Job ID = 14171123 SRX = SRX10000637 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: 00:00:01 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:04:23 45594652 reads; of these: 45594652 (100.00%) were unpaired; of these: 43420676 (95.23%) aligned 0 times 1556893 (3.41%) aligned exactly 1 time 617083 (1.35%) aligned >1 times 4.77% overall alignment rate Time searching: 00:04:24 Overall time: 00:04:24 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] 446957 / 2173976 = 0.2056 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 09:45:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX10000637/SRX10000637.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX10000637/SRX10000637.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX10000637/SRX10000637.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX10000637/SRX10000637.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 09:45:33: #1 read tag files... INFO @ Sat, 11 Dec 2021 09:45:33: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 09:45:39: 1000000 INFO @ Sat, 11 Dec 2021 09:45:43: #1 tag size is determined as 51 bps INFO @ Sat, 11 Dec 2021 09:45:43: #1 tag size = 51 INFO @ Sat, 11 Dec 2021 09:45:43: #1 total tags in treatment: 1727019 INFO @ Sat, 11 Dec 2021 09:45:43: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 09:45:43: #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 09:45:43: #1 tags after filtering in treatment: 1726700 INFO @ Sat, 11 Dec 2021 09:45:43: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 09:45:43: #1 finished! INFO @ Sat, 11 Dec 2021 09:45:43: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 09:45:43: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 09:45:43: #2 number of paired peaks: 2020 INFO @ Sat, 11 Dec 2021 09:45:43: start model_add_line... INFO @ Sat, 11 Dec 2021 09:45:43: start X-correlation... INFO @ Sat, 11 Dec 2021 09:45:43: end of X-cor INFO @ Sat, 11 Dec 2021 09:45:43: #2 finished! INFO @ Sat, 11 Dec 2021 09:45:43: #2 predicted fragment length is 52 bps INFO @ Sat, 11 Dec 2021 09:45:43: #2 alternative fragment length(s) may be 52,586 bps INFO @ Sat, 11 Dec 2021 09:45:43: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX10000637/SRX10000637.05_model.r WARNING @ Sat, 11 Dec 2021 09:45:43: #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 09:45:43: #2 You may need to consider one of the other alternative d(s): 52,586 WARNING @ Sat, 11 Dec 2021 09:45:43: #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 09:45:43: #3 Call peaks... INFO @ Sat, 11 Dec 2021 09:45:43: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 09:45:47: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 09:45:49: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX10000637/SRX10000637.05_peaks.xls INFO @ Sat, 11 Dec 2021 09:45:49: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX10000637/SRX10000637.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 09:45:49: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX10000637/SRX10000637.05_summits.bed INFO @ Sat, 11 Dec 2021 09:45:49: Done! pass1 - making usageList (177 chroms): 1 millis pass2 - checking and writing primary data (745 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 09:46:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX10000637/SRX10000637.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX10000637/SRX10000637.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX10000637/SRX10000637.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX10000637/SRX10000637.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 09:46:03: #1 read tag files... INFO @ Sat, 11 Dec 2021 09:46:03: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 09:46:09: 1000000 INFO @ Sat, 11 Dec 2021 09:46:13: #1 tag size is determined as 51 bps INFO @ Sat, 11 Dec 2021 09:46:13: #1 tag size = 51 INFO @ Sat, 11 Dec 2021 09:46:13: #1 total tags in treatment: 1727019 INFO @ Sat, 11 Dec 2021 09:46:13: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 09:46:13: #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 09:46:13: #1 tags after filtering in treatment: 1726700 INFO @ Sat, 11 Dec 2021 09:46:13: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 09:46:13: #1 finished! INFO @ Sat, 11 Dec 2021 09:46:13: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 09:46:13: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 09:46:13: #2 number of paired peaks: 2020 INFO @ Sat, 11 Dec 2021 09:46:13: start model_add_line... INFO @ Sat, 11 Dec 2021 09:46:13: start X-correlation... INFO @ Sat, 11 Dec 2021 09:46:13: end of X-cor INFO @ Sat, 11 Dec 2021 09:46:13: #2 finished! INFO @ Sat, 11 Dec 2021 09:46:13: #2 predicted fragment length is 52 bps INFO @ Sat, 11 Dec 2021 09:46:13: #2 alternative fragment length(s) may be 52,586 bps INFO @ Sat, 11 Dec 2021 09:46:13: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX10000637/SRX10000637.10_model.r WARNING @ Sat, 11 Dec 2021 09:46:13: #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 09:46:13: #2 You may need to consider one of the other alternative d(s): 52,586 WARNING @ Sat, 11 Dec 2021 09:46:13: #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 09:46:13: #3 Call peaks... INFO @ Sat, 11 Dec 2021 09:46:13: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 09:46:17: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 09:46:19: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX10000637/SRX10000637.10_peaks.xls INFO @ Sat, 11 Dec 2021 09:46:19: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX10000637/SRX10000637.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 09:46:19: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX10000637/SRX10000637.10_summits.bed INFO @ Sat, 11 Dec 2021 09:46:19: Done! pass1 - making usageList (90 chroms): 1 millis pass2 - checking and writing primary data (363 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 09:46:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX10000637/SRX10000637.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX10000637/SRX10000637.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX10000637/SRX10000637.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX10000637/SRX10000637.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 09:46:33: #1 read tag files... INFO @ Sat, 11 Dec 2021 09:46:33: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 09:46:39: 1000000 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 09:46:43: #1 tag size is determined as 51 bps INFO @ Sat, 11 Dec 2021 09:46:43: #1 tag size = 51 INFO @ Sat, 11 Dec 2021 09:46:43: #1 total tags in treatment: 1727019 INFO @ Sat, 11 Dec 2021 09:46:43: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 09:46:43: #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 09:46:43: #1 tags after filtering in treatment: 1726700 INFO @ Sat, 11 Dec 2021 09:46:43: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 09:46:43: #1 finished! INFO @ Sat, 11 Dec 2021 09:46:43: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 09:46:43: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 09:46:44: #2 number of paired peaks: 2020 INFO @ Sat, 11 Dec 2021 09:46:44: start model_add_line... INFO @ Sat, 11 Dec 2021 09:46:44: start X-correlation... INFO @ Sat, 11 Dec 2021 09:46:44: end of X-cor INFO @ Sat, 11 Dec 2021 09:46:44: #2 finished! INFO @ Sat, 11 Dec 2021 09:46:44: #2 predicted fragment length is 52 bps INFO @ Sat, 11 Dec 2021 09:46:44: #2 alternative fragment length(s) may be 52,586 bps INFO @ Sat, 11 Dec 2021 09:46:44: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX10000637/SRX10000637.20_model.r WARNING @ Sat, 11 Dec 2021 09:46:44: #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 09:46:44: #2 You may need to consider one of the other alternative d(s): 52,586 WARNING @ Sat, 11 Dec 2021 09:46:44: #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 09:46:44: #3 Call peaks... INFO @ Sat, 11 Dec 2021 09:46:44: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 09:46:48: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 09:46:50: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX10000637/SRX10000637.20_peaks.xls INFO @ Sat, 11 Dec 2021 09:46:50: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX10000637/SRX10000637.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 09:46:50: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX10000637/SRX10000637.20_summits.bed INFO @ Sat, 11 Dec 2021 09:46:50: Done! pass1 - making usageList (32 chroms): 1 millis pass2 - checking and writing primary data (145 records, 4 fields): 1 millis CompletedMACS2peakCalling