Job ID = 14167302 SRX = SRX7723704 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: 00:00:01 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:14:43 32667414 reads; of these: 32667414 (100.00%) were unpaired; of these: 8426949 (25.80%) aligned 0 times 15078373 (46.16%) aligned exactly 1 time 9162092 (28.05%) aligned >1 times 74.20% overall alignment rate Time searching: 00:14:44 Overall time: 00:14:44 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_sort_core] merging from 12 files... [bam_rmdupse_core] 9636668 / 24240465 = 0.3975 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 12:09:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7723704/SRX7723704.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7723704/SRX7723704.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7723704/SRX7723704.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7723704/SRX7723704.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 12:09:17: #1 read tag files... INFO @ Fri, 10 Dec 2021 12:09:17: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 12:09:24: 1000000 INFO @ Fri, 10 Dec 2021 12:09:30: 2000000 INFO @ Fri, 10 Dec 2021 12:09:38: 3000000 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 12:09:45: 4000000 INFO @ Fri, 10 Dec 2021 12:09:46: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7723704/SRX7723704.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7723704/SRX7723704.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7723704/SRX7723704.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7723704/SRX7723704.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 12:09:46: #1 read tag files... INFO @ Fri, 10 Dec 2021 12:09:46: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 12:09:52: 5000000 INFO @ Fri, 10 Dec 2021 12:09:54: 1000000 INFO @ Fri, 10 Dec 2021 12:09:59: 6000000 INFO @ Fri, 10 Dec 2021 12:10:01: 2000000 INFO @ Fri, 10 Dec 2021 12:10:09: 7000000 INFO @ Fri, 10 Dec 2021 12:10:11: 3000000 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 12:10:16: 8000000 INFO @ Fri, 10 Dec 2021 12:10:19: 4000000 INFO @ Fri, 10 Dec 2021 12:10:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7723704/SRX7723704.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7723704/SRX7723704.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7723704/SRX7723704.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7723704/SRX7723704.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 12:10:23: #1 read tag files... INFO @ Fri, 10 Dec 2021 12:10:23: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 12:10:25: 9000000 INFO @ Fri, 10 Dec 2021 12:10:27: 5000000 INFO @ Fri, 10 Dec 2021 12:10:31: 1000000 INFO @ Fri, 10 Dec 2021 12:10:32: 10000000 INFO @ Fri, 10 Dec 2021 12:10:35: 6000000 INFO @ Fri, 10 Dec 2021 12:10:39: 2000000 INFO @ Fri, 10 Dec 2021 12:10:40: 11000000 INFO @ Fri, 10 Dec 2021 12:10:42: 7000000 INFO @ Fri, 10 Dec 2021 12:10:46: 3000000 INFO @ Fri, 10 Dec 2021 12:10:49: 12000000 INFO @ Fri, 10 Dec 2021 12:10:50: 8000000 INFO @ Fri, 10 Dec 2021 12:10:54: 4000000 INFO @ Fri, 10 Dec 2021 12:10:57: 13000000 INFO @ Fri, 10 Dec 2021 12:10:57: 9000000 INFO @ Fri, 10 Dec 2021 12:11:04: 5000000 INFO @ Fri, 10 Dec 2021 12:11:06: 14000000 INFO @ Fri, 10 Dec 2021 12:11:07: 10000000 INFO @ Fri, 10 Dec 2021 12:11:11: #1 tag size is determined as 75 bps INFO @ Fri, 10 Dec 2021 12:11:11: #1 tag size = 75 INFO @ Fri, 10 Dec 2021 12:11:11: #1 total tags in treatment: 14603797 INFO @ Fri, 10 Dec 2021 12:11:11: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 12:11:11: #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 12:11:12: 6000000 INFO @ Fri, 10 Dec 2021 12:11:12: #1 tags after filtering in treatment: 14603679 INFO @ Fri, 10 Dec 2021 12:11:13: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 12:11:13: #1 finished! INFO @ Fri, 10 Dec 2021 12:11:13: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 12:11:13: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 12:11:15: #2 number of paired peaks: 4321 INFO @ Fri, 10 Dec 2021 12:11:15: start model_add_line... INFO @ Fri, 10 Dec 2021 12:11:15: start X-correlation... INFO @ Fri, 10 Dec 2021 12:11:15: 11000000 INFO @ Fri, 10 Dec 2021 12:11:16: end of X-cor INFO @ Fri, 10 Dec 2021 12:11:16: #2 finished! INFO @ Fri, 10 Dec 2021 12:11:16: #2 predicted fragment length is 132 bps INFO @ Fri, 10 Dec 2021 12:11:16: #2 alternative fragment length(s) may be 132 bps INFO @ Fri, 10 Dec 2021 12:11:16: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7723704/SRX7723704.05_model.r WARNING @ Fri, 10 Dec 2021 12:11:16: #2 Since the d (132) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Fri, 10 Dec 2021 12:11:16: #2 You may need to consider one of the other alternative d(s): 132 WARNING @ Fri, 10 Dec 2021 12:11:16: #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 12:11:16: #3 Call peaks... INFO @ Fri, 10 Dec 2021 12:11:16: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 12:11:20: 7000000 INFO @ Fri, 10 Dec 2021 12:11:24: 12000000 INFO @ Fri, 10 Dec 2021 12:11:29: 8000000 INFO @ Fri, 10 Dec 2021 12:11:31: 13000000 INFO @ Fri, 10 Dec 2021 12:11:36: 9000000 INFO @ Fri, 10 Dec 2021 12:11:39: 14000000 INFO @ Fri, 10 Dec 2021 12:11:43: 10000000 INFO @ Fri, 10 Dec 2021 12:11:44: #1 tag size is determined as 75 bps INFO @ Fri, 10 Dec 2021 12:11:44: #1 tag size = 75 INFO @ Fri, 10 Dec 2021 12:11:44: #1 total tags in treatment: 14603797 INFO @ Fri, 10 Dec 2021 12:11:44: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 12:11:44: #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 12:11:45: #1 tags after filtering in treatment: 14603679 INFO @ Fri, 10 Dec 2021 12:11:45: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 12:11:45: #1 finished! INFO @ Fri, 10 Dec 2021 12:11:45: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 12:11:45: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 12:11:46: #2 number of paired peaks: 4321 INFO @ Fri, 10 Dec 2021 12:11:46: start model_add_line... INFO @ Fri, 10 Dec 2021 12:11:46: start X-correlation... INFO @ Fri, 10 Dec 2021 12:11:47: end of X-cor INFO @ Fri, 10 Dec 2021 12:11:47: #2 finished! INFO @ Fri, 10 Dec 2021 12:11:47: #2 predicted fragment length is 132 bps INFO @ Fri, 10 Dec 2021 12:11:47: #2 alternative fragment length(s) may be 132 bps INFO @ Fri, 10 Dec 2021 12:11:47: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7723704/SRX7723704.10_model.r WARNING @ Fri, 10 Dec 2021 12:11:47: #2 Since the d (132) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Fri, 10 Dec 2021 12:11:47: #2 You may need to consider one of the other alternative d(s): 132 WARNING @ Fri, 10 Dec 2021 12:11:47: #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 12:11:47: #3 Call peaks... INFO @ Fri, 10 Dec 2021 12:11:47: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 12:11:50: 11000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 10 Dec 2021 12:11:57: 12000000 INFO @ Fri, 10 Dec 2021 12:11:58: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 12:12:03: 13000000 INFO @ Fri, 10 Dec 2021 12:12:10: 14000000 INFO @ Fri, 10 Dec 2021 12:12:16: #1 tag size is determined as 75 bps INFO @ Fri, 10 Dec 2021 12:12:16: #1 tag size = 75 INFO @ Fri, 10 Dec 2021 12:12:16: #1 total tags in treatment: 14603797 INFO @ Fri, 10 Dec 2021 12:12:16: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 12:12:16: #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 12:12:17: #1 tags after filtering in treatment: 14603679 INFO @ Fri, 10 Dec 2021 12:12:17: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 12:12:17: #1 finished! INFO @ Fri, 10 Dec 2021 12:12:17: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 12:12:17: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 12:12:20: #2 number of paired peaks: 4321 INFO @ Fri, 10 Dec 2021 12:12:20: start model_add_line... INFO @ Fri, 10 Dec 2021 12:12:20: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7723704/SRX7723704.05_peaks.xls INFO @ Fri, 10 Dec 2021 12:12:20: start X-correlation... INFO @ Fri, 10 Dec 2021 12:12:20: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7723704/SRX7723704.05_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 12:12:20: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7723704/SRX7723704.05_summits.bed INFO @ Fri, 10 Dec 2021 12:12:20: Done! INFO @ Fri, 10 Dec 2021 12:12:21: end of X-cor INFO @ Fri, 10 Dec 2021 12:12:21: #2 finished! INFO @ Fri, 10 Dec 2021 12:12:21: #2 predicted fragment length is 132 bps INFO @ Fri, 10 Dec 2021 12:12:21: #2 alternative fragment length(s) may be 132 bps INFO @ Fri, 10 Dec 2021 12:12:21: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7723704/SRX7723704.20_model.r WARNING @ Fri, 10 Dec 2021 12:12:21: #2 Since the d (132) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Fri, 10 Dec 2021 12:12:21: #2 You may need to consider one of the other alternative d(s): 132 WARNING @ Fri, 10 Dec 2021 12:12:21: #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 12:12:21: #3 Call peaks... INFO @ Fri, 10 Dec 2021 12:12:21: #3 Pre-compute pvalue-qvalue table... pass1 - making usageList (916 chroms): 4 millis pass2 - checking and writing primary data (13043 records, 4 fields): 71 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 12:12:29: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Fri, 10 Dec 2021 12:12:48: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7723704/SRX7723704.10_peaks.xls INFO @ Fri, 10 Dec 2021 12:12:48: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7723704/SRX7723704.10_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 12:12:48: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7723704/SRX7723704.10_summits.bed INFO @ Fri, 10 Dec 2021 12:12:48: Done! pass1 - making usageList (803 chroms): 3 millis pass2 - checking and writing primary data (6450 records, 4 fields): 57 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 12:13:00: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 12:13:18: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7723704/SRX7723704.20_peaks.xls INFO @ Fri, 10 Dec 2021 12:13:18: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7723704/SRX7723704.20_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 12:13:18: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7723704/SRX7723704.20_summits.bed INFO @ Fri, 10 Dec 2021 12:13:18: Done! pass1 - making usageList (596 chroms): 1 millis pass2 - checking and writing primary data (2241 records, 4 fields): 39 millis CompletedMACS2peakCalling