Job ID = 14170954 SRX = SRX9720888 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: 00:03:18 12359470 reads; of these: 12359470 (100.00%) were unpaired; of these: 786219 (6.36%) aligned 0 times 8101980 (65.55%) aligned exactly 1 time 3471271 (28.09%) aligned >1 times 93.64% overall alignment rate Time searching: 00:03:18 Overall time: 00:03:18 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] 1389866 / 11573251 = 0.1201 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 09:10:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX9720888/SRX9720888.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX9720888/SRX9720888.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX9720888/SRX9720888.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX9720888/SRX9720888.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 09:10:11: #1 read tag files... INFO @ Sat, 11 Dec 2021 09:10:11: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 09:10:15: 1000000 INFO @ Sat, 11 Dec 2021 09:10:20: 2000000 INFO @ Sat, 11 Dec 2021 09:10:24: 3000000 INFO @ Sat, 11 Dec 2021 09:10:29: 4000000 INFO @ Sat, 11 Dec 2021 09:10:34: 5000000 INFO @ Sat, 11 Dec 2021 09:10:38: 6000000 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 09:10:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX9720888/SRX9720888.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX9720888/SRX9720888.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX9720888/SRX9720888.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX9720888/SRX9720888.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 09:10:41: #1 read tag files... INFO @ Sat, 11 Dec 2021 09:10:41: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 09:10:43: 7000000 INFO @ Sat, 11 Dec 2021 09:10:45: 1000000 INFO @ Sat, 11 Dec 2021 09:10:47: 8000000 INFO @ Sat, 11 Dec 2021 09:10:50: 2000000 INFO @ Sat, 11 Dec 2021 09:10:52: 9000000 INFO @ Sat, 11 Dec 2021 09:10:55: 3000000 INFO @ Sat, 11 Dec 2021 09:10:57: 10000000 INFO @ Sat, 11 Dec 2021 09:10:58: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 09:10:58: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 09:10:58: #1 total tags in treatment: 10183385 INFO @ Sat, 11 Dec 2021 09:10:58: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 09:10:58: #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 09:10:58: #1 tags after filtering in treatment: 10183288 INFO @ Sat, 11 Dec 2021 09:10:58: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 09:10:58: #1 finished! INFO @ Sat, 11 Dec 2021 09:10:58: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 09:10:58: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 09:10:59: #2 number of paired peaks: 1697 INFO @ Sat, 11 Dec 2021 09:10:59: start model_add_line... INFO @ Sat, 11 Dec 2021 09:10:59: start X-correlation... INFO @ Sat, 11 Dec 2021 09:10:59: end of X-cor INFO @ Sat, 11 Dec 2021 09:10:59: #2 finished! INFO @ Sat, 11 Dec 2021 09:10:59: #2 predicted fragment length is 201 bps INFO @ Sat, 11 Dec 2021 09:10:59: #2 alternative fragment length(s) may be 201 bps INFO @ Sat, 11 Dec 2021 09:10:59: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX9720888/SRX9720888.05_model.r INFO @ Sat, 11 Dec 2021 09:10:59: #3 Call peaks... INFO @ Sat, 11 Dec 2021 09:10:59: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 09:10:59: 4000000 INFO @ Sat, 11 Dec 2021 09:11:04: 5000000 INFO @ Sat, 11 Dec 2021 09:11:08: 6000000 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 09:11:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX9720888/SRX9720888.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX9720888/SRX9720888.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX9720888/SRX9720888.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX9720888/SRX9720888.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 09:11:11: #1 read tag files... INFO @ Sat, 11 Dec 2021 09:11:11: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 09:11:13: 7000000 INFO @ Sat, 11 Dec 2021 09:11:15: 1000000 INFO @ Sat, 11 Dec 2021 09:11:18: 8000000 INFO @ Sat, 11 Dec 2021 09:11:20: 2000000 INFO @ Sat, 11 Dec 2021 09:11:21: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 09:11:23: 9000000 INFO @ Sat, 11 Dec 2021 09:11:25: 3000000 INFO @ Sat, 11 Dec 2021 09:11:27: 10000000 INFO @ Sat, 11 Dec 2021 09:11:28: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 09:11:28: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 09:11:28: #1 total tags in treatment: 10183385 INFO @ Sat, 11 Dec 2021 09:11:28: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 09:11:28: #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 09:11:29: #1 tags after filtering in treatment: 10183288 INFO @ Sat, 11 Dec 2021 09:11:29: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 09:11:29: #1 finished! INFO @ Sat, 11 Dec 2021 09:11:29: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 09:11:29: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 09:11:29: 4000000 INFO @ Sat, 11 Dec 2021 09:11:30: #2 number of paired peaks: 1697 INFO @ Sat, 11 Dec 2021 09:11:30: start model_add_line... INFO @ Sat, 11 Dec 2021 09:11:30: start X-correlation... INFO @ Sat, 11 Dec 2021 09:11:30: end of X-cor INFO @ Sat, 11 Dec 2021 09:11:30: #2 finished! INFO @ Sat, 11 Dec 2021 09:11:30: #2 predicted fragment length is 201 bps INFO @ Sat, 11 Dec 2021 09:11:30: #2 alternative fragment length(s) may be 201 bps INFO @ Sat, 11 Dec 2021 09:11:30: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX9720888/SRX9720888.10_model.r INFO @ Sat, 11 Dec 2021 09:11:30: #3 Call peaks... INFO @ Sat, 11 Dec 2021 09:11:30: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 09:11:31: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX9720888/SRX9720888.05_peaks.xls INFO @ Sat, 11 Dec 2021 09:11:32: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX9720888/SRX9720888.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 09:11:32: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX9720888/SRX9720888.05_summits.bed INFO @ Sat, 11 Dec 2021 09:11:32: Done! pass1 - making usageList (610 chroms): 2 millis pass2 - checking and writing primary data (4544 records, 4 fields): 19 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 09:11:34: 5000000 INFO @ Sat, 11 Dec 2021 09:11:38: 6000000 INFO @ Sat, 11 Dec 2021 09:11:43: 7000000 INFO @ Sat, 11 Dec 2021 09:11:48: 8000000 INFO @ Sat, 11 Dec 2021 09:11:52: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 09:11:52: 9000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 09:11:57: 10000000 INFO @ Sat, 11 Dec 2021 09:11:58: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 09:11:58: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 09:11:58: #1 total tags in treatment: 10183385 INFO @ Sat, 11 Dec 2021 09:11:58: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 09:11:58: #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 09:11:59: #1 tags after filtering in treatment: 10183288 INFO @ Sat, 11 Dec 2021 09:11:59: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 09:11:59: #1 finished! INFO @ Sat, 11 Dec 2021 09:11:59: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 09:11:59: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 09:11:59: #2 number of paired peaks: 1697 INFO @ Sat, 11 Dec 2021 09:11:59: start model_add_line... INFO @ Sat, 11 Dec 2021 09:11:59: start X-correlation... INFO @ Sat, 11 Dec 2021 09:12:00: end of X-cor INFO @ Sat, 11 Dec 2021 09:12:00: #2 finished! INFO @ Sat, 11 Dec 2021 09:12:00: #2 predicted fragment length is 201 bps INFO @ Sat, 11 Dec 2021 09:12:00: #2 alternative fragment length(s) may be 201 bps INFO @ Sat, 11 Dec 2021 09:12:00: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX9720888/SRX9720888.20_model.r INFO @ Sat, 11 Dec 2021 09:12:00: #3 Call peaks... INFO @ Sat, 11 Dec 2021 09:12:00: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 09:12:02: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX9720888/SRX9720888.10_peaks.xls INFO @ Sat, 11 Dec 2021 09:12:02: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX9720888/SRX9720888.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 09:12:02: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX9720888/SRX9720888.10_summits.bed INFO @ Sat, 11 Dec 2021 09:12:02: Done! pass1 - making usageList (538 chroms): 1 millis pass2 - checking and writing primary data (3444 records, 4 fields): 16 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 09:12:22: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 09:12:32: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX9720888/SRX9720888.20_peaks.xls INFO @ Sat, 11 Dec 2021 09:12:32: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX9720888/SRX9720888.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 09:12:32: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX9720888/SRX9720888.20_summits.bed INFO @ Sat, 11 Dec 2021 09:12:32: Done! pass1 - making usageList (428 chroms): 1 millis pass2 - checking and writing primary data (2388 records, 4 fields): 13 millis CompletedMACS2peakCalling