Job ID = 14167584 SRX = SRX4712948 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: 00:06:51 29045287 reads; of these: 29045287 (100.00%) were unpaired; of these: 2885874 (9.94%) aligned 0 times 20779620 (71.54%) aligned exactly 1 time 5379793 (18.52%) aligned >1 times 90.06% overall alignment rate Time searching: 00:06:51 Overall time: 00:06:51 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 12 files... [bam_rmdupse_core] 18528403 / 26159413 = 0.7083 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 12:53:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4712948/SRX4712948.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4712948/SRX4712948.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4712948/SRX4712948.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4712948/SRX4712948.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 12:53:06: #1 read tag files... INFO @ Fri, 10 Dec 2021 12:53:06: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 12:53:12: 1000000 INFO @ Fri, 10 Dec 2021 12:53:18: 2000000 INFO @ Fri, 10 Dec 2021 12:53:24: 3000000 INFO @ Fri, 10 Dec 2021 12:53:29: 4000000 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 12:53:35: 5000000 INFO @ Fri, 10 Dec 2021 12:53:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4712948/SRX4712948.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4712948/SRX4712948.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4712948/SRX4712948.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4712948/SRX4712948.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 12:53:36: #1 read tag files... INFO @ Fri, 10 Dec 2021 12:53:36: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 12:53:41: 1000000 INFO @ Fri, 10 Dec 2021 12:53:42: 6000000 INFO @ Fri, 10 Dec 2021 12:53:47: 2000000 INFO @ Fri, 10 Dec 2021 12:53:48: 7000000 INFO @ Fri, 10 Dec 2021 12:53:52: #1 tag size is determined as 51 bps INFO @ Fri, 10 Dec 2021 12:53:52: #1 tag size = 51 INFO @ Fri, 10 Dec 2021 12:53:52: #1 total tags in treatment: 7631010 INFO @ Fri, 10 Dec 2021 12:53:52: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 12:53:52: #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 12:53:52: 3000000 INFO @ Fri, 10 Dec 2021 12:53:52: #1 tags after filtering in treatment: 7630987 INFO @ Fri, 10 Dec 2021 12:53:52: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 12:53:52: #1 finished! INFO @ Fri, 10 Dec 2021 12:53:52: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 12:53:52: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 12:53:53: #2 number of paired peaks: 2278 INFO @ Fri, 10 Dec 2021 12:53:53: start model_add_line... INFO @ Fri, 10 Dec 2021 12:53:53: start X-correlation... INFO @ Fri, 10 Dec 2021 12:53:53: end of X-cor INFO @ Fri, 10 Dec 2021 12:53:53: #2 finished! INFO @ Fri, 10 Dec 2021 12:53:53: #2 predicted fragment length is 145 bps INFO @ Fri, 10 Dec 2021 12:53:53: #2 alternative fragment length(s) may be 145 bps INFO @ Fri, 10 Dec 2021 12:53:53: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX4712948/SRX4712948.05_model.r INFO @ Fri, 10 Dec 2021 12:53:53: #3 Call peaks... INFO @ Fri, 10 Dec 2021 12:53:53: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 12:53:57: 4000000 INFO @ Fri, 10 Dec 2021 12:54:02: 5000000 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 12:54:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4712948/SRX4712948.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4712948/SRX4712948.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4712948/SRX4712948.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4712948/SRX4712948.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 12:54:06: #1 read tag files... INFO @ Fri, 10 Dec 2021 12:54:06: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 12:54:08: 6000000 INFO @ Fri, 10 Dec 2021 12:54:11: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 12:54:12: 1000000 INFO @ Fri, 10 Dec 2021 12:54:14: 7000000 INFO @ Fri, 10 Dec 2021 12:54:17: #1 tag size is determined as 51 bps INFO @ Fri, 10 Dec 2021 12:54:17: #1 tag size = 51 INFO @ Fri, 10 Dec 2021 12:54:17: #1 total tags in treatment: 7631010 INFO @ Fri, 10 Dec 2021 12:54:17: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 12:54:17: #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 12:54:18: #1 tags after filtering in treatment: 7630987 INFO @ Fri, 10 Dec 2021 12:54:18: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 12:54:18: #1 finished! INFO @ Fri, 10 Dec 2021 12:54:18: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 12:54:18: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 12:54:18: 2000000 INFO @ Fri, 10 Dec 2021 12:54:18: #2 number of paired peaks: 2278 INFO @ Fri, 10 Dec 2021 12:54:18: start model_add_line... INFO @ Fri, 10 Dec 2021 12:54:18: start X-correlation... INFO @ Fri, 10 Dec 2021 12:54:18: end of X-cor INFO @ Fri, 10 Dec 2021 12:54:18: #2 finished! INFO @ Fri, 10 Dec 2021 12:54:18: #2 predicted fragment length is 145 bps INFO @ Fri, 10 Dec 2021 12:54:18: #2 alternative fragment length(s) may be 145 bps INFO @ Fri, 10 Dec 2021 12:54:18: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX4712948/SRX4712948.10_model.r INFO @ Fri, 10 Dec 2021 12:54:18: #3 Call peaks... INFO @ Fri, 10 Dec 2021 12:54:18: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 12:54:20: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX4712948/SRX4712948.05_peaks.xls INFO @ Fri, 10 Dec 2021 12:54:20: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX4712948/SRX4712948.05_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 12:54:20: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX4712948/SRX4712948.05_summits.bed INFO @ Fri, 10 Dec 2021 12:54:20: Done! pass1 - making usageList (699 chroms): 2 millis pass2 - checking and writing primary data (6265 records, 4 fields): 24 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 12:54:23: 3000000 INFO @ Fri, 10 Dec 2021 12:54:29: 4000000 INFO @ Fri, 10 Dec 2021 12:54:35: 5000000 INFO @ Fri, 10 Dec 2021 12:54:36: #3 Call peaks for each chromosome... BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 10 Dec 2021 12:54:41: 6000000 INFO @ Fri, 10 Dec 2021 12:54:44: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX4712948/SRX4712948.10_peaks.xls INFO @ Fri, 10 Dec 2021 12:54:44: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX4712948/SRX4712948.10_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 12:54:44: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX4712948/SRX4712948.10_summits.bed INFO @ Fri, 10 Dec 2021 12:54:44: Done! pass1 - making usageList (619 chroms): 2 millis pass2 - checking and writing primary data (4588 records, 4 fields): 36 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 12:54:47: 7000000 INFO @ Fri, 10 Dec 2021 12:54:51: #1 tag size is determined as 51 bps INFO @ Fri, 10 Dec 2021 12:54:51: #1 tag size = 51 INFO @ Fri, 10 Dec 2021 12:54:51: #1 total tags in treatment: 7631010 INFO @ Fri, 10 Dec 2021 12:54:51: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 12:54:51: #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 12:54:51: #1 tags after filtering in treatment: 7630987 INFO @ Fri, 10 Dec 2021 12:54:51: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 12:54:51: #1 finished! INFO @ Fri, 10 Dec 2021 12:54:51: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 12:54:51: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 12:54:52: #2 number of paired peaks: 2278 INFO @ Fri, 10 Dec 2021 12:54:52: start model_add_line... INFO @ Fri, 10 Dec 2021 12:54:52: start X-correlation... INFO @ Fri, 10 Dec 2021 12:54:52: end of X-cor INFO @ Fri, 10 Dec 2021 12:54:52: #2 finished! INFO @ Fri, 10 Dec 2021 12:54:52: #2 predicted fragment length is 145 bps INFO @ Fri, 10 Dec 2021 12:54:52: #2 alternative fragment length(s) may be 145 bps INFO @ Fri, 10 Dec 2021 12:54:52: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX4712948/SRX4712948.20_model.r INFO @ Fri, 10 Dec 2021 12:54:52: #3 Call peaks... INFO @ Fri, 10 Dec 2021 12:54:52: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Fri, 10 Dec 2021 12:55:09: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 12:55:18: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX4712948/SRX4712948.20_peaks.xls INFO @ Fri, 10 Dec 2021 12:55:18: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX4712948/SRX4712948.20_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 12:55:18: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX4712948/SRX4712948.20_summits.bed INFO @ Fri, 10 Dec 2021 12:55:18: Done! pass1 - making usageList (529 chroms): 1 millis pass2 - checking and writing primary data (3075 records, 4 fields): 17 millis CompletedMACS2peakCalling