Job ID = 14167615 SRX = SRX4712953 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: 00:08:48 33027501 reads; of these: 33027501 (100.00%) were unpaired; of these: 2111942 (6.39%) aligned 0 times 23488867 (71.12%) aligned exactly 1 time 7426692 (22.49%) aligned >1 times 93.61% overall alignment rate Time searching: 00:08:48 Overall time: 00:08:48 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 16 files... [bam_rmdupse_core] 23647995 / 30915559 = 0.7649 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 13:05:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4712953/SRX4712953.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4712953/SRX4712953.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4712953/SRX4712953.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4712953/SRX4712953.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 13:05:26: #1 read tag files... INFO @ Fri, 10 Dec 2021 13:05:26: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 13:05:31: 1000000 INFO @ Fri, 10 Dec 2021 13:05:37: 2000000 INFO @ Fri, 10 Dec 2021 13:05:42: 3000000 INFO @ Fri, 10 Dec 2021 13:05:48: 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 13:05:54: 5000000 INFO @ Fri, 10 Dec 2021 13:05:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4712953/SRX4712953.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4712953/SRX4712953.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4712953/SRX4712953.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4712953/SRX4712953.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 13:05:55: #1 read tag files... INFO @ Fri, 10 Dec 2021 13:05:55: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 13:06:00: 6000000 INFO @ Fri, 10 Dec 2021 13:06:02: 1000000 INFO @ Fri, 10 Dec 2021 13:06:07: 7000000 INFO @ Fri, 10 Dec 2021 13:06:09: 2000000 INFO @ Fri, 10 Dec 2021 13:06:09: #1 tag size is determined as 51 bps INFO @ Fri, 10 Dec 2021 13:06:09: #1 tag size = 51 INFO @ Fri, 10 Dec 2021 13:06:09: #1 total tags in treatment: 7267564 INFO @ Fri, 10 Dec 2021 13:06:09: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 13:06:09: #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 13:06:09: #1 tags after filtering in treatment: 7267556 INFO @ Fri, 10 Dec 2021 13:06:09: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 13:06:09: #1 finished! INFO @ Fri, 10 Dec 2021 13:06:09: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 13:06:09: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 13:06:10: #2 number of paired peaks: 2042 INFO @ Fri, 10 Dec 2021 13:06:10: start model_add_line... INFO @ Fri, 10 Dec 2021 13:06:10: start X-correlation... INFO @ Fri, 10 Dec 2021 13:06:10: end of X-cor INFO @ Fri, 10 Dec 2021 13:06:10: #2 finished! INFO @ Fri, 10 Dec 2021 13:06:10: #2 predicted fragment length is 108 bps INFO @ Fri, 10 Dec 2021 13:06:10: #2 alternative fragment length(s) may be 108 bps INFO @ Fri, 10 Dec 2021 13:06:10: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX4712953/SRX4712953.05_model.r INFO @ Fri, 10 Dec 2021 13:06:10: #3 Call peaks... INFO @ Fri, 10 Dec 2021 13:06:10: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 13:06:15: 3000000 INFO @ Fri, 10 Dec 2021 13:06:20: 4000000 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 13:06:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4712953/SRX4712953.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4712953/SRX4712953.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4712953/SRX4712953.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4712953/SRX4712953.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 13:06:25: #1 read tag files... INFO @ Fri, 10 Dec 2021 13:06:25: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 13:06:26: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 13:06:26: 5000000 INFO @ Fri, 10 Dec 2021 13:06:33: 1000000 INFO @ Fri, 10 Dec 2021 13:06:34: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX4712953/SRX4712953.05_peaks.xls INFO @ Fri, 10 Dec 2021 13:06:34: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX4712953/SRX4712953.05_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 13:06:34: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX4712953/SRX4712953.05_summits.bed INFO @ Fri, 10 Dec 2021 13:06:34: Done! INFO @ Fri, 10 Dec 2021 13:06:34: 6000000 pass1 - making usageList (811 chroms): 2 millis pass2 - checking and writing primary data (5401 records, 4 fields): 25 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 13:06:41: 2000000 INFO @ Fri, 10 Dec 2021 13:06:42: 7000000 INFO @ Fri, 10 Dec 2021 13:06:44: #1 tag size is determined as 51 bps INFO @ Fri, 10 Dec 2021 13:06:44: #1 tag size = 51 INFO @ Fri, 10 Dec 2021 13:06:44: #1 total tags in treatment: 7267564 INFO @ Fri, 10 Dec 2021 13:06:44: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 13:06:44: #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 13:06:44: #1 tags after filtering in treatment: 7267556 INFO @ Fri, 10 Dec 2021 13:06:44: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 13:06:44: #1 finished! INFO @ Fri, 10 Dec 2021 13:06:44: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 13:06:44: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 13:06:45: #2 number of paired peaks: 2042 INFO @ Fri, 10 Dec 2021 13:06:45: start model_add_line... INFO @ Fri, 10 Dec 2021 13:06:45: start X-correlation... INFO @ Fri, 10 Dec 2021 13:06:45: end of X-cor INFO @ Fri, 10 Dec 2021 13:06:45: #2 finished! INFO @ Fri, 10 Dec 2021 13:06:45: #2 predicted fragment length is 108 bps INFO @ Fri, 10 Dec 2021 13:06:45: #2 alternative fragment length(s) may be 108 bps INFO @ Fri, 10 Dec 2021 13:06:45: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX4712953/SRX4712953.10_model.r INFO @ Fri, 10 Dec 2021 13:06:45: #3 Call peaks... INFO @ Fri, 10 Dec 2021 13:06:45: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 13:06:49: 3000000 INFO @ Fri, 10 Dec 2021 13:06:56: 4000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 10 Dec 2021 13:07:01: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 13:07:03: 5000000 INFO @ Fri, 10 Dec 2021 13:07:09: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX4712953/SRX4712953.10_peaks.xls INFO @ Fri, 10 Dec 2021 13:07:09: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX4712953/SRX4712953.10_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 13:07:09: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX4712953/SRX4712953.10_summits.bed INFO @ Fri, 10 Dec 2021 13:07:09: Done! pass1 - making usageList (640 chroms): 2 millis pass2 - checking and writing primary data (3614 records, 4 fields): 19 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 13:07:10: 6000000 BigWig に変換しました。 INFO @ Fri, 10 Dec 2021 13:07:17: 7000000 INFO @ Fri, 10 Dec 2021 13:07:19: #1 tag size is determined as 51 bps INFO @ Fri, 10 Dec 2021 13:07:19: #1 tag size = 51 INFO @ Fri, 10 Dec 2021 13:07:19: #1 total tags in treatment: 7267564 INFO @ Fri, 10 Dec 2021 13:07:19: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 13:07:19: #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 13:07:19: #1 tags after filtering in treatment: 7267556 INFO @ Fri, 10 Dec 2021 13:07:19: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 13:07:19: #1 finished! INFO @ Fri, 10 Dec 2021 13:07:19: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 13:07:19: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 13:07:20: #2 number of paired peaks: 2042 INFO @ Fri, 10 Dec 2021 13:07:20: start model_add_line... INFO @ Fri, 10 Dec 2021 13:07:20: start X-correlation... INFO @ Fri, 10 Dec 2021 13:07:20: end of X-cor INFO @ Fri, 10 Dec 2021 13:07:20: #2 finished! INFO @ Fri, 10 Dec 2021 13:07:20: #2 predicted fragment length is 108 bps INFO @ Fri, 10 Dec 2021 13:07:20: #2 alternative fragment length(s) may be 108 bps INFO @ Fri, 10 Dec 2021 13:07:20: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX4712953/SRX4712953.20_model.r INFO @ Fri, 10 Dec 2021 13:07:20: #3 Call peaks... INFO @ Fri, 10 Dec 2021 13:07:20: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 13:07:36: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 13:07:44: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX4712953/SRX4712953.20_peaks.xls INFO @ Fri, 10 Dec 2021 13:07:44: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX4712953/SRX4712953.20_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 13:07:44: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX4712953/SRX4712953.20_summits.bed INFO @ Fri, 10 Dec 2021 13:07:44: Done! pass1 - making usageList (540 chroms): 1 millis pass2 - checking and writing primary data (2413 records, 4 fields): 16 millis CompletedMACS2peakCalling