Job ID = 14170660 SRX = SRX5007620 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: 00:00:01 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:04:10 5930350 reads; of these: 5930350 (100.00%) were unpaired; of these: 1030712 (17.38%) aligned 0 times 4242123 (71.53%) aligned exactly 1 time 657515 (11.09%) aligned >1 times 82.62% overall alignment rate Time searching: 00:04:11 Overall time: 00:04:11 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] 3744065 / 4899638 = 0.7642 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/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 11 Dec 2021 07:57:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5007620/SRX5007620.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5007620/SRX5007620.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5007620/SRX5007620.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5007620/SRX5007620.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, 11 Dec 2021 07:57:09: #1 read tag files... INFO @ Sat, 11 Dec 2021 07:57:09: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 07:57:17: 1000000 INFO @ Sat, 11 Dec 2021 07:57:19: #1 tag size is determined as 151 bps INFO @ Sat, 11 Dec 2021 07:57:19: #1 tag size = 151 INFO @ Sat, 11 Dec 2021 07:57:19: #1 total tags in treatment: 1155573 INFO @ Sat, 11 Dec 2021 07:57:19: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 07:57:19: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 07:57:19: #1 tags after filtering in treatment: 1155258 INFO @ Sat, 11 Dec 2021 07:57:19: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 07:57:19: #1 finished! INFO @ Sat, 11 Dec 2021 07:57:19: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 07:57:19: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 07:57:19: #2 number of paired peaks: 1668 INFO @ Sat, 11 Dec 2021 07:57:19: start model_add_line... INFO @ Sat, 11 Dec 2021 07:57:19: start X-correlation... INFO @ Sat, 11 Dec 2021 07:57:19: end of X-cor INFO @ Sat, 11 Dec 2021 07:57:19: #2 finished! INFO @ Sat, 11 Dec 2021 07:57:19: #2 predicted fragment length is 178 bps INFO @ Sat, 11 Dec 2021 07:57:19: #2 alternative fragment length(s) may be 178 bps INFO @ Sat, 11 Dec 2021 07:57:19: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5007620/SRX5007620.05_model.r WARNING @ Sat, 11 Dec 2021 07:57:19: #2 Since the d (178) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 11 Dec 2021 07:57:19: #2 You may need to consider one of the other alternative d(s): 178 WARNING @ Sat, 11 Dec 2021 07:57:19: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 11 Dec 2021 07:57:19: #3 Call peaks... INFO @ Sat, 11 Dec 2021 07:57:19: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 07:57:23: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 07:57:24: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5007620/SRX5007620.05_peaks.xls INFO @ Sat, 11 Dec 2021 07:57:24: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5007620/SRX5007620.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 07:57:24: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5007620/SRX5007620.05_summits.bed INFO @ Sat, 11 Dec 2021 07:57:24: Done! pass1 - making usageList (245 chroms): 1 millis pass2 - checking and writing primary data (608 records, 4 fields): 16 millis CompletedMACS2peakCalling WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 11 Dec 2021 07:57:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5007620/SRX5007620.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5007620/SRX5007620.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5007620/SRX5007620.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5007620/SRX5007620.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, 11 Dec 2021 07:57:39: #1 read tag files... INFO @ Sat, 11 Dec 2021 07:57:39: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 07:57:48: 1000000 INFO @ Sat, 11 Dec 2021 07:57:49: #1 tag size is determined as 151 bps INFO @ Sat, 11 Dec 2021 07:57:49: #1 tag size = 151 INFO @ Sat, 11 Dec 2021 07:57:49: #1 total tags in treatment: 1155573 INFO @ Sat, 11 Dec 2021 07:57:49: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 07:57:49: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 07:57:49: #1 tags after filtering in treatment: 1155258 INFO @ Sat, 11 Dec 2021 07:57:49: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 07:57:49: #1 finished! INFO @ Sat, 11 Dec 2021 07:57:49: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 07:57:49: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 07:57:50: #2 number of paired peaks: 1668 INFO @ Sat, 11 Dec 2021 07:57:50: start model_add_line... INFO @ Sat, 11 Dec 2021 07:57:50: start X-correlation... INFO @ Sat, 11 Dec 2021 07:57:50: end of X-cor INFO @ Sat, 11 Dec 2021 07:57:50: #2 finished! INFO @ Sat, 11 Dec 2021 07:57:50: #2 predicted fragment length is 178 bps INFO @ Sat, 11 Dec 2021 07:57:50: #2 alternative fragment length(s) may be 178 bps INFO @ Sat, 11 Dec 2021 07:57:50: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5007620/SRX5007620.10_model.r WARNING @ Sat, 11 Dec 2021 07:57:50: #2 Since the d (178) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 11 Dec 2021 07:57:50: #2 You may need to consider one of the other alternative d(s): 178 WARNING @ Sat, 11 Dec 2021 07:57:50: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 11 Dec 2021 07:57:50: #3 Call peaks... INFO @ Sat, 11 Dec 2021 07:57:50: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 07:57:53: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 07:57:54: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5007620/SRX5007620.10_peaks.xls INFO @ Sat, 11 Dec 2021 07:57:54: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5007620/SRX5007620.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 07:57:54: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5007620/SRX5007620.10_summits.bed INFO @ Sat, 11 Dec 2021 07:57:54: Done! pass1 - making usageList (142 chroms): 1 millis pass2 - checking and writing primary data (240 records, 4 fields): 10 millis CompletedMACS2peakCalling BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 11 Dec 2021 07:58:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5007620/SRX5007620.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5007620/SRX5007620.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5007620/SRX5007620.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5007620/SRX5007620.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, 11 Dec 2021 07:58:09: #1 read tag files... INFO @ Sat, 11 Dec 2021 07:58:09: #1 read treatment tags... BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 07:58:18: 1000000 INFO @ Sat, 11 Dec 2021 07:58:19: #1 tag size is determined as 151 bps INFO @ Sat, 11 Dec 2021 07:58:19: #1 tag size = 151 INFO @ Sat, 11 Dec 2021 07:58:19: #1 total tags in treatment: 1155573 INFO @ Sat, 11 Dec 2021 07:58:19: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 07:58:19: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 07:58:19: #1 tags after filtering in treatment: 1155258 INFO @ Sat, 11 Dec 2021 07:58:19: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 07:58:19: #1 finished! INFO @ Sat, 11 Dec 2021 07:58:19: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 07:58:19: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 07:58:20: #2 number of paired peaks: 1668 INFO @ Sat, 11 Dec 2021 07:58:20: start model_add_line... INFO @ Sat, 11 Dec 2021 07:58:20: start X-correlation... INFO @ Sat, 11 Dec 2021 07:58:20: end of X-cor INFO @ Sat, 11 Dec 2021 07:58:20: #2 finished! INFO @ Sat, 11 Dec 2021 07:58:20: #2 predicted fragment length is 178 bps INFO @ Sat, 11 Dec 2021 07:58:20: #2 alternative fragment length(s) may be 178 bps INFO @ Sat, 11 Dec 2021 07:58:20: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5007620/SRX5007620.20_model.r WARNING @ Sat, 11 Dec 2021 07:58:20: #2 Since the d (178) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 11 Dec 2021 07:58:20: #2 You may need to consider one of the other alternative d(s): 178 WARNING @ Sat, 11 Dec 2021 07:58:20: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 11 Dec 2021 07:58:20: #3 Call peaks... INFO @ Sat, 11 Dec 2021 07:58:20: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 07:58:23: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 07:58:25: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5007620/SRX5007620.20_peaks.xls INFO @ Sat, 11 Dec 2021 07:58:25: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5007620/SRX5007620.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 07:58:25: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5007620/SRX5007620.20_summits.bed INFO @ Sat, 11 Dec 2021 07:58:25: Done! pass1 - making usageList (50 chroms): 1 millis pass2 - checking and writing primary data (94 records, 4 fields): 4 millis CompletedMACS2peakCalling