Job ID = 14172794 SRX = SRX7434113 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: 00:02:49 11465006 reads; of these: 11465006 (100.00%) were unpaired; of these: 1218944 (10.63%) aligned 0 times 8157937 (71.16%) aligned exactly 1 time 2088125 (18.21%) aligned >1 times 89.37% overall alignment rate Time searching: 00:02:49 Overall time: 00:02:49 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] 4710175 / 10246062 = 0.4597 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 17:00:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7434113/SRX7434113.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7434113/SRX7434113.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7434113/SRX7434113.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7434113/SRX7434113.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 17:00:51: #1 read tag files... INFO @ Sat, 11 Dec 2021 17:00:51: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 17:00:58: 1000000 INFO @ Sat, 11 Dec 2021 17:01:03: 2000000 INFO @ Sat, 11 Dec 2021 17:01:10: 3000000 INFO @ Sat, 11 Dec 2021 17:01:16: 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 @ Sat, 11 Dec 2021 17:01:21: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7434113/SRX7434113.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7434113/SRX7434113.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7434113/SRX7434113.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7434113/SRX7434113.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 17:01:21: #1 read tag files... INFO @ Sat, 11 Dec 2021 17:01:21: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 17:01:23: 5000000 INFO @ Sat, 11 Dec 2021 17:01:27: #1 tag size is determined as 51 bps INFO @ Sat, 11 Dec 2021 17:01:27: #1 tag size = 51 INFO @ Sat, 11 Dec 2021 17:01:27: #1 total tags in treatment: 5535887 INFO @ Sat, 11 Dec 2021 17:01:27: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 17:01:27: #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 17:01:27: #1 tags after filtering in treatment: 5535759 INFO @ Sat, 11 Dec 2021 17:01:27: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 17:01:27: #1 finished! INFO @ Sat, 11 Dec 2021 17:01:27: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 17:01:27: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 17:01:28: #2 number of paired peaks: 3851 INFO @ Sat, 11 Dec 2021 17:01:28: start model_add_line... INFO @ Sat, 11 Dec 2021 17:01:28: start X-correlation... INFO @ Sat, 11 Dec 2021 17:01:28: end of X-cor INFO @ Sat, 11 Dec 2021 17:01:28: #2 finished! INFO @ Sat, 11 Dec 2021 17:01:28: #2 predicted fragment length is 228 bps INFO @ Sat, 11 Dec 2021 17:01:28: #2 alternative fragment length(s) may be 228 bps INFO @ Sat, 11 Dec 2021 17:01:28: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7434113/SRX7434113.05_model.r INFO @ Sat, 11 Dec 2021 17:01:28: #3 Call peaks... INFO @ Sat, 11 Dec 2021 17:01:28: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 17:01:29: 1000000 INFO @ Sat, 11 Dec 2021 17:01:37: 2000000 INFO @ Sat, 11 Dec 2021 17:01:42: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 17:01:44: 3000000 INFO @ Sat, 11 Dec 2021 17:01:49: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7434113/SRX7434113.05_peaks.xls INFO @ Sat, 11 Dec 2021 17:01:49: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7434113/SRX7434113.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 17:01:49: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7434113/SRX7434113.05_summits.bed INFO @ Sat, 11 Dec 2021 17:01:49: Done! pass1 - making usageList (582 chroms): 2 millis pass2 - checking and writing primary data (5173 records, 4 fields): 19 millis CompletedMACS2peakCalling 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 17:01:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7434113/SRX7434113.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7434113/SRX7434113.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7434113/SRX7434113.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7434113/SRX7434113.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 17:01:51: #1 read tag files... INFO @ Sat, 11 Dec 2021 17:01:51: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 17:01:51: 4000000 INFO @ Sat, 11 Dec 2021 17:01:59: 1000000 INFO @ Sat, 11 Dec 2021 17:02:00: 5000000 INFO @ Sat, 11 Dec 2021 17:02:05: #1 tag size is determined as 51 bps INFO @ Sat, 11 Dec 2021 17:02:05: #1 tag size = 51 INFO @ Sat, 11 Dec 2021 17:02:05: #1 total tags in treatment: 5535887 INFO @ Sat, 11 Dec 2021 17:02:05: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 17:02:05: #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 17:02:05: #1 tags after filtering in treatment: 5535759 INFO @ Sat, 11 Dec 2021 17:02:05: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 17:02:05: #1 finished! INFO @ Sat, 11 Dec 2021 17:02:05: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 17:02:05: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 17:02:06: #2 number of paired peaks: 3851 INFO @ Sat, 11 Dec 2021 17:02:06: start model_add_line... INFO @ Sat, 11 Dec 2021 17:02:06: start X-correlation... INFO @ Sat, 11 Dec 2021 17:02:06: end of X-cor INFO @ Sat, 11 Dec 2021 17:02:06: #2 finished! INFO @ Sat, 11 Dec 2021 17:02:06: #2 predicted fragment length is 228 bps INFO @ Sat, 11 Dec 2021 17:02:06: #2 alternative fragment length(s) may be 228 bps INFO @ Sat, 11 Dec 2021 17:02:06: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7434113/SRX7434113.10_model.r INFO @ Sat, 11 Dec 2021 17:02:06: #3 Call peaks... INFO @ Sat, 11 Dec 2021 17:02:06: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 17:02:07: 2000000 INFO @ Sat, 11 Dec 2021 17:02:14: 3000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 17:02:21: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 17:02:21: 4000000 INFO @ Sat, 11 Dec 2021 17:02:27: 5000000 INFO @ Sat, 11 Dec 2021 17:02:27: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7434113/SRX7434113.10_peaks.xls INFO @ Sat, 11 Dec 2021 17:02:28: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7434113/SRX7434113.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 17:02:28: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7434113/SRX7434113.10_summits.bed INFO @ Sat, 11 Dec 2021 17:02:28: Done! pass1 - making usageList (383 chroms): 1 millis pass2 - checking and writing primary data (4221 records, 4 fields): 14 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 17:02:31: #1 tag size is determined as 51 bps INFO @ Sat, 11 Dec 2021 17:02:31: #1 tag size = 51 INFO @ Sat, 11 Dec 2021 17:02:31: #1 total tags in treatment: 5535887 INFO @ Sat, 11 Dec 2021 17:02:31: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 17:02:31: #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 17:02:31: #1 tags after filtering in treatment: 5535759 INFO @ Sat, 11 Dec 2021 17:02:31: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 17:02:31: #1 finished! INFO @ Sat, 11 Dec 2021 17:02:31: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 17:02:31: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 17:02:32: #2 number of paired peaks: 3851 INFO @ Sat, 11 Dec 2021 17:02:32: start model_add_line... INFO @ Sat, 11 Dec 2021 17:02:32: start X-correlation... INFO @ Sat, 11 Dec 2021 17:02:32: end of X-cor INFO @ Sat, 11 Dec 2021 17:02:32: #2 finished! INFO @ Sat, 11 Dec 2021 17:02:32: #2 predicted fragment length is 228 bps INFO @ Sat, 11 Dec 2021 17:02:32: #2 alternative fragment length(s) may be 228 bps INFO @ Sat, 11 Dec 2021 17:02:32: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7434113/SRX7434113.20_model.r INFO @ Sat, 11 Dec 2021 17:02:32: #3 Call peaks... INFO @ Sat, 11 Dec 2021 17:02:32: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 17:02:47: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 17:02:54: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7434113/SRX7434113.20_peaks.xls INFO @ Sat, 11 Dec 2021 17:02:54: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7434113/SRX7434113.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 17:02:54: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7434113/SRX7434113.20_summits.bed INFO @ Sat, 11 Dec 2021 17:02:54: Done! pass1 - making usageList (171 chroms): 1 millis pass2 - checking and writing primary data (3190 records, 4 fields): 10 millis CompletedMACS2peakCalling