Job ID = 16439284 SRX = SRX15206466 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: 00:00:01 Multiseed full-index search: 00:02:17 3971877 reads; of these: 3971877 (100.00%) were unpaired; of these: 151442 (3.81%) aligned 0 times 1349180 (33.97%) aligned exactly 1 time 2471255 (62.22%) aligned >1 times 96.19% overall alignment rate Time searching: 00:02:18 Overall time: 00:02:18 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_rmdupse_core] 1457066 / 3820435 = 0.3814 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 14:53:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX15206466/SRX15206466.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX15206466/SRX15206466.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX15206466/SRX15206466.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX15206466/SRX15206466.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 14:53:41: #1 read tag files... INFO @ Tue, 02 Aug 2022 14:53:41: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 14:53:51: 1000000 INFO @ Tue, 02 Aug 2022 14:54:02: 2000000 INFO @ Tue, 02 Aug 2022 14:54:05: #1 tag size is determined as 74 bps INFO @ Tue, 02 Aug 2022 14:54:05: #1 tag size = 74 INFO @ Tue, 02 Aug 2022 14:54:05: #1 total tags in treatment: 2363369 INFO @ Tue, 02 Aug 2022 14:54:05: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 14:54:05: #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 14:54:06: #1 tags after filtering in treatment: 2363051 INFO @ Tue, 02 Aug 2022 14:54:06: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 14:54:06: #1 finished! INFO @ Tue, 02 Aug 2022 14:54:06: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 14:54:06: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 14:54:07: #2 number of paired peaks: 6150 INFO @ Tue, 02 Aug 2022 14:54:07: start model_add_line... INFO @ Tue, 02 Aug 2022 14:54:07: start X-correlation... INFO @ Tue, 02 Aug 2022 14:54:07: end of X-cor INFO @ Tue, 02 Aug 2022 14:54:07: #2 finished! INFO @ Tue, 02 Aug 2022 14:54:07: #2 predicted fragment length is 324 bps INFO @ Tue, 02 Aug 2022 14:54:07: #2 alternative fragment length(s) may be 324 bps INFO @ Tue, 02 Aug 2022 14:54:07: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX15206466/SRX15206466.05_model.r INFO @ Tue, 02 Aug 2022 14:54:07: #3 Call peaks... INFO @ Tue, 02 Aug 2022 14:54:07: #3 Pre-compute pvalue-qvalue table... 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 14:54:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX15206466/SRX15206466.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX15206466/SRX15206466.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX15206466/SRX15206466.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX15206466/SRX15206466.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 14:54:11: #1 read tag files... INFO @ Tue, 02 Aug 2022 14:54:11: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 14:54:23: 1000000 INFO @ Tue, 02 Aug 2022 14:54:23: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 14:54:28: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX15206466/SRX15206466.05_peaks.xls INFO @ Tue, 02 Aug 2022 14:54:28: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX15206466/SRX15206466.05_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 14:54:28: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX15206466/SRX15206466.05_summits.bed INFO @ Tue, 02 Aug 2022 14:54:28: Done! pass1 - making usageList (553 chroms): 2 millis pass2 - checking and writing primary data (4979 records, 4 fields): 51 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 14:54:34: 2000000 INFO @ Tue, 02 Aug 2022 14:54:38: #1 tag size is determined as 74 bps INFO @ Tue, 02 Aug 2022 14:54:38: #1 tag size = 74 INFO @ Tue, 02 Aug 2022 14:54:38: #1 total tags in treatment: 2363369 INFO @ Tue, 02 Aug 2022 14:54:38: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 14:54:38: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) 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 14:54:38: #1 tags after filtering in treatment: 2363051 INFO @ Tue, 02 Aug 2022 14:54:38: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 14:54:38: #1 finished! INFO @ Tue, 02 Aug 2022 14:54:38: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 14:54:38: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 14:54:39: #2 number of paired peaks: 6150 INFO @ Tue, 02 Aug 2022 14:54:39: start model_add_line... INFO @ Tue, 02 Aug 2022 14:54:39: start X-correlation... INFO @ Tue, 02 Aug 2022 14:54:39: end of X-cor INFO @ Tue, 02 Aug 2022 14:54:39: #2 finished! INFO @ Tue, 02 Aug 2022 14:54:39: #2 predicted fragment length is 324 bps INFO @ Tue, 02 Aug 2022 14:54:39: #2 alternative fragment length(s) may be 324 bps INFO @ Tue, 02 Aug 2022 14:54:39: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX15206466/SRX15206466.10_model.r INFO @ Tue, 02 Aug 2022 14:54:39: #3 Call peaks... INFO @ Tue, 02 Aug 2022 14:54:39: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 14:54:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX15206466/SRX15206466.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX15206466/SRX15206466.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX15206466/SRX15206466.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX15206466/SRX15206466.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 14:54:41: #1 read tag files... INFO @ Tue, 02 Aug 2022 14:54:41: #1 read treatment tags... BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 14:54:54: 1000000 INFO @ Tue, 02 Aug 2022 14:54:55: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 14:54:59: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX15206466/SRX15206466.10_peaks.xls INFO @ Tue, 02 Aug 2022 14:54:59: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX15206466/SRX15206466.10_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 14:54:59: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX15206466/SRX15206466.10_summits.bed INFO @ Tue, 02 Aug 2022 14:54:59: Done! pass1 - making usageList (434 chroms): 2 millis pass2 - checking and writing primary data (3888 records, 4 fields): 230 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 14:55:07: 2000000 INFO @ Tue, 02 Aug 2022 14:55:12: #1 tag size is determined as 74 bps INFO @ Tue, 02 Aug 2022 14:55:12: #1 tag size = 74 INFO @ Tue, 02 Aug 2022 14:55:12: #1 total tags in treatment: 2363369 INFO @ Tue, 02 Aug 2022 14:55:12: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 14:55:12: #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 14:55:12: #1 tags after filtering in treatment: 2363051 INFO @ Tue, 02 Aug 2022 14:55:12: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 14:55:12: #1 finished! INFO @ Tue, 02 Aug 2022 14:55:12: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 14:55:12: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 14:55:13: #2 number of paired peaks: 6150 INFO @ Tue, 02 Aug 2022 14:55:13: start model_add_line... INFO @ Tue, 02 Aug 2022 14:55:13: start X-correlation... INFO @ Tue, 02 Aug 2022 14:55:13: end of X-cor INFO @ Tue, 02 Aug 2022 14:55:13: #2 finished! INFO @ Tue, 02 Aug 2022 14:55:13: #2 predicted fragment length is 324 bps INFO @ Tue, 02 Aug 2022 14:55:13: #2 alternative fragment length(s) may be 324 bps INFO @ Tue, 02 Aug 2022 14:55:13: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX15206466/SRX15206466.20_model.r INFO @ Tue, 02 Aug 2022 14:55:13: #3 Call peaks... INFO @ Tue, 02 Aug 2022 14:55:13: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 14:55:29: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 14:55:34: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX15206466/SRX15206466.20_peaks.xls INFO @ Tue, 02 Aug 2022 14:55:34: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX15206466/SRX15206466.20_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 14:55:34: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX15206466/SRX15206466.20_summits.bed INFO @ Tue, 02 Aug 2022 14:55:34: Done! pass1 - making usageList (359 chroms): 3 millis pass2 - checking and writing primary data (2846 records, 4 fields): 31 millis CompletedMACS2peakCalling