Job ID = 14167212 SRX = SRX7541116 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: 00:01:52 11789851 reads; of these: 11789851 (100.00%) were unpaired; of these: 4587381 (38.91%) aligned 0 times 6316647 (53.58%) aligned exactly 1 time 885823 (7.51%) aligned >1 times 61.09% overall alignment rate Time searching: 00:01:52 Overall time: 00:01:52 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] 1100519 / 7202470 = 0.1528 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 11:06:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7541116/SRX7541116.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7541116/SRX7541116.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7541116/SRX7541116.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7541116/SRX7541116.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 11:06:39: #1 read tag files... INFO @ Fri, 10 Dec 2021 11:06:39: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 11:06:45: 1000000 INFO @ Fri, 10 Dec 2021 11:06:51: 2000000 INFO @ Fri, 10 Dec 2021 11:06:57: 3000000 INFO @ Fri, 10 Dec 2021 11:07:03: 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 11:07:09: 5000000 INFO @ Fri, 10 Dec 2021 11:07:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7541116/SRX7541116.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7541116/SRX7541116.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7541116/SRX7541116.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7541116/SRX7541116.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 11:07:09: #1 read tag files... INFO @ Fri, 10 Dec 2021 11:07:09: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 11:07:16: 6000000 INFO @ Fri, 10 Dec 2021 11:07:17: 1000000 INFO @ Fri, 10 Dec 2021 11:07:17: #1 tag size is determined as 50 bps INFO @ Fri, 10 Dec 2021 11:07:17: #1 tag size = 50 INFO @ Fri, 10 Dec 2021 11:07:17: #1 total tags in treatment: 6101951 INFO @ Fri, 10 Dec 2021 11:07:17: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 11:07:17: #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 11:07:17: #1 tags after filtering in treatment: 6101740 INFO @ Fri, 10 Dec 2021 11:07:17: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 11:07:17: #1 finished! INFO @ Fri, 10 Dec 2021 11:07:17: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 11:07:17: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 11:07:18: #2 number of paired peaks: 6089 INFO @ Fri, 10 Dec 2021 11:07:18: start model_add_line... INFO @ Fri, 10 Dec 2021 11:07:18: start X-correlation... INFO @ Fri, 10 Dec 2021 11:07:18: end of X-cor INFO @ Fri, 10 Dec 2021 11:07:18: #2 finished! INFO @ Fri, 10 Dec 2021 11:07:18: #2 predicted fragment length is 266 bps INFO @ Fri, 10 Dec 2021 11:07:18: #2 alternative fragment length(s) may be 266 bps INFO @ Fri, 10 Dec 2021 11:07:18: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7541116/SRX7541116.05_model.r INFO @ Fri, 10 Dec 2021 11:07:18: #3 Call peaks... INFO @ Fri, 10 Dec 2021 11:07:18: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 11:07:24: 2000000 INFO @ Fri, 10 Dec 2021 11:07:32: 3000000 INFO @ Fri, 10 Dec 2021 11:07:32: #3 Call peaks for each chromosome... 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 11:07:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7541116/SRX7541116.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7541116/SRX7541116.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7541116/SRX7541116.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7541116/SRX7541116.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 11:07:39: #1 read tag files... INFO @ Fri, 10 Dec 2021 11:07:39: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 11:07:39: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7541116/SRX7541116.05_peaks.xls INFO @ Fri, 10 Dec 2021 11:07:39: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7541116/SRX7541116.05_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 11:07:39: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7541116/SRX7541116.05_summits.bed INFO @ Fri, 10 Dec 2021 11:07:39: Done! INFO @ Fri, 10 Dec 2021 11:07:39: 4000000 pass1 - making usageList (389 chroms): 2 millis pass2 - checking and writing primary data (6416 records, 4 fields): 16 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 11:07:46: 1000000 INFO @ Fri, 10 Dec 2021 11:07:48: 5000000 INFO @ Fri, 10 Dec 2021 11:07:54: 2000000 INFO @ Fri, 10 Dec 2021 11:07:56: 6000000 INFO @ Fri, 10 Dec 2021 11:07:57: #1 tag size is determined as 50 bps INFO @ Fri, 10 Dec 2021 11:07:57: #1 tag size = 50 INFO @ Fri, 10 Dec 2021 11:07:57: #1 total tags in treatment: 6101951 INFO @ Fri, 10 Dec 2021 11:07:57: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 11:07:57: #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 11:07:57: #1 tags after filtering in treatment: 6101740 INFO @ Fri, 10 Dec 2021 11:07:57: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 11:07:57: #1 finished! INFO @ Fri, 10 Dec 2021 11:07:57: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 11:07:57: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 11:07:58: #2 number of paired peaks: 6089 INFO @ Fri, 10 Dec 2021 11:07:58: start model_add_line... INFO @ Fri, 10 Dec 2021 11:07:58: start X-correlation... INFO @ Fri, 10 Dec 2021 11:07:58: end of X-cor INFO @ Fri, 10 Dec 2021 11:07:58: #2 finished! INFO @ Fri, 10 Dec 2021 11:07:58: #2 predicted fragment length is 266 bps INFO @ Fri, 10 Dec 2021 11:07:58: #2 alternative fragment length(s) may be 266 bps INFO @ Fri, 10 Dec 2021 11:07:58: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7541116/SRX7541116.10_model.r INFO @ Fri, 10 Dec 2021 11:07:58: #3 Call peaks... INFO @ Fri, 10 Dec 2021 11:07:58: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 11:08:00: 3000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 10 Dec 2021 11:08:07: 4000000 INFO @ Fri, 10 Dec 2021 11:08:12: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 11:08:13: 5000000 BigWig に変換しました。 INFO @ Fri, 10 Dec 2021 11:08:19: 6000000 INFO @ Fri, 10 Dec 2021 11:08:19: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7541116/SRX7541116.10_peaks.xls INFO @ Fri, 10 Dec 2021 11:08:19: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7541116/SRX7541116.10_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 11:08:19: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7541116/SRX7541116.10_summits.bed INFO @ Fri, 10 Dec 2021 11:08:19: Done! pass1 - making usageList (314 chroms): 2 millis pass2 - checking and writing primary data (5431 records, 4 fields): 14 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 11:08:20: #1 tag size is determined as 50 bps INFO @ Fri, 10 Dec 2021 11:08:20: #1 tag size = 50 INFO @ Fri, 10 Dec 2021 11:08:20: #1 total tags in treatment: 6101951 INFO @ Fri, 10 Dec 2021 11:08:20: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 11:08:20: #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 11:08:20: #1 tags after filtering in treatment: 6101740 INFO @ Fri, 10 Dec 2021 11:08:20: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 11:08:20: #1 finished! INFO @ Fri, 10 Dec 2021 11:08:20: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 11:08:20: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 11:08:21: #2 number of paired peaks: 6089 INFO @ Fri, 10 Dec 2021 11:08:21: start model_add_line... INFO @ Fri, 10 Dec 2021 11:08:21: start X-correlation... INFO @ Fri, 10 Dec 2021 11:08:21: end of X-cor INFO @ Fri, 10 Dec 2021 11:08:21: #2 finished! INFO @ Fri, 10 Dec 2021 11:08:21: #2 predicted fragment length is 266 bps INFO @ Fri, 10 Dec 2021 11:08:21: #2 alternative fragment length(s) may be 266 bps INFO @ Fri, 10 Dec 2021 11:08:21: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7541116/SRX7541116.20_model.r INFO @ Fri, 10 Dec 2021 11:08:21: #3 Call peaks... INFO @ Fri, 10 Dec 2021 11:08:21: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 11:08:35: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 11:08:42: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7541116/SRX7541116.20_peaks.xls INFO @ Fri, 10 Dec 2021 11:08:42: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7541116/SRX7541116.20_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 11:08:42: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7541116/SRX7541116.20_summits.bed INFO @ Fri, 10 Dec 2021 11:08:42: Done! pass1 - making usageList (140 chroms): 1 millis pass2 - checking and writing primary data (3620 records, 4 fields): 9 millis CompletedMACS2peakCalling