Job ID = 16438070 SRX = SRX14148454 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: 00:07:34 20600850 reads; of these: 20600850 (100.00%) were unpaired; of these: 1231310 (5.98%) aligned 0 times 14027736 (68.09%) aligned exactly 1 time 5341804 (25.93%) aligned >1 times 94.02% overall alignment rate Time searching: 00:07:34 Overall time: 00:07:34 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] 2858993 / 19369540 = 0.1476 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 13:41:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX14148454/SRX14148454.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX14148454/SRX14148454.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX14148454/SRX14148454.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX14148454/SRX14148454.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 13:41:55: #1 read tag files... INFO @ Tue, 02 Aug 2022 13:41:55: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 13:42:02: 1000000 INFO @ Tue, 02 Aug 2022 13:42:08: 2000000 INFO @ Tue, 02 Aug 2022 13:42:15: 3000000 INFO @ Tue, 02 Aug 2022 13:42:21: 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 13:42:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX14148454/SRX14148454.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX14148454/SRX14148454.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX14148454/SRX14148454.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX14148454/SRX14148454.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 13:42:25: #1 read tag files... INFO @ Tue, 02 Aug 2022 13:42:25: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 13:42:28: 5000000 INFO @ Tue, 02 Aug 2022 13:42:33: 1000000 INFO @ Tue, 02 Aug 2022 13:42:35: 6000000 INFO @ Tue, 02 Aug 2022 13:42:40: 2000000 INFO @ Tue, 02 Aug 2022 13:42:43: 7000000 INFO @ Tue, 02 Aug 2022 13:42:47: 3000000 INFO @ Tue, 02 Aug 2022 13:42:50: 8000000 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 13:42:54: 4000000 INFO @ Tue, 02 Aug 2022 13:42:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX14148454/SRX14148454.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX14148454/SRX14148454.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX14148454/SRX14148454.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX14148454/SRX14148454.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 13:42:55: #1 read tag files... INFO @ Tue, 02 Aug 2022 13:42:55: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 13:42:58: 9000000 INFO @ Tue, 02 Aug 2022 13:43:02: 5000000 INFO @ Tue, 02 Aug 2022 13:43:04: 1000000 INFO @ Tue, 02 Aug 2022 13:43:06: 10000000 INFO @ Tue, 02 Aug 2022 13:43:10: 6000000 INFO @ Tue, 02 Aug 2022 13:43:12: 2000000 INFO @ Tue, 02 Aug 2022 13:43:14: 11000000 INFO @ Tue, 02 Aug 2022 13:43:18: 7000000 INFO @ Tue, 02 Aug 2022 13:43:21: 3000000 INFO @ Tue, 02 Aug 2022 13:43:21: 12000000 INFO @ Tue, 02 Aug 2022 13:43:25: 8000000 INFO @ Tue, 02 Aug 2022 13:43:29: 13000000 INFO @ Tue, 02 Aug 2022 13:43:30: 4000000 INFO @ Tue, 02 Aug 2022 13:43:33: 9000000 INFO @ Tue, 02 Aug 2022 13:43:37: 14000000 INFO @ Tue, 02 Aug 2022 13:43:38: 5000000 INFO @ Tue, 02 Aug 2022 13:43:41: 10000000 INFO @ Tue, 02 Aug 2022 13:43:45: 15000000 INFO @ Tue, 02 Aug 2022 13:43:47: 6000000 INFO @ Tue, 02 Aug 2022 13:43:48: 11000000 INFO @ Tue, 02 Aug 2022 13:43:53: 16000000 INFO @ Tue, 02 Aug 2022 13:43:55: 7000000 INFO @ Tue, 02 Aug 2022 13:43:56: 12000000 INFO @ Tue, 02 Aug 2022 13:43:57: #1 tag size is determined as 76 bps INFO @ Tue, 02 Aug 2022 13:43:57: #1 tag size = 76 INFO @ Tue, 02 Aug 2022 13:43:57: #1 total tags in treatment: 16510547 INFO @ Tue, 02 Aug 2022 13:43:57: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 13:43:57: #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 13:43:58: #1 tags after filtering in treatment: 16510441 INFO @ Tue, 02 Aug 2022 13:43:58: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 13:43:58: #1 finished! INFO @ Tue, 02 Aug 2022 13:43:58: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 13:43:58: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 13:43:59: #2 number of paired peaks: 1196 INFO @ Tue, 02 Aug 2022 13:43:59: start model_add_line... INFO @ Tue, 02 Aug 2022 13:43:59: start X-correlation... INFO @ Tue, 02 Aug 2022 13:43:59: end of X-cor INFO @ Tue, 02 Aug 2022 13:43:59: #2 finished! INFO @ Tue, 02 Aug 2022 13:43:59: #2 predicted fragment length is 69 bps INFO @ Tue, 02 Aug 2022 13:43:59: #2 alternative fragment length(s) may be 2,69,568 bps INFO @ Tue, 02 Aug 2022 13:43:59: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX14148454/SRX14148454.05_model.r WARNING @ Tue, 02 Aug 2022 13:43:59: #2 Since the d (69) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 02 Aug 2022 13:43:59: #2 You may need to consider one of the other alternative d(s): 2,69,568 WARNING @ Tue, 02 Aug 2022 13:43:59: #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 13:43:59: #3 Call peaks... INFO @ Tue, 02 Aug 2022 13:43:59: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 13:44:03: 13000000 INFO @ Tue, 02 Aug 2022 13:44:04: 8000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 13:44:11: 14000000 INFO @ Tue, 02 Aug 2022 13:44:12: 9000000 INFO @ Tue, 02 Aug 2022 13:44:19: 15000000 INFO @ Tue, 02 Aug 2022 13:44:21: 10000000 INFO @ Tue, 02 Aug 2022 13:44:26: 16000000 INFO @ Tue, 02 Aug 2022 13:44:29: 11000000 INFO @ Tue, 02 Aug 2022 13:44:30: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 13:44:30: #1 tag size is determined as 76 bps INFO @ Tue, 02 Aug 2022 13:44:30: #1 tag size = 76 INFO @ Tue, 02 Aug 2022 13:44:30: #1 total tags in treatment: 16510547 INFO @ Tue, 02 Aug 2022 13:44:30: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 13:44:30: #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 13:44:31: #1 tags after filtering in treatment: 16510441 INFO @ Tue, 02 Aug 2022 13:44:31: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 13:44:31: #1 finished! INFO @ Tue, 02 Aug 2022 13:44:31: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 13:44:31: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 13:44:32: #2 number of paired peaks: 1196 INFO @ Tue, 02 Aug 2022 13:44:32: start model_add_line... INFO @ Tue, 02 Aug 2022 13:44:32: start X-correlation... INFO @ Tue, 02 Aug 2022 13:44:32: end of X-cor INFO @ Tue, 02 Aug 2022 13:44:32: #2 finished! INFO @ Tue, 02 Aug 2022 13:44:32: #2 predicted fragment length is 69 bps INFO @ Tue, 02 Aug 2022 13:44:32: #2 alternative fragment length(s) may be 2,69,568 bps INFO @ Tue, 02 Aug 2022 13:44:32: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX14148454/SRX14148454.10_model.r WARNING @ Tue, 02 Aug 2022 13:44:32: #2 Since the d (69) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 02 Aug 2022 13:44:32: #2 You may need to consider one of the other alternative d(s): 2,69,568 WARNING @ Tue, 02 Aug 2022 13:44:32: #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 13:44:32: #3 Call peaks... INFO @ Tue, 02 Aug 2022 13:44:32: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 13:44:37: 12000000 BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 13:44:45: 13000000 INFO @ Tue, 02 Aug 2022 13:44:45: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX14148454/SRX14148454.05_peaks.xls INFO @ Tue, 02 Aug 2022 13:44:45: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX14148454/SRX14148454.05_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 13:44:45: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX14148454/SRX14148454.05_summits.bed INFO @ Tue, 02 Aug 2022 13:44:45: Done! pass1 - making usageList (609 chroms): 2 millis pass2 - checking and writing primary data (3207 records, 4 fields): 320 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 13:44:52: 14000000 INFO @ Tue, 02 Aug 2022 13:45:00: 15000000 INFO @ Tue, 02 Aug 2022 13:45:03: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 13:45:07: 16000000 INFO @ Tue, 02 Aug 2022 13:45:11: #1 tag size is determined as 76 bps INFO @ Tue, 02 Aug 2022 13:45:11: #1 tag size = 76 INFO @ Tue, 02 Aug 2022 13:45:11: #1 total tags in treatment: 16510547 INFO @ Tue, 02 Aug 2022 13:45:11: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 13:45:11: #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 13:45:12: #1 tags after filtering in treatment: 16510441 INFO @ Tue, 02 Aug 2022 13:45:12: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 13:45:12: #1 finished! INFO @ Tue, 02 Aug 2022 13:45:12: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 13:45:12: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 13:45:13: #2 number of paired peaks: 1196 INFO @ Tue, 02 Aug 2022 13:45:13: start model_add_line... INFO @ Tue, 02 Aug 2022 13:45:13: start X-correlation... INFO @ Tue, 02 Aug 2022 13:45:13: end of X-cor INFO @ Tue, 02 Aug 2022 13:45:13: #2 finished! INFO @ Tue, 02 Aug 2022 13:45:13: #2 predicted fragment length is 69 bps INFO @ Tue, 02 Aug 2022 13:45:13: #2 alternative fragment length(s) may be 2,69,568 bps INFO @ Tue, 02 Aug 2022 13:45:13: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX14148454/SRX14148454.20_model.r WARNING @ Tue, 02 Aug 2022 13:45:13: #2 Since the d (69) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 02 Aug 2022 13:45:13: #2 You may need to consider one of the other alternative d(s): 2,69,568 WARNING @ Tue, 02 Aug 2022 13:45:13: #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 13:45:13: #3 Call peaks... INFO @ Tue, 02 Aug 2022 13:45:13: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 13:45:18: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX14148454/SRX14148454.10_peaks.xls INFO @ Tue, 02 Aug 2022 13:45:18: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX14148454/SRX14148454.10_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 13:45:18: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX14148454/SRX14148454.10_summits.bed INFO @ Tue, 02 Aug 2022 13:45:18: Done! pass1 - making usageList (484 chroms): 1 millis pass2 - checking and writing primary data (1607 records, 4 fields): 35 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 13:45:45: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 13:45:59: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX14148454/SRX14148454.20_peaks.xls INFO @ Tue, 02 Aug 2022 13:45:59: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX14148454/SRX14148454.20_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 13:46:00: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX14148454/SRX14148454.20_summits.bed INFO @ Tue, 02 Aug 2022 13:46:00: Done! pass1 - making usageList (272 chroms): 1 millis pass2 - checking and writing primary data (655 records, 4 fields): 26 millis CompletedMACS2peakCalling