Job ID = 16439847 SRX = SRX14894233 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: 00:07:20 33827943 reads; of these: 33827943 (100.00%) were unpaired; of these: 3679396 (10.88%) aligned 0 times 24873844 (73.53%) aligned exactly 1 time 5274703 (15.59%) aligned >1 times 89.12% overall alignment rate Time searching: 00:07:20 Overall time: 00:07:20 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] 23357807 / 30148547 = 0.7748 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 16:31:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX14894233/SRX14894233.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX14894233/SRX14894233.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX14894233/SRX14894233.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX14894233/SRX14894233.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 16:31:40: #1 read tag files... INFO @ Tue, 02 Aug 2022 16:31:40: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 16:31:46: 1000000 INFO @ Tue, 02 Aug 2022 16:31:51: 2000000 INFO @ Tue, 02 Aug 2022 16:31:57: 3000000 INFO @ Tue, 02 Aug 2022 16:32:03: 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 16:32:08: 5000000 INFO @ Tue, 02 Aug 2022 16:32:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX14894233/SRX14894233.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX14894233/SRX14894233.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX14894233/SRX14894233.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX14894233/SRX14894233.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 16:32:10: #1 read tag files... INFO @ Tue, 02 Aug 2022 16:32:10: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 16:32:14: 6000000 INFO @ Tue, 02 Aug 2022 16:32:16: 1000000 INFO @ Tue, 02 Aug 2022 16:32:19: #1 tag size is determined as 51 bps INFO @ Tue, 02 Aug 2022 16:32:19: #1 tag size = 51 INFO @ Tue, 02 Aug 2022 16:32:19: #1 total tags in treatment: 6790740 INFO @ Tue, 02 Aug 2022 16:32:19: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 16:32:19: #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 16:32:19: #1 tags after filtering in treatment: 6790647 INFO @ Tue, 02 Aug 2022 16:32:19: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 16:32:19: #1 finished! INFO @ Tue, 02 Aug 2022 16:32:19: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 16:32:19: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 16:32:20: #2 number of paired peaks: 5745 INFO @ Tue, 02 Aug 2022 16:32:20: start model_add_line... INFO @ Tue, 02 Aug 2022 16:32:20: start X-correlation... INFO @ Tue, 02 Aug 2022 16:32:20: end of X-cor INFO @ Tue, 02 Aug 2022 16:32:20: #2 finished! INFO @ Tue, 02 Aug 2022 16:32:20: #2 predicted fragment length is 247 bps INFO @ Tue, 02 Aug 2022 16:32:20: #2 alternative fragment length(s) may be 247 bps INFO @ Tue, 02 Aug 2022 16:32:20: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX14894233/SRX14894233.05_model.r INFO @ Tue, 02 Aug 2022 16:32:20: #3 Call peaks... INFO @ Tue, 02 Aug 2022 16:32:20: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 16:32:21: 2000000 INFO @ Tue, 02 Aug 2022 16:32:27: 3000000 INFO @ Tue, 02 Aug 2022 16:32:32: 4000000 INFO @ Tue, 02 Aug 2022 16:32:38: 5000000 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 16:32:39: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 16:32:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX14894233/SRX14894233.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX14894233/SRX14894233.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX14894233/SRX14894233.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX14894233/SRX14894233.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 16:32:40: #1 read tag files... INFO @ Tue, 02 Aug 2022 16:32:40: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 16:32:43: 6000000 INFO @ Tue, 02 Aug 2022 16:32:45: 1000000 INFO @ Tue, 02 Aug 2022 16:32:47: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX14894233/SRX14894233.05_peaks.xls INFO @ Tue, 02 Aug 2022 16:32:47: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX14894233/SRX14894233.05_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 16:32:47: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX14894233/SRX14894233.05_summits.bed INFO @ Tue, 02 Aug 2022 16:32:47: Done! pass1 - making usageList (758 chroms): 1 millis pass2 - checking and writing primary data (6416 records, 4 fields): 48 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 16:32:48: #1 tag size is determined as 51 bps INFO @ Tue, 02 Aug 2022 16:32:48: #1 tag size = 51 INFO @ Tue, 02 Aug 2022 16:32:48: #1 total tags in treatment: 6790740 INFO @ Tue, 02 Aug 2022 16:32:48: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 16:32:48: #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 16:32:48: #1 tags after filtering in treatment: 6790647 INFO @ Tue, 02 Aug 2022 16:32:48: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 16:32:48: #1 finished! INFO @ Tue, 02 Aug 2022 16:32:48: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 16:32:48: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 16:32:49: #2 number of paired peaks: 5745 INFO @ Tue, 02 Aug 2022 16:32:49: start model_add_line... INFO @ Tue, 02 Aug 2022 16:32:49: start X-correlation... INFO @ Tue, 02 Aug 2022 16:32:49: end of X-cor INFO @ Tue, 02 Aug 2022 16:32:49: #2 finished! INFO @ Tue, 02 Aug 2022 16:32:49: #2 predicted fragment length is 247 bps INFO @ Tue, 02 Aug 2022 16:32:49: #2 alternative fragment length(s) may be 247 bps INFO @ Tue, 02 Aug 2022 16:32:49: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX14894233/SRX14894233.10_model.r INFO @ Tue, 02 Aug 2022 16:32:50: #3 Call peaks... INFO @ Tue, 02 Aug 2022 16:32:50: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 16:32:50: 2000000 INFO @ Tue, 02 Aug 2022 16:32:55: 3000000 INFO @ Tue, 02 Aug 2022 16:33:00: 4000000 INFO @ Tue, 02 Aug 2022 16:33:05: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 16:33:08: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 16:33:10: 6000000 INFO @ Tue, 02 Aug 2022 16:33:14: #1 tag size is determined as 51 bps INFO @ Tue, 02 Aug 2022 16:33:14: #1 tag size = 51 INFO @ Tue, 02 Aug 2022 16:33:14: #1 total tags in treatment: 6790740 INFO @ Tue, 02 Aug 2022 16:33:14: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 16:33:14: #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 16:33:14: #1 tags after filtering in treatment: 6790647 INFO @ Tue, 02 Aug 2022 16:33:14: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 16:33:14: #1 finished! INFO @ Tue, 02 Aug 2022 16:33:14: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 16:33:14: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 16:33:15: #2 number of paired peaks: 5745 INFO @ Tue, 02 Aug 2022 16:33:15: start model_add_line... INFO @ Tue, 02 Aug 2022 16:33:15: start X-correlation... INFO @ Tue, 02 Aug 2022 16:33:15: end of X-cor INFO @ Tue, 02 Aug 2022 16:33:15: #2 finished! INFO @ Tue, 02 Aug 2022 16:33:15: #2 predicted fragment length is 247 bps INFO @ Tue, 02 Aug 2022 16:33:15: #2 alternative fragment length(s) may be 247 bps INFO @ Tue, 02 Aug 2022 16:33:15: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX14894233/SRX14894233.20_model.r INFO @ Tue, 02 Aug 2022 16:33:16: #3 Call peaks... INFO @ Tue, 02 Aug 2022 16:33:16: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 16:33:16: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX14894233/SRX14894233.10_peaks.xls INFO @ Tue, 02 Aug 2022 16:33:17: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX14894233/SRX14894233.10_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 16:33:17: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX14894233/SRX14894233.10_summits.bed INFO @ Tue, 02 Aug 2022 16:33:17: Done! pass1 - making usageList (666 chroms): 1 millis pass2 - checking and writing primary data (5126 records, 4 fields): 53 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 16:33:36: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 16:33:44: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX14894233/SRX14894233.20_peaks.xls INFO @ Tue, 02 Aug 2022 16:33:44: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX14894233/SRX14894233.20_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 16:33:44: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX14894233/SRX14894233.20_summits.bed INFO @ Tue, 02 Aug 2022 16:33:44: Done! pass1 - making usageList (495 chroms): 1 millis pass2 - checking and writing primary data (3932 records, 4 fields): 86 millis CompletedMACS2peakCalling