Job ID = 16439151 SRX = SRX13227901 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: 00:10:31 26440924 reads; of these: 26440924 (100.00%) were unpaired; of these: 1483967 (5.61%) aligned 0 times 18109617 (68.49%) aligned exactly 1 time 6847340 (25.90%) aligned >1 times 94.39% overall alignment rate Time searching: 00:10:31 Overall time: 00:10:31 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 12 files... [bam_rmdupse_core] 13792888 / 24956957 = 0.5527 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 14:53:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX13227901/SRX13227901.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX13227901/SRX13227901.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX13227901/SRX13227901.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX13227901/SRX13227901.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 14:53:57: #1 read tag files... INFO @ Tue, 02 Aug 2022 14:53:57: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 14:54:03: 1000000 INFO @ Tue, 02 Aug 2022 14:54:08: 2000000 INFO @ Tue, 02 Aug 2022 14:54:14: 3000000 INFO @ Tue, 02 Aug 2022 14:54:20: 4000000 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 14:54:25: 5000000 INFO @ Tue, 02 Aug 2022 14:54:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX13227901/SRX13227901.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX13227901/SRX13227901.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX13227901/SRX13227901.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX13227901/SRX13227901.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 14:54:27: #1 read tag files... INFO @ Tue, 02 Aug 2022 14:54:27: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 14:54:31: 6000000 INFO @ Tue, 02 Aug 2022 14:54:33: 1000000 INFO @ Tue, 02 Aug 2022 14:54:37: 7000000 INFO @ Tue, 02 Aug 2022 14:54:39: 2000000 INFO @ Tue, 02 Aug 2022 14:54:42: 8000000 INFO @ Tue, 02 Aug 2022 14:54:45: 3000000 INFO @ Tue, 02 Aug 2022 14:54:48: 9000000 INFO @ Tue, 02 Aug 2022 14:54:51: 4000000 INFO @ Tue, 02 Aug 2022 14:54:54: 10000000 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 14:54:57: 5000000 INFO @ Tue, 02 Aug 2022 14:54:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX13227901/SRX13227901.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX13227901/SRX13227901.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX13227901/SRX13227901.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX13227901/SRX13227901.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 14:54:58: #1 read tag files... INFO @ Tue, 02 Aug 2022 14:54:58: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 14:55:00: 11000000 INFO @ Tue, 02 Aug 2022 14:55:01: #1 tag size is determined as 74 bps INFO @ Tue, 02 Aug 2022 14:55:01: #1 tag size = 74 INFO @ Tue, 02 Aug 2022 14:55:01: #1 total tags in treatment: 11164069 INFO @ Tue, 02 Aug 2022 14:55:01: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 14:55:01: #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 14:55:01: #1 tags after filtering in treatment: 11164069 INFO @ Tue, 02 Aug 2022 14:55:01: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 14:55:01: #1 finished! INFO @ Tue, 02 Aug 2022 14:55:01: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 14:55:01: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 14:55:02: #2 number of paired peaks: 1059 INFO @ Tue, 02 Aug 2022 14:55:02: start model_add_line... INFO @ Tue, 02 Aug 2022 14:55:02: start X-correlation... INFO @ Tue, 02 Aug 2022 14:55:02: end of X-cor INFO @ Tue, 02 Aug 2022 14:55:02: #2 finished! INFO @ Tue, 02 Aug 2022 14:55:02: #2 predicted fragment length is 85 bps INFO @ Tue, 02 Aug 2022 14:55:02: #2 alternative fragment length(s) may be 85,572 bps INFO @ Tue, 02 Aug 2022 14:55:02: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX13227901/SRX13227901.05_model.r WARNING @ Tue, 02 Aug 2022 14:55:02: #2 Since the d (85) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 02 Aug 2022 14:55:02: #2 You may need to consider one of the other alternative d(s): 85,572 WARNING @ Tue, 02 Aug 2022 14:55:02: #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 14:55:02: #3 Call peaks... INFO @ Tue, 02 Aug 2022 14:55:02: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 14:55:03: 6000000 INFO @ Tue, 02 Aug 2022 14:55:04: 1000000 INFO @ Tue, 02 Aug 2022 14:55:09: 7000000 INFO @ Tue, 02 Aug 2022 14:55:10: 2000000 INFO @ Tue, 02 Aug 2022 14:55:15: 8000000 INFO @ Tue, 02 Aug 2022 14:55:15: 3000000 INFO @ Tue, 02 Aug 2022 14:55:21: 4000000 INFO @ Tue, 02 Aug 2022 14:55:21: 9000000 INFO @ Tue, 02 Aug 2022 14:55:26: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 14:55:27: 5000000 INFO @ Tue, 02 Aug 2022 14:55:27: 10000000 INFO @ Tue, 02 Aug 2022 14:55:32: 6000000 INFO @ Tue, 02 Aug 2022 14:55:33: 11000000 INFO @ Tue, 02 Aug 2022 14:55:34: #1 tag size is determined as 74 bps INFO @ Tue, 02 Aug 2022 14:55:34: #1 tag size = 74 INFO @ Tue, 02 Aug 2022 14:55:34: #1 total tags in treatment: 11164069 INFO @ Tue, 02 Aug 2022 14:55:34: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 14:55:34: #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 14:55:35: #1 tags after filtering in treatment: 11164069 INFO @ Tue, 02 Aug 2022 14:55:35: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 14:55:35: #1 finished! INFO @ Tue, 02 Aug 2022 14:55:35: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 14:55:35: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 14:55:36: #2 number of paired peaks: 1059 INFO @ Tue, 02 Aug 2022 14:55:36: start model_add_line... INFO @ Tue, 02 Aug 2022 14:55:36: start X-correlation... INFO @ Tue, 02 Aug 2022 14:55:36: end of X-cor INFO @ Tue, 02 Aug 2022 14:55:36: #2 finished! INFO @ Tue, 02 Aug 2022 14:55:36: #2 predicted fragment length is 85 bps INFO @ Tue, 02 Aug 2022 14:55:36: #2 alternative fragment length(s) may be 85,572 bps INFO @ Tue, 02 Aug 2022 14:55:36: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX13227901/SRX13227901.10_model.r WARNING @ Tue, 02 Aug 2022 14:55:36: #2 Since the d (85) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 02 Aug 2022 14:55:36: #2 You may need to consider one of the other alternative d(s): 85,572 WARNING @ Tue, 02 Aug 2022 14:55:36: #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 14:55:36: #3 Call peaks... INFO @ Tue, 02 Aug 2022 14:55:36: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 14:55:38: 7000000 INFO @ Tue, 02 Aug 2022 14:55:38: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX13227901/SRX13227901.05_peaks.xls INFO @ Tue, 02 Aug 2022 14:55:38: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX13227901/SRX13227901.05_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 14:55:38: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX13227901/SRX13227901.05_summits.bed INFO @ Tue, 02 Aug 2022 14:55:38: Done! pass1 - making usageList (754 chroms): 2 millis pass2 - checking and writing primary data (5610 records, 4 fields): 34 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 14:55:43: 8000000 INFO @ Tue, 02 Aug 2022 14:55:50: 9000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 14:55:55: 10000000 INFO @ Tue, 02 Aug 2022 14:55:58: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 14:56:01: 11000000 INFO @ Tue, 02 Aug 2022 14:56:02: #1 tag size is determined as 74 bps INFO @ Tue, 02 Aug 2022 14:56:02: #1 tag size = 74 INFO @ Tue, 02 Aug 2022 14:56:02: #1 total tags in treatment: 11164069 INFO @ Tue, 02 Aug 2022 14:56:02: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 14:56:02: #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 14:56:02: #1 tags after filtering in treatment: 11164069 INFO @ Tue, 02 Aug 2022 14:56:02: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 14:56:02: #1 finished! INFO @ Tue, 02 Aug 2022 14:56:02: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 14:56:02: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 14:56:03: #2 number of paired peaks: 1059 INFO @ Tue, 02 Aug 2022 14:56:03: start model_add_line... INFO @ Tue, 02 Aug 2022 14:56:03: start X-correlation... INFO @ Tue, 02 Aug 2022 14:56:03: end of X-cor INFO @ Tue, 02 Aug 2022 14:56:03: #2 finished! INFO @ Tue, 02 Aug 2022 14:56:03: #2 predicted fragment length is 85 bps INFO @ Tue, 02 Aug 2022 14:56:03: #2 alternative fragment length(s) may be 85,572 bps INFO @ Tue, 02 Aug 2022 14:56:03: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX13227901/SRX13227901.20_model.r WARNING @ Tue, 02 Aug 2022 14:56:03: #2 Since the d (85) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 02 Aug 2022 14:56:03: #2 You may need to consider one of the other alternative d(s): 85,572 WARNING @ Tue, 02 Aug 2022 14:56:03: #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 14:56:03: #3 Call peaks... INFO @ Tue, 02 Aug 2022 14:56:03: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 14:56:09: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX13227901/SRX13227901.10_peaks.xls INFO @ Tue, 02 Aug 2022 14:56:09: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX13227901/SRX13227901.10_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 14:56:09: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX13227901/SRX13227901.10_summits.bed INFO @ Tue, 02 Aug 2022 14:56:09: Done! pass1 - making usageList (611 chroms): 1 millis pass2 - checking and writing primary data (2670 records, 4 fields): 47 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 14:56:28: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 14:56:39: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX13227901/SRX13227901.20_peaks.xls INFO @ Tue, 02 Aug 2022 14:56:39: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX13227901/SRX13227901.20_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 14:56:39: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX13227901/SRX13227901.20_summits.bed INFO @ Tue, 02 Aug 2022 14:56:40: Done! pass1 - making usageList (466 chroms): 1 millis pass2 - checking and writing primary data (1329 records, 4 fields): 14 millis CompletedMACS2peakCalling