Job ID = 6529975 SRX = SRX5717026 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: 00:07:29 23088209 reads; of these: 23088209 (100.00%) were unpaired; of these: 3171787 (13.74%) aligned 0 times 8671309 (37.56%) aligned exactly 1 time 11245113 (48.71%) aligned >1 times 86.26% overall alignment rate Time searching: 00:07:29 Overall time: 00:07:29 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] 7563102 / 19916422 = 0.3797 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 03:01:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5717026/SRX5717026.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5717026/SRX5717026.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5717026/SRX5717026.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5717026/SRX5717026.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 03:01:23: #1 read tag files... INFO @ Tue, 30 Jun 2020 03:01:23: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 03:01:29: 1000000 INFO @ Tue, 30 Jun 2020 03:01:36: 2000000 INFO @ Tue, 30 Jun 2020 03:01:42: 3000000 INFO @ Tue, 30 Jun 2020 03:01:48: 4000000 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 03:01:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5717026/SRX5717026.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5717026/SRX5717026.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5717026/SRX5717026.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5717026/SRX5717026.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 03:01:53: #1 read tag files... INFO @ Tue, 30 Jun 2020 03:01:53: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 03:01:55: 5000000 INFO @ Tue, 30 Jun 2020 03:02:00: 1000000 INFO @ Tue, 30 Jun 2020 03:02:02: 6000000 INFO @ Tue, 30 Jun 2020 03:02:06: 2000000 INFO @ Tue, 30 Jun 2020 03:02:09: 7000000 INFO @ Tue, 30 Jun 2020 03:02:13: 3000000 INFO @ Tue, 30 Jun 2020 03:02:15: 8000000 INFO @ Tue, 30 Jun 2020 03:02:20: 4000000 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 03:02:22: 9000000 INFO @ Tue, 30 Jun 2020 03:02:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5717026/SRX5717026.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5717026/SRX5717026.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5717026/SRX5717026.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5717026/SRX5717026.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 03:02:23: #1 read tag files... INFO @ Tue, 30 Jun 2020 03:02:23: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 03:02:28: 5000000 INFO @ Tue, 30 Jun 2020 03:02:29: 10000000 INFO @ Tue, 30 Jun 2020 03:02:29: 1000000 INFO @ Tue, 30 Jun 2020 03:02:35: 6000000 INFO @ Tue, 30 Jun 2020 03:02:36: 2000000 INFO @ Tue, 30 Jun 2020 03:02:36: 11000000 INFO @ Tue, 30 Jun 2020 03:02:42: 7000000 INFO @ Tue, 30 Jun 2020 03:02:43: 3000000 INFO @ Tue, 30 Jun 2020 03:02:43: 12000000 INFO @ Tue, 30 Jun 2020 03:02:46: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 03:02:46: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 03:02:46: #1 total tags in treatment: 12353320 INFO @ Tue, 30 Jun 2020 03:02:46: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 03:02:46: #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 03:02:46: #1 tags after filtering in treatment: 12353274 INFO @ Tue, 30 Jun 2020 03:02:46: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 03:02:46: #1 finished! INFO @ Tue, 30 Jun 2020 03:02:46: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 03:02:46: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 03:02:47: #2 number of paired peaks: 1238 INFO @ Tue, 30 Jun 2020 03:02:47: start model_add_line... INFO @ Tue, 30 Jun 2020 03:02:47: start X-correlation... INFO @ Tue, 30 Jun 2020 03:02:47: end of X-cor INFO @ Tue, 30 Jun 2020 03:02:47: #2 finished! INFO @ Tue, 30 Jun 2020 03:02:47: #2 predicted fragment length is 1 bps INFO @ Tue, 30 Jun 2020 03:02:47: #2 alternative fragment length(s) may be 1,18,47,72,111,140 bps INFO @ Tue, 30 Jun 2020 03:02:47: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5717026/SRX5717026.05_model.r WARNING @ Tue, 30 Jun 2020 03:02:47: #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 03:02:47: #2 You may need to consider one of the other alternative d(s): 1,18,47,72,111,140 WARNING @ Tue, 30 Jun 2020 03:02:47: #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 03:02:47: #3 Call peaks... INFO @ Tue, 30 Jun 2020 03:02:47: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 03:02:49: 8000000 INFO @ Tue, 30 Jun 2020 03:02:50: 4000000 INFO @ Tue, 30 Jun 2020 03:02:56: 9000000 INFO @ Tue, 30 Jun 2020 03:02:56: 5000000 INFO @ Tue, 30 Jun 2020 03:03:03: 6000000 INFO @ Tue, 30 Jun 2020 03:03:03: 10000000 INFO @ Tue, 30 Jun 2020 03:03:10: 7000000 INFO @ Tue, 30 Jun 2020 03:03:11: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 03:03:11: 11000000 INFO @ Tue, 30 Jun 2020 03:03:17: 8000000 INFO @ Tue, 30 Jun 2020 03:03:18: 12000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 03:03:20: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 03:03:20: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 03:03:20: #1 total tags in treatment: 12353320 INFO @ Tue, 30 Jun 2020 03:03:20: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 03:03:20: #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 03:03:21: #1 tags after filtering in treatment: 12353274 INFO @ Tue, 30 Jun 2020 03:03:21: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 03:03:21: #1 finished! INFO @ Tue, 30 Jun 2020 03:03:21: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 03:03:21: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 03:03:22: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5717026/SRX5717026.05_peaks.xls INFO @ Tue, 30 Jun 2020 03:03:22: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5717026/SRX5717026.05_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 03:03:22: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5717026/SRX5717026.05_summits.bed INFO @ Tue, 30 Jun 2020 03:03:22: Done! INFO @ Tue, 30 Jun 2020 03:03:22: #2 number of paired peaks: 1238 INFO @ Tue, 30 Jun 2020 03:03:22: start model_add_line... INFO @ Tue, 30 Jun 2020 03:03:22: start X-correlation... INFO @ Tue, 30 Jun 2020 03:03:22: end of X-cor INFO @ Tue, 30 Jun 2020 03:03:22: #2 finished! INFO @ Tue, 30 Jun 2020 03:03:22: #2 predicted fragment length is 1 bps INFO @ Tue, 30 Jun 2020 03:03:22: #2 alternative fragment length(s) may be 1,18,47,72,111,140 bps INFO @ Tue, 30 Jun 2020 03:03:22: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5717026/SRX5717026.10_model.r WARNING @ Tue, 30 Jun 2020 03:03:22: #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 03:03:22: #2 You may need to consider one of the other alternative d(s): 1,18,47,72,111,140 WARNING @ Tue, 30 Jun 2020 03:03:22: #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 03:03:22: #3 Call peaks... INFO @ Tue, 30 Jun 2020 03:03:22: #3 Pre-compute pvalue-qvalue table... pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 03:03:24: 9000000 INFO @ Tue, 30 Jun 2020 03:03:30: 10000000 INFO @ Tue, 30 Jun 2020 03:03:37: 11000000 INFO @ Tue, 30 Jun 2020 03:03:43: 12000000 INFO @ Tue, 30 Jun 2020 03:03:44: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 03:03:45: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 03:03:45: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 03:03:45: #1 total tags in treatment: 12353320 INFO @ Tue, 30 Jun 2020 03:03:45: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 03:03:45: #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 03:03:46: #1 tags after filtering in treatment: 12353274 INFO @ Tue, 30 Jun 2020 03:03:46: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 03:03:46: #1 finished! INFO @ Tue, 30 Jun 2020 03:03:46: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 03:03:46: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 03:03:47: #2 number of paired peaks: 1238 INFO @ Tue, 30 Jun 2020 03:03:47: start model_add_line... INFO @ Tue, 30 Jun 2020 03:03:47: start X-correlation... INFO @ Tue, 30 Jun 2020 03:03:47: end of X-cor INFO @ Tue, 30 Jun 2020 03:03:47: #2 finished! INFO @ Tue, 30 Jun 2020 03:03:47: #2 predicted fragment length is 1 bps INFO @ Tue, 30 Jun 2020 03:03:47: #2 alternative fragment length(s) may be 1,18,47,72,111,140 bps INFO @ Tue, 30 Jun 2020 03:03:47: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5717026/SRX5717026.20_model.r WARNING @ Tue, 30 Jun 2020 03:03:47: #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 03:03:47: #2 You may need to consider one of the other alternative d(s): 1,18,47,72,111,140 WARNING @ Tue, 30 Jun 2020 03:03:47: #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 03:03:47: #3 Call peaks... INFO @ Tue, 30 Jun 2020 03:03:47: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Tue, 30 Jun 2020 03:03:55: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5717026/SRX5717026.10_peaks.xls INFO @ Tue, 30 Jun 2020 03:03:55: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5717026/SRX5717026.10_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 03:03:55: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5717026/SRX5717026.10_summits.bed INFO @ Tue, 30 Jun 2020 03:03:55: Done! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 03:04:09: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 03:04:20: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5717026/SRX5717026.20_peaks.xls INFO @ Tue, 30 Jun 2020 03:04:20: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5717026/SRX5717026.20_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 03:04:20: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5717026/SRX5717026.20_summits.bed INFO @ Tue, 30 Jun 2020 03:04:20: Done! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling