Job ID = 14170867 SRX = SRX8689030 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: 00:00:01 Multiseed full-index search: 00:01:43 5788568 reads; of these: 5788568 (100.00%) were unpaired; of these: 588898 (10.17%) aligned 0 times 3148461 (54.39%) aligned exactly 1 time 2051209 (35.44%) aligned >1 times 89.83% overall alignment rate Time searching: 00:01:44 Overall time: 00:01:44 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] 755688 / 5199670 = 0.1453 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 08:57:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX8689030/SRX8689030.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX8689030/SRX8689030.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX8689030/SRX8689030.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX8689030/SRX8689030.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 08:57:25: #1 read tag files... INFO @ Sat, 11 Dec 2021 08:57:25: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 08:57:30: 1000000 INFO @ Sat, 11 Dec 2021 08:57:35: 2000000 INFO @ Sat, 11 Dec 2021 08:57:40: 3000000 INFO @ Sat, 11 Dec 2021 08:57:45: 4000000 INFO @ Sat, 11 Dec 2021 08:57:48: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 08:57:48: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 08:57:48: #1 total tags in treatment: 4443982 INFO @ Sat, 11 Dec 2021 08:57:48: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 08:57:48: #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 08:57:48: #1 tags after filtering in treatment: 4443812 INFO @ Sat, 11 Dec 2021 08:57:48: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 08:57:48: #1 finished! INFO @ Sat, 11 Dec 2021 08:57:48: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 08:57:48: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 08:57:48: #2 number of paired peaks: 1321 INFO @ Sat, 11 Dec 2021 08:57:48: start model_add_line... INFO @ Sat, 11 Dec 2021 08:57:48: start X-correlation... INFO @ Sat, 11 Dec 2021 08:57:48: end of X-cor INFO @ Sat, 11 Dec 2021 08:57:48: #2 finished! INFO @ Sat, 11 Dec 2021 08:57:48: #2 predicted fragment length is 54 bps INFO @ Sat, 11 Dec 2021 08:57:48: #2 alternative fragment length(s) may be 54,578 bps INFO @ Sat, 11 Dec 2021 08:57:48: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX8689030/SRX8689030.05_model.r WARNING @ Sat, 11 Dec 2021 08:57:48: #2 Since the d (54) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 11 Dec 2021 08:57:48: #2 You may need to consider one of the other alternative d(s): 54,578 WARNING @ Sat, 11 Dec 2021 08:57:48: #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 08:57:48: #3 Call peaks... INFO @ Sat, 11 Dec 2021 08:57:48: #3 Pre-compute pvalue-qvalue table... 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 08:57:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX8689030/SRX8689030.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX8689030/SRX8689030.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX8689030/SRX8689030.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX8689030/SRX8689030.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 08:57:55: #1 read tag files... INFO @ Sat, 11 Dec 2021 08:57:55: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 08:57:58: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 08:58:01: 1000000 INFO @ Sat, 11 Dec 2021 08:58:03: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX8689030/SRX8689030.05_peaks.xls INFO @ Sat, 11 Dec 2021 08:58:03: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX8689030/SRX8689030.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 08:58:03: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX8689030/SRX8689030.05_summits.bed INFO @ Sat, 11 Dec 2021 08:58:03: Done! pass1 - making usageList (590 chroms): 1 millis pass2 - checking and writing primary data (2012 records, 4 fields): 18 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 08:58:06: 2000000 INFO @ Sat, 11 Dec 2021 08:58:11: 3000000 INFO @ Sat, 11 Dec 2021 08:58:17: 4000000 INFO @ Sat, 11 Dec 2021 08:58:19: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 08:58:19: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 08:58:19: #1 total tags in treatment: 4443982 INFO @ Sat, 11 Dec 2021 08:58:19: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 08:58:19: #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 08:58:20: #1 tags after filtering in treatment: 4443812 INFO @ Sat, 11 Dec 2021 08:58:20: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 08:58:20: #1 finished! INFO @ Sat, 11 Dec 2021 08:58:20: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 08:58:20: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 08:58:20: #2 number of paired peaks: 1321 INFO @ Sat, 11 Dec 2021 08:58:20: start model_add_line... INFO @ Sat, 11 Dec 2021 08:58:20: start X-correlation... INFO @ Sat, 11 Dec 2021 08:58:20: end of X-cor INFO @ Sat, 11 Dec 2021 08:58:20: #2 finished! INFO @ Sat, 11 Dec 2021 08:58:20: #2 predicted fragment length is 54 bps INFO @ Sat, 11 Dec 2021 08:58:20: #2 alternative fragment length(s) may be 54,578 bps INFO @ Sat, 11 Dec 2021 08:58:20: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX8689030/SRX8689030.10_model.r WARNING @ Sat, 11 Dec 2021 08:58:20: #2 Since the d (54) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 11 Dec 2021 08:58:20: #2 You may need to consider one of the other alternative d(s): 54,578 WARNING @ Sat, 11 Dec 2021 08:58:20: #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 08:58:20: #3 Call peaks... INFO @ Sat, 11 Dec 2021 08:58:20: #3 Pre-compute pvalue-qvalue table... 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 08:58:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX8689030/SRX8689030.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX8689030/SRX8689030.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX8689030/SRX8689030.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX8689030/SRX8689030.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 08:58:25: #1 read tag files... INFO @ Sat, 11 Dec 2021 08:58:25: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 08:58:30: 1000000 INFO @ Sat, 11 Dec 2021 08:58:30: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 08:58:35: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX8689030/SRX8689030.10_peaks.xls INFO @ Sat, 11 Dec 2021 08:58:35: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX8689030/SRX8689030.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 08:58:35: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX8689030/SRX8689030.10_summits.bed INFO @ Sat, 11 Dec 2021 08:58:35: Done! INFO @ Sat, 11 Dec 2021 08:58:35: 2000000 pass1 - making usageList (359 chroms): 1 millis pass2 - checking and writing primary data (977 records, 4 fields): 23 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 08:58:40: 3000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 08:58:45: 4000000 INFO @ Sat, 11 Dec 2021 08:58:47: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 08:58:47: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 08:58:47: #1 total tags in treatment: 4443982 INFO @ Sat, 11 Dec 2021 08:58:47: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 08:58:47: #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 08:58:48: #1 tags after filtering in treatment: 4443812 INFO @ Sat, 11 Dec 2021 08:58:48: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 08:58:48: #1 finished! INFO @ Sat, 11 Dec 2021 08:58:48: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 08:58:48: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 08:58:48: #2 number of paired peaks: 1321 INFO @ Sat, 11 Dec 2021 08:58:48: start model_add_line... INFO @ Sat, 11 Dec 2021 08:58:48: start X-correlation... INFO @ Sat, 11 Dec 2021 08:58:48: end of X-cor INFO @ Sat, 11 Dec 2021 08:58:48: #2 finished! INFO @ Sat, 11 Dec 2021 08:58:48: #2 predicted fragment length is 54 bps INFO @ Sat, 11 Dec 2021 08:58:48: #2 alternative fragment length(s) may be 54,578 bps INFO @ Sat, 11 Dec 2021 08:58:48: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX8689030/SRX8689030.20_model.r WARNING @ Sat, 11 Dec 2021 08:58:48: #2 Since the d (54) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 11 Dec 2021 08:58:48: #2 You may need to consider one of the other alternative d(s): 54,578 WARNING @ Sat, 11 Dec 2021 08:58:48: #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 08:58:48: #3 Call peaks... INFO @ Sat, 11 Dec 2021 08:58:48: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 08:58:58: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 08:59:02: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX8689030/SRX8689030.20_peaks.xls INFO @ Sat, 11 Dec 2021 08:59:02: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX8689030/SRX8689030.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 08:59:02: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX8689030/SRX8689030.20_summits.bed INFO @ Sat, 11 Dec 2021 08:59:03: Done! pass1 - making usageList (190 chroms): 1 millis pass2 - checking and writing primary data (402 records, 4 fields): 6 millis CompletedMACS2peakCalling