Job ID = 14167381 SRX = SRX8574259 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: 00:05:32 34578244 reads; of these: 34578244 (100.00%) were unpaired; of these: 24386454 (70.53%) aligned 0 times 6777703 (19.60%) aligned exactly 1 time 3414087 (9.87%) aligned >1 times 29.47% overall alignment rate Time searching: 00:05:32 Overall time: 00:05:32 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] 4824462 / 10191790 = 0.4734 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 12:13:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX8574259/SRX8574259.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX8574259/SRX8574259.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX8574259/SRX8574259.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX8574259/SRX8574259.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 12:13:00: #1 read tag files... INFO @ Fri, 10 Dec 2021 12:13:00: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 12:13:06: 1000000 INFO @ Fri, 10 Dec 2021 12:13:12: 2000000 INFO @ Fri, 10 Dec 2021 12:13:18: 3000000 INFO @ Fri, 10 Dec 2021 12:13:24: 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 12:13:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX8574259/SRX8574259.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX8574259/SRX8574259.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX8574259/SRX8574259.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX8574259/SRX8574259.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 12:13:30: #1 read tag files... INFO @ Fri, 10 Dec 2021 12:13:30: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 12:13:31: 5000000 INFO @ Fri, 10 Dec 2021 12:13:34: #1 tag size is determined as 50 bps INFO @ Fri, 10 Dec 2021 12:13:34: #1 tag size = 50 INFO @ Fri, 10 Dec 2021 12:13:34: #1 total tags in treatment: 5367328 INFO @ Fri, 10 Dec 2021 12:13:34: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 12:13:34: #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 12:13:34: #1 tags after filtering in treatment: 5367316 INFO @ Fri, 10 Dec 2021 12:13:34: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 12:13:34: #1 finished! INFO @ Fri, 10 Dec 2021 12:13:34: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 12:13:34: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 12:13:34: #2 number of paired peaks: 2672 INFO @ Fri, 10 Dec 2021 12:13:34: start model_add_line... INFO @ Fri, 10 Dec 2021 12:13:35: start X-correlation... INFO @ Fri, 10 Dec 2021 12:13:35: end of X-cor INFO @ Fri, 10 Dec 2021 12:13:35: #2 finished! INFO @ Fri, 10 Dec 2021 12:13:35: #2 predicted fragment length is 189 bps INFO @ Fri, 10 Dec 2021 12:13:35: #2 alternative fragment length(s) may be 189 bps INFO @ Fri, 10 Dec 2021 12:13:35: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX8574259/SRX8574259.05_model.r INFO @ Fri, 10 Dec 2021 12:13:35: #3 Call peaks... INFO @ Fri, 10 Dec 2021 12:13:35: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 12:13:36: 1000000 INFO @ Fri, 10 Dec 2021 12:13:43: 2000000 INFO @ Fri, 10 Dec 2021 12:13:49: 3000000 INFO @ Fri, 10 Dec 2021 12:13:49: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 12:13:55: 4000000 INFO @ Fri, 10 Dec 2021 12:13:56: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX8574259/SRX8574259.05_peaks.xls INFO @ Fri, 10 Dec 2021 12:13:56: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX8574259/SRX8574259.05_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 12:13:56: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX8574259/SRX8574259.05_summits.bed INFO @ Fri, 10 Dec 2021 12:13:56: Done! pass1 - making usageList (612 chroms): 1 millis pass2 - checking and writing primary data (4185 records, 4 fields): 20 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 @ Fri, 10 Dec 2021 12:14:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX8574259/SRX8574259.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX8574259/SRX8574259.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX8574259/SRX8574259.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX8574259/SRX8574259.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 12:14:00: #1 read tag files... INFO @ Fri, 10 Dec 2021 12:14:00: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 12:14:02: 5000000 INFO @ Fri, 10 Dec 2021 12:14:05: #1 tag size is determined as 50 bps INFO @ Fri, 10 Dec 2021 12:14:05: #1 tag size = 50 INFO @ Fri, 10 Dec 2021 12:14:05: #1 total tags in treatment: 5367328 INFO @ Fri, 10 Dec 2021 12:14:05: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 12:14:05: #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 12:14:05: #1 tags after filtering in treatment: 5367316 INFO @ Fri, 10 Dec 2021 12:14:05: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 12:14:05: #1 finished! INFO @ Fri, 10 Dec 2021 12:14:05: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 12:14:05: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 12:14:06: #2 number of paired peaks: 2672 INFO @ Fri, 10 Dec 2021 12:14:06: start model_add_line... INFO @ Fri, 10 Dec 2021 12:14:06: start X-correlation... INFO @ Fri, 10 Dec 2021 12:14:06: end of X-cor INFO @ Fri, 10 Dec 2021 12:14:06: #2 finished! INFO @ Fri, 10 Dec 2021 12:14:06: #2 predicted fragment length is 189 bps INFO @ Fri, 10 Dec 2021 12:14:06: #2 alternative fragment length(s) may be 189 bps INFO @ Fri, 10 Dec 2021 12:14:06: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX8574259/SRX8574259.10_model.r INFO @ Fri, 10 Dec 2021 12:14:06: #3 Call peaks... INFO @ Fri, 10 Dec 2021 12:14:06: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 12:14:07: 1000000 INFO @ Fri, 10 Dec 2021 12:14:13: 2000000 INFO @ Fri, 10 Dec 2021 12:14:19: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 12:14:20: 3000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 10 Dec 2021 12:14:25: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX8574259/SRX8574259.10_peaks.xls INFO @ Fri, 10 Dec 2021 12:14:25: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX8574259/SRX8574259.10_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 12:14:25: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX8574259/SRX8574259.10_summits.bed INFO @ Fri, 10 Dec 2021 12:14:25: Done! pass1 - making usageList (462 chroms): 1 millis pass2 - checking and writing primary data (3124 records, 4 fields): 46 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 12:14:26: 4000000 INFO @ Fri, 10 Dec 2021 12:14:32: 5000000 BigWig に変換しました。 INFO @ Fri, 10 Dec 2021 12:14:35: #1 tag size is determined as 50 bps INFO @ Fri, 10 Dec 2021 12:14:35: #1 tag size = 50 INFO @ Fri, 10 Dec 2021 12:14:35: #1 total tags in treatment: 5367328 INFO @ Fri, 10 Dec 2021 12:14:35: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 12:14:35: #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 12:14:35: #1 tags after filtering in treatment: 5367316 INFO @ Fri, 10 Dec 2021 12:14:35: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 12:14:35: #1 finished! INFO @ Fri, 10 Dec 2021 12:14:35: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 12:14:35: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 12:14:36: #2 number of paired peaks: 2672 INFO @ Fri, 10 Dec 2021 12:14:36: start model_add_line... INFO @ Fri, 10 Dec 2021 12:14:36: start X-correlation... INFO @ Fri, 10 Dec 2021 12:14:36: end of X-cor INFO @ Fri, 10 Dec 2021 12:14:36: #2 finished! INFO @ Fri, 10 Dec 2021 12:14:36: #2 predicted fragment length is 189 bps INFO @ Fri, 10 Dec 2021 12:14:36: #2 alternative fragment length(s) may be 189 bps INFO @ Fri, 10 Dec 2021 12:14:36: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX8574259/SRX8574259.20_model.r INFO @ Fri, 10 Dec 2021 12:14:36: #3 Call peaks... INFO @ Fri, 10 Dec 2021 12:14:36: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 12:14:49: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 12:14:55: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX8574259/SRX8574259.20_peaks.xls INFO @ Fri, 10 Dec 2021 12:14:55: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX8574259/SRX8574259.20_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 12:14:55: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX8574259/SRX8574259.20_summits.bed INFO @ Fri, 10 Dec 2021 12:14:55: Done! pass1 - making usageList (286 chroms): 1 millis pass2 - checking and writing primary data (2128 records, 4 fields): 10 millis CompletedMACS2peakCalling