Job ID = 14167282 SRX = SRX7723701 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: 00:05:24 23891099 reads; of these: 23891099 (100.00%) were unpaired; of these: 10672644 (44.67%) aligned 0 times 12323753 (51.58%) aligned exactly 1 time 894702 (3.74%) aligned >1 times 55.33% overall alignment rate Time searching: 00:05:24 Overall time: 00:05:24 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] 7497438 / 13218455 = 0.5672 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 11:42:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7723701/SRX7723701.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7723701/SRX7723701.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7723701/SRX7723701.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7723701/SRX7723701.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 11:42:18: #1 read tag files... INFO @ Fri, 10 Dec 2021 11:42:18: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 11:42:23: 1000000 INFO @ Fri, 10 Dec 2021 11:42:29: 2000000 INFO @ Fri, 10 Dec 2021 11:42:34: 3000000 INFO @ Fri, 10 Dec 2021 11:42:39: 4000000 INFO @ Fri, 10 Dec 2021 11:42:45: 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 11:42:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7723701/SRX7723701.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7723701/SRX7723701.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7723701/SRX7723701.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7723701/SRX7723701.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 11:42:48: #1 read tag files... INFO @ Fri, 10 Dec 2021 11:42:48: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 11:42:49: #1 tag size is determined as 75 bps INFO @ Fri, 10 Dec 2021 11:42:49: #1 tag size = 75 INFO @ Fri, 10 Dec 2021 11:42:49: #1 total tags in treatment: 5721017 INFO @ Fri, 10 Dec 2021 11:42:49: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 11:42:49: #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 11:42:50: #1 tags after filtering in treatment: 5720766 INFO @ Fri, 10 Dec 2021 11:42:50: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 11:42:50: #1 finished! INFO @ Fri, 10 Dec 2021 11:42:50: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 11:42:50: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 11:42:51: #2 number of paired peaks: 9504 INFO @ Fri, 10 Dec 2021 11:42:51: start model_add_line... INFO @ Fri, 10 Dec 2021 11:42:51: start X-correlation... INFO @ Fri, 10 Dec 2021 11:42:51: end of X-cor INFO @ Fri, 10 Dec 2021 11:42:51: #2 finished! INFO @ Fri, 10 Dec 2021 11:42:51: #2 predicted fragment length is 155 bps INFO @ Fri, 10 Dec 2021 11:42:51: #2 alternative fragment length(s) may be 155 bps INFO @ Fri, 10 Dec 2021 11:42:51: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7723701/SRX7723701.05_model.r INFO @ Fri, 10 Dec 2021 11:42:51: #3 Call peaks... INFO @ Fri, 10 Dec 2021 11:42:51: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 11:42:53: 1000000 INFO @ Fri, 10 Dec 2021 11:42:59: 2000000 INFO @ Fri, 10 Dec 2021 11:43:05: 3000000 INFO @ Fri, 10 Dec 2021 11:43:07: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 11:43:10: 4000000 INFO @ Fri, 10 Dec 2021 11:43:15: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7723701/SRX7723701.05_peaks.xls INFO @ Fri, 10 Dec 2021 11:43:15: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7723701/SRX7723701.05_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 11:43:15: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7723701/SRX7723701.05_summits.bed INFO @ Fri, 10 Dec 2021 11:43:15: Done! pass1 - making usageList (167 chroms): 2 millis pass2 - checking and writing primary data (8172 records, 4 fields): 14 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 11:43:16: 5000000 INFO @ Fri, 10 Dec 2021 11:43:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7723701/SRX7723701.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7723701/SRX7723701.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7723701/SRX7723701.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7723701/SRX7723701.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 11:43:18: #1 read tag files... INFO @ Fri, 10 Dec 2021 11:43:18: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 11:43:20: #1 tag size is determined as 75 bps INFO @ Fri, 10 Dec 2021 11:43:20: #1 tag size = 75 INFO @ Fri, 10 Dec 2021 11:43:20: #1 total tags in treatment: 5721017 INFO @ Fri, 10 Dec 2021 11:43:20: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 11:43:20: #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 11:43:21: #1 tags after filtering in treatment: 5720766 INFO @ Fri, 10 Dec 2021 11:43:21: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 11:43:21: #1 finished! INFO @ Fri, 10 Dec 2021 11:43:21: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 11:43:21: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 11:43:22: #2 number of paired peaks: 9504 INFO @ Fri, 10 Dec 2021 11:43:22: start model_add_line... INFO @ Fri, 10 Dec 2021 11:43:22: start X-correlation... INFO @ Fri, 10 Dec 2021 11:43:22: end of X-cor INFO @ Fri, 10 Dec 2021 11:43:22: #2 finished! INFO @ Fri, 10 Dec 2021 11:43:22: #2 predicted fragment length is 155 bps INFO @ Fri, 10 Dec 2021 11:43:22: #2 alternative fragment length(s) may be 155 bps INFO @ Fri, 10 Dec 2021 11:43:22: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7723701/SRX7723701.10_model.r INFO @ Fri, 10 Dec 2021 11:43:22: #3 Call peaks... INFO @ Fri, 10 Dec 2021 11:43:22: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 11:43:24: 1000000 INFO @ Fri, 10 Dec 2021 11:43:29: 2000000 INFO @ Fri, 10 Dec 2021 11:43:35: 3000000 INFO @ Fri, 10 Dec 2021 11:43:38: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 11:43:40: 4000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 10 Dec 2021 11:43:46: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7723701/SRX7723701.10_peaks.xls INFO @ Fri, 10 Dec 2021 11:43:46: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7723701/SRX7723701.10_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 11:43:46: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7723701/SRX7723701.10_summits.bed INFO @ Fri, 10 Dec 2021 11:43:46: Done! INFO @ Fri, 10 Dec 2021 11:43:46: 5000000 pass1 - making usageList (99 chroms): 2 millis pass2 - checking and writing primary data (7021 records, 4 fields): 10 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 11:43:50: #1 tag size is determined as 75 bps INFO @ Fri, 10 Dec 2021 11:43:50: #1 tag size = 75 INFO @ Fri, 10 Dec 2021 11:43:50: #1 total tags in treatment: 5721017 INFO @ Fri, 10 Dec 2021 11:43:50: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 11:43:50: #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 11:43:50: #1 tags after filtering in treatment: 5720766 INFO @ Fri, 10 Dec 2021 11:43:50: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 11:43:50: #1 finished! INFO @ Fri, 10 Dec 2021 11:43:50: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 11:43:50: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 11:43:51: #2 number of paired peaks: 9504 INFO @ Fri, 10 Dec 2021 11:43:51: start model_add_line... INFO @ Fri, 10 Dec 2021 11:43:51: start X-correlation... INFO @ Fri, 10 Dec 2021 11:43:51: end of X-cor INFO @ Fri, 10 Dec 2021 11:43:51: #2 finished! INFO @ Fri, 10 Dec 2021 11:43:51: #2 predicted fragment length is 155 bps INFO @ Fri, 10 Dec 2021 11:43:51: #2 alternative fragment length(s) may be 155 bps INFO @ Fri, 10 Dec 2021 11:43:51: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7723701/SRX7723701.20_model.r INFO @ Fri, 10 Dec 2021 11:43:51: #3 Call peaks... INFO @ Fri, 10 Dec 2021 11:43:51: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Fri, 10 Dec 2021 11:44:07: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 11:44:14: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7723701/SRX7723701.20_peaks.xls INFO @ Fri, 10 Dec 2021 11:44:14: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7723701/SRX7723701.20_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 11:44:14: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7723701/SRX7723701.20_summits.bed INFO @ Fri, 10 Dec 2021 11:44:15: Done! pass1 - making usageList (71 chroms): 1 millis pass2 - checking and writing primary data (5533 records, 4 fields): 10 millis CompletedMACS2peakCalling