Job ID = 14167526 SRX = SRX7723696 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: 00:08:02 22632050 reads; of these: 22632050 (100.00%) were unpaired; of these: 1828206 (8.08%) aligned 0 times 12565093 (55.52%) aligned exactly 1 time 8238751 (36.40%) aligned >1 times 91.92% overall alignment rate Time searching: 00:08:02 Overall time: 00:08:02 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 12 files... [bam_rmdupse_core] 7938683 / 20803844 = 0.3816 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 @ Fri, 10 Dec 2021 12:45:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7723696/SRX7723696.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7723696/SRX7723696.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7723696/SRX7723696.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7723696/SRX7723696.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 @ Fri, 10 Dec 2021 12:45:45: #1 read tag files... INFO @ Fri, 10 Dec 2021 12:45:45: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 12:45:51: 1000000 INFO @ Fri, 10 Dec 2021 12:45:56: 2000000 INFO @ Fri, 10 Dec 2021 12:46:01: 3000000 INFO @ Fri, 10 Dec 2021 12:46:07: 4000000 INFO @ Fri, 10 Dec 2021 12:46:12: 5000000 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 @ Fri, 10 Dec 2021 12:46:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7723696/SRX7723696.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7723696/SRX7723696.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7723696/SRX7723696.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7723696/SRX7723696.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 @ Fri, 10 Dec 2021 12:46:15: #1 read tag files... INFO @ Fri, 10 Dec 2021 12:46:15: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 12:46:18: 6000000 INFO @ Fri, 10 Dec 2021 12:46:22: 1000000 INFO @ Fri, 10 Dec 2021 12:46:24: 7000000 INFO @ Fri, 10 Dec 2021 12:46:29: 2000000 INFO @ Fri, 10 Dec 2021 12:46:30: 8000000 INFO @ Fri, 10 Dec 2021 12:46:36: 3000000 INFO @ Fri, 10 Dec 2021 12:46:37: 9000000 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 @ Fri, 10 Dec 2021 12:46:43: 10000000 INFO @ Fri, 10 Dec 2021 12:46:44: 4000000 INFO @ Fri, 10 Dec 2021 12:46:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7723696/SRX7723696.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7723696/SRX7723696.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7723696/SRX7723696.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7723696/SRX7723696.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 @ Fri, 10 Dec 2021 12:46:45: #1 read tag files... INFO @ Fri, 10 Dec 2021 12:46:45: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 12:46:50: 11000000 INFO @ Fri, 10 Dec 2021 12:46:51: 5000000 INFO @ Fri, 10 Dec 2021 12:46:51: 1000000 INFO @ Fri, 10 Dec 2021 12:46:56: 12000000 INFO @ Fri, 10 Dec 2021 12:46:57: 2000000 INFO @ Fri, 10 Dec 2021 12:46:58: 6000000 INFO @ Fri, 10 Dec 2021 12:47:02: #1 tag size is determined as 75 bps INFO @ Fri, 10 Dec 2021 12:47:02: #1 tag size = 75 INFO @ Fri, 10 Dec 2021 12:47:02: #1 total tags in treatment: 12865161 INFO @ Fri, 10 Dec 2021 12:47:02: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 12:47:02: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Dec 2021 12:47:02: #1 tags after filtering in treatment: 12865036 INFO @ Fri, 10 Dec 2021 12:47:02: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 12:47:02: #1 finished! INFO @ Fri, 10 Dec 2021 12:47:02: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 12:47:02: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 12:47:03: #2 number of paired peaks: 4155 INFO @ Fri, 10 Dec 2021 12:47:03: start model_add_line... INFO @ Fri, 10 Dec 2021 12:47:03: start X-correlation... INFO @ Fri, 10 Dec 2021 12:47:03: end of X-cor INFO @ Fri, 10 Dec 2021 12:47:03: #2 finished! INFO @ Fri, 10 Dec 2021 12:47:03: #2 predicted fragment length is 121 bps INFO @ Fri, 10 Dec 2021 12:47:03: #2 alternative fragment length(s) may be 121 bps INFO @ Fri, 10 Dec 2021 12:47:03: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7723696/SRX7723696.05_model.r WARNING @ Fri, 10 Dec 2021 12:47:03: #2 Since the d (121) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Fri, 10 Dec 2021 12:47:03: #2 You may need to consider one of the other alternative d(s): 121 WARNING @ Fri, 10 Dec 2021 12:47:03: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Fri, 10 Dec 2021 12:47:03: #3 Call peaks... INFO @ Fri, 10 Dec 2021 12:47:03: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 12:47:04: 3000000 INFO @ Fri, 10 Dec 2021 12:47:05: 7000000 INFO @ Fri, 10 Dec 2021 12:47:10: 4000000 INFO @ Fri, 10 Dec 2021 12:47:12: 8000000 INFO @ Fri, 10 Dec 2021 12:47:16: 5000000 INFO @ Fri, 10 Dec 2021 12:47:20: 9000000 INFO @ Fri, 10 Dec 2021 12:47:23: 6000000 INFO @ Fri, 10 Dec 2021 12:47:27: 10000000 INFO @ Fri, 10 Dec 2021 12:47:29: 7000000 INFO @ Fri, 10 Dec 2021 12:47:31: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 12:47:35: 11000000 INFO @ Fri, 10 Dec 2021 12:47:35: 8000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 10 Dec 2021 12:47:41: 9000000 INFO @ Fri, 10 Dec 2021 12:47:42: 12000000 INFO @ Fri, 10 Dec 2021 12:47:45: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7723696/SRX7723696.05_peaks.xls INFO @ Fri, 10 Dec 2021 12:47:45: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7723696/SRX7723696.05_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 12:47:45: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7723696/SRX7723696.05_summits.bed INFO @ Fri, 10 Dec 2021 12:47:45: Done! pass1 - making usageList (920 chroms): 3 millis pass2 - checking and writing primary data (9710 records, 4 fields): 30 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 12:47:48: 10000000 INFO @ Fri, 10 Dec 2021 12:47:48: #1 tag size is determined as 75 bps INFO @ Fri, 10 Dec 2021 12:47:48: #1 tag size = 75 INFO @ Fri, 10 Dec 2021 12:47:48: #1 total tags in treatment: 12865161 INFO @ Fri, 10 Dec 2021 12:47:48: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 12:47:48: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Dec 2021 12:47:48: #1 tags after filtering in treatment: 12865036 INFO @ Fri, 10 Dec 2021 12:47:48: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 12:47:48: #1 finished! INFO @ Fri, 10 Dec 2021 12:47:48: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 12:47:48: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 12:47:50: #2 number of paired peaks: 4155 INFO @ Fri, 10 Dec 2021 12:47:50: start model_add_line... INFO @ Fri, 10 Dec 2021 12:47:50: start X-correlation... INFO @ Fri, 10 Dec 2021 12:47:50: end of X-cor INFO @ Fri, 10 Dec 2021 12:47:50: #2 finished! INFO @ Fri, 10 Dec 2021 12:47:50: #2 predicted fragment length is 121 bps INFO @ Fri, 10 Dec 2021 12:47:50: #2 alternative fragment length(s) may be 121 bps INFO @ Fri, 10 Dec 2021 12:47:50: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7723696/SRX7723696.10_model.r WARNING @ Fri, 10 Dec 2021 12:47:50: #2 Since the d (121) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Fri, 10 Dec 2021 12:47:50: #2 You may need to consider one of the other alternative d(s): 121 WARNING @ Fri, 10 Dec 2021 12:47:50: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Fri, 10 Dec 2021 12:47:50: #3 Call peaks... INFO @ Fri, 10 Dec 2021 12:47:50: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 12:47:54: 11000000 INFO @ Fri, 10 Dec 2021 12:48:00: 12000000 BigWig に変換しました。 INFO @ Fri, 10 Dec 2021 12:48:05: #1 tag size is determined as 75 bps INFO @ Fri, 10 Dec 2021 12:48:05: #1 tag size = 75 INFO @ Fri, 10 Dec 2021 12:48:05: #1 total tags in treatment: 12865161 INFO @ Fri, 10 Dec 2021 12:48:05: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 12:48:05: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Dec 2021 12:48:05: #1 tags after filtering in treatment: 12865036 INFO @ Fri, 10 Dec 2021 12:48:05: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 12:48:05: #1 finished! INFO @ Fri, 10 Dec 2021 12:48:05: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 12:48:05: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 12:48:07: #2 number of paired peaks: 4155 INFO @ Fri, 10 Dec 2021 12:48:07: start model_add_line... INFO @ Fri, 10 Dec 2021 12:48:07: start X-correlation... INFO @ Fri, 10 Dec 2021 12:48:07: end of X-cor INFO @ Fri, 10 Dec 2021 12:48:07: #2 finished! INFO @ Fri, 10 Dec 2021 12:48:07: #2 predicted fragment length is 121 bps INFO @ Fri, 10 Dec 2021 12:48:07: #2 alternative fragment length(s) may be 121 bps INFO @ Fri, 10 Dec 2021 12:48:07: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7723696/SRX7723696.20_model.r WARNING @ Fri, 10 Dec 2021 12:48:07: #2 Since the d (121) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Fri, 10 Dec 2021 12:48:07: #2 You may need to consider one of the other alternative d(s): 121 WARNING @ Fri, 10 Dec 2021 12:48:07: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Fri, 10 Dec 2021 12:48:07: #3 Call peaks... INFO @ Fri, 10 Dec 2021 12:48:07: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 12:48:19: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 12:48:32: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7723696/SRX7723696.10_peaks.xls INFO @ Fri, 10 Dec 2021 12:48:33: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7723696/SRX7723696.10_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 12:48:33: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7723696/SRX7723696.10_summits.bed INFO @ Fri, 10 Dec 2021 12:48:33: Done! pass1 - making usageList (794 chroms): 2 millis pass2 - checking and writing primary data (4497 records, 4 fields): 23 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 12:48:34: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 12:48:47: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7723696/SRX7723696.20_peaks.xls INFO @ Fri, 10 Dec 2021 12:48:47: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7723696/SRX7723696.20_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 12:48:47: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7723696/SRX7723696.20_summits.bed INFO @ Fri, 10 Dec 2021 12:48:47: Done! pass1 - making usageList (601 chroms): 1 millis pass2 - checking and writing primary data (1859 records, 4 fields): 17 millis CompletedMACS2peakCalling