Job ID = 14171154 SRX = SRX10000640 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: 00:04:21 39924978 reads; of these: 39924978 (100.00%) were unpaired; of these: 38658434 (96.83%) aligned 0 times 828786 (2.08%) aligned exactly 1 time 437758 (1.10%) aligned >1 times 3.17% overall alignment rate Time searching: 00:04:22 Overall time: 00:04:22 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] 280348 / 1266544 = 0.2213 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 @ Sat, 11 Dec 2021 10:16:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX10000640/SRX10000640.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX10000640/SRX10000640.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX10000640/SRX10000640.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX10000640/SRX10000640.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 @ Sat, 11 Dec 2021 10:16:01: #1 read tag files... INFO @ Sat, 11 Dec 2021 10:16:01: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 10:16:08: #1 tag size is determined as 51 bps INFO @ Sat, 11 Dec 2021 10:16:08: #1 tag size = 51 INFO @ Sat, 11 Dec 2021 10:16:08: #1 total tags in treatment: 986196 INFO @ Sat, 11 Dec 2021 10:16:08: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 10:16:08: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 10:16:09: #1 tags after filtering in treatment: 985756 INFO @ Sat, 11 Dec 2021 10:16:09: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 10:16:09: #1 finished! INFO @ Sat, 11 Dec 2021 10:16:09: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 10:16:09: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 10:16:09: #2 number of paired peaks: 2954 INFO @ Sat, 11 Dec 2021 10:16:09: start model_add_line... INFO @ Sat, 11 Dec 2021 10:16:09: start X-correlation... INFO @ Sat, 11 Dec 2021 10:16:09: end of X-cor INFO @ Sat, 11 Dec 2021 10:16:09: #2 finished! INFO @ Sat, 11 Dec 2021 10:16:09: #2 predicted fragment length is 51 bps INFO @ Sat, 11 Dec 2021 10:16:09: #2 alternative fragment length(s) may be 51,151,246,458,539 bps INFO @ Sat, 11 Dec 2021 10:16:09: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX10000640/SRX10000640.05_model.r WARNING @ Sat, 11 Dec 2021 10:16:09: #2 Since the d (51) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 11 Dec 2021 10:16:09: #2 You may need to consider one of the other alternative d(s): 51,151,246,458,539 WARNING @ Sat, 11 Dec 2021 10:16:09: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 11 Dec 2021 10:16:09: #3 Call peaks... INFO @ Sat, 11 Dec 2021 10:16:09: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 10:16:11: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 10:16:13: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX10000640/SRX10000640.05_peaks.xls INFO @ Sat, 11 Dec 2021 10:16:13: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX10000640/SRX10000640.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 10:16:13: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX10000640/SRX10000640.05_summits.bed INFO @ Sat, 11 Dec 2021 10:16:13: Done! pass1 - making usageList (116 chroms): 1 millis pass2 - checking and writing primary data (610 records, 4 fields): 7 millis CompletedMACS2peakCalling 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 @ Sat, 11 Dec 2021 10:16:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX10000640/SRX10000640.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX10000640/SRX10000640.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX10000640/SRX10000640.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX10000640/SRX10000640.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 @ Sat, 11 Dec 2021 10:16:31: #1 read tag files... INFO @ Sat, 11 Dec 2021 10:16:31: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 10:16:38: #1 tag size is determined as 51 bps INFO @ Sat, 11 Dec 2021 10:16:38: #1 tag size = 51 INFO @ Sat, 11 Dec 2021 10:16:38: #1 total tags in treatment: 986196 INFO @ Sat, 11 Dec 2021 10:16:38: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 10:16:38: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 10:16:38: #1 tags after filtering in treatment: 985756 INFO @ Sat, 11 Dec 2021 10:16:38: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 10:16:38: #1 finished! INFO @ Sat, 11 Dec 2021 10:16:38: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 10:16:38: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 10:16:38: #2 number of paired peaks: 2954 INFO @ Sat, 11 Dec 2021 10:16:38: start model_add_line... INFO @ Sat, 11 Dec 2021 10:16:38: start X-correlation... INFO @ Sat, 11 Dec 2021 10:16:38: end of X-cor INFO @ Sat, 11 Dec 2021 10:16:38: #2 finished! INFO @ Sat, 11 Dec 2021 10:16:38: #2 predicted fragment length is 51 bps INFO @ Sat, 11 Dec 2021 10:16:38: #2 alternative fragment length(s) may be 51,151,246,458,539 bps INFO @ Sat, 11 Dec 2021 10:16:38: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX10000640/SRX10000640.10_model.r WARNING @ Sat, 11 Dec 2021 10:16:38: #2 Since the d (51) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 11 Dec 2021 10:16:38: #2 You may need to consider one of the other alternative d(s): 51,151,246,458,539 WARNING @ Sat, 11 Dec 2021 10:16:38: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 11 Dec 2021 10:16:38: #3 Call peaks... INFO @ Sat, 11 Dec 2021 10:16:38: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 10:16:41: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 10:16:42: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX10000640/SRX10000640.10_peaks.xls INFO @ Sat, 11 Dec 2021 10:16:42: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX10000640/SRX10000640.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 10:16:42: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX10000640/SRX10000640.10_summits.bed INFO @ Sat, 11 Dec 2021 10:16:42: Done! pass1 - making usageList (50 chroms): 1 millis pass2 - checking and writing primary data (323 records, 4 fields): 5 millis CompletedMACS2peakCalling 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 @ Sat, 11 Dec 2021 10:17:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX10000640/SRX10000640.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX10000640/SRX10000640.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX10000640/SRX10000640.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX10000640/SRX10000640.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 @ Sat, 11 Dec 2021 10:17:01: #1 read tag files... INFO @ Sat, 11 Dec 2021 10:17:01: #1 read treatment tags... BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 10:17:08: #1 tag size is determined as 51 bps INFO @ Sat, 11 Dec 2021 10:17:08: #1 tag size = 51 INFO @ Sat, 11 Dec 2021 10:17:08: #1 total tags in treatment: 986196 INFO @ Sat, 11 Dec 2021 10:17:08: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 10:17:08: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 10:17:08: #1 tags after filtering in treatment: 985756 INFO @ Sat, 11 Dec 2021 10:17:08: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 10:17:08: #1 finished! INFO @ Sat, 11 Dec 2021 10:17:08: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 10:17:08: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 10:17:08: #2 number of paired peaks: 2954 INFO @ Sat, 11 Dec 2021 10:17:08: start model_add_line... INFO @ Sat, 11 Dec 2021 10:17:08: start X-correlation... INFO @ Sat, 11 Dec 2021 10:17:08: end of X-cor INFO @ Sat, 11 Dec 2021 10:17:08: #2 finished! INFO @ Sat, 11 Dec 2021 10:17:08: #2 predicted fragment length is 51 bps INFO @ Sat, 11 Dec 2021 10:17:08: #2 alternative fragment length(s) may be 51,151,246,458,539 bps INFO @ Sat, 11 Dec 2021 10:17:08: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX10000640/SRX10000640.20_model.r WARNING @ Sat, 11 Dec 2021 10:17:08: #2 Since the d (51) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 11 Dec 2021 10:17:08: #2 You may need to consider one of the other alternative d(s): 51,151,246,458,539 WARNING @ Sat, 11 Dec 2021 10:17:08: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 11 Dec 2021 10:17:08: #3 Call peaks... INFO @ Sat, 11 Dec 2021 10:17:08: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 10:17:11: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 10:17:12: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX10000640/SRX10000640.20_peaks.xls INFO @ Sat, 11 Dec 2021 10:17:12: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX10000640/SRX10000640.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 10:17:12: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX10000640/SRX10000640.20_summits.bed INFO @ Sat, 11 Dec 2021 10:17:12: Done! pass1 - making usageList (28 chroms): 1 millis pass2 - checking and writing primary data (173 records, 4 fields): 2 millis CompletedMACS2peakCalling