Job ID = 12266605 SRX = SRX7282932 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 21324348 spots for SRR10603291/SRR10603291.sra Written 21324348 spots for SRR10603291/SRR10603291.sra fastq に変換しました。 bowtie でマッピング中... Your job 12266834 ("srTdm6") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:05:09 21324348 reads; of these: 21324348 (100.00%) were unpaired; of these: 2940714 (13.79%) aligned 0 times 16609562 (77.89%) aligned exactly 1 time 1774072 (8.32%) aligned >1 times 86.21% overall alignment rate Time searching: 00:05:09 Overall time: 00:05:09 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 15 sequences. [bam_sort_core] merging from 8 files... [bam_rmdupse_core] 10410487 / 18383634 = 0.5663 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/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 09:14:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7282932/SRX7282932.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7282932/SRX7282932.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7282932/SRX7282932.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7282932/SRX7282932.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, 03 Apr 2021 09:14:41: #1 read tag files... INFO @ Sat, 03 Apr 2021 09:14:41: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 09:14:46: 1000000 INFO @ Sat, 03 Apr 2021 09:14:51: 2000000 INFO @ Sat, 03 Apr 2021 09:14:57: 3000000 INFO @ Sat, 03 Apr 2021 09:15:02: 4000000 INFO @ Sat, 03 Apr 2021 09:15:07: 5000000 WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 09:15:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7282932/SRX7282932.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7282932/SRX7282932.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7282932/SRX7282932.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7282932/SRX7282932.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, 03 Apr 2021 09:15:11: #1 read tag files... INFO @ Sat, 03 Apr 2021 09:15:11: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 09:15:12: 6000000 INFO @ Sat, 03 Apr 2021 09:15:16: 1000000 INFO @ Sat, 03 Apr 2021 09:15:17: 7000000 INFO @ Sat, 03 Apr 2021 09:15:22: 2000000 INFO @ Sat, 03 Apr 2021 09:15:22: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 09:15:22: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 09:15:22: #1 total tags in treatment: 7973147 INFO @ Sat, 03 Apr 2021 09:15:22: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 09:15:22: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 09:15:22: #1 tags after filtering in treatment: 7973147 INFO @ Sat, 03 Apr 2021 09:15:22: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 09:15:22: #1 finished! INFO @ Sat, 03 Apr 2021 09:15:22: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 09:15:22: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 09:15:23: #2 number of paired peaks: 5227 INFO @ Sat, 03 Apr 2021 09:15:23: start model_add_line... INFO @ Sat, 03 Apr 2021 09:15:24: start X-correlation... INFO @ Sat, 03 Apr 2021 09:15:24: end of X-cor INFO @ Sat, 03 Apr 2021 09:15:24: #2 finished! INFO @ Sat, 03 Apr 2021 09:15:24: #2 predicted fragment length is 103 bps INFO @ Sat, 03 Apr 2021 09:15:24: #2 alternative fragment length(s) may be 103 bps INFO @ Sat, 03 Apr 2021 09:15:24: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7282932/SRX7282932.05_model.r INFO @ Sat, 03 Apr 2021 09:15:24: #3 Call peaks... INFO @ Sat, 03 Apr 2021 09:15:24: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 09:15:27: 3000000 INFO @ Sat, 03 Apr 2021 09:15:32: 4000000 INFO @ Sat, 03 Apr 2021 09:15:37: 5000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 09:15:40: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 09:15:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7282932/SRX7282932.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7282932/SRX7282932.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7282932/SRX7282932.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7282932/SRX7282932.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, 03 Apr 2021 09:15:41: #1 read tag files... INFO @ Sat, 03 Apr 2021 09:15:41: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 09:15:42: 6000000 INFO @ Sat, 03 Apr 2021 09:15:47: 1000000 INFO @ Sat, 03 Apr 2021 09:15:48: 7000000 INFO @ Sat, 03 Apr 2021 09:15:49: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7282932/SRX7282932.05_peaks.xls INFO @ Sat, 03 Apr 2021 09:15:49: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7282932/SRX7282932.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 09:15:49: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7282932/SRX7282932.05_summits.bed INFO @ Sat, 03 Apr 2021 09:15:50: Done! pass1 - making usageList (15 chroms): 4 millis pass2 - checking and writing primary data (19025 records, 4 fields): 23 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 09:15:53: 2000000 INFO @ Sat, 03 Apr 2021 09:15:54: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 09:15:54: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 09:15:54: #1 total tags in treatment: 7973147 INFO @ Sat, 03 Apr 2021 09:15:54: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 09:15:54: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 09:15:54: #1 tags after filtering in treatment: 7973147 INFO @ Sat, 03 Apr 2021 09:15:54: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 09:15:54: #1 finished! INFO @ Sat, 03 Apr 2021 09:15:54: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 09:15:54: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 09:15:55: #2 number of paired peaks: 5227 INFO @ Sat, 03 Apr 2021 09:15:55: start model_add_line... INFO @ Sat, 03 Apr 2021 09:15:55: start X-correlation... INFO @ Sat, 03 Apr 2021 09:15:55: end of X-cor INFO @ Sat, 03 Apr 2021 09:15:55: #2 finished! INFO @ Sat, 03 Apr 2021 09:15:55: #2 predicted fragment length is 103 bps INFO @ Sat, 03 Apr 2021 09:15:55: #2 alternative fragment length(s) may be 103 bps INFO @ Sat, 03 Apr 2021 09:15:55: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7282932/SRX7282932.10_model.r INFO @ Sat, 03 Apr 2021 09:15:55: #3 Call peaks... INFO @ Sat, 03 Apr 2021 09:15:55: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 09:15:58: 3000000 INFO @ Sat, 03 Apr 2021 09:16:03: 4000000 INFO @ Sat, 03 Apr 2021 09:16:08: 5000000 INFO @ Sat, 03 Apr 2021 09:16:12: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 09:16:14: 6000000 INFO @ Sat, 03 Apr 2021 09:16:19: 7000000 INFO @ Sat, 03 Apr 2021 09:16:22: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7282932/SRX7282932.10_peaks.xls INFO @ Sat, 03 Apr 2021 09:16:22: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7282932/SRX7282932.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 09:16:22: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7282932/SRX7282932.10_summits.bed INFO @ Sat, 03 Apr 2021 09:16:22: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (13043 records, 4 fields): 17 millis CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 09:16:24: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 09:16:24: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 09:16:24: #1 total tags in treatment: 7973147 INFO @ Sat, 03 Apr 2021 09:16:24: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 09:16:24: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 09:16:25: #1 tags after filtering in treatment: 7973147 INFO @ Sat, 03 Apr 2021 09:16:25: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 09:16:25: #1 finished! INFO @ Sat, 03 Apr 2021 09:16:25: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 09:16:25: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 09:16:25: #2 number of paired peaks: 5227 INFO @ Sat, 03 Apr 2021 09:16:25: start model_add_line... INFO @ Sat, 03 Apr 2021 09:16:26: start X-correlation... INFO @ Sat, 03 Apr 2021 09:16:26: end of X-cor INFO @ Sat, 03 Apr 2021 09:16:26: #2 finished! INFO @ Sat, 03 Apr 2021 09:16:26: #2 predicted fragment length is 103 bps INFO @ Sat, 03 Apr 2021 09:16:26: #2 alternative fragment length(s) may be 103 bps INFO @ Sat, 03 Apr 2021 09:16:26: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7282932/SRX7282932.20_model.r INFO @ Sat, 03 Apr 2021 09:16:26: #3 Call peaks... INFO @ Sat, 03 Apr 2021 09:16:26: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 09:16:42: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 09:16:51: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7282932/SRX7282932.20_peaks.xls INFO @ Sat, 03 Apr 2021 09:16:51: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7282932/SRX7282932.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 09:16:51: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7282932/SRX7282932.20_summits.bed INFO @ Sat, 03 Apr 2021 09:16:52: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (7155 records, 4 fields): 10 millis CompletedMACS2peakCalling