Job ID = 6529786 SRX = SRX4823787 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: 00:11:25 39540484 reads; of these: 39540484 (100.00%) were unpaired; of these: 6190088 (15.66%) aligned 0 times 14123980 (35.72%) aligned exactly 1 time 19226416 (48.62%) aligned >1 times 84.34% overall alignment rate Time searching: 00:11:25 Overall time: 00:11:25 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 16 files... [bam_rmdupse_core] 11885303 / 33350396 = 0.3564 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 03:07:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4823787/SRX4823787.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4823787/SRX4823787.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4823787/SRX4823787.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4823787/SRX4823787.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 03:07:12: #1 read tag files... INFO @ Tue, 30 Jun 2020 03:07:12: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 03:07:17: 1000000 INFO @ Tue, 30 Jun 2020 03:07:21: 2000000 INFO @ Tue, 30 Jun 2020 03:07:26: 3000000 INFO @ Tue, 30 Jun 2020 03:07:31: 4000000 INFO @ Tue, 30 Jun 2020 03:07:36: 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 03:07:41: 6000000 INFO @ Tue, 30 Jun 2020 03:07:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4823787/SRX4823787.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4823787/SRX4823787.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4823787/SRX4823787.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4823787/SRX4823787.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 03:07:42: #1 read tag files... INFO @ Tue, 30 Jun 2020 03:07:42: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 03:07:46: 7000000 INFO @ Tue, 30 Jun 2020 03:07:47: 1000000 INFO @ Tue, 30 Jun 2020 03:07:51: 8000000 INFO @ Tue, 30 Jun 2020 03:07:52: 2000000 INFO @ Tue, 30 Jun 2020 03:07:56: 9000000 INFO @ Tue, 30 Jun 2020 03:07:57: 3000000 INFO @ Tue, 30 Jun 2020 03:08:01: 10000000 INFO @ Tue, 30 Jun 2020 03:08:02: 4000000 INFO @ Tue, 30 Jun 2020 03:08:06: 11000000 INFO @ Tue, 30 Jun 2020 03:08:07: 5000000 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 03:08:11: 12000000 INFO @ Tue, 30 Jun 2020 03:08:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4823787/SRX4823787.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4823787/SRX4823787.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4823787/SRX4823787.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4823787/SRX4823787.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 03:08:12: #1 read tag files... INFO @ Tue, 30 Jun 2020 03:08:12: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 03:08:12: 6000000 INFO @ Tue, 30 Jun 2020 03:08:16: 13000000 INFO @ Tue, 30 Jun 2020 03:08:17: 1000000 INFO @ Tue, 30 Jun 2020 03:08:18: 7000000 INFO @ Tue, 30 Jun 2020 03:08:21: 14000000 INFO @ Tue, 30 Jun 2020 03:08:22: 2000000 INFO @ Tue, 30 Jun 2020 03:08:23: 8000000 INFO @ Tue, 30 Jun 2020 03:08:26: 15000000 INFO @ Tue, 30 Jun 2020 03:08:27: 3000000 INFO @ Tue, 30 Jun 2020 03:08:28: 9000000 INFO @ Tue, 30 Jun 2020 03:08:32: 16000000 INFO @ Tue, 30 Jun 2020 03:08:32: 4000000 INFO @ Tue, 30 Jun 2020 03:08:33: 10000000 INFO @ Tue, 30 Jun 2020 03:08:37: 17000000 INFO @ Tue, 30 Jun 2020 03:08:38: 5000000 INFO @ Tue, 30 Jun 2020 03:08:38: 11000000 INFO @ Tue, 30 Jun 2020 03:08:42: 18000000 INFO @ Tue, 30 Jun 2020 03:08:43: 6000000 INFO @ Tue, 30 Jun 2020 03:08:43: 12000000 INFO @ Tue, 30 Jun 2020 03:08:47: 19000000 INFO @ Tue, 30 Jun 2020 03:08:48: 7000000 INFO @ Tue, 30 Jun 2020 03:08:48: 13000000 INFO @ Tue, 30 Jun 2020 03:08:52: 20000000 INFO @ Tue, 30 Jun 2020 03:08:53: 14000000 INFO @ Tue, 30 Jun 2020 03:08:53: 8000000 INFO @ Tue, 30 Jun 2020 03:08:57: 21000000 INFO @ Tue, 30 Jun 2020 03:08:58: 15000000 INFO @ Tue, 30 Jun 2020 03:08:58: 9000000 INFO @ Tue, 30 Jun 2020 03:09:00: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 03:09:00: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 03:09:00: #1 total tags in treatment: 21465093 INFO @ Tue, 30 Jun 2020 03:09:00: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 03:09:00: #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 03:09:01: #1 tags after filtering in treatment: 21465054 INFO @ Tue, 30 Jun 2020 03:09:01: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 03:09:01: #1 finished! INFO @ Tue, 30 Jun 2020 03:09:01: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 03:09:01: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 03:09:02: #2 number of paired peaks: 3091 INFO @ Tue, 30 Jun 2020 03:09:02: start model_add_line... INFO @ Tue, 30 Jun 2020 03:09:02: start X-correlation... INFO @ Tue, 30 Jun 2020 03:09:02: end of X-cor INFO @ Tue, 30 Jun 2020 03:09:02: #2 finished! INFO @ Tue, 30 Jun 2020 03:09:02: #2 predicted fragment length is 1 bps INFO @ Tue, 30 Jun 2020 03:09:02: #2 alternative fragment length(s) may be 1,40 bps INFO @ Tue, 30 Jun 2020 03:09:02: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX4823787/SRX4823787.05_model.r WARNING @ Tue, 30 Jun 2020 03:09:02: #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 03:09:02: #2 You may need to consider one of the other alternative d(s): 1,40 WARNING @ Tue, 30 Jun 2020 03:09:02: #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 03:09:02: #3 Call peaks... INFO @ Tue, 30 Jun 2020 03:09:02: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 03:09:03: 10000000 INFO @ Tue, 30 Jun 2020 03:09:03: 16000000 INFO @ Tue, 30 Jun 2020 03:09:08: 11000000 INFO @ Tue, 30 Jun 2020 03:09:08: 17000000 INFO @ Tue, 30 Jun 2020 03:09:13: 12000000 INFO @ Tue, 30 Jun 2020 03:09:14: 18000000 INFO @ Tue, 30 Jun 2020 03:09:18: 13000000 INFO @ Tue, 30 Jun 2020 03:09:19: 19000000 INFO @ Tue, 30 Jun 2020 03:09:23: 14000000 INFO @ Tue, 30 Jun 2020 03:09:24: 20000000 INFO @ Tue, 30 Jun 2020 03:09:28: 15000000 INFO @ Tue, 30 Jun 2020 03:09:29: 21000000 INFO @ Tue, 30 Jun 2020 03:09:31: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 03:09:31: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 03:09:31: #1 total tags in treatment: 21465093 INFO @ Tue, 30 Jun 2020 03:09:31: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 03:09:31: #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 03:09:32: #1 tags after filtering in treatment: 21465054 INFO @ Tue, 30 Jun 2020 03:09:32: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 03:09:32: #1 finished! INFO @ Tue, 30 Jun 2020 03:09:32: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 03:09:32: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 03:09:33: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 03:09:34: 16000000 INFO @ Tue, 30 Jun 2020 03:09:34: #2 number of paired peaks: 3091 INFO @ Tue, 30 Jun 2020 03:09:34: start model_add_line... INFO @ Tue, 30 Jun 2020 03:09:34: start X-correlation... INFO @ Tue, 30 Jun 2020 03:09:34: end of X-cor INFO @ Tue, 30 Jun 2020 03:09:34: #2 finished! INFO @ Tue, 30 Jun 2020 03:09:34: #2 predicted fragment length is 1 bps INFO @ Tue, 30 Jun 2020 03:09:34: #2 alternative fragment length(s) may be 1,40 bps INFO @ Tue, 30 Jun 2020 03:09:34: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX4823787/SRX4823787.10_model.r WARNING @ Tue, 30 Jun 2020 03:09:34: #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 03:09:34: #2 You may need to consider one of the other alternative d(s): 1,40 WARNING @ Tue, 30 Jun 2020 03:09:34: #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 03:09:34: #3 Call peaks... INFO @ Tue, 30 Jun 2020 03:09:34: #3 Pre-compute pvalue-qvalue table... BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 03:09:39: 17000000 INFO @ Tue, 30 Jun 2020 03:09:44: 18000000 INFO @ Tue, 30 Jun 2020 03:09:47: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX4823787/SRX4823787.05_peaks.xls INFO @ Tue, 30 Jun 2020 03:09:47: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX4823787/SRX4823787.05_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 03:09:47: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX4823787/SRX4823787.05_summits.bed INFO @ Tue, 30 Jun 2020 03:09:47: Done! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 03:09:49: 19000000 INFO @ Tue, 30 Jun 2020 03:09:54: 20000000 INFO @ Tue, 30 Jun 2020 03:09:59: 21000000 INFO @ Tue, 30 Jun 2020 03:10:01: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 03:10:01: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 03:10:01: #1 total tags in treatment: 21465093 INFO @ Tue, 30 Jun 2020 03:10:01: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 03:10:01: #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 03:10:02: #1 tags after filtering in treatment: 21465054 INFO @ Tue, 30 Jun 2020 03:10:02: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 03:10:02: #1 finished! INFO @ Tue, 30 Jun 2020 03:10:02: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 03:10:02: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 03:10:03: #2 number of paired peaks: 3091 INFO @ Tue, 30 Jun 2020 03:10:03: start model_add_line... INFO @ Tue, 30 Jun 2020 03:10:03: start X-correlation... INFO @ Tue, 30 Jun 2020 03:10:03: end of X-cor INFO @ Tue, 30 Jun 2020 03:10:03: #2 finished! INFO @ Tue, 30 Jun 2020 03:10:03: #2 predicted fragment length is 1 bps INFO @ Tue, 30 Jun 2020 03:10:03: #2 alternative fragment length(s) may be 1,40 bps INFO @ Tue, 30 Jun 2020 03:10:03: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX4823787/SRX4823787.20_model.r WARNING @ Tue, 30 Jun 2020 03:10:03: #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 03:10:03: #2 You may need to consider one of the other alternative d(s): 1,40 WARNING @ Tue, 30 Jun 2020 03:10:03: #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 03:10:03: #3 Call peaks... INFO @ Tue, 30 Jun 2020 03:10:03: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 03:10:05: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Tue, 30 Jun 2020 03:10:19: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX4823787/SRX4823787.10_peaks.xls INFO @ Tue, 30 Jun 2020 03:10:19: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX4823787/SRX4823787.10_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 03:10:19: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX4823787/SRX4823787.10_summits.bed INFO @ Tue, 30 Jun 2020 03:10:19: Done! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 03:10:34: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 03:10:48: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX4823787/SRX4823787.20_peaks.xls INFO @ Tue, 30 Jun 2020 03:10:48: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX4823787/SRX4823787.20_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 03:10:48: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX4823787/SRX4823787.20_summits.bed INFO @ Tue, 30 Jun 2020 03:10:48: Done! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling