Job ID = 16439152 SRX = SRX15206525 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: 00:13:31 10352183 reads; of these: 10352183 (100.00%) were unpaired; of these: 1547439 (14.95%) aligned 0 times 4106002 (39.66%) aligned exactly 1 time 4698742 (45.39%) aligned >1 times 85.05% overall alignment rate Time searching: 00:13:32 Overall time: 00:13:32 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_sort_core] merging from 8 files... [bam_rmdupse_core] 4952638 / 8804744 = 0.5625 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/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 14:57:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX15206525/SRX15206525.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX15206525/SRX15206525.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX15206525/SRX15206525.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX15206525/SRX15206525.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, 02 Aug 2022 14:57:14: #1 read tag files... INFO @ Tue, 02 Aug 2022 14:57:14: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 14:57:22: 1000000 INFO @ Tue, 02 Aug 2022 14:57:32: 2000000 WARNING: Skipping mount /opt/pkg/singularity/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 14:57:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX15206525/SRX15206525.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX15206525/SRX15206525.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX15206525/SRX15206525.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX15206525/SRX15206525.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, 02 Aug 2022 14:57:42: #1 read tag files... INFO @ Tue, 02 Aug 2022 14:57:42: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 14:57:43: 3000000 INFO @ Tue, 02 Aug 2022 14:57:51: 1000000 INFO @ Tue, 02 Aug 2022 14:57:53: #1 tag size is determined as 150 bps INFO @ Tue, 02 Aug 2022 14:57:53: #1 tag size = 150 INFO @ Tue, 02 Aug 2022 14:57:53: #1 total tags in treatment: 3852106 INFO @ Tue, 02 Aug 2022 14:57:53: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 14:57:53: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 14:57:54: #1 tags after filtering in treatment: 3851931 INFO @ Tue, 02 Aug 2022 14:57:54: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 14:57:54: #1 finished! INFO @ Tue, 02 Aug 2022 14:57:54: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 14:57:54: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 14:57:54: #2 number of paired peaks: 5587 INFO @ Tue, 02 Aug 2022 14:57:54: start model_add_line... INFO @ Tue, 02 Aug 2022 14:57:54: start X-correlation... INFO @ Tue, 02 Aug 2022 14:57:54: end of X-cor INFO @ Tue, 02 Aug 2022 14:57:54: #2 finished! INFO @ Tue, 02 Aug 2022 14:57:54: #2 predicted fragment length is 166 bps INFO @ Tue, 02 Aug 2022 14:57:54: #2 alternative fragment length(s) may be 166 bps INFO @ Tue, 02 Aug 2022 14:57:54: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX15206525/SRX15206525.05_model.r WARNING @ Tue, 02 Aug 2022 14:57:54: #2 Since the d (166) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 02 Aug 2022 14:57:54: #2 You may need to consider one of the other alternative d(s): 166 WARNING @ Tue, 02 Aug 2022 14:57:54: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Tue, 02 Aug 2022 14:57:54: #3 Call peaks... INFO @ Tue, 02 Aug 2022 14:57:54: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 14:58:00: 2000000 INFO @ Tue, 02 Aug 2022 14:58:10: 3000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 14:58:11: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 14:58:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX15206525/SRX15206525.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX15206525/SRX15206525.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX15206525/SRX15206525.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX15206525/SRX15206525.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, 02 Aug 2022 14:58:12: #1 read tag files... INFO @ Tue, 02 Aug 2022 14:58:12: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 14:58:15: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX15206525/SRX15206525.05_peaks.xls INFO @ Tue, 02 Aug 2022 14:58:15: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX15206525/SRX15206525.05_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 14:58:15: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX15206525/SRX15206525.05_summits.bed INFO @ Tue, 02 Aug 2022 14:58:16: Done! pass1 - making usageList (686 chroms): 2 millis pass2 - checking and writing primary data (4066 records, 4 fields): 112 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 14:58:19: #1 tag size is determined as 150 bps INFO @ Tue, 02 Aug 2022 14:58:19: #1 tag size = 150 INFO @ Tue, 02 Aug 2022 14:58:19: #1 total tags in treatment: 3852106 INFO @ Tue, 02 Aug 2022 14:58:19: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 14:58:19: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 14:58:19: #1 tags after filtering in treatment: 3851931 INFO @ Tue, 02 Aug 2022 14:58:19: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 14:58:19: #1 finished! INFO @ Tue, 02 Aug 2022 14:58:19: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 14:58:19: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 14:58:20: #2 number of paired peaks: 5587 INFO @ Tue, 02 Aug 2022 14:58:20: start model_add_line... INFO @ Tue, 02 Aug 2022 14:58:20: start X-correlation... INFO @ Tue, 02 Aug 2022 14:58:20: end of X-cor INFO @ Tue, 02 Aug 2022 14:58:20: #2 finished! INFO @ Tue, 02 Aug 2022 14:58:20: #2 predicted fragment length is 166 bps INFO @ Tue, 02 Aug 2022 14:58:20: #2 alternative fragment length(s) may be 166 bps INFO @ Tue, 02 Aug 2022 14:58:20: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX15206525/SRX15206525.10_model.r WARNING @ Tue, 02 Aug 2022 14:58:20: #2 Since the d (166) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 02 Aug 2022 14:58:20: #2 You may need to consider one of the other alternative d(s): 166 WARNING @ Tue, 02 Aug 2022 14:58:20: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Tue, 02 Aug 2022 14:58:20: #3 Call peaks... INFO @ Tue, 02 Aug 2022 14:58:20: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 14:58:21: 1000000 INFO @ Tue, 02 Aug 2022 14:58:29: 2000000 INFO @ Tue, 02 Aug 2022 14:58:36: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 14:58:38: 3000000 INFO @ Tue, 02 Aug 2022 14:58:41: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX15206525/SRX15206525.10_peaks.xls INFO @ Tue, 02 Aug 2022 14:58:41: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX15206525/SRX15206525.10_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 14:58:41: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX15206525/SRX15206525.10_summits.bed INFO @ Tue, 02 Aug 2022 14:58:41: Done! pass1 - making usageList (575 chroms): 2 millis pass2 - checking and writing primary data (2525 records, 4 fields): 57 millis CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 14:58:46: #1 tag size is determined as 150 bps INFO @ Tue, 02 Aug 2022 14:58:46: #1 tag size = 150 INFO @ Tue, 02 Aug 2022 14:58:46: #1 total tags in treatment: 3852106 INFO @ Tue, 02 Aug 2022 14:58:46: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 14:58:46: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 14:58:46: #1 tags after filtering in treatment: 3851931 INFO @ Tue, 02 Aug 2022 14:58:46: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 14:58:46: #1 finished! INFO @ Tue, 02 Aug 2022 14:58:46: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 14:58:46: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 14:58:47: #2 number of paired peaks: 5587 INFO @ Tue, 02 Aug 2022 14:58:47: start model_add_line... INFO @ Tue, 02 Aug 2022 14:58:47: start X-correlation... INFO @ Tue, 02 Aug 2022 14:58:47: end of X-cor INFO @ Tue, 02 Aug 2022 14:58:47: #2 finished! INFO @ Tue, 02 Aug 2022 14:58:47: #2 predicted fragment length is 166 bps INFO @ Tue, 02 Aug 2022 14:58:47: #2 alternative fragment length(s) may be 166 bps INFO @ Tue, 02 Aug 2022 14:58:47: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX15206525/SRX15206525.20_model.r WARNING @ Tue, 02 Aug 2022 14:58:47: #2 Since the d (166) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 02 Aug 2022 14:58:47: #2 You may need to consider one of the other alternative d(s): 166 WARNING @ Tue, 02 Aug 2022 14:58:47: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Tue, 02 Aug 2022 14:58:47: #3 Call peaks... INFO @ Tue, 02 Aug 2022 14:58:47: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 14:59:02: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 14:59:07: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX15206525/SRX15206525.20_peaks.xls INFO @ Tue, 02 Aug 2022 14:59:07: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX15206525/SRX15206525.20_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 14:59:07: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX15206525/SRX15206525.20_summits.bed INFO @ Tue, 02 Aug 2022 14:59:07: Done! pass1 - making usageList (423 chroms): 1 millis pass2 - checking and writing primary data (1376 records, 4 fields): 63 millis CompletedMACS2peakCalling