Job ID = 12265102 SRX = SRX3032264 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: 00:05:31 15571259 reads; of these: 15571259 (100.00%) were unpaired; of these: 4089059 (26.26%) aligned 0 times 10424459 (66.95%) aligned exactly 1 time 1057741 (6.79%) aligned >1 times 73.74% overall alignment rate Time searching: 00:05:31 Overall time: 00:05:31 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 8 files... [bam_rmdupse_core] 4200936 / 11482200 = 0.3659 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/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 06:18:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3032264/SRX3032264.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3032264/SRX3032264.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3032264/SRX3032264.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3032264/SRX3032264.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 @ Sat, 03 Apr 2021 06:18:24: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:18:24: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:18:35: 1000000 INFO @ Sat, 03 Apr 2021 06:18:45: 2000000 WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 06:18:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3032264/SRX3032264.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3032264/SRX3032264.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3032264/SRX3032264.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3032264/SRX3032264.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 @ Sat, 03 Apr 2021 06:18:54: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:18:54: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:18:56: 3000000 INFO @ Sat, 03 Apr 2021 06:19:03: 1000000 INFO @ Sat, 03 Apr 2021 06:19:06: 4000000 INFO @ Sat, 03 Apr 2021 06:19:12: 2000000 INFO @ Sat, 03 Apr 2021 06:19:16: 5000000 INFO @ Sat, 03 Apr 2021 06:19:21: 3000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 06:19:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3032264/SRX3032264.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3032264/SRX3032264.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3032264/SRX3032264.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3032264/SRX3032264.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 @ Sat, 03 Apr 2021 06:19:24: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:19:24: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:19:26: 6000000 INFO @ Sat, 03 Apr 2021 06:19:30: 4000000 INFO @ Sat, 03 Apr 2021 06:19:33: 1000000 INFO @ Sat, 03 Apr 2021 06:19:36: 7000000 INFO @ Sat, 03 Apr 2021 06:19:39: 5000000 INFO @ Sat, 03 Apr 2021 06:19:39: #1 tag size is determined as 75 bps INFO @ Sat, 03 Apr 2021 06:19:39: #1 tag size = 75 INFO @ Sat, 03 Apr 2021 06:19:39: #1 total tags in treatment: 7281264 INFO @ Sat, 03 Apr 2021 06:19:39: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:19:39: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 06:19:40: #1 tags after filtering in treatment: 7281048 INFO @ Sat, 03 Apr 2021 06:19:40: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:19:40: #1 finished! INFO @ Sat, 03 Apr 2021 06:19:40: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:19:40: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:19:41: #2 number of paired peaks: 3516 INFO @ Sat, 03 Apr 2021 06:19:41: start model_add_line... INFO @ Sat, 03 Apr 2021 06:19:41: start X-correlation... INFO @ Sat, 03 Apr 2021 06:19:41: end of X-cor INFO @ Sat, 03 Apr 2021 06:19:41: #2 finished! INFO @ Sat, 03 Apr 2021 06:19:41: #2 predicted fragment length is 100 bps INFO @ Sat, 03 Apr 2021 06:19:41: #2 alternative fragment length(s) may be 100 bps INFO @ Sat, 03 Apr 2021 06:19:41: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3032264/SRX3032264.05_model.r WARNING @ Sat, 03 Apr 2021 06:19:41: #2 Since the d (100) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:19:41: #2 You may need to consider one of the other alternative d(s): 100 WARNING @ Sat, 03 Apr 2021 06:19:41: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 03 Apr 2021 06:19:41: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:19:41: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:19:42: 2000000 INFO @ Sat, 03 Apr 2021 06:19:48: 6000000 INFO @ Sat, 03 Apr 2021 06:19:51: 3000000 INFO @ Sat, 03 Apr 2021 06:19:57: 7000000 INFO @ Sat, 03 Apr 2021 06:19:59: #1 tag size is determined as 75 bps INFO @ Sat, 03 Apr 2021 06:19:59: #1 tag size = 75 INFO @ Sat, 03 Apr 2021 06:19:59: #1 total tags in treatment: 7281264 INFO @ Sat, 03 Apr 2021 06:19:59: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:19:59: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 06:20:00: #1 tags after filtering in treatment: 7281048 INFO @ Sat, 03 Apr 2021 06:20:00: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:20:00: #1 finished! INFO @ Sat, 03 Apr 2021 06:20:00: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:20:00: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:20:00: 4000000 INFO @ Sat, 03 Apr 2021 06:20:01: #2 number of paired peaks: 3516 INFO @ Sat, 03 Apr 2021 06:20:01: start model_add_line... INFO @ Sat, 03 Apr 2021 06:20:01: start X-correlation... INFO @ Sat, 03 Apr 2021 06:20:01: end of X-cor INFO @ Sat, 03 Apr 2021 06:20:01: #2 finished! INFO @ Sat, 03 Apr 2021 06:20:01: #2 predicted fragment length is 100 bps INFO @ Sat, 03 Apr 2021 06:20:01: #2 alternative fragment length(s) may be 100 bps INFO @ Sat, 03 Apr 2021 06:20:01: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3032264/SRX3032264.10_model.r WARNING @ Sat, 03 Apr 2021 06:20:01: #2 Since the d (100) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:20:01: #2 You may need to consider one of the other alternative d(s): 100 WARNING @ Sat, 03 Apr 2021 06:20:01: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 03 Apr 2021 06:20:01: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:20:01: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:20:03: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:20:09: 5000000 INFO @ Sat, 03 Apr 2021 06:20:15: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3032264/SRX3032264.05_peaks.xls INFO @ Sat, 03 Apr 2021 06:20:15: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3032264/SRX3032264.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:20:15: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3032264/SRX3032264.05_summits.bed INFO @ Sat, 03 Apr 2021 06:20:15: Done! pass1 - making usageList (206 chroms): 8 millis pass2 - checking and writing primary data (15704 records, 4 fields): 29 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:20:18: 6000000 INFO @ Sat, 03 Apr 2021 06:20:24: #3 Call peaks for each chromosome... BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 06:20:26: 7000000 INFO @ Sat, 03 Apr 2021 06:20:29: #1 tag size is determined as 75 bps INFO @ Sat, 03 Apr 2021 06:20:29: #1 tag size = 75 INFO @ Sat, 03 Apr 2021 06:20:29: #1 total tags in treatment: 7281264 INFO @ Sat, 03 Apr 2021 06:20:29: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:20:29: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 06:20:29: #1 tags after filtering in treatment: 7281048 INFO @ Sat, 03 Apr 2021 06:20:29: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:20:29: #1 finished! INFO @ Sat, 03 Apr 2021 06:20:29: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:20:29: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:20:30: #2 number of paired peaks: 3516 INFO @ Sat, 03 Apr 2021 06:20:30: start model_add_line... INFO @ Sat, 03 Apr 2021 06:20:30: start X-correlation... INFO @ Sat, 03 Apr 2021 06:20:30: end of X-cor INFO @ Sat, 03 Apr 2021 06:20:30: #2 finished! INFO @ Sat, 03 Apr 2021 06:20:30: #2 predicted fragment length is 100 bps INFO @ Sat, 03 Apr 2021 06:20:30: #2 alternative fragment length(s) may be 100 bps INFO @ Sat, 03 Apr 2021 06:20:30: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3032264/SRX3032264.20_model.r WARNING @ Sat, 03 Apr 2021 06:20:30: #2 Since the d (100) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:20:30: #2 You may need to consider one of the other alternative d(s): 100 WARNING @ Sat, 03 Apr 2021 06:20:30: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 03 Apr 2021 06:20:30: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:20:30: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:20:36: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3032264/SRX3032264.10_peaks.xls INFO @ Sat, 03 Apr 2021 06:20:36: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3032264/SRX3032264.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:20:36: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3032264/SRX3032264.10_summits.bed INFO @ Sat, 03 Apr 2021 06:20:36: Done! pass1 - making usageList (104 chroms): 6 millis pass2 - checking and writing primary data (9830 records, 4 fields): 26 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 06:20:53: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:21:04: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3032264/SRX3032264.20_peaks.xls INFO @ Sat, 03 Apr 2021 06:21:04: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3032264/SRX3032264.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:21:04: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3032264/SRX3032264.20_summits.bed INFO @ Sat, 03 Apr 2021 06:21:04: Done! pass1 - making usageList (50 chroms): 4 millis pass2 - checking and writing primary data (4094 records, 4 fields): 15 millis CompletedMACS2peakCalling