Job ID = 14171494 SRX = SRX10000670 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: 00:05:25 37665328 reads; of these: 37665328 (100.00%) were unpaired; of these: 26737445 (70.99%) aligned 0 times 8794862 (23.35%) aligned exactly 1 time 2133021 (5.66%) aligned >1 times 29.01% overall alignment rate Time searching: 00:05:25 Overall time: 00:05:25 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] 2235845 / 10927883 = 0.2046 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 11:56:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX10000670/SRX10000670.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX10000670/SRX10000670.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX10000670/SRX10000670.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX10000670/SRX10000670.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 11:56:38: #1 read tag files... INFO @ Sat, 11 Dec 2021 11:56:38: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 11:56:43: 1000000 INFO @ Sat, 11 Dec 2021 11:56:47: 2000000 INFO @ Sat, 11 Dec 2021 11:56:52: 3000000 INFO @ Sat, 11 Dec 2021 11:56:56: 4000000 INFO @ Sat, 11 Dec 2021 11:57:01: 5000000 INFO @ Sat, 11 Dec 2021 11:57:05: 6000000 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 11:57:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX10000670/SRX10000670.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX10000670/SRX10000670.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX10000670/SRX10000670.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX10000670/SRX10000670.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 11:57:08: #1 read tag files... INFO @ Sat, 11 Dec 2021 11:57:08: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 11:57:10: 7000000 INFO @ Sat, 11 Dec 2021 11:57:13: 1000000 INFO @ Sat, 11 Dec 2021 11:57:15: 8000000 INFO @ Sat, 11 Dec 2021 11:57:18: #1 tag size is determined as 51 bps INFO @ Sat, 11 Dec 2021 11:57:18: #1 tag size = 51 INFO @ Sat, 11 Dec 2021 11:57:18: #1 total tags in treatment: 8692038 INFO @ Sat, 11 Dec 2021 11:57:18: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 11:57:18: #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 11:57:18: #1 tags after filtering in treatment: 8691852 INFO @ Sat, 11 Dec 2021 11:57:18: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 11:57:18: #1 finished! INFO @ Sat, 11 Dec 2021 11:57:18: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 11:57:18: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 11:57:19: 2000000 INFO @ Sat, 11 Dec 2021 11:57:19: #2 number of paired peaks: 2075 INFO @ Sat, 11 Dec 2021 11:57:19: start model_add_line... INFO @ Sat, 11 Dec 2021 11:57:19: start X-correlation... INFO @ Sat, 11 Dec 2021 11:57:19: end of X-cor INFO @ Sat, 11 Dec 2021 11:57:19: #2 finished! INFO @ Sat, 11 Dec 2021 11:57:19: #2 predicted fragment length is 181 bps INFO @ Sat, 11 Dec 2021 11:57:19: #2 alternative fragment length(s) may be 4,181 bps INFO @ Sat, 11 Dec 2021 11:57:19: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX10000670/SRX10000670.05_model.r INFO @ Sat, 11 Dec 2021 11:57:19: #3 Call peaks... INFO @ Sat, 11 Dec 2021 11:57:19: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 11:57:24: 3000000 INFO @ Sat, 11 Dec 2021 11:57:29: 4000000 INFO @ Sat, 11 Dec 2021 11:57:34: 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 @ Sat, 11 Dec 2021 11:57:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX10000670/SRX10000670.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX10000670/SRX10000670.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX10000670/SRX10000670.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX10000670/SRX10000670.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 11:57:38: #1 read tag files... INFO @ Sat, 11 Dec 2021 11:57:38: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 11:57:39: 6000000 INFO @ Sat, 11 Dec 2021 11:57:40: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 11:57:44: 1000000 INFO @ Sat, 11 Dec 2021 11:57:45: 7000000 INFO @ Sat, 11 Dec 2021 11:57:49: 2000000 INFO @ Sat, 11 Dec 2021 11:57:50: 8000000 INFO @ Sat, 11 Dec 2021 11:57:51: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX10000670/SRX10000670.05_peaks.xls INFO @ Sat, 11 Dec 2021 11:57:51: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX10000670/SRX10000670.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 11:57:51: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX10000670/SRX10000670.05_summits.bed INFO @ Sat, 11 Dec 2021 11:57:51: Done! pass1 - making usageList (194 chroms): 1 millis pass2 - checking and writing primary data (2172 records, 4 fields): 7 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 11:57:54: #1 tag size is determined as 51 bps INFO @ Sat, 11 Dec 2021 11:57:54: #1 tag size = 51 INFO @ Sat, 11 Dec 2021 11:57:54: #1 total tags in treatment: 8692038 INFO @ Sat, 11 Dec 2021 11:57:54: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 11:57:54: #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 11:57:54: 3000000 INFO @ Sat, 11 Dec 2021 11:57:55: #1 tags after filtering in treatment: 8691852 INFO @ Sat, 11 Dec 2021 11:57:55: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 11:57:55: #1 finished! INFO @ Sat, 11 Dec 2021 11:57:55: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 11:57:55: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 11:57:55: #2 number of paired peaks: 2075 INFO @ Sat, 11 Dec 2021 11:57:55: start model_add_line... INFO @ Sat, 11 Dec 2021 11:57:55: start X-correlation... INFO @ Sat, 11 Dec 2021 11:57:55: end of X-cor INFO @ Sat, 11 Dec 2021 11:57:55: #2 finished! INFO @ Sat, 11 Dec 2021 11:57:55: #2 predicted fragment length is 181 bps INFO @ Sat, 11 Dec 2021 11:57:55: #2 alternative fragment length(s) may be 4,181 bps INFO @ Sat, 11 Dec 2021 11:57:55: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX10000670/SRX10000670.10_model.r INFO @ Sat, 11 Dec 2021 11:57:55: #3 Call peaks... INFO @ Sat, 11 Dec 2021 11:57:55: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 11:58:00: 4000000 INFO @ Sat, 11 Dec 2021 11:58:05: 5000000 INFO @ Sat, 11 Dec 2021 11:58:10: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 11:58:15: 7000000 INFO @ Sat, 11 Dec 2021 11:58:16: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 11:58:21: 8000000 INFO @ Sat, 11 Dec 2021 11:58:24: #1 tag size is determined as 51 bps INFO @ Sat, 11 Dec 2021 11:58:24: #1 tag size = 51 INFO @ Sat, 11 Dec 2021 11:58:24: #1 total tags in treatment: 8692038 INFO @ Sat, 11 Dec 2021 11:58:24: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 11:58:24: #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 11:58:25: #1 tags after filtering in treatment: 8691852 INFO @ Sat, 11 Dec 2021 11:58:25: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 11:58:25: #1 finished! INFO @ Sat, 11 Dec 2021 11:58:25: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 11:58:25: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 11:58:25: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX10000670/SRX10000670.10_peaks.xls INFO @ Sat, 11 Dec 2021 11:58:25: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX10000670/SRX10000670.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 11:58:25: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX10000670/SRX10000670.10_summits.bed INFO @ Sat, 11 Dec 2021 11:58:25: Done! pass1 - making usageList (145 chroms): 1 millis pass2 - checking and writing primary data (880 records, 4 fields): 6 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 11:58:25: #2 number of paired peaks: 2075 INFO @ Sat, 11 Dec 2021 11:58:25: start model_add_line... INFO @ Sat, 11 Dec 2021 11:58:25: start X-correlation... INFO @ Sat, 11 Dec 2021 11:58:26: end of X-cor INFO @ Sat, 11 Dec 2021 11:58:26: #2 finished! INFO @ Sat, 11 Dec 2021 11:58:26: #2 predicted fragment length is 181 bps INFO @ Sat, 11 Dec 2021 11:58:26: #2 alternative fragment length(s) may be 4,181 bps INFO @ Sat, 11 Dec 2021 11:58:26: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX10000670/SRX10000670.20_model.r INFO @ Sat, 11 Dec 2021 11:58:26: #3 Call peaks... INFO @ Sat, 11 Dec 2021 11:58:26: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 11:58:46: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 11:58:55: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX10000670/SRX10000670.20_peaks.xls INFO @ Sat, 11 Dec 2021 11:58:55: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX10000670/SRX10000670.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 11:58:55: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX10000670/SRX10000670.20_summits.bed INFO @ Sat, 11 Dec 2021 11:58:55: Done! pass1 - making usageList (96 chroms): 1 millis pass2 - checking and writing primary data (315 records, 4 fields): 4 millis CompletedMACS2peakCalling