Job ID = 14171470 SRX = SRX10000672 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: 00:01:25 12331611 reads; of these: 12331611 (100.00%) were unpaired; of these: 11451302 (92.86%) aligned 0 times 562291 (4.56%) aligned exactly 1 time 318018 (2.58%) aligned >1 times 7.14% overall alignment rate Time searching: 00:01:25 Overall time: 00:01:25 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] 177442 / 880309 = 0.2016 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 11:47:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX10000672/SRX10000672.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX10000672/SRX10000672.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX10000672/SRX10000672.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX10000672/SRX10000672.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 11:47:24: #1 read tag files... INFO @ Sat, 11 Dec 2021 11:47:24: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 11:47:29: #1 tag size is determined as 51 bps INFO @ Sat, 11 Dec 2021 11:47:29: #1 tag size = 51 INFO @ Sat, 11 Dec 2021 11:47:29: #1 total tags in treatment: 702867 INFO @ Sat, 11 Dec 2021 11:47:29: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 11:47:29: #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 11:47:29: #1 tags after filtering in treatment: 702424 INFO @ Sat, 11 Dec 2021 11:47:29: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 11:47:29: #1 finished! INFO @ Sat, 11 Dec 2021 11:47:29: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 11:47:29: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 11:47:29: #2 number of paired peaks: 2006 INFO @ Sat, 11 Dec 2021 11:47:29: start model_add_line... INFO @ Sat, 11 Dec 2021 11:47:29: start X-correlation... INFO @ Sat, 11 Dec 2021 11:47:29: end of X-cor INFO @ Sat, 11 Dec 2021 11:47:29: #2 finished! INFO @ Sat, 11 Dec 2021 11:47:29: #2 predicted fragment length is 52 bps INFO @ Sat, 11 Dec 2021 11:47:29: #2 alternative fragment length(s) may be 52,140,203,285,526,582 bps INFO @ Sat, 11 Dec 2021 11:47:29: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX10000672/SRX10000672.05_model.r WARNING @ Sat, 11 Dec 2021 11:47:29: #2 Since the d (52) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 11 Dec 2021 11:47:29: #2 You may need to consider one of the other alternative d(s): 52,140,203,285,526,582 WARNING @ Sat, 11 Dec 2021 11:47:29: #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 11:47:29: #3 Call peaks... INFO @ Sat, 11 Dec 2021 11:47:29: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 11:47:31: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 11:47:32: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX10000672/SRX10000672.05_peaks.xls INFO @ Sat, 11 Dec 2021 11:47:32: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX10000672/SRX10000672.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 11:47:32: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX10000672/SRX10000672.05_summits.bed INFO @ Sat, 11 Dec 2021 11:47:32: Done! pass1 - making usageList (119 chroms): 1 millis pass2 - checking and writing primary data (396 records, 4 fields): 6 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 11:47:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX10000672/SRX10000672.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX10000672/SRX10000672.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX10000672/SRX10000672.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX10000672/SRX10000672.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 11:47:54: #1 read tag files... INFO @ Sat, 11 Dec 2021 11:47:54: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 11:47:59: #1 tag size is determined as 51 bps INFO @ Sat, 11 Dec 2021 11:47:59: #1 tag size = 51 INFO @ Sat, 11 Dec 2021 11:47:59: #1 total tags in treatment: 702867 INFO @ Sat, 11 Dec 2021 11:47:59: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 11:47:59: #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 11:47:59: #1 tags after filtering in treatment: 702424 INFO @ Sat, 11 Dec 2021 11:47:59: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 11:47:59: #1 finished! INFO @ Sat, 11 Dec 2021 11:47:59: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 11:47:59: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 11:47:59: #2 number of paired peaks: 2006 INFO @ Sat, 11 Dec 2021 11:47:59: start model_add_line... INFO @ Sat, 11 Dec 2021 11:47:59: start X-correlation... INFO @ Sat, 11 Dec 2021 11:47:59: end of X-cor INFO @ Sat, 11 Dec 2021 11:47:59: #2 finished! INFO @ Sat, 11 Dec 2021 11:47:59: #2 predicted fragment length is 52 bps INFO @ Sat, 11 Dec 2021 11:47:59: #2 alternative fragment length(s) may be 52,140,203,285,526,582 bps INFO @ Sat, 11 Dec 2021 11:47:59: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX10000672/SRX10000672.10_model.r WARNING @ Sat, 11 Dec 2021 11:47:59: #2 Since the d (52) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 11 Dec 2021 11:47:59: #2 You may need to consider one of the other alternative d(s): 52,140,203,285,526,582 WARNING @ Sat, 11 Dec 2021 11:47:59: #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 11:47:59: #3 Call peaks... INFO @ Sat, 11 Dec 2021 11:47:59: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 11:48:01: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 11:48:02: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX10000672/SRX10000672.10_peaks.xls INFO @ Sat, 11 Dec 2021 11:48:02: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX10000672/SRX10000672.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 11:48:02: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX10000672/SRX10000672.10_summits.bed INFO @ Sat, 11 Dec 2021 11:48:02: Done! pass1 - making usageList (51 chroms): 1 millis pass2 - checking and writing primary data (199 records, 4 fields): 3 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 11:48:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX10000672/SRX10000672.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX10000672/SRX10000672.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX10000672/SRX10000672.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX10000672/SRX10000672.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 11:48:24: #1 read tag files... INFO @ Sat, 11 Dec 2021 11:48:24: #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 11:48:29: #1 tag size is determined as 51 bps INFO @ Sat, 11 Dec 2021 11:48:29: #1 tag size = 51 INFO @ Sat, 11 Dec 2021 11:48:29: #1 total tags in treatment: 702867 INFO @ Sat, 11 Dec 2021 11:48:29: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 11:48:29: #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 11:48:29: #1 tags after filtering in treatment: 702424 INFO @ Sat, 11 Dec 2021 11:48:29: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 11:48:29: #1 finished! INFO @ Sat, 11 Dec 2021 11:48:29: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 11:48:29: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 11:48:29: #2 number of paired peaks: 2006 INFO @ Sat, 11 Dec 2021 11:48:29: start model_add_line... INFO @ Sat, 11 Dec 2021 11:48:29: start X-correlation... INFO @ Sat, 11 Dec 2021 11:48:29: end of X-cor INFO @ Sat, 11 Dec 2021 11:48:29: #2 finished! INFO @ Sat, 11 Dec 2021 11:48:29: #2 predicted fragment length is 52 bps INFO @ Sat, 11 Dec 2021 11:48:29: #2 alternative fragment length(s) may be 52,140,203,285,526,582 bps INFO @ Sat, 11 Dec 2021 11:48:29: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX10000672/SRX10000672.20_model.r WARNING @ Sat, 11 Dec 2021 11:48:29: #2 Since the d (52) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 11 Dec 2021 11:48:29: #2 You may need to consider one of the other alternative d(s): 52,140,203,285,526,582 WARNING @ Sat, 11 Dec 2021 11:48:29: #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 11:48:29: #3 Call peaks... INFO @ Sat, 11 Dec 2021 11:48:29: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 11:48:31: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 11:48:32: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX10000672/SRX10000672.20_peaks.xls INFO @ Sat, 11 Dec 2021 11:48:32: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX10000672/SRX10000672.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 11:48:32: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX10000672/SRX10000672.20_summits.bed INFO @ Sat, 11 Dec 2021 11:48:32: Done! pass1 - making usageList (41 chroms): 1 millis pass2 - checking and writing primary data (115 records, 4 fields): 2 millis CompletedMACS2peakCalling