Job ID = 16438067 SRX = SRX14148450 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: 00:00:01 Multiseed full-index search: 00:10:05 21712479 reads; of these: 21712479 (100.00%) were unpaired; of these: 1053807 (4.85%) aligned 0 times 14955106 (68.88%) aligned exactly 1 time 5703566 (26.27%) aligned >1 times 95.15% overall alignment rate Time searching: 00:10:06 Overall time: 00:10:06 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] 3228423 / 20658672 = 0.1563 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 13:46:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX14148450/SRX14148450.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX14148450/SRX14148450.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX14148450/SRX14148450.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX14148450/SRX14148450.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 13:46:16: #1 read tag files... INFO @ Tue, 02 Aug 2022 13:46:16: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 13:46:22: 1000000 INFO @ Tue, 02 Aug 2022 13:46:28: 2000000 INFO @ Tue, 02 Aug 2022 13:46:33: 3000000 INFO @ Tue, 02 Aug 2022 13:46:39: 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 13:46:45: 5000000 INFO @ Tue, 02 Aug 2022 13:46:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX14148450/SRX14148450.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX14148450/SRX14148450.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX14148450/SRX14148450.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX14148450/SRX14148450.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 13:46:45: #1 read tag files... INFO @ Tue, 02 Aug 2022 13:46:45: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 13:46:51: 6000000 INFO @ Tue, 02 Aug 2022 13:46:53: 1000000 INFO @ Tue, 02 Aug 2022 13:46:57: 7000000 INFO @ Tue, 02 Aug 2022 13:47:01: 2000000 INFO @ Tue, 02 Aug 2022 13:47:02: 8000000 INFO @ Tue, 02 Aug 2022 13:47:08: 9000000 INFO @ Tue, 02 Aug 2022 13:47:08: 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 13:47:14: 10000000 INFO @ Tue, 02 Aug 2022 13:47:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX14148450/SRX14148450.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX14148450/SRX14148450.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX14148450/SRX14148450.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX14148450/SRX14148450.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 13:47:15: #1 read tag files... INFO @ Tue, 02 Aug 2022 13:47:15: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 13:47:16: 4000000 INFO @ Tue, 02 Aug 2022 13:47:20: 11000000 INFO @ Tue, 02 Aug 2022 13:47:23: 1000000 INFO @ Tue, 02 Aug 2022 13:47:24: 5000000 INFO @ Tue, 02 Aug 2022 13:47:26: 12000000 INFO @ Tue, 02 Aug 2022 13:47:32: 13000000 INFO @ Tue, 02 Aug 2022 13:47:32: 2000000 INFO @ Tue, 02 Aug 2022 13:47:33: 6000000 INFO @ Tue, 02 Aug 2022 13:47:38: 14000000 INFO @ Tue, 02 Aug 2022 13:47:40: 3000000 INFO @ Tue, 02 Aug 2022 13:47:42: 7000000 INFO @ Tue, 02 Aug 2022 13:47:44: 15000000 INFO @ Tue, 02 Aug 2022 13:47:49: 4000000 INFO @ Tue, 02 Aug 2022 13:47:50: 16000000 INFO @ Tue, 02 Aug 2022 13:47:50: 8000000 INFO @ Tue, 02 Aug 2022 13:47:56: 17000000 INFO @ Tue, 02 Aug 2022 13:47:57: 5000000 INFO @ Tue, 02 Aug 2022 13:47:58: 9000000 INFO @ Tue, 02 Aug 2022 13:47:59: #1 tag size is determined as 76 bps INFO @ Tue, 02 Aug 2022 13:47:59: #1 tag size = 76 INFO @ Tue, 02 Aug 2022 13:47:59: #1 total tags in treatment: 17430249 INFO @ Tue, 02 Aug 2022 13:47:59: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 13:47:59: #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 13:48:00: #1 tags after filtering in treatment: 17430147 INFO @ Tue, 02 Aug 2022 13:48:00: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 13:48:00: #1 finished! INFO @ Tue, 02 Aug 2022 13:48:00: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 13:48:00: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 13:48:01: #2 number of paired peaks: 1299 INFO @ Tue, 02 Aug 2022 13:48:01: start model_add_line... INFO @ Tue, 02 Aug 2022 13:48:01: start X-correlation... INFO @ Tue, 02 Aug 2022 13:48:01: end of X-cor INFO @ Tue, 02 Aug 2022 13:48:01: #2 finished! INFO @ Tue, 02 Aug 2022 13:48:01: #2 predicted fragment length is 80 bps INFO @ Tue, 02 Aug 2022 13:48:01: #2 alternative fragment length(s) may be 2,80 bps INFO @ Tue, 02 Aug 2022 13:48:01: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX14148450/SRX14148450.05_model.r WARNING @ Tue, 02 Aug 2022 13:48:02: #2 Since the d (80) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 02 Aug 2022 13:48:02: #2 You may need to consider one of the other alternative d(s): 2,80 WARNING @ Tue, 02 Aug 2022 13:48:02: #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 13:48:02: #3 Call peaks... INFO @ Tue, 02 Aug 2022 13:48:02: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 13:48:05: 6000000 INFO @ Tue, 02 Aug 2022 13:48:07: 10000000 INFO @ Tue, 02 Aug 2022 13:48:14: 7000000 INFO @ Tue, 02 Aug 2022 13:48:15: 11000000 INFO @ Tue, 02 Aug 2022 13:48:22: 8000000 INFO @ Tue, 02 Aug 2022 13:48:23: 12000000 INFO @ Tue, 02 Aug 2022 13:48:31: 9000000 INFO @ Tue, 02 Aug 2022 13:48:31: 13000000 INFO @ Tue, 02 Aug 2022 13:48:33: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 13:48:39: 10000000 INFO @ Tue, 02 Aug 2022 13:48:39: 14000000 INFO @ Tue, 02 Aug 2022 13:48:47: 11000000 INFO @ Tue, 02 Aug 2022 13:48:48: 15000000 INFO @ Tue, 02 Aug 2022 13:48:48: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX14148450/SRX14148450.05_peaks.xls INFO @ Tue, 02 Aug 2022 13:48:48: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX14148450/SRX14148450.05_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 13:48:49: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX14148450/SRX14148450.05_summits.bed INFO @ Tue, 02 Aug 2022 13:48:49: Done! pass1 - making usageList (624 chroms): 2 millis pass2 - checking and writing primary data (3292 records, 4 fields): 59 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 13:48:52: 12000000 INFO @ Tue, 02 Aug 2022 13:48:56: 16000000 INFO @ Tue, 02 Aug 2022 13:48:58: 13000000 INFO @ Tue, 02 Aug 2022 13:49:03: 17000000 INFO @ Tue, 02 Aug 2022 13:49:04: 14000000 INFO @ Tue, 02 Aug 2022 13:49:07: #1 tag size is determined as 76 bps INFO @ Tue, 02 Aug 2022 13:49:07: #1 tag size = 76 INFO @ Tue, 02 Aug 2022 13:49:07: #1 total tags in treatment: 17430249 INFO @ Tue, 02 Aug 2022 13:49:07: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 13:49:07: #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 13:49:08: #1 tags after filtering in treatment: 17430147 INFO @ Tue, 02 Aug 2022 13:49:08: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 13:49:08: #1 finished! INFO @ Tue, 02 Aug 2022 13:49:08: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 13:49:08: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 13:49:09: #2 number of paired peaks: 1299 INFO @ Tue, 02 Aug 2022 13:49:09: start model_add_line... INFO @ Tue, 02 Aug 2022 13:49:10: start X-correlation... INFO @ Tue, 02 Aug 2022 13:49:10: end of X-cor INFO @ Tue, 02 Aug 2022 13:49:10: #2 finished! INFO @ Tue, 02 Aug 2022 13:49:10: #2 predicted fragment length is 80 bps INFO @ Tue, 02 Aug 2022 13:49:10: #2 alternative fragment length(s) may be 2,80 bps INFO @ Tue, 02 Aug 2022 13:49:10: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX14148450/SRX14148450.10_model.r WARNING @ Tue, 02 Aug 2022 13:49:10: #2 Since the d (80) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 02 Aug 2022 13:49:10: #2 You may need to consider one of the other alternative d(s): 2,80 WARNING @ Tue, 02 Aug 2022 13:49:10: #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 13:49:10: #3 Call peaks... INFO @ Tue, 02 Aug 2022 13:49:10: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 13:49:13: 15000000 INFO @ Tue, 02 Aug 2022 13:49:21: 16000000 INFO @ Tue, 02 Aug 2022 13:49:29: 17000000 INFO @ Tue, 02 Aug 2022 13:49:32: #1 tag size is determined as 76 bps INFO @ Tue, 02 Aug 2022 13:49:32: #1 tag size = 76 INFO @ Tue, 02 Aug 2022 13:49:32: #1 total tags in treatment: 17430249 INFO @ Tue, 02 Aug 2022 13:49:32: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 13:49:32: #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 13:49:33: #1 tags after filtering in treatment: 17430147 INFO @ Tue, 02 Aug 2022 13:49:33: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 13:49:33: #1 finished! INFO @ Tue, 02 Aug 2022 13:49:33: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 13:49:33: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 13:49:34: #2 number of paired peaks: 1299 INFO @ Tue, 02 Aug 2022 13:49:34: start model_add_line... INFO @ Tue, 02 Aug 2022 13:49:34: start X-correlation... INFO @ Tue, 02 Aug 2022 13:49:34: end of X-cor INFO @ Tue, 02 Aug 2022 13:49:34: #2 finished! INFO @ Tue, 02 Aug 2022 13:49:34: #2 predicted fragment length is 80 bps INFO @ Tue, 02 Aug 2022 13:49:34: #2 alternative fragment length(s) may be 2,80 bps INFO @ Tue, 02 Aug 2022 13:49:34: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX14148450/SRX14148450.20_model.r WARNING @ Tue, 02 Aug 2022 13:49:34: #2 Since the d (80) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 02 Aug 2022 13:49:34: #2 You may need to consider one of the other alternative d(s): 2,80 WARNING @ Tue, 02 Aug 2022 13:49:34: #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 13:49:34: #3 Call peaks... INFO @ Tue, 02 Aug 2022 13:49:34: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 13:49:45: #3 Call peaks for each chromosome... BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 13:50:01: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX14148450/SRX14148450.10_peaks.xls INFO @ Tue, 02 Aug 2022 13:50:01: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX14148450/SRX14148450.10_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 13:50:01: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX14148450/SRX14148450.10_summits.bed INFO @ Tue, 02 Aug 2022 13:50:01: Done! pass1 - making usageList (541 chroms): 2 millis pass2 - checking and writing primary data (1917 records, 4 fields): 64 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 13:50:08: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 13:50:24: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX14148450/SRX14148450.20_peaks.xls INFO @ Tue, 02 Aug 2022 13:50:25: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX14148450/SRX14148450.20_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 13:50:25: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX14148450/SRX14148450.20_summits.bed INFO @ Tue, 02 Aug 2022 13:50:25: Done! pass1 - making usageList (366 chroms): 1 millis pass2 - checking and writing primary data (903 records, 4 fields): 71 millis CompletedMACS2peakCalling BigWig に変換しました。