Job ID = 12266824 SRX = SRX7282927 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: 00:03:08 15307175 reads; of these: 15307175 (100.00%) were unpaired; of these: 2230952 (14.57%) aligned 0 times 12135092 (79.28%) aligned exactly 1 time 941131 (6.15%) aligned >1 times 85.43% overall alignment rate Time searching: 00:03:08 Overall time: 00:03:08 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] 6411482 / 13076223 = 0.4903 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 09:29:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7282927/SRX7282927.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7282927/SRX7282927.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7282927/SRX7282927.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7282927/SRX7282927.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 09:29:22: #1 read tag files... INFO @ Sat, 03 Apr 2021 09:29:22: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 09:29:28: 1000000 INFO @ Sat, 03 Apr 2021 09:29:33: 2000000 INFO @ Sat, 03 Apr 2021 09:29:39: 3000000 INFO @ Sat, 03 Apr 2021 09:29:45: 4000000 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 09:29:51: 5000000 INFO @ Sat, 03 Apr 2021 09:29:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7282927/SRX7282927.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7282927/SRX7282927.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7282927/SRX7282927.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7282927/SRX7282927.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 09:29:52: #1 read tag files... INFO @ Sat, 03 Apr 2021 09:29:52: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 09:29:57: 6000000 INFO @ Sat, 03 Apr 2021 09:29:57: 1000000 INFO @ Sat, 03 Apr 2021 09:30:02: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 09:30:02: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 09:30:02: #1 total tags in treatment: 6664741 INFO @ Sat, 03 Apr 2021 09:30:02: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 09:30:02: #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 09:30:02: 2000000 INFO @ Sat, 03 Apr 2021 09:30:02: #1 tags after filtering in treatment: 6664496 INFO @ Sat, 03 Apr 2021 09:30:02: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 09:30:02: #1 finished! INFO @ Sat, 03 Apr 2021 09:30:02: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 09:30:02: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 09:30:03: #2 number of paired peaks: 6609 INFO @ Sat, 03 Apr 2021 09:30:03: start model_add_line... INFO @ Sat, 03 Apr 2021 09:30:03: start X-correlation... INFO @ Sat, 03 Apr 2021 09:30:03: end of X-cor INFO @ Sat, 03 Apr 2021 09:30:03: #2 finished! INFO @ Sat, 03 Apr 2021 09:30:03: #2 predicted fragment length is 79 bps INFO @ Sat, 03 Apr 2021 09:30:03: #2 alternative fragment length(s) may be 79 bps INFO @ Sat, 03 Apr 2021 09:30:03: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7282927/SRX7282927.05_model.r WARNING @ Sat, 03 Apr 2021 09:30:03: #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 09:30:03: #2 You may need to consider one of the other alternative d(s): 79 WARNING @ Sat, 03 Apr 2021 09:30:03: #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 09:30:03: #3 Call peaks... INFO @ Sat, 03 Apr 2021 09:30:03: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 09:30:07: 3000000 INFO @ Sat, 03 Apr 2021 09:30:12: 4000000 INFO @ Sat, 03 Apr 2021 09:30:16: 5000000 INFO @ Sat, 03 Apr 2021 09:30:18: #3 Call peaks for each chromosome... 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 09:30:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7282927/SRX7282927.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7282927/SRX7282927.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7282927/SRX7282927.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7282927/SRX7282927.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 09:30:22: #1 read tag files... INFO @ Sat, 03 Apr 2021 09:30:22: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 09:30:22: 6000000 INFO @ Sat, 03 Apr 2021 09:30:26: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 09:30:26: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 09:30:26: #1 total tags in treatment: 6664741 INFO @ Sat, 03 Apr 2021 09:30:26: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 09:30:26: #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 09:30:27: #1 tags after filtering in treatment: 6664496 INFO @ Sat, 03 Apr 2021 09:30:27: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 09:30:27: #1 finished! INFO @ Sat, 03 Apr 2021 09:30:27: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 09:30:27: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 09:30:27: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7282927/SRX7282927.05_peaks.xls INFO @ Sat, 03 Apr 2021 09:30:27: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7282927/SRX7282927.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 09:30:27: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7282927/SRX7282927.05_summits.bed INFO @ Sat, 03 Apr 2021 09:30:27: 1000000 INFO @ Sat, 03 Apr 2021 09:30:27: Done! INFO @ Sat, 03 Apr 2021 09:30:28: #2 number of paired peaks: 6609 INFO @ Sat, 03 Apr 2021 09:30:28: start model_add_line... INFO @ Sat, 03 Apr 2021 09:30:28: start X-correlation... INFO @ Sat, 03 Apr 2021 09:30:28: end of X-cor INFO @ Sat, 03 Apr 2021 09:30:28: #2 finished! INFO @ Sat, 03 Apr 2021 09:30:28: #2 predicted fragment length is 79 bps INFO @ Sat, 03 Apr 2021 09:30:28: #2 alternative fragment length(s) may be 79 bps INFO @ Sat, 03 Apr 2021 09:30:28: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7282927/SRX7282927.10_model.r WARNING @ Sat, 03 Apr 2021 09:30:28: #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 09:30:28: #2 You may need to consider one of the other alternative d(s): 79 WARNING @ Sat, 03 Apr 2021 09:30:28: #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 09:30:28: #3 Call peaks... INFO @ Sat, 03 Apr 2021 09:30:28: #3 Pre-compute pvalue-qvalue table... pass1 - making usageList (149 chroms): 5 millis pass2 - checking and writing primary data (22918 records, 4 fields): 34 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 09:30:32: 2000000 INFO @ Sat, 03 Apr 2021 09:30:37: 3000000 INFO @ Sat, 03 Apr 2021 09:30:42: 4000000 INFO @ Sat, 03 Apr 2021 09:30:43: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 09:30:47: 5000000 INFO @ Sat, 03 Apr 2021 09:30:52: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7282927/SRX7282927.10_peaks.xls INFO @ Sat, 03 Apr 2021 09:30:52: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7282927/SRX7282927.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 09:30:52: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7282927/SRX7282927.10_summits.bed INFO @ Sat, 03 Apr 2021 09:30:52: Done! INFO @ Sat, 03 Apr 2021 09:30:52: 6000000 pass1 - making usageList (106 chroms): 3 millis pass2 - checking and writing primary data (14874 records, 4 fields): 23 millis CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 09:30:56: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 09:30:56: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 09:30:56: #1 total tags in treatment: 6664741 INFO @ Sat, 03 Apr 2021 09:30:56: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 09:30:56: #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 09:30:56: #1 tags after filtering in treatment: 6664496 INFO @ Sat, 03 Apr 2021 09:30:56: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 09:30:56: #1 finished! INFO @ Sat, 03 Apr 2021 09:30:56: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 09:30:56: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 09:30:57: #2 number of paired peaks: 6609 INFO @ Sat, 03 Apr 2021 09:30:57: start model_add_line... INFO @ Sat, 03 Apr 2021 09:30:58: start X-correlation... INFO @ Sat, 03 Apr 2021 09:30:58: end of X-cor INFO @ Sat, 03 Apr 2021 09:30:58: #2 finished! INFO @ Sat, 03 Apr 2021 09:30:58: #2 predicted fragment length is 79 bps INFO @ Sat, 03 Apr 2021 09:30:58: #2 alternative fragment length(s) may be 79 bps INFO @ Sat, 03 Apr 2021 09:30:58: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7282927/SRX7282927.20_model.r WARNING @ Sat, 03 Apr 2021 09:30:58: #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 09:30:58: #2 You may need to consider one of the other alternative d(s): 79 WARNING @ Sat, 03 Apr 2021 09:30:58: #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 09:30:58: #3 Call peaks... INFO @ Sat, 03 Apr 2021 09:30:58: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 09:31:12: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 09:31:19: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7282927/SRX7282927.20_peaks.xls INFO @ Sat, 03 Apr 2021 09:31:19: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7282927/SRX7282927.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 09:31:19: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7282927/SRX7282927.20_summits.bed INFO @ Sat, 03 Apr 2021 09:31:19: Done! pass1 - making usageList (57 chroms): 2 millis pass2 - checking and writing primary data (6765 records, 4 fields): 12 millis CompletedMACS2peakCalling