Job ID = 14167190 SRX = SRX7541117 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: 00:02:25 16626442 reads; of these: 16626442 (100.00%) were unpaired; of these: 8796786 (52.91%) aligned 0 times 6435696 (38.71%) aligned exactly 1 time 1393960 (8.38%) aligned >1 times 47.09% overall alignment rate Time searching: 00:02:25 Overall time: 00:02:25 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_rmdupse_core] 1354180 / 7829656 = 0.1730 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/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Fri, 10 Dec 2021 10:56:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7541117/SRX7541117.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7541117/SRX7541117.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7541117/SRX7541117.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7541117/SRX7541117.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 @ Fri, 10 Dec 2021 10:56:12: #1 read tag files... INFO @ Fri, 10 Dec 2021 10:56:12: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 10:56:17: 1000000 INFO @ Fri, 10 Dec 2021 10:56:22: 2000000 INFO @ Fri, 10 Dec 2021 10:56:27: 3000000 INFO @ Fri, 10 Dec 2021 10:56:32: 4000000 INFO @ Fri, 10 Dec 2021 10:56:37: 5000000 WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Fri, 10 Dec 2021 10:56:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7541117/SRX7541117.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7541117/SRX7541117.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7541117/SRX7541117.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7541117/SRX7541117.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 @ Fri, 10 Dec 2021 10:56:42: #1 read tag files... INFO @ Fri, 10 Dec 2021 10:56:42: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 10:56:42: 6000000 INFO @ Fri, 10 Dec 2021 10:56:45: #1 tag size is determined as 50 bps INFO @ Fri, 10 Dec 2021 10:56:45: #1 tag size = 50 INFO @ Fri, 10 Dec 2021 10:56:45: #1 total tags in treatment: 6475476 INFO @ Fri, 10 Dec 2021 10:56:45: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 10:56:45: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Dec 2021 10:56:46: #1 tags after filtering in treatment: 6475470 INFO @ Fri, 10 Dec 2021 10:56:46: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 10:56:46: #1 finished! INFO @ Fri, 10 Dec 2021 10:56:46: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 10:56:46: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 10:56:46: #2 number of paired peaks: 4386 INFO @ Fri, 10 Dec 2021 10:56:46: start model_add_line... INFO @ Fri, 10 Dec 2021 10:56:46: start X-correlation... INFO @ Fri, 10 Dec 2021 10:56:46: end of X-cor INFO @ Fri, 10 Dec 2021 10:56:46: #2 finished! INFO @ Fri, 10 Dec 2021 10:56:46: #2 predicted fragment length is 265 bps INFO @ Fri, 10 Dec 2021 10:56:46: #2 alternative fragment length(s) may be 265 bps INFO @ Fri, 10 Dec 2021 10:56:46: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7541117/SRX7541117.05_model.r INFO @ Fri, 10 Dec 2021 10:56:46: #3 Call peaks... INFO @ Fri, 10 Dec 2021 10:56:46: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 10:56:47: 1000000 INFO @ Fri, 10 Dec 2021 10:56:52: 2000000 INFO @ Fri, 10 Dec 2021 10:56:57: 3000000 INFO @ Fri, 10 Dec 2021 10:57:01: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 10:57:02: 4000000 INFO @ Fri, 10 Dec 2021 10:57:07: 5000000 INFO @ Fri, 10 Dec 2021 10:57:08: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7541117/SRX7541117.05_peaks.xls INFO @ Fri, 10 Dec 2021 10:57:08: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7541117/SRX7541117.05_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 10:57:08: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7541117/SRX7541117.05_summits.bed INFO @ Fri, 10 Dec 2021 10:57:08: Done! pass1 - making usageList (429 chroms): 2 millis pass2 - checking and writing primary data (6324 records, 4 fields): 16 millis CompletedMACS2peakCalling BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Fri, 10 Dec 2021 10:57:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7541117/SRX7541117.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7541117/SRX7541117.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7541117/SRX7541117.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7541117/SRX7541117.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 @ Fri, 10 Dec 2021 10:57:12: #1 read tag files... INFO @ Fri, 10 Dec 2021 10:57:12: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 10:57:12: 6000000 INFO @ Fri, 10 Dec 2021 10:57:15: #1 tag size is determined as 50 bps INFO @ Fri, 10 Dec 2021 10:57:15: #1 tag size = 50 INFO @ Fri, 10 Dec 2021 10:57:15: #1 total tags in treatment: 6475476 INFO @ Fri, 10 Dec 2021 10:57:15: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 10:57:15: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Dec 2021 10:57:15: #1 tags after filtering in treatment: 6475470 INFO @ Fri, 10 Dec 2021 10:57:15: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 10:57:15: #1 finished! INFO @ Fri, 10 Dec 2021 10:57:15: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 10:57:15: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 10:57:16: #2 number of paired peaks: 4386 INFO @ Fri, 10 Dec 2021 10:57:16: start model_add_line... INFO @ Fri, 10 Dec 2021 10:57:16: start X-correlation... INFO @ Fri, 10 Dec 2021 10:57:16: end of X-cor INFO @ Fri, 10 Dec 2021 10:57:16: #2 finished! INFO @ Fri, 10 Dec 2021 10:57:16: #2 predicted fragment length is 265 bps INFO @ Fri, 10 Dec 2021 10:57:16: #2 alternative fragment length(s) may be 265 bps INFO @ Fri, 10 Dec 2021 10:57:16: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7541117/SRX7541117.10_model.r INFO @ Fri, 10 Dec 2021 10:57:16: #3 Call peaks... INFO @ Fri, 10 Dec 2021 10:57:16: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 10:57:17: 1000000 INFO @ Fri, 10 Dec 2021 10:57:22: 2000000 INFO @ Fri, 10 Dec 2021 10:57:27: 3000000 INFO @ Fri, 10 Dec 2021 10:57:31: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 10:57:32: 4000000 INFO @ Fri, 10 Dec 2021 10:57:37: 5000000 INFO @ Fri, 10 Dec 2021 10:57:38: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7541117/SRX7541117.10_peaks.xls INFO @ Fri, 10 Dec 2021 10:57:38: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7541117/SRX7541117.10_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 10:57:39: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7541117/SRX7541117.10_summits.bed INFO @ Fri, 10 Dec 2021 10:57:39: Done! pass1 - making usageList (342 chroms): 1 millis pass2 - checking and writing primary data (5220 records, 4 fields): 14 millis CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 10 Dec 2021 10:57:42: 6000000 INFO @ Fri, 10 Dec 2021 10:57:45: #1 tag size is determined as 50 bps INFO @ Fri, 10 Dec 2021 10:57:45: #1 tag size = 50 INFO @ Fri, 10 Dec 2021 10:57:45: #1 total tags in treatment: 6475476 INFO @ Fri, 10 Dec 2021 10:57:45: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 10:57:45: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Dec 2021 10:57:45: #1 tags after filtering in treatment: 6475470 INFO @ Fri, 10 Dec 2021 10:57:45: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 10:57:45: #1 finished! INFO @ Fri, 10 Dec 2021 10:57:45: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 10:57:45: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 10:57:46: #2 number of paired peaks: 4386 INFO @ Fri, 10 Dec 2021 10:57:46: start model_add_line... INFO @ Fri, 10 Dec 2021 10:57:46: start X-correlation... INFO @ Fri, 10 Dec 2021 10:57:46: end of X-cor INFO @ Fri, 10 Dec 2021 10:57:46: #2 finished! INFO @ Fri, 10 Dec 2021 10:57:46: #2 predicted fragment length is 265 bps INFO @ Fri, 10 Dec 2021 10:57:46: #2 alternative fragment length(s) may be 265 bps INFO @ Fri, 10 Dec 2021 10:57:46: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7541117/SRX7541117.20_model.r INFO @ Fri, 10 Dec 2021 10:57:46: #3 Call peaks... INFO @ Fri, 10 Dec 2021 10:57:46: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Fri, 10 Dec 2021 10:58:02: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 10:58:10: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7541117/SRX7541117.20_peaks.xls INFO @ Fri, 10 Dec 2021 10:58:10: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7541117/SRX7541117.20_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 10:58:10: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7541117/SRX7541117.20_summits.bed INFO @ Fri, 10 Dec 2021 10:58:10: Done! pass1 - making usageList (186 chroms): 1 millis pass2 - checking and writing primary data (3033 records, 4 fields): 9 millis CompletedMACS2peakCalling