Job ID = 14172442 SRX = SRX9427713 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: 00:06:00 15723790 reads; of these: 15723790 (100.00%) were unpaired; of these: 581608 (3.70%) aligned 0 times 3938160 (25.05%) aligned exactly 1 time 11204022 (71.26%) aligned >1 times 96.30% overall alignment rate Time searching: 00:06:00 Overall time: 00:06:00 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_sort_core] merging from 8 files... [bam_rmdupse_core] 5517955 / 15142182 = 0.3644 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 @ Sat, 11 Dec 2021 15:34:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX9427713/SRX9427713.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX9427713/SRX9427713.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX9427713/SRX9427713.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX9427713/SRX9427713.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, 11 Dec 2021 15:34:51: #1 read tag files... INFO @ Sat, 11 Dec 2021 15:34:51: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 15:34:56: 1000000 INFO @ Sat, 11 Dec 2021 15:35:02: 2000000 INFO @ Sat, 11 Dec 2021 15:35:07: 3000000 INFO @ Sat, 11 Dec 2021 15:35:13: 4000000 INFO @ Sat, 11 Dec 2021 15:35:18: 5000000 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 @ Sat, 11 Dec 2021 15:35:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX9427713/SRX9427713.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX9427713/SRX9427713.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX9427713/SRX9427713.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX9427713/SRX9427713.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, 11 Dec 2021 15:35:20: #1 read tag files... INFO @ Sat, 11 Dec 2021 15:35:20: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 15:35:24: 6000000 INFO @ Sat, 11 Dec 2021 15:35:27: 1000000 INFO @ Sat, 11 Dec 2021 15:35:31: 7000000 INFO @ Sat, 11 Dec 2021 15:35:34: 2000000 INFO @ Sat, 11 Dec 2021 15:35:38: 8000000 INFO @ Sat, 11 Dec 2021 15:35:40: 3000000 INFO @ Sat, 11 Dec 2021 15:35:45: 9000000 INFO @ Sat, 11 Dec 2021 15:35:47: 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 @ Sat, 11 Dec 2021 15:35:49: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 15:35:49: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 15:35:49: #1 total tags in treatment: 9624227 INFO @ Sat, 11 Dec 2021 15:35:49: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 15:35:49: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 15:35:49: #1 tags after filtering in treatment: 9624218 INFO @ Sat, 11 Dec 2021 15:35:49: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 15:35:49: #1 finished! INFO @ Sat, 11 Dec 2021 15:35:49: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 15:35:49: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 15:35:50: #2 number of paired peaks: 6963 INFO @ Sat, 11 Dec 2021 15:35:50: start model_add_line... INFO @ Sat, 11 Dec 2021 15:35:50: start X-correlation... INFO @ Sat, 11 Dec 2021 15:35:50: end of X-cor INFO @ Sat, 11 Dec 2021 15:35:50: #2 finished! INFO @ Sat, 11 Dec 2021 15:35:50: #2 predicted fragment length is 143 bps INFO @ Sat, 11 Dec 2021 15:35:50: #2 alternative fragment length(s) may be 3,143 bps INFO @ Sat, 11 Dec 2021 15:35:50: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX9427713/SRX9427713.05_model.r INFO @ Sat, 11 Dec 2021 15:35:50: #3 Call peaks... INFO @ Sat, 11 Dec 2021 15:35:50: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 15:35:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX9427713/SRX9427713.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX9427713/SRX9427713.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX9427713/SRX9427713.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX9427713/SRX9427713.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, 11 Dec 2021 15:35:50: #1 read tag files... INFO @ Sat, 11 Dec 2021 15:35:50: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 15:35:54: 5000000 INFO @ Sat, 11 Dec 2021 15:35:58: 1000000 INFO @ Sat, 11 Dec 2021 15:36:01: 6000000 INFO @ Sat, 11 Dec 2021 15:36:05: 2000000 INFO @ Sat, 11 Dec 2021 15:36:08: 7000000 INFO @ Sat, 11 Dec 2021 15:36:13: 3000000 INFO @ Sat, 11 Dec 2021 15:36:15: 8000000 INFO @ Sat, 11 Dec 2021 15:36:17: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 15:36:21: 4000000 INFO @ Sat, 11 Dec 2021 15:36:22: 9000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 15:36:27: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 15:36:27: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 15:36:27: #1 total tags in treatment: 9624227 INFO @ Sat, 11 Dec 2021 15:36:27: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 15:36:27: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 15:36:27: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX9427713/SRX9427713.05_peaks.xls INFO @ Sat, 11 Dec 2021 15:36:27: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX9427713/SRX9427713.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 15:36:27: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX9427713/SRX9427713.05_summits.bed INFO @ Sat, 11 Dec 2021 15:36:27: Done! INFO @ Sat, 11 Dec 2021 15:36:27: #1 tags after filtering in treatment: 9624218 INFO @ Sat, 11 Dec 2021 15:36:27: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 15:36:27: #1 finished! INFO @ Sat, 11 Dec 2021 15:36:27: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 15:36:27: #2 looking for paired plus/minus strand peaks... pass1 - making usageList (1270 chroms): 2 millis pass2 - checking and writing primary data (6347 records, 4 fields): 35 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 15:36:28: 5000000 INFO @ Sat, 11 Dec 2021 15:36:28: #2 number of paired peaks: 6963 INFO @ Sat, 11 Dec 2021 15:36:28: start model_add_line... INFO @ Sat, 11 Dec 2021 15:36:29: start X-correlation... INFO @ Sat, 11 Dec 2021 15:36:29: end of X-cor INFO @ Sat, 11 Dec 2021 15:36:29: #2 finished! INFO @ Sat, 11 Dec 2021 15:36:29: #2 predicted fragment length is 143 bps INFO @ Sat, 11 Dec 2021 15:36:29: #2 alternative fragment length(s) may be 3,143 bps INFO @ Sat, 11 Dec 2021 15:36:29: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX9427713/SRX9427713.10_model.r INFO @ Sat, 11 Dec 2021 15:36:29: #3 Call peaks... INFO @ Sat, 11 Dec 2021 15:36:29: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 15:36:35: 6000000 INFO @ Sat, 11 Dec 2021 15:36:42: 7000000 BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 15:36:49: 8000000 INFO @ Sat, 11 Dec 2021 15:36:54: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 15:36:55: 9000000 INFO @ Sat, 11 Dec 2021 15:36:59: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 15:36:59: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 15:36:59: #1 total tags in treatment: 9624227 INFO @ Sat, 11 Dec 2021 15:36:59: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 15:36:59: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 15:37:00: #1 tags after filtering in treatment: 9624218 INFO @ Sat, 11 Dec 2021 15:37:00: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 15:37:00: #1 finished! INFO @ Sat, 11 Dec 2021 15:37:00: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 15:37:00: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 15:37:01: #2 number of paired peaks: 6963 INFO @ Sat, 11 Dec 2021 15:37:01: start model_add_line... INFO @ Sat, 11 Dec 2021 15:37:01: start X-correlation... INFO @ Sat, 11 Dec 2021 15:37:01: end of X-cor INFO @ Sat, 11 Dec 2021 15:37:01: #2 finished! INFO @ Sat, 11 Dec 2021 15:37:01: #2 predicted fragment length is 143 bps INFO @ Sat, 11 Dec 2021 15:37:01: #2 alternative fragment length(s) may be 3,143 bps INFO @ Sat, 11 Dec 2021 15:37:01: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX9427713/SRX9427713.20_model.r INFO @ Sat, 11 Dec 2021 15:37:01: #3 Call peaks... INFO @ Sat, 11 Dec 2021 15:37:01: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 15:37:04: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX9427713/SRX9427713.10_peaks.xls INFO @ Sat, 11 Dec 2021 15:37:04: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX9427713/SRX9427713.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 15:37:04: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX9427713/SRX9427713.10_summits.bed INFO @ Sat, 11 Dec 2021 15:37:04: Done! pass1 - making usageList (1124 chroms): 2 millis pass2 - checking and writing primary data (3921 records, 4 fields): 31 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 15:37:26: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 15:37:36: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX9427713/SRX9427713.20_peaks.xls INFO @ Sat, 11 Dec 2021 15:37:36: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX9427713/SRX9427713.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 15:37:36: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX9427713/SRX9427713.20_summits.bed INFO @ Sat, 11 Dec 2021 15:37:36: Done! pass1 - making usageList (856 chroms): 1 millis pass2 - checking and writing primary data (1936 records, 4 fields): 22 millis CompletedMACS2peakCalling