Job ID = 16439143 SRX = SRX15206445 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: 00:04:00 5203885 reads; of these: 5203885 (100.00%) were unpaired; of these: 156786 (3.01%) aligned 0 times 2219264 (42.65%) aligned exactly 1 time 2827835 (54.34%) aligned >1 times 96.99% overall alignment rate Time searching: 00:04:00 Overall time: 00:04:00 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] 1215209 / 5047099 = 0.2408 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/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 14:42:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX15206445/SRX15206445.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX15206445/SRX15206445.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX15206445/SRX15206445.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX15206445/SRX15206445.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 @ Tue, 02 Aug 2022 14:42:06: #1 read tag files... INFO @ Tue, 02 Aug 2022 14:42:06: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 14:42:13: 1000000 INFO @ Tue, 02 Aug 2022 14:42:20: 2000000 INFO @ Tue, 02 Aug 2022 14:42:28: 3000000 WARNING: Skipping mount /opt/pkg/singularity/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 14:42:34: #1 tag size is determined as 100 bps INFO @ Tue, 02 Aug 2022 14:42:34: #1 tag size = 100 INFO @ Tue, 02 Aug 2022 14:42:34: #1 total tags in treatment: 3831890 INFO @ Tue, 02 Aug 2022 14:42:34: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 14:42:34: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 14:42:34: #1 tags after filtering in treatment: 3831740 INFO @ Tue, 02 Aug 2022 14:42:34: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 14:42:34: #1 finished! INFO @ Tue, 02 Aug 2022 14:42:34: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 14:42:34: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 14:42:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX15206445/SRX15206445.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX15206445/SRX15206445.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX15206445/SRX15206445.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX15206445/SRX15206445.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 @ Tue, 02 Aug 2022 14:42:35: #1 read tag files... INFO @ Tue, 02 Aug 2022 14:42:35: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 14:42:35: #2 number of paired peaks: 6593 INFO @ Tue, 02 Aug 2022 14:42:35: start model_add_line... INFO @ Tue, 02 Aug 2022 14:42:35: start X-correlation... INFO @ Tue, 02 Aug 2022 14:42:35: end of X-cor INFO @ Tue, 02 Aug 2022 14:42:35: #2 finished! INFO @ Tue, 02 Aug 2022 14:42:35: #2 predicted fragment length is 214 bps INFO @ Tue, 02 Aug 2022 14:42:35: #2 alternative fragment length(s) may be 214 bps INFO @ Tue, 02 Aug 2022 14:42:35: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX15206445/SRX15206445.05_model.r INFO @ Tue, 02 Aug 2022 14:42:35: #3 Call peaks... INFO @ Tue, 02 Aug 2022 14:42:35: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 14:42:42: 1000000 INFO @ Tue, 02 Aug 2022 14:42:48: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 14:42:49: 2000000 INFO @ Tue, 02 Aug 2022 14:42:53: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX15206445/SRX15206445.05_peaks.xls INFO @ Tue, 02 Aug 2022 14:42:53: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX15206445/SRX15206445.05_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 14:42:53: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX15206445/SRX15206445.05_summits.bed INFO @ Tue, 02 Aug 2022 14:42:53: Done! pass1 - making usageList (665 chroms): 3 millis pass2 - checking and writing primary data (5062 records, 4 fields): 73 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 14:42:57: 3000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 14:43:03: #1 tag size is determined as 100 bps INFO @ Tue, 02 Aug 2022 14:43:03: #1 tag size = 100 INFO @ Tue, 02 Aug 2022 14:43:03: #1 total tags in treatment: 3831890 INFO @ Tue, 02 Aug 2022 14:43:03: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 14:43:03: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 14:43:04: #1 tags after filtering in treatment: 3831740 INFO @ Tue, 02 Aug 2022 14:43:04: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 14:43:04: #1 finished! INFO @ Tue, 02 Aug 2022 14:43:04: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 14:43:04: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 14:43:05: #2 number of paired peaks: 6593 INFO @ Tue, 02 Aug 2022 14:43:05: start model_add_line... INFO @ Tue, 02 Aug 2022 14:43:05: start X-correlation... INFO @ Tue, 02 Aug 2022 14:43:05: end of X-cor INFO @ Tue, 02 Aug 2022 14:43:05: #2 finished! INFO @ Tue, 02 Aug 2022 14:43:05: #2 predicted fragment length is 214 bps INFO @ Tue, 02 Aug 2022 14:43:05: #2 alternative fragment length(s) may be 214 bps INFO @ Tue, 02 Aug 2022 14:43:05: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX15206445/SRX15206445.10_model.r INFO @ Tue, 02 Aug 2022 14:43:05: #3 Call peaks... INFO @ Tue, 02 Aug 2022 14:43:05: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 14:43:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX15206445/SRX15206445.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX15206445/SRX15206445.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX15206445/SRX15206445.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX15206445/SRX15206445.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 @ Tue, 02 Aug 2022 14:43:05: #1 read tag files... INFO @ Tue, 02 Aug 2022 14:43:05: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 14:43:12: 1000000 INFO @ Tue, 02 Aug 2022 14:43:17: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 14:43:19: 2000000 INFO @ Tue, 02 Aug 2022 14:43:22: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX15206445/SRX15206445.10_peaks.xls INFO @ Tue, 02 Aug 2022 14:43:22: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX15206445/SRX15206445.10_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 14:43:22: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX15206445/SRX15206445.10_summits.bed INFO @ Tue, 02 Aug 2022 14:43:22: Done! pass1 - making usageList (499 chroms): 2 millis pass2 - checking and writing primary data (2447 records, 4 fields): 47 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 14:43:27: 3000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 14:43:34: #1 tag size is determined as 100 bps INFO @ Tue, 02 Aug 2022 14:43:34: #1 tag size = 100 INFO @ Tue, 02 Aug 2022 14:43:34: #1 total tags in treatment: 3831890 INFO @ Tue, 02 Aug 2022 14:43:34: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 14:43:34: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 14:43:35: #1 tags after filtering in treatment: 3831740 INFO @ Tue, 02 Aug 2022 14:43:35: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 14:43:35: #1 finished! INFO @ Tue, 02 Aug 2022 14:43:35: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 14:43:35: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 14:43:35: #2 number of paired peaks: 6593 INFO @ Tue, 02 Aug 2022 14:43:35: start model_add_line... INFO @ Tue, 02 Aug 2022 14:43:35: start X-correlation... INFO @ Tue, 02 Aug 2022 14:43:35: end of X-cor INFO @ Tue, 02 Aug 2022 14:43:35: #2 finished! INFO @ Tue, 02 Aug 2022 14:43:35: #2 predicted fragment length is 214 bps INFO @ Tue, 02 Aug 2022 14:43:35: #2 alternative fragment length(s) may be 214 bps INFO @ Tue, 02 Aug 2022 14:43:35: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX15206445/SRX15206445.20_model.r INFO @ Tue, 02 Aug 2022 14:43:35: #3 Call peaks... INFO @ Tue, 02 Aug 2022 14:43:35: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 14:43:48: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 14:43:53: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX15206445/SRX15206445.20_peaks.xls INFO @ Tue, 02 Aug 2022 14:43:53: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX15206445/SRX15206445.20_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 14:43:53: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX15206445/SRX15206445.20_summits.bed INFO @ Tue, 02 Aug 2022 14:43:53: Done! pass1 - making usageList (326 chroms): 2 millis pass2 - checking and writing primary data (910 records, 4 fields): 40 millis CompletedMACS2peakCalling