Job ID = 14167535 SRX = SRX4712933 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: 00:04:56 22669054 reads; of these: 22669054 (100.00%) were unpaired; of these: 1469413 (6.48%) aligned 0 times 20126838 (88.79%) aligned exactly 1 time 1072803 (4.73%) aligned >1 times 93.52% overall alignment rate Time searching: 00:04:56 Overall time: 00:04:56 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 12 files... [bam_rmdupse_core] 7577045 / 21199641 = 0.3574 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 12:42:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4712933/SRX4712933.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4712933/SRX4712933.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4712933/SRX4712933.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4712933/SRX4712933.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 12:42:42: #1 read tag files... INFO @ Fri, 10 Dec 2021 12:42:42: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 12:42:48: 1000000 INFO @ Fri, 10 Dec 2021 12:42:53: 2000000 INFO @ Fri, 10 Dec 2021 12:42:59: 3000000 INFO @ Fri, 10 Dec 2021 12:43:05: 4000000 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 12:43:11: 5000000 INFO @ Fri, 10 Dec 2021 12:43:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4712933/SRX4712933.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4712933/SRX4712933.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4712933/SRX4712933.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4712933/SRX4712933.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 12:43:12: #1 read tag files... INFO @ Fri, 10 Dec 2021 12:43:12: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 12:43:16: 6000000 INFO @ Fri, 10 Dec 2021 12:43:18: 1000000 INFO @ Fri, 10 Dec 2021 12:43:23: 7000000 INFO @ Fri, 10 Dec 2021 12:43:23: 2000000 INFO @ Fri, 10 Dec 2021 12:43:29: 8000000 INFO @ Fri, 10 Dec 2021 12:43:29: 3000000 INFO @ Fri, 10 Dec 2021 12:43:34: 4000000 INFO @ Fri, 10 Dec 2021 12:43:35: 9000000 INFO @ Fri, 10 Dec 2021 12:43:40: 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 @ Fri, 10 Dec 2021 12:43:41: 10000000 INFO @ Fri, 10 Dec 2021 12:43:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4712933/SRX4712933.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4712933/SRX4712933.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4712933/SRX4712933.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4712933/SRX4712933.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 12:43:42: #1 read tag files... INFO @ Fri, 10 Dec 2021 12:43:42: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 12:43:45: 6000000 INFO @ Fri, 10 Dec 2021 12:43:47: 11000000 INFO @ Fri, 10 Dec 2021 12:43:48: 1000000 INFO @ Fri, 10 Dec 2021 12:43:51: 7000000 INFO @ Fri, 10 Dec 2021 12:43:53: 12000000 INFO @ Fri, 10 Dec 2021 12:43:55: 2000000 INFO @ Fri, 10 Dec 2021 12:43:56: 8000000 INFO @ Fri, 10 Dec 2021 12:43:59: 13000000 INFO @ Fri, 10 Dec 2021 12:44:01: 3000000 INFO @ Fri, 10 Dec 2021 12:44:02: 9000000 INFO @ Fri, 10 Dec 2021 12:44:03: #1 tag size is determined as 51 bps INFO @ Fri, 10 Dec 2021 12:44:03: #1 tag size = 51 INFO @ Fri, 10 Dec 2021 12:44:03: #1 total tags in treatment: 13622596 INFO @ Fri, 10 Dec 2021 12:44:03: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 12:44:03: #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 12:44:04: #1 tags after filtering in treatment: 13622377 INFO @ Fri, 10 Dec 2021 12:44:04: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 12:44:04: #1 finished! INFO @ Fri, 10 Dec 2021 12:44:04: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 12:44:04: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 12:44:05: #2 number of paired peaks: 6210 INFO @ Fri, 10 Dec 2021 12:44:05: start model_add_line... INFO @ Fri, 10 Dec 2021 12:44:05: start X-correlation... INFO @ Fri, 10 Dec 2021 12:44:05: end of X-cor INFO @ Fri, 10 Dec 2021 12:44:05: #2 finished! INFO @ Fri, 10 Dec 2021 12:44:05: #2 predicted fragment length is 155 bps INFO @ Fri, 10 Dec 2021 12:44:05: #2 alternative fragment length(s) may be 155 bps INFO @ Fri, 10 Dec 2021 12:44:05: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX4712933/SRX4712933.05_model.r INFO @ Fri, 10 Dec 2021 12:44:05: #3 Call peaks... INFO @ Fri, 10 Dec 2021 12:44:05: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 12:44:07: 4000000 INFO @ Fri, 10 Dec 2021 12:44:07: 10000000 INFO @ Fri, 10 Dec 2021 12:44:13: 11000000 INFO @ Fri, 10 Dec 2021 12:44:13: 5000000 INFO @ Fri, 10 Dec 2021 12:44:19: 12000000 INFO @ Fri, 10 Dec 2021 12:44:20: 6000000 INFO @ Fri, 10 Dec 2021 12:44:24: 13000000 INFO @ Fri, 10 Dec 2021 12:44:26: 7000000 INFO @ Fri, 10 Dec 2021 12:44:28: #1 tag size is determined as 51 bps INFO @ Fri, 10 Dec 2021 12:44:28: #1 tag size = 51 INFO @ Fri, 10 Dec 2021 12:44:28: #1 total tags in treatment: 13622596 INFO @ Fri, 10 Dec 2021 12:44:28: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 12:44:28: #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 12:44:28: #1 tags after filtering in treatment: 13622377 INFO @ Fri, 10 Dec 2021 12:44:28: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 12:44:28: #1 finished! INFO @ Fri, 10 Dec 2021 12:44:28: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 12:44:28: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 12:44:30: #2 number of paired peaks: 6210 INFO @ Fri, 10 Dec 2021 12:44:30: start model_add_line... INFO @ Fri, 10 Dec 2021 12:44:30: start X-correlation... INFO @ Fri, 10 Dec 2021 12:44:30: end of X-cor INFO @ Fri, 10 Dec 2021 12:44:30: #2 finished! INFO @ Fri, 10 Dec 2021 12:44:30: #2 predicted fragment length is 155 bps INFO @ Fri, 10 Dec 2021 12:44:30: #2 alternative fragment length(s) may be 155 bps INFO @ Fri, 10 Dec 2021 12:44:30: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX4712933/SRX4712933.10_model.r INFO @ Fri, 10 Dec 2021 12:44:30: #3 Call peaks... INFO @ Fri, 10 Dec 2021 12:44:30: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 12:44:32: 8000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 10 Dec 2021 12:44:38: 9000000 INFO @ Fri, 10 Dec 2021 12:44:41: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 12:44:44: 10000000 INFO @ Fri, 10 Dec 2021 12:44:50: 11000000 INFO @ Fri, 10 Dec 2021 12:44:56: 12000000 BigWig に変換しました。 INFO @ Fri, 10 Dec 2021 12:44:58: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX4712933/SRX4712933.05_peaks.xls INFO @ Fri, 10 Dec 2021 12:44:58: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX4712933/SRX4712933.05_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 12:44:58: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX4712933/SRX4712933.05_summits.bed INFO @ Fri, 10 Dec 2021 12:44:58: Done! pass1 - making usageList (41 chroms): 2 millis pass2 - checking and writing primary data (12800 records, 4 fields): 14 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 12:45:02: 13000000 INFO @ Fri, 10 Dec 2021 12:45:03: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 12:45:06: #1 tag size is determined as 51 bps INFO @ Fri, 10 Dec 2021 12:45:06: #1 tag size = 51 INFO @ Fri, 10 Dec 2021 12:45:06: #1 total tags in treatment: 13622596 INFO @ Fri, 10 Dec 2021 12:45:06: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 12:45:06: #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 12:45:06: #1 tags after filtering in treatment: 13622377 INFO @ Fri, 10 Dec 2021 12:45:06: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 12:45:06: #1 finished! INFO @ Fri, 10 Dec 2021 12:45:06: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 12:45:06: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 12:45:07: #2 number of paired peaks: 6210 INFO @ Fri, 10 Dec 2021 12:45:07: start model_add_line... INFO @ Fri, 10 Dec 2021 12:45:07: start X-correlation... INFO @ Fri, 10 Dec 2021 12:45:07: end of X-cor INFO @ Fri, 10 Dec 2021 12:45:07: #2 finished! INFO @ Fri, 10 Dec 2021 12:45:07: #2 predicted fragment length is 155 bps INFO @ Fri, 10 Dec 2021 12:45:07: #2 alternative fragment length(s) may be 155 bps INFO @ Fri, 10 Dec 2021 12:45:07: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX4712933/SRX4712933.20_model.r INFO @ Fri, 10 Dec 2021 12:45:07: #3 Call peaks... INFO @ Fri, 10 Dec 2021 12:45:07: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 12:45:19: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX4712933/SRX4712933.10_peaks.xls INFO @ Fri, 10 Dec 2021 12:45:19: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX4712933/SRX4712933.10_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 12:45:19: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX4712933/SRX4712933.10_summits.bed INFO @ Fri, 10 Dec 2021 12:45:19: Done! pass1 - making usageList (32 chroms): 2 millis pass2 - checking and writing primary data (10170 records, 4 fields): 12 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 12:45:42: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 12:45:58: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX4712933/SRX4712933.20_peaks.xls INFO @ Fri, 10 Dec 2021 12:45:58: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX4712933/SRX4712933.20_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 12:45:58: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX4712933/SRX4712933.20_summits.bed INFO @ Fri, 10 Dec 2021 12:45:58: Done! pass1 - making usageList (21 chroms): 1 millis pass2 - checking and writing primary data (7704 records, 4 fields): 9 millis CompletedMACS2peakCalling