Job ID = 12265019 SRX = SRX3032260 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: 00:01:56 6317083 reads; of these: 6317083 (100.00%) were unpaired; of these: 1768530 (28.00%) aligned 0 times 4151154 (65.71%) aligned exactly 1 time 397399 (6.29%) aligned >1 times 72.00% overall alignment rate Time searching: 00:01:56 Overall time: 00:01:56 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_rmdupse_core] 1389024 / 4548553 = 0.3054 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 06:08:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3032260/SRX3032260.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3032260/SRX3032260.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3032260/SRX3032260.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3032260/SRX3032260.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 06:08:11: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:08:11: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:08:17: 1000000 INFO @ Sat, 03 Apr 2021 06:08:24: 2000000 INFO @ Sat, 03 Apr 2021 06:08:30: 3000000 INFO @ Sat, 03 Apr 2021 06:08:32: #1 tag size is determined as 74 bps INFO @ Sat, 03 Apr 2021 06:08:32: #1 tag size = 74 INFO @ Sat, 03 Apr 2021 06:08:32: #1 total tags in treatment: 3159529 INFO @ Sat, 03 Apr 2021 06:08:32: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:08:32: #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 06:08:32: #1 tags after filtering in treatment: 3159068 INFO @ Sat, 03 Apr 2021 06:08:32: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:08:32: #1 finished! INFO @ Sat, 03 Apr 2021 06:08:32: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:08:32: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:08:32: #2 number of paired peaks: 7065 INFO @ Sat, 03 Apr 2021 06:08:32: start model_add_line... INFO @ Sat, 03 Apr 2021 06:08:32: start X-correlation... INFO @ Sat, 03 Apr 2021 06:08:32: end of X-cor INFO @ Sat, 03 Apr 2021 06:08:32: #2 finished! INFO @ Sat, 03 Apr 2021 06:08:32: #2 predicted fragment length is 107 bps INFO @ Sat, 03 Apr 2021 06:08:32: #2 alternative fragment length(s) may be 107 bps INFO @ Sat, 03 Apr 2021 06:08:32: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3032260/SRX3032260.05_model.r WARNING @ Sat, 03 Apr 2021 06:08:32: #2 Since the d (107) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:08:32: #2 You may need to consider one of the other alternative d(s): 107 WARNING @ Sat, 03 Apr 2021 06:08:32: #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 06:08:32: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:08:32: #3 Pre-compute pvalue-qvalue table... 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 06:08:40: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:08:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3032260/SRX3032260.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3032260/SRX3032260.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3032260/SRX3032260.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3032260/SRX3032260.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 06:08:41: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:08:41: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:08:44: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3032260/SRX3032260.05_peaks.xls INFO @ Sat, 03 Apr 2021 06:08:44: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3032260/SRX3032260.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:08:44: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3032260/SRX3032260.05_summits.bed INFO @ Sat, 03 Apr 2021 06:08:44: Done! pass1 - making usageList (114 chroms): 2 millis pass2 - checking and writing primary data (13314 records, 4 fields): 28 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:08:49: 1000000 INFO @ Sat, 03 Apr 2021 06:08:56: 2000000 INFO @ Sat, 03 Apr 2021 06:09:03: 3000000 INFO @ Sat, 03 Apr 2021 06:09:05: #1 tag size is determined as 74 bps INFO @ Sat, 03 Apr 2021 06:09:05: #1 tag size = 74 INFO @ Sat, 03 Apr 2021 06:09:05: #1 total tags in treatment: 3159529 INFO @ Sat, 03 Apr 2021 06:09:05: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:09:05: #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 06:09:05: #1 tags after filtering in treatment: 3159068 INFO @ Sat, 03 Apr 2021 06:09:05: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:09:05: #1 finished! INFO @ Sat, 03 Apr 2021 06:09:05: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:09:05: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:09:05: #2 number of paired peaks: 7065 INFO @ Sat, 03 Apr 2021 06:09:05: start model_add_line... INFO @ Sat, 03 Apr 2021 06:09:05: start X-correlation... INFO @ Sat, 03 Apr 2021 06:09:05: end of X-cor INFO @ Sat, 03 Apr 2021 06:09:05: #2 finished! INFO @ Sat, 03 Apr 2021 06:09:05: #2 predicted fragment length is 107 bps INFO @ Sat, 03 Apr 2021 06:09:05: #2 alternative fragment length(s) may be 107 bps INFO @ Sat, 03 Apr 2021 06:09:05: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3032260/SRX3032260.10_model.r WARNING @ Sat, 03 Apr 2021 06:09:06: #2 Since the d (107) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:09:06: #2 You may need to consider one of the other alternative d(s): 107 WARNING @ Sat, 03 Apr 2021 06:09:06: #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 06:09:06: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:09:06: #3 Pre-compute pvalue-qvalue table... 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 06:09:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3032260/SRX3032260.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3032260/SRX3032260.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3032260/SRX3032260.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3032260/SRX3032260.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 06:09:11: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:09:11: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:09:13: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:09:17: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3032260/SRX3032260.10_peaks.xls INFO @ Sat, 03 Apr 2021 06:09:17: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3032260/SRX3032260.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:09:17: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3032260/SRX3032260.10_summits.bed INFO @ Sat, 03 Apr 2021 06:09:17: Done! pass1 - making usageList (65 chroms): 2 millis pass2 - checking and writing primary data (8170 records, 4 fields): 11 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:09:19: 1000000 INFO @ Sat, 03 Apr 2021 06:09:26: 2000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 06:09:33: 3000000 BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 06:09:35: #1 tag size is determined as 74 bps INFO @ Sat, 03 Apr 2021 06:09:35: #1 tag size = 74 INFO @ Sat, 03 Apr 2021 06:09:35: #1 total tags in treatment: 3159529 INFO @ Sat, 03 Apr 2021 06:09:35: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:09:35: #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 06:09:35: #1 tags after filtering in treatment: 3159068 INFO @ Sat, 03 Apr 2021 06:09:35: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:09:35: #1 finished! INFO @ Sat, 03 Apr 2021 06:09:35: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:09:35: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:09:35: #2 number of paired peaks: 7065 INFO @ Sat, 03 Apr 2021 06:09:35: start model_add_line... INFO @ Sat, 03 Apr 2021 06:09:35: start X-correlation... INFO @ Sat, 03 Apr 2021 06:09:36: end of X-cor INFO @ Sat, 03 Apr 2021 06:09:36: #2 finished! INFO @ Sat, 03 Apr 2021 06:09:36: #2 predicted fragment length is 107 bps INFO @ Sat, 03 Apr 2021 06:09:36: #2 alternative fragment length(s) may be 107 bps INFO @ Sat, 03 Apr 2021 06:09:36: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3032260/SRX3032260.20_model.r WARNING @ Sat, 03 Apr 2021 06:09:36: #2 Since the d (107) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:09:36: #2 You may need to consider one of the other alternative d(s): 107 WARNING @ Sat, 03 Apr 2021 06:09:36: #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 06:09:36: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:09:36: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:09:43: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:09:47: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3032260/SRX3032260.20_peaks.xls INFO @ Sat, 03 Apr 2021 06:09:47: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3032260/SRX3032260.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:09:47: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3032260/SRX3032260.20_summits.bed INFO @ Sat, 03 Apr 2021 06:09:47: Done! pass1 - making usageList (36 chroms): 1 millis pass2 - checking and writing primary data (3349 records, 4 fields): 5 millis CompletedMACS2peakCalling