Job ID = 16439854 SRX = SRX14894245 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: 00:06:16 53363752 reads; of these: 53363752 (100.00%) were unpaired; of these: 36036824 (67.53%) aligned 0 times 12986974 (24.34%) aligned exactly 1 time 4339954 (8.13%) aligned >1 times 32.47% overall alignment rate Time searching: 00:06:16 Overall time: 00:06:16 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] 10773682 / 17326928 = 0.6218 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 16:31:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX14894245/SRX14894245.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX14894245/SRX14894245.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX14894245/SRX14894245.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX14894245/SRX14894245.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 16:31:07: #1 read tag files... INFO @ Tue, 02 Aug 2022 16:31:07: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 16:31:13: 1000000 INFO @ Tue, 02 Aug 2022 16:31:18: 2000000 INFO @ Tue, 02 Aug 2022 16:31:24: 3000000 INFO @ Tue, 02 Aug 2022 16:31:29: 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 16:31:35: 5000000 INFO @ Tue, 02 Aug 2022 16:31:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX14894245/SRX14894245.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX14894245/SRX14894245.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX14894245/SRX14894245.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX14894245/SRX14894245.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 16:31:36: #1 read tag files... INFO @ Tue, 02 Aug 2022 16:31:36: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 16:31:41: 6000000 INFO @ Tue, 02 Aug 2022 16:31:43: 1000000 INFO @ Tue, 02 Aug 2022 16:31:45: #1 tag size is determined as 51 bps INFO @ Tue, 02 Aug 2022 16:31:45: #1 tag size = 51 INFO @ Tue, 02 Aug 2022 16:31:45: #1 total tags in treatment: 6553246 INFO @ Tue, 02 Aug 2022 16:31:45: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 16:31:45: #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 16:31:45: #1 tags after filtering in treatment: 6553164 INFO @ Tue, 02 Aug 2022 16:31:45: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 16:31:45: #1 finished! INFO @ Tue, 02 Aug 2022 16:31:45: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 16:31:45: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 16:31:45: #2 number of paired peaks: 2664 INFO @ Tue, 02 Aug 2022 16:31:45: start model_add_line... INFO @ Tue, 02 Aug 2022 16:31:46: start X-correlation... INFO @ Tue, 02 Aug 2022 16:31:46: end of X-cor INFO @ Tue, 02 Aug 2022 16:31:46: #2 finished! INFO @ Tue, 02 Aug 2022 16:31:46: #2 predicted fragment length is 178 bps INFO @ Tue, 02 Aug 2022 16:31:46: #2 alternative fragment length(s) may be 4,178 bps INFO @ Tue, 02 Aug 2022 16:31:46: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX14894245/SRX14894245.05_model.r INFO @ Tue, 02 Aug 2022 16:31:46: #3 Call peaks... INFO @ Tue, 02 Aug 2022 16:31:46: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 16:31:49: 2000000 INFO @ Tue, 02 Aug 2022 16:31:54: 3000000 INFO @ Tue, 02 Aug 2022 16:32:00: 4000000 INFO @ Tue, 02 Aug 2022 16:32:01: #3 Call peaks for each chromosome... 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 16:32:06: 5000000 INFO @ Tue, 02 Aug 2022 16:32:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX14894245/SRX14894245.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX14894245/SRX14894245.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX14894245/SRX14894245.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX14894245/SRX14894245.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 16:32:07: #1 read tag files... INFO @ Tue, 02 Aug 2022 16:32:07: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 16:32:09: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX14894245/SRX14894245.05_peaks.xls INFO @ Tue, 02 Aug 2022 16:32:09: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX14894245/SRX14894245.05_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 16:32:09: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX14894245/SRX14894245.05_summits.bed INFO @ Tue, 02 Aug 2022 16:32:09: Done! pass1 - making usageList (765 chroms): 2 millis pass2 - checking and writing primary data (3164 records, 4 fields): 40 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 16:32:13: 6000000 INFO @ Tue, 02 Aug 2022 16:32:13: 1000000 INFO @ Tue, 02 Aug 2022 16:32:16: #1 tag size is determined as 51 bps INFO @ Tue, 02 Aug 2022 16:32:16: #1 tag size = 51 INFO @ Tue, 02 Aug 2022 16:32:16: #1 total tags in treatment: 6553246 INFO @ Tue, 02 Aug 2022 16:32:16: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 16:32:16: #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 16:32:17: #1 tags after filtering in treatment: 6553164 INFO @ Tue, 02 Aug 2022 16:32:17: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 16:32:17: #1 finished! INFO @ Tue, 02 Aug 2022 16:32:17: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 16:32:17: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 16:32:17: #2 number of paired peaks: 2664 INFO @ Tue, 02 Aug 2022 16:32:17: start model_add_line... INFO @ Tue, 02 Aug 2022 16:32:17: start X-correlation... INFO @ Tue, 02 Aug 2022 16:32:18: end of X-cor INFO @ Tue, 02 Aug 2022 16:32:18: #2 finished! INFO @ Tue, 02 Aug 2022 16:32:18: #2 predicted fragment length is 178 bps INFO @ Tue, 02 Aug 2022 16:32:18: #2 alternative fragment length(s) may be 4,178 bps INFO @ Tue, 02 Aug 2022 16:32:18: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX14894245/SRX14894245.10_model.r INFO @ Tue, 02 Aug 2022 16:32:18: #3 Call peaks... INFO @ Tue, 02 Aug 2022 16:32:18: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 16:32:20: 2000000 INFO @ Tue, 02 Aug 2022 16:32:26: 3000000 INFO @ Tue, 02 Aug 2022 16:32:31: 4000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 16:32:34: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 16:32:37: 5000000 INFO @ Tue, 02 Aug 2022 16:32:41: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX14894245/SRX14894245.10_peaks.xls INFO @ Tue, 02 Aug 2022 16:32:41: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX14894245/SRX14894245.10_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 16:32:41: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX14894245/SRX14894245.10_summits.bed INFO @ Tue, 02 Aug 2022 16:32:41: Done! pass1 - making usageList (678 chroms): 2 millis pass2 - checking and writing primary data (1984 records, 4 fields): 111 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 16:32:42: 6000000 INFO @ Tue, 02 Aug 2022 16:32:46: #1 tag size is determined as 51 bps INFO @ Tue, 02 Aug 2022 16:32:46: #1 tag size = 51 INFO @ Tue, 02 Aug 2022 16:32:46: #1 total tags in treatment: 6553246 INFO @ Tue, 02 Aug 2022 16:32:46: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 16:32:46: #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 16:32:46: #1 tags after filtering in treatment: 6553164 INFO @ Tue, 02 Aug 2022 16:32:46: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 16:32:46: #1 finished! INFO @ Tue, 02 Aug 2022 16:32:46: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 16:32:46: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 16:32:47: #2 number of paired peaks: 2664 INFO @ Tue, 02 Aug 2022 16:32:47: start model_add_line... INFO @ Tue, 02 Aug 2022 16:32:47: start X-correlation... INFO @ Tue, 02 Aug 2022 16:32:47: end of X-cor INFO @ Tue, 02 Aug 2022 16:32:47: #2 finished! INFO @ Tue, 02 Aug 2022 16:32:47: #2 predicted fragment length is 178 bps INFO @ Tue, 02 Aug 2022 16:32:47: #2 alternative fragment length(s) may be 4,178 bps INFO @ Tue, 02 Aug 2022 16:32:47: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX14894245/SRX14894245.20_model.r INFO @ Tue, 02 Aug 2022 16:32:47: #3 Call peaks... INFO @ Tue, 02 Aug 2022 16:32:47: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 16:33:02: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 16:33:10: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX14894245/SRX14894245.20_peaks.xls INFO @ Tue, 02 Aug 2022 16:33:10: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX14894245/SRX14894245.20_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 16:33:10: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX14894245/SRX14894245.20_summits.bed INFO @ Tue, 02 Aug 2022 16:33:10: Done! pass1 - making usageList (495 chroms): 1 millis pass2 - checking and writing primary data (1028 records, 4 fields): 32 millis CompletedMACS2peakCalling