Job ID = 16437579 SRX = SRX12764397 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: 00:05:41 37727297 reads; of these: 37727297 (100.00%) were unpaired; of these: 26063912 (69.09%) aligned 0 times 8579519 (22.74%) aligned exactly 1 time 3083866 (8.17%) aligned >1 times 30.91% overall alignment rate Time searching: 00:05:42 Overall time: 00:05:42 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 8 files... [bam_rmdupse_core] 2237903 / 11663385 = 0.1919 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/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 12:54:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX12764397/SRX12764397.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX12764397/SRX12764397.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX12764397/SRX12764397.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX12764397/SRX12764397.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, 02 Aug 2022 12:54:55: #1 read tag files... INFO @ Tue, 02 Aug 2022 12:54:55: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 12:55:01: 1000000 INFO @ Tue, 02 Aug 2022 12:55:06: 2000000 INFO @ Tue, 02 Aug 2022 12:55:12: 3000000 INFO @ Tue, 02 Aug 2022 12:55:17: 4000000 WARNING: Skipping mount /opt/pkg/singularity/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 12:55:23: 5000000 INFO @ Tue, 02 Aug 2022 12:55:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX12764397/SRX12764397.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX12764397/SRX12764397.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX12764397/SRX12764397.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX12764397/SRX12764397.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, 02 Aug 2022 12:55:24: #1 read tag files... INFO @ Tue, 02 Aug 2022 12:55:24: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 12:55:29: 6000000 INFO @ Tue, 02 Aug 2022 12:55:29: 1000000 INFO @ Tue, 02 Aug 2022 12:55:34: 7000000 INFO @ Tue, 02 Aug 2022 12:55:35: 2000000 INFO @ Tue, 02 Aug 2022 12:55:40: 8000000 INFO @ Tue, 02 Aug 2022 12:55:41: 3000000 INFO @ Tue, 02 Aug 2022 12:55:46: 9000000 INFO @ Tue, 02 Aug 2022 12:55:47: 4000000 INFO @ Tue, 02 Aug 2022 12:55:49: #1 tag size is determined as 51 bps INFO @ Tue, 02 Aug 2022 12:55:49: #1 tag size = 51 INFO @ Tue, 02 Aug 2022 12:55:49: #1 total tags in treatment: 9425482 INFO @ Tue, 02 Aug 2022 12:55:49: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 12:55:49: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 12:55:49: #1 tags after filtering in treatment: 9425398 INFO @ Tue, 02 Aug 2022 12:55:49: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 12:55:49: #1 finished! INFO @ Tue, 02 Aug 2022 12:55:49: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 12:55:49: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 12:55:50: #2 number of paired peaks: 1325 INFO @ Tue, 02 Aug 2022 12:55:50: start model_add_line... INFO @ Tue, 02 Aug 2022 12:55:50: start X-correlation... INFO @ Tue, 02 Aug 2022 12:55:50: end of X-cor INFO @ Tue, 02 Aug 2022 12:55:50: #2 finished! INFO @ Tue, 02 Aug 2022 12:55:50: #2 predicted fragment length is 169 bps INFO @ Tue, 02 Aug 2022 12:55:50: #2 alternative fragment length(s) may be 4,169 bps INFO @ Tue, 02 Aug 2022 12:55:50: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX12764397/SRX12764397.05_model.r INFO @ Tue, 02 Aug 2022 12:55:50: #3 Call peaks... INFO @ Tue, 02 Aug 2022 12:55:50: #3 Pre-compute pvalue-qvalue table... BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 12:55:52: 5000000 INFO @ Tue, 02 Aug 2022 12:55:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX12764397/SRX12764397.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX12764397/SRX12764397.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX12764397/SRX12764397.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX12764397/SRX12764397.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, 02 Aug 2022 12:55:54: #1 read tag files... INFO @ Tue, 02 Aug 2022 12:55:54: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 12:55:58: 6000000 INFO @ Tue, 02 Aug 2022 12:55:59: 1000000 INFO @ Tue, 02 Aug 2022 12:56:03: 7000000 INFO @ Tue, 02 Aug 2022 12:56:05: 2000000 INFO @ Tue, 02 Aug 2022 12:56:09: 8000000 INFO @ Tue, 02 Aug 2022 12:56:11: 3000000 INFO @ Tue, 02 Aug 2022 12:56:14: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 12:56:14: 9000000 INFO @ Tue, 02 Aug 2022 12:56:16: 4000000 INFO @ Tue, 02 Aug 2022 12:56:17: #1 tag size is determined as 51 bps INFO @ Tue, 02 Aug 2022 12:56:17: #1 tag size = 51 INFO @ Tue, 02 Aug 2022 12:56:17: #1 total tags in treatment: 9425482 INFO @ Tue, 02 Aug 2022 12:56:17: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 12:56:17: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 12:56:17: #1 tags after filtering in treatment: 9425398 INFO @ Tue, 02 Aug 2022 12:56:17: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 12:56:17: #1 finished! INFO @ Tue, 02 Aug 2022 12:56:17: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 12:56:17: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 12:56:18: #2 number of paired peaks: 1325 INFO @ Tue, 02 Aug 2022 12:56:18: start model_add_line... INFO @ Tue, 02 Aug 2022 12:56:18: start X-correlation... INFO @ Tue, 02 Aug 2022 12:56:18: end of X-cor INFO @ Tue, 02 Aug 2022 12:56:18: #2 finished! INFO @ Tue, 02 Aug 2022 12:56:18: #2 predicted fragment length is 169 bps INFO @ Tue, 02 Aug 2022 12:56:18: #2 alternative fragment length(s) may be 4,169 bps INFO @ Tue, 02 Aug 2022 12:56:18: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX12764397/SRX12764397.10_model.r INFO @ Tue, 02 Aug 2022 12:56:18: #3 Call peaks... INFO @ Tue, 02 Aug 2022 12:56:18: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 12:56:21: 5000000 INFO @ Tue, 02 Aug 2022 12:56:26: 6000000 INFO @ Tue, 02 Aug 2022 12:56:26: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX12764397/SRX12764397.05_peaks.xls INFO @ Tue, 02 Aug 2022 12:56:26: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX12764397/SRX12764397.05_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 12:56:26: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX12764397/SRX12764397.05_summits.bed INFO @ Tue, 02 Aug 2022 12:56:26: Done! pass1 - making usageList (534 chroms): 1 millis pass2 - checking and writing primary data (3652 records, 4 fields): 135 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 12:56:31: 7000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 12:56:36: 8000000 INFO @ Tue, 02 Aug 2022 12:56:41: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 12:56:42: 9000000 INFO @ Tue, 02 Aug 2022 12:56:44: #1 tag size is determined as 51 bps INFO @ Tue, 02 Aug 2022 12:56:44: #1 tag size = 51 INFO @ Tue, 02 Aug 2022 12:56:44: #1 total tags in treatment: 9425482 INFO @ Tue, 02 Aug 2022 12:56:44: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 12:56:44: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 12:56:45: #1 tags after filtering in treatment: 9425398 INFO @ Tue, 02 Aug 2022 12:56:45: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 12:56:45: #1 finished! INFO @ Tue, 02 Aug 2022 12:56:45: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 12:56:45: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 12:56:45: #2 number of paired peaks: 1325 INFO @ Tue, 02 Aug 2022 12:56:45: start model_add_line... INFO @ Tue, 02 Aug 2022 12:56:45: start X-correlation... INFO @ Tue, 02 Aug 2022 12:56:45: end of X-cor INFO @ Tue, 02 Aug 2022 12:56:45: #2 finished! INFO @ Tue, 02 Aug 2022 12:56:45: #2 predicted fragment length is 169 bps INFO @ Tue, 02 Aug 2022 12:56:45: #2 alternative fragment length(s) may be 4,169 bps INFO @ Tue, 02 Aug 2022 12:56:45: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX12764397/SRX12764397.20_model.r INFO @ Tue, 02 Aug 2022 12:56:46: #3 Call peaks... INFO @ Tue, 02 Aug 2022 12:56:46: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 12:56:54: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX12764397/SRX12764397.10_peaks.xls INFO @ Tue, 02 Aug 2022 12:56:54: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX12764397/SRX12764397.10_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 12:56:54: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX12764397/SRX12764397.10_summits.bed INFO @ Tue, 02 Aug 2022 12:56:54: Done! BigWig に変換しました。 pass1 - making usageList (318 chroms): 1 millis pass2 - checking and writing primary data (1226 records, 4 fields): 68 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 12:57:07: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 12:57:19: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX12764397/SRX12764397.20_peaks.xls INFO @ Tue, 02 Aug 2022 12:57:19: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX12764397/SRX12764397.20_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 12:57:19: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX12764397/SRX12764397.20_summits.bed INFO @ Tue, 02 Aug 2022 12:57:19: Done! pass1 - making usageList (189 chroms): 1 millis pass2 - checking and writing primary data (419 records, 4 fields): 52 millis CompletedMACS2peakCalling