Job ID = 16438579 SRX = SRX14148469 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: 00:10:04 22647565 reads; of these: 22647565 (100.00%) were unpaired; of these: 1249205 (5.52%) aligned 0 times 15107903 (66.71%) aligned exactly 1 time 6290457 (27.78%) aligned >1 times 94.48% overall alignment rate Time searching: 00:10:04 Overall time: 00:10:04 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] 4159554 / 21398360 = 0.1944 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 14:16:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX14148469/SRX14148469.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX14148469/SRX14148469.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX14148469/SRX14148469.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX14148469/SRX14148469.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 14:16:16: #1 read tag files... INFO @ Tue, 02 Aug 2022 14:16:16: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 14:16:24: 1000000 INFO @ Tue, 02 Aug 2022 14:16:31: 2000000 INFO @ Tue, 02 Aug 2022 14:16:39: 3000000 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 14:16:46: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX14148469/SRX14148469.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX14148469/SRX14148469.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX14148469/SRX14148469.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX14148469/SRX14148469.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 14:16:46: #1 read tag files... INFO @ Tue, 02 Aug 2022 14:16:46: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 14:16:47: 4000000 INFO @ Tue, 02 Aug 2022 14:16:55: 5000000 INFO @ Tue, 02 Aug 2022 14:16:55: 1000000 INFO @ Tue, 02 Aug 2022 14:17:04: 6000000 INFO @ Tue, 02 Aug 2022 14:17:05: 2000000 INFO @ Tue, 02 Aug 2022 14:17:12: 7000000 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 14:17:14: 3000000 INFO @ Tue, 02 Aug 2022 14:17:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX14148469/SRX14148469.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX14148469/SRX14148469.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX14148469/SRX14148469.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX14148469/SRX14148469.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 14:17:16: #1 read tag files... INFO @ Tue, 02 Aug 2022 14:17:16: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 14:17:21: 8000000 INFO @ Tue, 02 Aug 2022 14:17:24: 4000000 INFO @ Tue, 02 Aug 2022 14:17:25: 1000000 INFO @ Tue, 02 Aug 2022 14:17:30: 9000000 INFO @ Tue, 02 Aug 2022 14:17:33: 2000000 INFO @ Tue, 02 Aug 2022 14:17:34: 5000000 INFO @ Tue, 02 Aug 2022 14:17:39: 10000000 INFO @ Tue, 02 Aug 2022 14:17:41: 3000000 INFO @ Tue, 02 Aug 2022 14:17:44: 6000000 INFO @ Tue, 02 Aug 2022 14:17:48: 11000000 INFO @ Tue, 02 Aug 2022 14:17:49: 4000000 INFO @ Tue, 02 Aug 2022 14:17:54: 7000000 INFO @ Tue, 02 Aug 2022 14:17:56: 12000000 INFO @ Tue, 02 Aug 2022 14:17:57: 5000000 INFO @ Tue, 02 Aug 2022 14:18:04: 8000000 INFO @ Tue, 02 Aug 2022 14:18:05: 13000000 INFO @ Tue, 02 Aug 2022 14:18:07: 6000000 INFO @ Tue, 02 Aug 2022 14:18:14: 14000000 INFO @ Tue, 02 Aug 2022 14:18:15: 9000000 INFO @ Tue, 02 Aug 2022 14:18:15: 7000000 INFO @ Tue, 02 Aug 2022 14:18:23: 15000000 INFO @ Tue, 02 Aug 2022 14:18:24: 8000000 INFO @ Tue, 02 Aug 2022 14:18:25: 10000000 INFO @ Tue, 02 Aug 2022 14:18:32: 9000000 INFO @ Tue, 02 Aug 2022 14:18:32: 16000000 INFO @ Tue, 02 Aug 2022 14:18:35: 11000000 INFO @ Tue, 02 Aug 2022 14:18:40: 10000000 INFO @ Tue, 02 Aug 2022 14:18:41: 17000000 INFO @ Tue, 02 Aug 2022 14:18:43: #1 tag size is determined as 76 bps INFO @ Tue, 02 Aug 2022 14:18:43: #1 tag size = 76 INFO @ Tue, 02 Aug 2022 14:18:43: #1 total tags in treatment: 17238806 INFO @ Tue, 02 Aug 2022 14:18:43: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 14:18:43: #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 14:18:44: #1 tags after filtering in treatment: 17238711 INFO @ Tue, 02 Aug 2022 14:18:44: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 14:18:44: #1 finished! INFO @ Tue, 02 Aug 2022 14:18:44: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 14:18:44: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 14:18:45: 12000000 INFO @ Tue, 02 Aug 2022 14:18:45: #2 number of paired peaks: 1351 INFO @ Tue, 02 Aug 2022 14:18:45: start model_add_line... INFO @ Tue, 02 Aug 2022 14:18:45: start X-correlation... INFO @ Tue, 02 Aug 2022 14:18:46: end of X-cor INFO @ Tue, 02 Aug 2022 14:18:46: #2 finished! INFO @ Tue, 02 Aug 2022 14:18:46: #2 predicted fragment length is 81 bps INFO @ Tue, 02 Aug 2022 14:18:46: #2 alternative fragment length(s) may be 3,81 bps INFO @ Tue, 02 Aug 2022 14:18:46: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX14148469/SRX14148469.05_model.r WARNING @ Tue, 02 Aug 2022 14:18:46: #2 Since the d (81) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 02 Aug 2022 14:18:46: #2 You may need to consider one of the other alternative d(s): 3,81 WARNING @ Tue, 02 Aug 2022 14:18:46: #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 14:18:46: #3 Call peaks... INFO @ Tue, 02 Aug 2022 14:18:46: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 14:18:49: 11000000 INFO @ Tue, 02 Aug 2022 14:18:54: 13000000 INFO @ Tue, 02 Aug 2022 14:18:57: 12000000 INFO @ Tue, 02 Aug 2022 14:19:03: 14000000 INFO @ Tue, 02 Aug 2022 14:19:05: 13000000 INFO @ Tue, 02 Aug 2022 14:19:13: 14000000 INFO @ Tue, 02 Aug 2022 14:19:14: 15000000 INFO @ Tue, 02 Aug 2022 14:19:19: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 14:19:22: 15000000 INFO @ Tue, 02 Aug 2022 14:19:23: 16000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 14:19:31: 16000000 INFO @ Tue, 02 Aug 2022 14:19:33: 17000000 INFO @ Tue, 02 Aug 2022 14:19:34: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX14148469/SRX14148469.05_peaks.xls INFO @ Tue, 02 Aug 2022 14:19:34: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX14148469/SRX14148469.05_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 14:19:34: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX14148469/SRX14148469.05_summits.bed INFO @ Tue, 02 Aug 2022 14:19:34: Done! pass1 - making usageList (624 chroms): 2 millis pass2 - checking and writing primary data (3704 records, 4 fields): 90 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 14:19:35: #1 tag size is determined as 76 bps INFO @ Tue, 02 Aug 2022 14:19:35: #1 tag size = 76 INFO @ Tue, 02 Aug 2022 14:19:35: #1 total tags in treatment: 17238806 INFO @ Tue, 02 Aug 2022 14:19:35: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 14:19:35: #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 14:19:36: #1 tags after filtering in treatment: 17238711 INFO @ Tue, 02 Aug 2022 14:19:36: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 14:19:36: #1 finished! INFO @ Tue, 02 Aug 2022 14:19:36: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 14:19:36: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 14:19:37: #2 number of paired peaks: 1351 INFO @ Tue, 02 Aug 2022 14:19:37: start model_add_line... INFO @ Tue, 02 Aug 2022 14:19:37: start X-correlation... INFO @ Tue, 02 Aug 2022 14:19:37: end of X-cor INFO @ Tue, 02 Aug 2022 14:19:37: #2 finished! INFO @ Tue, 02 Aug 2022 14:19:37: #2 predicted fragment length is 81 bps INFO @ Tue, 02 Aug 2022 14:19:37: #2 alternative fragment length(s) may be 3,81 bps INFO @ Tue, 02 Aug 2022 14:19:37: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX14148469/SRX14148469.10_model.r WARNING @ Tue, 02 Aug 2022 14:19:37: #2 Since the d (81) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 02 Aug 2022 14:19:37: #2 You may need to consider one of the other alternative d(s): 3,81 WARNING @ Tue, 02 Aug 2022 14:19:37: #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 14:19:37: #3 Call peaks... INFO @ Tue, 02 Aug 2022 14:19:37: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 14:19:39: 17000000 INFO @ Tue, 02 Aug 2022 14:19:41: #1 tag size is determined as 76 bps INFO @ Tue, 02 Aug 2022 14:19:41: #1 tag size = 76 INFO @ Tue, 02 Aug 2022 14:19:41: #1 total tags in treatment: 17238806 INFO @ Tue, 02 Aug 2022 14:19:41: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 14:19:41: #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 14:19:42: #1 tags after filtering in treatment: 17238711 INFO @ Tue, 02 Aug 2022 14:19:42: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 14:19:42: #1 finished! INFO @ Tue, 02 Aug 2022 14:19:42: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 14:19:42: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 14:19:43: #2 number of paired peaks: 1351 INFO @ Tue, 02 Aug 2022 14:19:43: start model_add_line... INFO @ Tue, 02 Aug 2022 14:19:43: start X-correlation... INFO @ Tue, 02 Aug 2022 14:19:43: end of X-cor INFO @ Tue, 02 Aug 2022 14:19:43: #2 finished! INFO @ Tue, 02 Aug 2022 14:19:43: #2 predicted fragment length is 81 bps INFO @ Tue, 02 Aug 2022 14:19:43: #2 alternative fragment length(s) may be 3,81 bps INFO @ Tue, 02 Aug 2022 14:19:43: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX14148469/SRX14148469.20_model.r WARNING @ Tue, 02 Aug 2022 14:19:43: #2 Since the d (81) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 02 Aug 2022 14:19:43: #2 You may need to consider one of the other alternative d(s): 3,81 WARNING @ Tue, 02 Aug 2022 14:19:43: #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 14:19:43: #3 Call peaks... INFO @ Tue, 02 Aug 2022 14:19:43: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 14:20:10: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 14:20:15: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 14:20:26: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX14148469/SRX14148469.10_peaks.xls INFO @ Tue, 02 Aug 2022 14:20:26: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX14148469/SRX14148469.10_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 14:20:26: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX14148469/SRX14148469.10_summits.bed INFO @ Tue, 02 Aug 2022 14:20:26: Done! pass1 - making usageList (566 chroms): 2 millis pass2 - checking and writing primary data (2083 records, 4 fields): 64 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 14:20:30: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX14148469/SRX14148469.20_peaks.xls INFO @ Tue, 02 Aug 2022 14:20:30: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX14148469/SRX14148469.20_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 14:20:30: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX14148469/SRX14148469.20_summits.bed INFO @ Tue, 02 Aug 2022 14:20:30: Done! pass1 - making usageList (366 chroms): 1 millis pass2 - checking and writing primary data (912 records, 4 fields): 42 millis CompletedMACS2peakCalling