11:46:41: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 11:46:48: 1000000 INFO @ Fri, 10 Dec 2021 11:46:55: 2000000 INFO @ Fri, 10 Dec 2021 11:47:02: 3000000 INFO @ Fri, 10 Dec 2021 11:47:03: #1 tag size is determined as 50 bps INFO @ Fri, 10 Dec 2021 11:47:03: #1 tag size = 50 INFO @ Fri, 10 Dec 2021 11:47:03: #1 total tags in treatment: 3185559 INFO @ Fri, 10 Dec 2021 11:47:03: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 11:47:03: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Dec 2021 11:47:03: #1 tags after filtering in treatment: 3185558 INFO @ Fri, 10 Dec 2021 11:47:03: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 11:47:03: #1 finished! INFO @ Fri, 10 Dec 2021 11:47:03: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 11:47:03: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 11:47:03: #2 number of paired peaks: 946 WARNING @ Fri, 10 Dec 2021 11:47:03: Fewer paired peaks (946) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 946 pairs to build model! INFO @ Fri, 10 Dec 2021 11:47:03: start model_add_line... INFO @ Fri, 10 Dec 2021 11:47:03: start X-correlation... INFO @ Fri, 10 Dec 2021 11:47:03: end of X-cor INFO @ Fri, 10 Dec 2021 11:47:03: #2 finished! INFO @ Fri, 10 Dec 2021 11:47:03: #2 predicted fragment length is 182 bps INFO @ Fri, 10 Dec 2021 11:47:03: #2 alternative fragment length(s) may be 3,182,210,231 bps INFO @ Fri, 10 Dec 2021 11:47:03: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX8491176/SRX8491176.05_model.r INFO @ Fri, 10 Dec 2021 11:47:03: #3 Call peaks... INFO @ Fri, 10 Dec 2021 11:47:03: #3 Pre-compute pvalue-qvalue table... WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Fri, 10 Dec 2021 11:47:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX8491176/SRX8491176.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX8491176/SRX8491176.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX8491176/SRX8491176.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX8491176/SRX8491176.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 @ Fri, 10 Dec 2021 11:47:11: #1 read tag files... INFO @ Fri, 10 Dec 2021 11:47:11: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 11:47:11: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 11:47:15: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX8491176/SRX8491176.05_peaks.xls INFO @ Fri, 10 Dec 2021 11:47:15: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX8491176/SRX8491176.05_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 11:47:15: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX8491176/SRX8491176.05_summits.bed INFO @ Fri, 10 Dec 2021 11:47:15: Done! pass1 - making usageList (8 chroms): 1 millis pass2 - checking and writing primary data (275 records, 4 fields): 1 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 11:47:19: 1000000 INFO @ Fri, 10 Dec 2021 11:47:26: 2000000 INFO @ Fri, 10 Dec 2021 11:47:32: 3000000 INFO @ Fri, 10 Dec 2021 11:47:33: #1 tag size is determined as 50 bps INFO @ Fri, 10 Dec 2021 11:47:33: #1 tag size = 50 INFO @ Fri, 10 Dec 2021 11:47:33: #1 total tags in treatment: 3185559 INFO @ Fri, 10 Dec 2021 11:47:33: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 11:47:33: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Dec 2021 11:47:33: #1 tags after filtering in treatment: 3185558 INFO @ Fri, 10 Dec 2021 11:47:33: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 11:47:33: #1 finished! INFO @ Fri, 10 Dec 2021 11:47:33: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 11:47:33: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 11:47:34: #2 number of paired peaks: 946 WARNING @ Fri, 10 Dec 2021 11:47:34: Fewer paired peaks (946) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 946 pairs to build model! INFO @ Fri, 10 Dec 2021 11:47:34: start model_add_line... INFO @ Fri, 10 Dec 2021 11:47:34: start X-correlation... INFO @ Fri, 10 Dec 2021 11:47:34: end of X-cor INFO @ Fri, 10 Dec 2021 11:47:34: #2 finished! INFO @ Fri, 10 Dec 2021 11:47:34: #2 predicted fragment length is 182 bps INFO @ Fri, 10 Dec 2021 11:47:34: #2 alternative fragment length(s) may be 3,182,210,231 bps INFO @ Fri, 10 Dec 2021 11:47:34: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX8491176/SRX8491176.10_model.r INFO @ Fri, 10 Dec 2021 11:47:34: #3 Call peaks... INFO @ Fri, 10 Dec 2021 11:47:34: #3 Pre-compute pvalue-qvalue table... BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Fri, 10 Dec 2021 11:47:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX8491176/SRX8491176.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX8491176/SRX8491176.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX8491176/SRX8491176.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX8491176/SRX8491176.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 @ Fri, 10 Dec 2021 11:47:41: #1 read tag files... INFO @ Fri, 10 Dec 2021 11:47:41: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 11:47:41: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 11:47:45: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX8491176/SRX8491176.10_peaks.xls INFO @ Fri, 10 Dec 2021 11:47:45: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX8491176/SRX8491176.10_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 11:47:45: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX8491176/SRX8491176.10_summits.bed INFO @ Fri, 10 Dec 2021 11:47:45: Done! pass1 - making usageList (7 chroms): 0 millis pass2 - checking and writing primary data (11 records, 4 fields): 1 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 11:47:48: 1000000 INFO @ Fri, 10 Dec 2021 11:47:55: 2000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 10 Dec 2021 11:48:01: 3000000 INFO @ Fri, 10 Dec 2021 11:48:03: #1 tag size is determined as 50 bps INFO @ Fri, 10 Dec 2021 11:48:03: #1 tag size = 50 INFO @ Fri, 10 Dec 2021 11:48:03: #1 total tags in treatment: 3185559 INFO @ Fri, 10 Dec 2021 11:48:03: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 11:48:03: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Dec 2021 11:48:03: #1 tags after filtering in treatment: 3185558 INFO @ Fri, 10 Dec 2021 11:48:03: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 11:48:03: #1 finished! INFO @ Fri, 10 Dec 2021 11:48:03: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 11:48:03: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 11:48:03: #2 number of paired peaks: 946 WARNING @ Fri, 10 Dec 2021 11:48:03: Fewer paired peaks (946) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 946 pairs to build model! INFO @ Fri, 10 Dec 2021 11:48:03: start model_add_line... INFO @ Fri, 10 Dec 2021 11:48:03: start X-correlation... INFO @ Fri, 10 Dec 2021 11:48:03: end of X-cor INFO @ Fri, 10 Dec 2021 11:48:03: #2 finished! INFO @ Fri, 10 Dec 2021 11:48:03: #2 predicted fragment length is 182 bps INFO @ Fri, 10 Dec 2021 11:48:03: #2 alternative fragment length(s) may be 3,182,210,231 bps INFO @ Fri, 10 Dec 2021 11:48:03: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX8491176/SRX8491176.20_model.r INFO @ Fri, 10 Dec 2021 11:48:03: #3 Call peaks... INFO @ Fri, 10 Dec 2021 11:48:03: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Fri, 10 Dec 2021 11:48:11: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 11:48:15: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX8491176/SRX8491176.20_peaks.xls INFO @ Fri, 10 Dec 2021 11:48:15: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX8491176/SRX8491176.20_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 11:48:15: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX8491176/SRX8491176.20_summits.bed INFO @ Fri, 10 Dec 2021 11:48:15: Done! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling