Job ID = 12265517 SRX = SRX7191480 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: 00:04:37 17895159 reads; of these: 17895159 (100.00%) were unpaired; of these: 3675731 (20.54%) aligned 0 times 11719015 (65.49%) aligned exactly 1 time 2500413 (13.97%) aligned >1 times 79.46% overall alignment rate Time searching: 00:04:37 Overall time: 00:04:37 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] 7882851 / 14219428 = 0.5544 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 07:31:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7191480/SRX7191480.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7191480/SRX7191480.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7191480/SRX7191480.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7191480/SRX7191480.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 07:31:07: #1 read tag files... INFO @ Sat, 03 Apr 2021 07:31:07: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 07:31:14: 1000000 INFO @ Sat, 03 Apr 2021 07:31:23: 2000000 INFO @ Sat, 03 Apr 2021 07:31:32: 3000000 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 07:31:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7191480/SRX7191480.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7191480/SRX7191480.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7191480/SRX7191480.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7191480/SRX7191480.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 07:31:37: #1 read tag files... INFO @ Sat, 03 Apr 2021 07:31:37: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 07:31:40: 4000000 INFO @ Sat, 03 Apr 2021 07:31:45: 1000000 INFO @ Sat, 03 Apr 2021 07:31:49: 5000000 INFO @ Sat, 03 Apr 2021 07:31:53: 2000000 INFO @ Sat, 03 Apr 2021 07:31:59: 6000000 INFO @ Sat, 03 Apr 2021 07:32:01: 3000000 INFO @ Sat, 03 Apr 2021 07:32:03: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 07:32:03: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 07:32:03: #1 total tags in treatment: 6336577 INFO @ Sat, 03 Apr 2021 07:32:03: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 07:32:03: #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 07:32:03: #1 tags after filtering in treatment: 6336567 INFO @ Sat, 03 Apr 2021 07:32:03: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 07:32:03: #1 finished! INFO @ Sat, 03 Apr 2021 07:32:03: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 07:32:03: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 07:32:03: #2 number of paired peaks: 721 WARNING @ Sat, 03 Apr 2021 07:32:03: Fewer paired peaks (721) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 721 pairs to build model! INFO @ Sat, 03 Apr 2021 07:32:03: start model_add_line... INFO @ Sat, 03 Apr 2021 07:32:04: start X-correlation... INFO @ Sat, 03 Apr 2021 07:32:04: end of X-cor INFO @ Sat, 03 Apr 2021 07:32:04: #2 finished! INFO @ Sat, 03 Apr 2021 07:32:04: #2 predicted fragment length is 79 bps INFO @ Sat, 03 Apr 2021 07:32:04: #2 alternative fragment length(s) may be 79 bps INFO @ Sat, 03 Apr 2021 07:32:04: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7191480/SRX7191480.05_model.r WARNING @ Sat, 03 Apr 2021 07:32:04: #2 Since the d (79) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 07:32:04: #2 You may need to consider one of the other alternative d(s): 79 WARNING @ Sat, 03 Apr 2021 07:32:04: #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 07:32:04: #3 Call peaks... INFO @ Sat, 03 Apr 2021 07:32:04: #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 07:32:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7191480/SRX7191480.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7191480/SRX7191480.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7191480/SRX7191480.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7191480/SRX7191480.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 07:32:07: #1 read tag files... INFO @ Sat, 03 Apr 2021 07:32:07: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 07:32:07: 4000000 INFO @ Sat, 03 Apr 2021 07:32:14: 5000000 INFO @ Sat, 03 Apr 2021 07:32:14: 1000000 INFO @ Sat, 03 Apr 2021 07:32:20: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 07:32:22: 2000000 INFO @ Sat, 03 Apr 2021 07:32:22: 6000000 INFO @ Sat, 03 Apr 2021 07:32:24: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 07:32:24: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 07:32:24: #1 total tags in treatment: 6336577 INFO @ Sat, 03 Apr 2021 07:32:24: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 07:32:24: #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 07:32:25: #1 tags after filtering in treatment: 6336567 INFO @ Sat, 03 Apr 2021 07:32:25: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 07:32:25: #1 finished! INFO @ Sat, 03 Apr 2021 07:32:25: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 07:32:25: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 07:32:25: #2 number of paired peaks: 721 WARNING @ Sat, 03 Apr 2021 07:32:25: Fewer paired peaks (721) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 721 pairs to build model! INFO @ Sat, 03 Apr 2021 07:32:25: start model_add_line... INFO @ Sat, 03 Apr 2021 07:32:25: start X-correlation... INFO @ Sat, 03 Apr 2021 07:32:25: end of X-cor INFO @ Sat, 03 Apr 2021 07:32:25: #2 finished! INFO @ Sat, 03 Apr 2021 07:32:25: #2 predicted fragment length is 79 bps INFO @ Sat, 03 Apr 2021 07:32:25: #2 alternative fragment length(s) may be 79 bps INFO @ Sat, 03 Apr 2021 07:32:25: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7191480/SRX7191480.10_model.r WARNING @ Sat, 03 Apr 2021 07:32:25: #2 Since the d (79) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 07:32:25: #2 You may need to consider one of the other alternative d(s): 79 WARNING @ Sat, 03 Apr 2021 07:32:25: #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 07:32:25: #3 Call peaks... INFO @ Sat, 03 Apr 2021 07:32:25: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 07:32:28: 3000000 INFO @ Sat, 03 Apr 2021 07:32:28: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7191480/SRX7191480.05_peaks.xls INFO @ Sat, 03 Apr 2021 07:32:28: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7191480/SRX7191480.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 07:32:28: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7191480/SRX7191480.05_summits.bed INFO @ Sat, 03 Apr 2021 07:32:28: Done! pass1 - making usageList (312 chroms): 1 millis pass2 - checking and writing primary data (2009 records, 4 fields): 12 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 07:32:35: 4000000 INFO @ Sat, 03 Apr 2021 07:32:41: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 07:32:41: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 07:32:47: 6000000 INFO @ Sat, 03 Apr 2021 07:32:48: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7191480/SRX7191480.10_peaks.xls INFO @ Sat, 03 Apr 2021 07:32:48: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7191480/SRX7191480.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 07:32:48: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7191480/SRX7191480.10_summits.bed INFO @ Sat, 03 Apr 2021 07:32:48: Done! pass1 - making usageList (135 chroms): 1 millis pass2 - checking and writing primary data (493 records, 4 fields): 6 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 07:32:50: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 07:32:50: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 07:32:50: #1 total tags in treatment: 6336577 INFO @ Sat, 03 Apr 2021 07:32:50: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 07:32:50: #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 07:32:50: #1 tags after filtering in treatment: 6336567 INFO @ Sat, 03 Apr 2021 07:32:50: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 07:32:50: #1 finished! INFO @ Sat, 03 Apr 2021 07:32:50: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 07:32:50: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 07:32:51: #2 number of paired peaks: 721 WARNING @ Sat, 03 Apr 2021 07:32:51: Fewer paired peaks (721) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 721 pairs to build model! INFO @ Sat, 03 Apr 2021 07:32:51: start model_add_line... INFO @ Sat, 03 Apr 2021 07:32:51: start X-correlation... INFO @ Sat, 03 Apr 2021 07:32:51: end of X-cor INFO @ Sat, 03 Apr 2021 07:32:51: #2 finished! INFO @ Sat, 03 Apr 2021 07:32:51: #2 predicted fragment length is 79 bps INFO @ Sat, 03 Apr 2021 07:32:51: #2 alternative fragment length(s) may be 79 bps INFO @ Sat, 03 Apr 2021 07:32:51: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7191480/SRX7191480.20_model.r WARNING @ Sat, 03 Apr 2021 07:32:51: #2 Since the d (79) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 07:32:51: #2 You may need to consider one of the other alternative d(s): 79 WARNING @ Sat, 03 Apr 2021 07:32:51: #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 07:32:51: #3 Call peaks... INFO @ Sat, 03 Apr 2021 07:32:51: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 07:33:06: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 07:33:14: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7191480/SRX7191480.20_peaks.xls INFO @ Sat, 03 Apr 2021 07:33:14: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7191480/SRX7191480.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 07:33:14: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7191480/SRX7191480.20_summits.bed INFO @ Sat, 03 Apr 2021 07:33:14: Done! pass1 - making usageList (79 chroms): 1 millis pass2 - checking and writing primary data (150 records, 4 fields): 3 millis CompletedMACS2peakCalling