Job ID = 14170953 SRX = SRX9720886 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: 00:03:24 12477189 reads; of these: 12477189 (100.00%) were unpaired; of these: 1107040 (8.87%) aligned 0 times 7832020 (62.77%) aligned exactly 1 time 3538129 (28.36%) aligned >1 times 91.13% overall alignment rate Time searching: 00:03:24 Overall time: 00:03:24 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] 1409304 / 11370149 = 0.1239 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 @ Sat, 11 Dec 2021 09:10:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX9720886/SRX9720886.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX9720886/SRX9720886.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX9720886/SRX9720886.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX9720886/SRX9720886.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 @ Sat, 11 Dec 2021 09:10:01: #1 read tag files... INFO @ Sat, 11 Dec 2021 09:10:01: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 09:10:06: 1000000 INFO @ Sat, 11 Dec 2021 09:10:12: 2000000 INFO @ Sat, 11 Dec 2021 09:10:17: 3000000 INFO @ Sat, 11 Dec 2021 09:10:22: 4000000 INFO @ Sat, 11 Dec 2021 09:10:27: 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 @ Sat, 11 Dec 2021 09:10:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX9720886/SRX9720886.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX9720886/SRX9720886.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX9720886/SRX9720886.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX9720886/SRX9720886.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 @ Sat, 11 Dec 2021 09:10:31: #1 read tag files... INFO @ Sat, 11 Dec 2021 09:10:31: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 09:10:32: 6000000 INFO @ Sat, 11 Dec 2021 09:10:36: 1000000 INFO @ Sat, 11 Dec 2021 09:10:37: 7000000 INFO @ Sat, 11 Dec 2021 09:10:41: 2000000 INFO @ Sat, 11 Dec 2021 09:10:42: 8000000 INFO @ Sat, 11 Dec 2021 09:10:46: 3000000 INFO @ Sat, 11 Dec 2021 09:10:48: 9000000 INFO @ Sat, 11 Dec 2021 09:10:52: 4000000 INFO @ Sat, 11 Dec 2021 09:10:53: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 09:10:53: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 09:10:53: #1 total tags in treatment: 9960845 INFO @ Sat, 11 Dec 2021 09:10:53: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 09:10:53: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 09:10:54: #1 tags after filtering in treatment: 9960757 INFO @ Sat, 11 Dec 2021 09:10:54: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 09:10:54: #1 finished! INFO @ Sat, 11 Dec 2021 09:10:54: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 09:10:54: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 09:10:54: #2 number of paired peaks: 1694 INFO @ Sat, 11 Dec 2021 09:10:54: start model_add_line... INFO @ Sat, 11 Dec 2021 09:10:55: start X-correlation... INFO @ Sat, 11 Dec 2021 09:10:55: end of X-cor INFO @ Sat, 11 Dec 2021 09:10:55: #2 finished! INFO @ Sat, 11 Dec 2021 09:10:55: #2 predicted fragment length is 187 bps INFO @ Sat, 11 Dec 2021 09:10:55: #2 alternative fragment length(s) may be 187 bps INFO @ Sat, 11 Dec 2021 09:10:55: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX9720886/SRX9720886.05_model.r INFO @ Sat, 11 Dec 2021 09:10:55: #3 Call peaks... INFO @ Sat, 11 Dec 2021 09:10:55: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 09:10:57: 5000000 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 @ Sat, 11 Dec 2021 09:11:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX9720886/SRX9720886.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX9720886/SRX9720886.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX9720886/SRX9720886.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX9720886/SRX9720886.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 @ Sat, 11 Dec 2021 09:11:01: #1 read tag files... INFO @ Sat, 11 Dec 2021 09:11:01: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 09:11:02: 6000000 INFO @ Sat, 11 Dec 2021 09:11:06: 1000000 INFO @ Sat, 11 Dec 2021 09:11:07: 7000000 INFO @ Sat, 11 Dec 2021 09:11:11: 2000000 INFO @ Sat, 11 Dec 2021 09:11:13: 8000000 INFO @ Sat, 11 Dec 2021 09:11:17: 3000000 INFO @ Sat, 11 Dec 2021 09:11:19: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 09:11:19: 9000000 INFO @ Sat, 11 Dec 2021 09:11:22: 4000000 INFO @ Sat, 11 Dec 2021 09:11:24: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 09:11:24: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 09:11:24: #1 total tags in treatment: 9960845 INFO @ Sat, 11 Dec 2021 09:11:24: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 09:11:24: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 09:11:25: #1 tags after filtering in treatment: 9960757 INFO @ Sat, 11 Dec 2021 09:11:25: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 09:11:25: #1 finished! INFO @ Sat, 11 Dec 2021 09:11:25: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 09:11:25: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 09:11:25: #2 number of paired peaks: 1694 INFO @ Sat, 11 Dec 2021 09:11:25: start model_add_line... INFO @ Sat, 11 Dec 2021 09:11:25: start X-correlation... INFO @ Sat, 11 Dec 2021 09:11:25: end of X-cor INFO @ Sat, 11 Dec 2021 09:11:25: #2 finished! INFO @ Sat, 11 Dec 2021 09:11:25: #2 predicted fragment length is 187 bps INFO @ Sat, 11 Dec 2021 09:11:25: #2 alternative fragment length(s) may be 187 bps INFO @ Sat, 11 Dec 2021 09:11:25: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX9720886/SRX9720886.10_model.r INFO @ Sat, 11 Dec 2021 09:11:25: #3 Call peaks... INFO @ Sat, 11 Dec 2021 09:11:25: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 09:11:27: 5000000 INFO @ Sat, 11 Dec 2021 09:11:30: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX9720886/SRX9720886.05_peaks.xls INFO @ Sat, 11 Dec 2021 09:11:30: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX9720886/SRX9720886.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 09:11:30: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX9720886/SRX9720886.05_summits.bed INFO @ Sat, 11 Dec 2021 09:11:30: Done! pass1 - making usageList (617 chroms): 2 millis pass2 - checking and writing primary data (4769 records, 4 fields): 36 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 09:11:32: 6000000 INFO @ Sat, 11 Dec 2021 09:11:37: 7000000 INFO @ Sat, 11 Dec 2021 09:11:42: 8000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 09:11:47: 9000000 INFO @ Sat, 11 Dec 2021 09:11:48: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 09:11:52: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 09:11:52: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 09:11:52: #1 total tags in treatment: 9960845 INFO @ Sat, 11 Dec 2021 09:11:52: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 09:11:52: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 09:11:53: #1 tags after filtering in treatment: 9960757 INFO @ Sat, 11 Dec 2021 09:11:53: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 09:11:53: #1 finished! INFO @ Sat, 11 Dec 2021 09:11:53: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 09:11:53: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 09:11:54: #2 number of paired peaks: 1694 INFO @ Sat, 11 Dec 2021 09:11:54: start model_add_line... INFO @ Sat, 11 Dec 2021 09:11:54: start X-correlation... INFO @ Sat, 11 Dec 2021 09:11:54: end of X-cor INFO @ Sat, 11 Dec 2021 09:11:54: #2 finished! INFO @ Sat, 11 Dec 2021 09:11:54: #2 predicted fragment length is 187 bps INFO @ Sat, 11 Dec 2021 09:11:54: #2 alternative fragment length(s) may be 187 bps INFO @ Sat, 11 Dec 2021 09:11:54: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX9720886/SRX9720886.20_model.r INFO @ Sat, 11 Dec 2021 09:11:54: #3 Call peaks... INFO @ Sat, 11 Dec 2021 09:11:54: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 09:11:58: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX9720886/SRX9720886.10_peaks.xls INFO @ Sat, 11 Dec 2021 09:11:58: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX9720886/SRX9720886.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 09:11:58: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX9720886/SRX9720886.10_summits.bed INFO @ Sat, 11 Dec 2021 09:11:58: Done! pass1 - making usageList (544 chroms): 2 millis pass2 - checking and writing primary data (3389 records, 4 fields): 28 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 09:12:16: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 09:12:26: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX9720886/SRX9720886.20_peaks.xls INFO @ Sat, 11 Dec 2021 09:12:26: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX9720886/SRX9720886.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 09:12:26: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX9720886/SRX9720886.20_summits.bed INFO @ Sat, 11 Dec 2021 09:12:26: Done! pass1 - making usageList (425 chroms): 2 millis pass2 - checking and writing primary data (2160 records, 4 fields): 47 millis CompletedMACS2peakCalling