Job ID = 14167585 SRX = SRX4712949 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: 00:06:31 22371281 reads; of these: 22371281 (100.00%) were unpaired; of these: 1151273 (5.15%) aligned 0 times 16094407 (71.94%) aligned exactly 1 time 5125601 (22.91%) aligned >1 times 94.85% overall alignment rate Time searching: 00:06:31 Overall time: 00:06:31 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] 15782630 / 21220008 = 0.7438 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 12:52:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4712949/SRX4712949.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4712949/SRX4712949.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4712949/SRX4712949.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4712949/SRX4712949.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 12:52:06: #1 read tag files... INFO @ Fri, 10 Dec 2021 12:52:06: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 12:52:11: 1000000 INFO @ Fri, 10 Dec 2021 12:52:16: 2000000 INFO @ Fri, 10 Dec 2021 12:52:21: 3000000 INFO @ Fri, 10 Dec 2021 12:52:26: 4000000 INFO @ Fri, 10 Dec 2021 12:52:32: 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 @ Fri, 10 Dec 2021 12:52:34: #1 tag size is determined as 51 bps INFO @ Fri, 10 Dec 2021 12:52:34: #1 tag size = 51 INFO @ Fri, 10 Dec 2021 12:52:34: #1 total tags in treatment: 5437378 INFO @ Fri, 10 Dec 2021 12:52:34: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 12:52:34: #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 12:52:34: #1 tags after filtering in treatment: 5437371 INFO @ Fri, 10 Dec 2021 12:52:34: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 12:52:34: #1 finished! INFO @ Fri, 10 Dec 2021 12:52:34: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 12:52:34: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 12:52:35: #2 number of paired peaks: 1793 INFO @ Fri, 10 Dec 2021 12:52:35: start model_add_line... INFO @ Fri, 10 Dec 2021 12:52:35: start X-correlation... INFO @ Fri, 10 Dec 2021 12:52:35: end of X-cor INFO @ Fri, 10 Dec 2021 12:52:35: #2 finished! INFO @ Fri, 10 Dec 2021 12:52:35: #2 predicted fragment length is 111 bps INFO @ Fri, 10 Dec 2021 12:52:35: #2 alternative fragment length(s) may be 111 bps INFO @ Fri, 10 Dec 2021 12:52:35: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX4712949/SRX4712949.05_model.r INFO @ Fri, 10 Dec 2021 12:52:35: #3 Call peaks... INFO @ Fri, 10 Dec 2021 12:52:35: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 12:52:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4712949/SRX4712949.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4712949/SRX4712949.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4712949/SRX4712949.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4712949/SRX4712949.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 12:52:36: #1 read tag files... INFO @ Fri, 10 Dec 2021 12:52:36: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 12:52:41: 1000000 INFO @ Fri, 10 Dec 2021 12:52:46: 2000000 INFO @ Fri, 10 Dec 2021 12:52:48: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 12:52:51: 3000000 INFO @ Fri, 10 Dec 2021 12:52:54: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX4712949/SRX4712949.05_peaks.xls INFO @ Fri, 10 Dec 2021 12:52:54: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX4712949/SRX4712949.05_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 12:52:54: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX4712949/SRX4712949.05_summits.bed INFO @ Fri, 10 Dec 2021 12:52:54: Done! pass1 - making usageList (714 chroms): 2 millis pass2 - checking and writing primary data (4356 records, 4 fields): 28 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 12:52:56: 4000000 INFO @ Fri, 10 Dec 2021 12:53:01: 5000000 INFO @ Fri, 10 Dec 2021 12:53:04: #1 tag size is determined as 51 bps INFO @ Fri, 10 Dec 2021 12:53:04: #1 tag size = 51 INFO @ Fri, 10 Dec 2021 12:53:04: #1 total tags in treatment: 5437378 INFO @ Fri, 10 Dec 2021 12:53:04: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 12:53:04: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) 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 12:53:04: #1 tags after filtering in treatment: 5437371 INFO @ Fri, 10 Dec 2021 12:53:04: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 12:53:04: #1 finished! INFO @ Fri, 10 Dec 2021 12:53:04: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 12:53:04: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 12:53:05: #2 number of paired peaks: 1793 INFO @ Fri, 10 Dec 2021 12:53:05: start model_add_line... INFO @ Fri, 10 Dec 2021 12:53:05: start X-correlation... INFO @ Fri, 10 Dec 2021 12:53:05: end of X-cor INFO @ Fri, 10 Dec 2021 12:53:05: #2 finished! INFO @ Fri, 10 Dec 2021 12:53:05: #2 predicted fragment length is 111 bps INFO @ Fri, 10 Dec 2021 12:53:05: #2 alternative fragment length(s) may be 111 bps INFO @ Fri, 10 Dec 2021 12:53:05: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX4712949/SRX4712949.10_model.r INFO @ Fri, 10 Dec 2021 12:53:05: #3 Call peaks... INFO @ Fri, 10 Dec 2021 12:53:05: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 12:53:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4712949/SRX4712949.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4712949/SRX4712949.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4712949/SRX4712949.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4712949/SRX4712949.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 12:53:06: #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 12:53:17: 2000000 INFO @ Fri, 10 Dec 2021 12:53:18: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 12:53:23: 3000000 INFO @ Fri, 10 Dec 2021 12:53:24: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX4712949/SRX4712949.10_peaks.xls INFO @ Fri, 10 Dec 2021 12:53:24: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX4712949/SRX4712949.10_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 12:53:24: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX4712949/SRX4712949.10_summits.bed INFO @ Fri, 10 Dec 2021 12:53:24: Done! pass1 - making usageList (580 chroms): 4 millis pass2 - checking and writing primary data (2983 records, 4 fields): 18 millis CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 10 Dec 2021 12:53:29: 4000000 INFO @ Fri, 10 Dec 2021 12:53:35: 5000000 INFO @ Fri, 10 Dec 2021 12:53:38: #1 tag size is determined as 51 bps INFO @ Fri, 10 Dec 2021 12:53:38: #1 tag size = 51 INFO @ Fri, 10 Dec 2021 12:53:38: #1 total tags in treatment: 5437378 INFO @ Fri, 10 Dec 2021 12:53:38: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 12:53:38: #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 12:53:38: #1 tags after filtering in treatment: 5437371 INFO @ Fri, 10 Dec 2021 12:53:38: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 12:53:38: #1 finished! INFO @ Fri, 10 Dec 2021 12:53:38: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 12:53:38: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 12:53:39: #2 number of paired peaks: 1793 INFO @ Fri, 10 Dec 2021 12:53:39: start model_add_line... INFO @ Fri, 10 Dec 2021 12:53:39: start X-correlation... INFO @ Fri, 10 Dec 2021 12:53:39: end of X-cor INFO @ Fri, 10 Dec 2021 12:53:39: #2 finished! INFO @ Fri, 10 Dec 2021 12:53:39: #2 predicted fragment length is 111 bps INFO @ Fri, 10 Dec 2021 12:53:39: #2 alternative fragment length(s) may be 111 bps INFO @ Fri, 10 Dec 2021 12:53:39: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX4712949/SRX4712949.20_model.r INFO @ Fri, 10 Dec 2021 12:53:39: #3 Call peaks... INFO @ Fri, 10 Dec 2021 12:53:39: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Fri, 10 Dec 2021 12:53:51: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 12:53:57: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX4712949/SRX4712949.20_peaks.xls INFO @ Fri, 10 Dec 2021 12:53:57: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX4712949/SRX4712949.20_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 12:53:57: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX4712949/SRX4712949.20_summits.bed INFO @ Fri, 10 Dec 2021 12:53:57: Done! pass1 - making usageList (420 chroms): 1 millis pass2 - checking and writing primary data (1724 records, 4 fields): 14 millis CompletedMACS2peakCalling