Job ID = 6529181 SRX = SRX032114 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: 00:18:06 44362931 reads; of these: 44362931 (100.00%) were unpaired; of these: 1611845 (3.63%) aligned 0 times 15430338 (34.78%) aligned exactly 1 time 27320748 (61.58%) aligned >1 times 96.37% overall alignment rate Time searching: 00:18:06 Overall time: 00:18:06 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] 18241491 / 42751086 = 0.4267 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/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 30 Jun 2020 01:59:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX032114/SRX032114.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX032114/SRX032114.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX032114/SRX032114.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX032114/SRX032114.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 @ Tue, 30 Jun 2020 01:59:25: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:59:25: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:59:30: 1000000 INFO @ Tue, 30 Jun 2020 01:59:35: 2000000 INFO @ Tue, 30 Jun 2020 01:59:40: 3000000 INFO @ Tue, 30 Jun 2020 01:59:45: 4000000 INFO @ Tue, 30 Jun 2020 01:59:49: 5000000 WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 30 Jun 2020 01:59:54: 6000000 INFO @ Tue, 30 Jun 2020 01:59:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX032114/SRX032114.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX032114/SRX032114.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX032114/SRX032114.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX032114/SRX032114.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 @ Tue, 30 Jun 2020 01:59:55: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:59:55: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:59:59: 7000000 INFO @ Tue, 30 Jun 2020 02:00:00: 1000000 INFO @ Tue, 30 Jun 2020 02:00:04: 8000000 INFO @ Tue, 30 Jun 2020 02:00:05: 2000000 INFO @ Tue, 30 Jun 2020 02:00:09: 9000000 INFO @ Tue, 30 Jun 2020 02:00:10: 3000000 INFO @ Tue, 30 Jun 2020 02:00:14: 10000000 INFO @ Tue, 30 Jun 2020 02:00:15: 4000000 INFO @ Tue, 30 Jun 2020 02:00:18: 11000000 INFO @ Tue, 30 Jun 2020 02:00:20: 5000000 INFO @ Tue, 30 Jun 2020 02:00:23: 12000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 30 Jun 2020 02:00:25: 6000000 INFO @ Tue, 30 Jun 2020 02:00:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX032114/SRX032114.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX032114/SRX032114.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX032114/SRX032114.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX032114/SRX032114.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 @ Tue, 30 Jun 2020 02:00:26: #1 read tag files... INFO @ Tue, 30 Jun 2020 02:00:26: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 02:00:28: 13000000 INFO @ Tue, 30 Jun 2020 02:00:30: 7000000 INFO @ Tue, 30 Jun 2020 02:00:31: 1000000 INFO @ Tue, 30 Jun 2020 02:00:33: 14000000 INFO @ Tue, 30 Jun 2020 02:00:35: 8000000 INFO @ Tue, 30 Jun 2020 02:00:36: 2000000 INFO @ Tue, 30 Jun 2020 02:00:38: 15000000 INFO @ Tue, 30 Jun 2020 02:00:40: 9000000 INFO @ Tue, 30 Jun 2020 02:00:41: 3000000 INFO @ Tue, 30 Jun 2020 02:00:43: 16000000 INFO @ Tue, 30 Jun 2020 02:00:45: 10000000 INFO @ Tue, 30 Jun 2020 02:00:46: 4000000 INFO @ Tue, 30 Jun 2020 02:00:47: 17000000 INFO @ Tue, 30 Jun 2020 02:00:50: 11000000 INFO @ Tue, 30 Jun 2020 02:00:51: 5000000 INFO @ Tue, 30 Jun 2020 02:00:52: 18000000 INFO @ Tue, 30 Jun 2020 02:00:55: 12000000 INFO @ Tue, 30 Jun 2020 02:00:56: 6000000 INFO @ Tue, 30 Jun 2020 02:00:58: 19000000 INFO @ Tue, 30 Jun 2020 02:01:00: 13000000 INFO @ Tue, 30 Jun 2020 02:01:01: 7000000 INFO @ Tue, 30 Jun 2020 02:01:02: 20000000 INFO @ Tue, 30 Jun 2020 02:01:04: 14000000 INFO @ Tue, 30 Jun 2020 02:01:06: 8000000 INFO @ Tue, 30 Jun 2020 02:01:07: 21000000 INFO @ Tue, 30 Jun 2020 02:01:09: 15000000 INFO @ Tue, 30 Jun 2020 02:01:11: 9000000 INFO @ Tue, 30 Jun 2020 02:01:12: 22000000 INFO @ Tue, 30 Jun 2020 02:01:14: 16000000 INFO @ Tue, 30 Jun 2020 02:01:16: 10000000 INFO @ Tue, 30 Jun 2020 02:01:17: 23000000 INFO @ Tue, 30 Jun 2020 02:01:19: 17000000 INFO @ Tue, 30 Jun 2020 02:01:21: 11000000 INFO @ Tue, 30 Jun 2020 02:01:22: 24000000 INFO @ Tue, 30 Jun 2020 02:01:24: 18000000 INFO @ Tue, 30 Jun 2020 02:01:25: #1 tag size is determined as 36 bps INFO @ Tue, 30 Jun 2020 02:01:25: #1 tag size = 36 INFO @ Tue, 30 Jun 2020 02:01:25: #1 total tags in treatment: 24509595 INFO @ Tue, 30 Jun 2020 02:01:25: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 02:01:25: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 02:01:26: #1 tags after filtering in treatment: 24509595 INFO @ Tue, 30 Jun 2020 02:01:26: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 02:01:26: #1 finished! INFO @ Tue, 30 Jun 2020 02:01:26: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 02:01:26: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 02:01:26: 12000000 INFO @ Tue, 30 Jun 2020 02:01:28: #2 number of paired peaks: 2064 INFO @ Tue, 30 Jun 2020 02:01:28: start model_add_line... INFO @ Tue, 30 Jun 2020 02:01:28: start X-correlation... INFO @ Tue, 30 Jun 2020 02:01:28: end of X-cor INFO @ Tue, 30 Jun 2020 02:01:28: #2 finished! INFO @ Tue, 30 Jun 2020 02:01:28: #2 predicted fragment length is 1 bps INFO @ Tue, 30 Jun 2020 02:01:28: #2 alternative fragment length(s) may be 1,22 bps INFO @ Tue, 30 Jun 2020 02:01:28: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX032114/SRX032114.05_model.r WARNING @ Tue, 30 Jun 2020 02:01:28: #2 Since the d (1) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 30 Jun 2020 02:01:28: #2 You may need to consider one of the other alternative d(s): 1,22 WARNING @ Tue, 30 Jun 2020 02:01:28: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Tue, 30 Jun 2020 02:01:28: #3 Call peaks... INFO @ Tue, 30 Jun 2020 02:01:28: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 02:01:30: 19000000 INFO @ Tue, 30 Jun 2020 02:01:31: 13000000 INFO @ Tue, 30 Jun 2020 02:01:35: 20000000 INFO @ Tue, 30 Jun 2020 02:01:36: 14000000 INFO @ Tue, 30 Jun 2020 02:01:40: 21000000 INFO @ Tue, 30 Jun 2020 02:01:41: 15000000 INFO @ Tue, 30 Jun 2020 02:01:45: 22000000 INFO @ Tue, 30 Jun 2020 02:01:46: 16000000 INFO @ Tue, 30 Jun 2020 02:01:50: 23000000 INFO @ Tue, 30 Jun 2020 02:01:51: 17000000 INFO @ Tue, 30 Jun 2020 02:01:55: 24000000 INFO @ Tue, 30 Jun 2020 02:01:56: 18000000 INFO @ Tue, 30 Jun 2020 02:01:58: #1 tag size is determined as 36 bps INFO @ Tue, 30 Jun 2020 02:01:58: #1 tag size = 36 INFO @ Tue, 30 Jun 2020 02:01:58: #1 total tags in treatment: 24509595 INFO @ Tue, 30 Jun 2020 02:01:58: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 02:01:58: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 02:01:59: #1 tags after filtering in treatment: 24509595 INFO @ Tue, 30 Jun 2020 02:01:59: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 02:01:59: #1 finished! INFO @ Tue, 30 Jun 2020 02:01:59: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 02:01:59: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 02:02:01: #2 number of paired peaks: 2064 INFO @ Tue, 30 Jun 2020 02:02:01: start model_add_line... INFO @ Tue, 30 Jun 2020 02:02:01: start X-correlation... INFO @ Tue, 30 Jun 2020 02:02:01: end of X-cor INFO @ Tue, 30 Jun 2020 02:02:01: #2 finished! INFO @ Tue, 30 Jun 2020 02:02:01: #2 predicted fragment length is 1 bps INFO @ Tue, 30 Jun 2020 02:02:01: #2 alternative fragment length(s) may be 1,22 bps INFO @ Tue, 30 Jun 2020 02:02:01: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX032114/SRX032114.10_model.r WARNING @ Tue, 30 Jun 2020 02:02:01: #2 Since the d (1) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 30 Jun 2020 02:02:01: #2 You may need to consider one of the other alternative d(s): 1,22 WARNING @ Tue, 30 Jun 2020 02:02:01: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Tue, 30 Jun 2020 02:02:01: #3 Call peaks... INFO @ Tue, 30 Jun 2020 02:02:01: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 02:02:02: 19000000 INFO @ Tue, 30 Jun 2020 02:02:06: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 02:02:07: 20000000 INFO @ Tue, 30 Jun 2020 02:02:12: 21000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 02:02:17: 22000000 INFO @ Tue, 30 Jun 2020 02:02:22: 23000000 INFO @ Tue, 30 Jun 2020 02:02:24: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX032114/SRX032114.05_peaks.xls INFO @ Tue, 30 Jun 2020 02:02:24: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX032114/SRX032114.05_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 02:02:24: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX032114/SRX032114.05_summits.bed INFO @ Tue, 30 Jun 2020 02:02:24: Done! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 02:02:28: 24000000 INFO @ Tue, 30 Jun 2020 02:02:30: #1 tag size is determined as 36 bps INFO @ Tue, 30 Jun 2020 02:02:30: #1 tag size = 36 INFO @ Tue, 30 Jun 2020 02:02:30: #1 total tags in treatment: 24509595 INFO @ Tue, 30 Jun 2020 02:02:30: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 02:02:30: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 02:02:31: #1 tags after filtering in treatment: 24509595 INFO @ Tue, 30 Jun 2020 02:02:31: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 02:02:31: #1 finished! INFO @ Tue, 30 Jun 2020 02:02:31: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 02:02:31: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 02:02:33: #2 number of paired peaks: 2064 INFO @ Tue, 30 Jun 2020 02:02:33: start model_add_line... INFO @ Tue, 30 Jun 2020 02:02:33: start X-correlation... INFO @ Tue, 30 Jun 2020 02:02:33: end of X-cor INFO @ Tue, 30 Jun 2020 02:02:33: #2 finished! INFO @ Tue, 30 Jun 2020 02:02:33: #2 predicted fragment length is 1 bps INFO @ Tue, 30 Jun 2020 02:02:33: #2 alternative fragment length(s) may be 1,22 bps INFO @ Tue, 30 Jun 2020 02:02:33: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX032114/SRX032114.20_model.r WARNING @ Tue, 30 Jun 2020 02:02:33: #2 Since the d (1) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 30 Jun 2020 02:02:33: #2 You may need to consider one of the other alternative d(s): 1,22 WARNING @ Tue, 30 Jun 2020 02:02:33: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Tue, 30 Jun 2020 02:02:33: #3 Call peaks... INFO @ Tue, 30 Jun 2020 02:02:33: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 02:02:42: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 02:03:00: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX032114/SRX032114.10_peaks.xls INFO @ Tue, 30 Jun 2020 02:03:00: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX032114/SRX032114.10_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 02:03:00: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX032114/SRX032114.10_summits.bed INFO @ Tue, 30 Jun 2020 02:03:00: Done! pass1 - making usageList (0 chroms): 4 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Tue, 30 Jun 2020 02:03:13: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 02:03:31: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX032114/SRX032114.20_peaks.xls INFO @ Tue, 30 Jun 2020 02:03:31: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX032114/SRX032114.20_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 02:03:31: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX032114/SRX032114.20_summits.bed INFO @ Tue, 30 Jun 2020 02:03:31: Done! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling