Job ID = 6626716 SRX = SRX7262531 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: 00:05:06 27312602 reads; of these: 27312602 (100.00%) were unpaired; of these: 19822586 (72.58%) aligned 0 times 6218968 (22.77%) aligned exactly 1 time 1271048 (4.65%) aligned >1 times 27.42% overall alignment rate Time searching: 00:05:06 Overall time: 00:05:06 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] 1420309 / 7490016 = 0.1896 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/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 14 Jul 2020 08:34:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7262531/SRX7262531.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7262531/SRX7262531.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7262531/SRX7262531.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7262531/SRX7262531.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, 14 Jul 2020 08:34:47: #1 read tag files... INFO @ Tue, 14 Jul 2020 08:34:47: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 08:34:53: 1000000 INFO @ Tue, 14 Jul 2020 08:34:58: 2000000 INFO @ Tue, 14 Jul 2020 08:35:04: 3000000 INFO @ Tue, 14 Jul 2020 08:35:09: 4000000 INFO @ Tue, 14 Jul 2020 08:35:15: 5000000 WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 14 Jul 2020 08:35:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7262531/SRX7262531.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7262531/SRX7262531.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7262531/SRX7262531.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7262531/SRX7262531.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, 14 Jul 2020 08:35:17: #1 read tag files... INFO @ Tue, 14 Jul 2020 08:35:17: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 08:35:22: 6000000 INFO @ Tue, 14 Jul 2020 08:35:22: #1 tag size is determined as 75 bps INFO @ Tue, 14 Jul 2020 08:35:22: #1 tag size = 75 INFO @ Tue, 14 Jul 2020 08:35:22: #1 total tags in treatment: 6069707 INFO @ Tue, 14 Jul 2020 08:35:22: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 08:35:22: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 14 Jul 2020 08:35:22: #1 tags after filtering in treatment: 6069041 INFO @ Tue, 14 Jul 2020 08:35:22: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 08:35:22: #1 finished! INFO @ Tue, 14 Jul 2020 08:35:22: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 08:35:22: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 08:35:23: #2 number of paired peaks: 9736 INFO @ Tue, 14 Jul 2020 08:35:23: start model_add_line... INFO @ Tue, 14 Jul 2020 08:35:23: start X-correlation... INFO @ Tue, 14 Jul 2020 08:35:23: end of X-cor INFO @ Tue, 14 Jul 2020 08:35:23: #2 finished! INFO @ Tue, 14 Jul 2020 08:35:23: #2 predicted fragment length is 204 bps INFO @ Tue, 14 Jul 2020 08:35:23: #2 alternative fragment length(s) may be 204 bps INFO @ Tue, 14 Jul 2020 08:35:23: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7262531/SRX7262531.05_model.r INFO @ Tue, 14 Jul 2020 08:35:23: #3 Call peaks... INFO @ Tue, 14 Jul 2020 08:35:23: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 08:35:24: 1000000 INFO @ Tue, 14 Jul 2020 08:35:31: 2000000 INFO @ Tue, 14 Jul 2020 08:35:38: 3000000 INFO @ Tue, 14 Jul 2020 08:35:43: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 08:35:45: 4000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 14 Jul 2020 08:35:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7262531/SRX7262531.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7262531/SRX7262531.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7262531/SRX7262531.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7262531/SRX7262531.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, 14 Jul 2020 08:35:47: #1 read tag files... INFO @ Tue, 14 Jul 2020 08:35:47: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 08:35:52: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7262531/SRX7262531.05_peaks.xls INFO @ Tue, 14 Jul 2020 08:35:52: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7262531/SRX7262531.05_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 08:35:52: 5000000 INFO @ Tue, 14 Jul 2020 08:35:52: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7262531/SRX7262531.05_summits.bed INFO @ Tue, 14 Jul 2020 08:35:52: Done! pass1 - making usageList (130 chroms): 2 millis pass2 - checking and writing primary data (6228 records, 4 fields): 10 millis CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 08:35:53: 1000000 INFO @ Tue, 14 Jul 2020 08:35:59: 6000000 INFO @ Tue, 14 Jul 2020 08:36:00: #1 tag size is determined as 75 bps INFO @ Tue, 14 Jul 2020 08:36:00: #1 tag size = 75 INFO @ Tue, 14 Jul 2020 08:36:00: #1 total tags in treatment: 6069707 INFO @ Tue, 14 Jul 2020 08:36:00: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 08:36:00: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 14 Jul 2020 08:36:00: #1 tags after filtering in treatment: 6069041 INFO @ Tue, 14 Jul 2020 08:36:00: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 08:36:00: #1 finished! INFO @ Tue, 14 Jul 2020 08:36:00: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 08:36:00: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 08:36:00: 2000000 INFO @ Tue, 14 Jul 2020 08:36:01: #2 number of paired peaks: 9736 INFO @ Tue, 14 Jul 2020 08:36:01: start model_add_line... INFO @ Tue, 14 Jul 2020 08:36:01: start X-correlation... INFO @ Tue, 14 Jul 2020 08:36:01: end of X-cor INFO @ Tue, 14 Jul 2020 08:36:01: #2 finished! INFO @ Tue, 14 Jul 2020 08:36:01: #2 predicted fragment length is 204 bps INFO @ Tue, 14 Jul 2020 08:36:01: #2 alternative fragment length(s) may be 204 bps INFO @ Tue, 14 Jul 2020 08:36:01: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7262531/SRX7262531.10_model.r INFO @ Tue, 14 Jul 2020 08:36:01: #3 Call peaks... INFO @ Tue, 14 Jul 2020 08:36:01: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 08:36:06: 3000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 14 Jul 2020 08:36:13: 4000000 INFO @ Tue, 14 Jul 2020 08:36:19: 5000000 INFO @ Tue, 14 Jul 2020 08:36:22: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Tue, 14 Jul 2020 08:36:25: 6000000 INFO @ Tue, 14 Jul 2020 08:36:25: #1 tag size is determined as 75 bps INFO @ Tue, 14 Jul 2020 08:36:25: #1 tag size = 75 INFO @ Tue, 14 Jul 2020 08:36:25: #1 total tags in treatment: 6069707 INFO @ Tue, 14 Jul 2020 08:36:25: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 08:36:25: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 14 Jul 2020 08:36:25: #1 tags after filtering in treatment: 6069041 INFO @ Tue, 14 Jul 2020 08:36:25: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 08:36:25: #1 finished! INFO @ Tue, 14 Jul 2020 08:36:25: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 08:36:25: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 08:36:26: #2 number of paired peaks: 9736 INFO @ Tue, 14 Jul 2020 08:36:26: start model_add_line... INFO @ Tue, 14 Jul 2020 08:36:26: start X-correlation... INFO @ Tue, 14 Jul 2020 08:36:26: end of X-cor INFO @ Tue, 14 Jul 2020 08:36:26: #2 finished! INFO @ Tue, 14 Jul 2020 08:36:26: #2 predicted fragment length is 204 bps INFO @ Tue, 14 Jul 2020 08:36:26: #2 alternative fragment length(s) may be 204 bps INFO @ Tue, 14 Jul 2020 08:36:26: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7262531/SRX7262531.20_model.r INFO @ Tue, 14 Jul 2020 08:36:26: #3 Call peaks... INFO @ Tue, 14 Jul 2020 08:36:26: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 08:36:30: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7262531/SRX7262531.10_peaks.xls INFO @ Tue, 14 Jul 2020 08:36:30: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7262531/SRX7262531.10_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 08:36:30: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7262531/SRX7262531.10_summits.bed INFO @ Tue, 14 Jul 2020 08:36:30: Done! pass1 - making usageList (116 chroms): 1 millis pass2 - checking and writing primary data (4725 records, 4 fields): 9 millis CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 08:36:47: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 08:36:55: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7262531/SRX7262531.20_peaks.xls INFO @ Tue, 14 Jul 2020 08:36:55: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7262531/SRX7262531.20_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 08:36:55: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7262531/SRX7262531.20_summits.bed INFO @ Tue, 14 Jul 2020 08:36:55: Done! pass1 - making usageList (96 chroms): 2 millis pass2 - checking and writing primary data (3369 records, 4 fields): 7 millis CompletedMACS2peakCalling