Job ID = 12265007 SRX = SRX3032252 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: 00:00:01 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:01:59 12675106 reads; of these: 12675106 (100.00%) were unpaired; of these: 4892701 (38.60%) aligned 0 times 6129075 (48.36%) aligned exactly 1 time 1653330 (13.04%) aligned >1 times 61.40% overall alignment rate Time searching: 00:02:00 Overall time: 00:02:00 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] 3505836 / 7782405 = 0.4505 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/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 06:07:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3032252/SRX3032252.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3032252/SRX3032252.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3032252/SRX3032252.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3032252/SRX3032252.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 @ Sat, 03 Apr 2021 06:07:35: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:07:35: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:07:41: 1000000 INFO @ Sat, 03 Apr 2021 06:07:47: 2000000 INFO @ Sat, 03 Apr 2021 06:07:53: 3000000 INFO @ Sat, 03 Apr 2021 06:07:59: 4000000 INFO @ Sat, 03 Apr 2021 06:08:01: #1 tag size is determined as 20 bps INFO @ Sat, 03 Apr 2021 06:08:01: #1 tag size = 20 INFO @ Sat, 03 Apr 2021 06:08:01: #1 total tags in treatment: 4276569 INFO @ Sat, 03 Apr 2021 06:08:01: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:08:01: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 06:08:01: #1 tags after filtering in treatment: 4276478 INFO @ Sat, 03 Apr 2021 06:08:01: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:08:01: #1 finished! INFO @ Sat, 03 Apr 2021 06:08:01: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:08:01: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:08:02: #2 number of paired peaks: 2406 INFO @ Sat, 03 Apr 2021 06:08:02: start model_add_line... INFO @ Sat, 03 Apr 2021 06:08:02: start X-correlation... INFO @ Sat, 03 Apr 2021 06:08:02: end of X-cor INFO @ Sat, 03 Apr 2021 06:08:02: #2 finished! INFO @ Sat, 03 Apr 2021 06:08:02: #2 predicted fragment length is 65 bps INFO @ Sat, 03 Apr 2021 06:08:02: #2 alternative fragment length(s) may be 65 bps INFO @ Sat, 03 Apr 2021 06:08:02: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3032252/SRX3032252.05_model.r INFO @ Sat, 03 Apr 2021 06:08:02: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:08:02: #3 Pre-compute pvalue-qvalue table... WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 06:08:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3032252/SRX3032252.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3032252/SRX3032252.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3032252/SRX3032252.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3032252/SRX3032252.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 @ Sat, 03 Apr 2021 06:08:05: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:08:05: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:08:11: 1000000 INFO @ Sat, 03 Apr 2021 06:08:11: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:08:17: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3032252/SRX3032252.05_peaks.xls INFO @ Sat, 03 Apr 2021 06:08:17: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3032252/SRX3032252.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:08:17: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3032252/SRX3032252.05_summits.bed INFO @ Sat, 03 Apr 2021 06:08:17: Done! pass1 - making usageList (173 chroms): 2 millis pass2 - checking and writing primary data (10320 records, 4 fields): 16 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:08:18: 2000000 INFO @ Sat, 03 Apr 2021 06:08:24: 3000000 INFO @ Sat, 03 Apr 2021 06:08:31: 4000000 INFO @ Sat, 03 Apr 2021 06:08:32: #1 tag size is determined as 20 bps INFO @ Sat, 03 Apr 2021 06:08:32: #1 tag size = 20 INFO @ Sat, 03 Apr 2021 06:08:32: #1 total tags in treatment: 4276569 INFO @ Sat, 03 Apr 2021 06:08:32: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:08:32: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 06:08:33: #1 tags after filtering in treatment: 4276478 INFO @ Sat, 03 Apr 2021 06:08:33: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:08:33: #1 finished! INFO @ Sat, 03 Apr 2021 06:08:33: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:08:33: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:08:33: #2 number of paired peaks: 2406 INFO @ Sat, 03 Apr 2021 06:08:33: start model_add_line... INFO @ Sat, 03 Apr 2021 06:08:33: start X-correlation... INFO @ Sat, 03 Apr 2021 06:08:33: end of X-cor INFO @ Sat, 03 Apr 2021 06:08:33: #2 finished! INFO @ Sat, 03 Apr 2021 06:08:33: #2 predicted fragment length is 65 bps INFO @ Sat, 03 Apr 2021 06:08:33: #2 alternative fragment length(s) may be 65 bps INFO @ Sat, 03 Apr 2021 06:08:33: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3032252/SRX3032252.10_model.r INFO @ Sat, 03 Apr 2021 06:08:33: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:08:33: #3 Pre-compute pvalue-qvalue table... BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 06:08:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3032252/SRX3032252.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3032252/SRX3032252.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3032252/SRX3032252.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3032252/SRX3032252.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 @ Sat, 03 Apr 2021 06:08:35: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:08:35: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:08:41: 1000000 INFO @ Sat, 03 Apr 2021 06:08:43: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:08:46: 2000000 INFO @ Sat, 03 Apr 2021 06:08:48: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3032252/SRX3032252.10_peaks.xls INFO @ Sat, 03 Apr 2021 06:08:48: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3032252/SRX3032252.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:08:48: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3032252/SRX3032252.10_summits.bed INFO @ Sat, 03 Apr 2021 06:08:48: Done! pass1 - making usageList (49 chroms): 1 millis pass2 - checking and writing primary data (4122 records, 4 fields): 7 millis CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 06:08:52: 3000000 INFO @ Sat, 03 Apr 2021 06:08:58: 4000000 BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 06:09:00: #1 tag size is determined as 20 bps INFO @ Sat, 03 Apr 2021 06:09:00: #1 tag size = 20 INFO @ Sat, 03 Apr 2021 06:09:00: #1 total tags in treatment: 4276569 INFO @ Sat, 03 Apr 2021 06:09:00: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:09:00: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 06:09:00: #1 tags after filtering in treatment: 4276478 INFO @ Sat, 03 Apr 2021 06:09:00: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:09:00: #1 finished! INFO @ Sat, 03 Apr 2021 06:09:00: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:09:00: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:09:01: #2 number of paired peaks: 2406 INFO @ Sat, 03 Apr 2021 06:09:01: start model_add_line... INFO @ Sat, 03 Apr 2021 06:09:01: start X-correlation... INFO @ Sat, 03 Apr 2021 06:09:01: end of X-cor INFO @ Sat, 03 Apr 2021 06:09:01: #2 finished! INFO @ Sat, 03 Apr 2021 06:09:01: #2 predicted fragment length is 65 bps INFO @ Sat, 03 Apr 2021 06:09:01: #2 alternative fragment length(s) may be 65 bps INFO @ Sat, 03 Apr 2021 06:09:01: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3032252/SRX3032252.20_model.r INFO @ Sat, 03 Apr 2021 06:09:01: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:09:01: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:09:11: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:09:15: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3032252/SRX3032252.20_peaks.xls INFO @ Sat, 03 Apr 2021 06:09:15: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3032252/SRX3032252.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:09:15: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3032252/SRX3032252.20_summits.bed INFO @ Sat, 03 Apr 2021 06:09:15: Done! pass1 - making usageList (22 chroms): 1 millis pass2 - checking and writing primary data (528 records, 4 fields): 2 millis CompletedMACS2peakCalling