Job ID = 12266600 SRX = SRX7282929 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 19888016 spots for SRR10603288/SRR10603288.sra Written 19888016 spots for SRR10603288/SRR10603288.sra fastq に変換しました。 bowtie でマッピング中... Your job 12266827 ("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: 00:04:25 19888016 reads; of these: 19888016 (100.00%) were unpaired; of these: 2614048 (13.14%) aligned 0 times 15685476 (78.87%) aligned exactly 1 time 1588492 (7.99%) aligned >1 times 86.86% overall alignment rate Time searching: 00:04:25 Overall time: 00:04:25 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 15 sequences. [bam_sort_core] merging from 8 files... [bam_rmdupse_core] 8237506 / 17273968 = 0.4769 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 09:12:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7282929/SRX7282929.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7282929/SRX7282929.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7282929/SRX7282929.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7282929/SRX7282929.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 09:12:39: #1 read tag files... INFO @ Sat, 03 Apr 2021 09:12:39: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 09:12:45: 1000000 INFO @ Sat, 03 Apr 2021 09:12:51: 2000000 INFO @ Sat, 03 Apr 2021 09:12:56: 3000000 INFO @ Sat, 03 Apr 2021 09:13:02: 4000000 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 09:13:08: 5000000 INFO @ Sat, 03 Apr 2021 09:13:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7282929/SRX7282929.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7282929/SRX7282929.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7282929/SRX7282929.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7282929/SRX7282929.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 09:13:09: #1 read tag files... INFO @ Sat, 03 Apr 2021 09:13:09: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 09:13:14: 6000000 INFO @ Sat, 03 Apr 2021 09:13:15: 1000000 INFO @ Sat, 03 Apr 2021 09:13:20: 7000000 INFO @ Sat, 03 Apr 2021 09:13:21: 2000000 INFO @ Sat, 03 Apr 2021 09:13:26: 8000000 INFO @ Sat, 03 Apr 2021 09:13:27: 3000000 INFO @ Sat, 03 Apr 2021 09:13:31: 9000000 INFO @ Sat, 03 Apr 2021 09:13:32: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 09:13:32: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 09:13:32: #1 total tags in treatment: 9036462 INFO @ Sat, 03 Apr 2021 09:13:32: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 09:13:32: #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 09:13:32: #1 tags after filtering in treatment: 9036462 INFO @ Sat, 03 Apr 2021 09:13:32: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 09:13:32: #1 finished! INFO @ Sat, 03 Apr 2021 09:13:32: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 09:13:32: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 09:13:33: #2 number of paired peaks: 3075 INFO @ Sat, 03 Apr 2021 09:13:33: start model_add_line... INFO @ Sat, 03 Apr 2021 09:13:33: start X-correlation... INFO @ Sat, 03 Apr 2021 09:13:33: end of X-cor INFO @ Sat, 03 Apr 2021 09:13:33: #2 finished! INFO @ Sat, 03 Apr 2021 09:13:33: #2 predicted fragment length is 102 bps INFO @ Sat, 03 Apr 2021 09:13:33: #2 alternative fragment length(s) may be 102 bps INFO @ Sat, 03 Apr 2021 09:13:33: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7282929/SRX7282929.05_model.r INFO @ Sat, 03 Apr 2021 09:13:33: #3 Call peaks... INFO @ Sat, 03 Apr 2021 09:13:33: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 09:13:33: 4000000 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 09:13:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7282929/SRX7282929.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7282929/SRX7282929.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7282929/SRX7282929.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7282929/SRX7282929.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 09:13:39: #1 read tag files... INFO @ Sat, 03 Apr 2021 09:13:39: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 09:13:39: 5000000 INFO @ Sat, 03 Apr 2021 09:13:45: 6000000 INFO @ Sat, 03 Apr 2021 09:13:46: 1000000 INFO @ Sat, 03 Apr 2021 09:13:51: 7000000 INFO @ Sat, 03 Apr 2021 09:13:53: 2000000 INFO @ Sat, 03 Apr 2021 09:13:56: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 09:13:58: 8000000 INFO @ Sat, 03 Apr 2021 09:14:00: 3000000 INFO @ Sat, 03 Apr 2021 09:14:04: 9000000 INFO @ Sat, 03 Apr 2021 09:14:04: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 09:14:04: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 09:14:04: #1 total tags in treatment: 9036462 INFO @ Sat, 03 Apr 2021 09:14:04: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 09:14:04: #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 09:14:04: #1 tags after filtering in treatment: 9036462 INFO @ Sat, 03 Apr 2021 09:14:04: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 09:14:04: #1 finished! INFO @ Sat, 03 Apr 2021 09:14:04: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 09:14:04: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 09:14:05: #2 number of paired peaks: 3075 INFO @ Sat, 03 Apr 2021 09:14:05: start model_add_line... INFO @ Sat, 03 Apr 2021 09:14:05: start X-correlation... INFO @ Sat, 03 Apr 2021 09:14:05: end of X-cor INFO @ Sat, 03 Apr 2021 09:14:05: #2 finished! INFO @ Sat, 03 Apr 2021 09:14:05: #2 predicted fragment length is 102 bps INFO @ Sat, 03 Apr 2021 09:14:05: #2 alternative fragment length(s) may be 102 bps INFO @ Sat, 03 Apr 2021 09:14:05: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7282929/SRX7282929.10_model.r INFO @ Sat, 03 Apr 2021 09:14:05: #3 Call peaks... INFO @ Sat, 03 Apr 2021 09:14:05: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 09:14:06: 4000000 INFO @ Sat, 03 Apr 2021 09:14:09: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7282929/SRX7282929.05_peaks.xls INFO @ Sat, 03 Apr 2021 09:14:09: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7282929/SRX7282929.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 09:14:09: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7282929/SRX7282929.05_summits.bed INFO @ Sat, 03 Apr 2021 09:14:09: Done! pass1 - making usageList (15 chroms): 4 millis pass2 - checking and writing primary data (21229 records, 4 fields): 22 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 09:14:13: 5000000 INFO @ Sat, 03 Apr 2021 09:14:20: 6000000 INFO @ Sat, 03 Apr 2021 09:14:26: 7000000 INFO @ Sat, 03 Apr 2021 09:14:28: #3 Call peaks for each chromosome... BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 09:14:32: 8000000 INFO @ Sat, 03 Apr 2021 09:14:38: 9000000 INFO @ Sat, 03 Apr 2021 09:14:39: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 09:14:39: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 09:14:39: #1 total tags in treatment: 9036462 INFO @ Sat, 03 Apr 2021 09:14:39: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 09:14:39: #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 09:14:39: #1 tags after filtering in treatment: 9036462 INFO @ Sat, 03 Apr 2021 09:14:39: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 09:14:39: #1 finished! INFO @ Sat, 03 Apr 2021 09:14:39: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 09:14:39: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 09:14:40: #2 number of paired peaks: 3075 INFO @ Sat, 03 Apr 2021 09:14:40: start model_add_line... INFO @ Sat, 03 Apr 2021 09:14:40: start X-correlation... INFO @ Sat, 03 Apr 2021 09:14:40: end of X-cor INFO @ Sat, 03 Apr 2021 09:14:40: #2 finished! INFO @ Sat, 03 Apr 2021 09:14:40: #2 predicted fragment length is 102 bps INFO @ Sat, 03 Apr 2021 09:14:40: #2 alternative fragment length(s) may be 102 bps INFO @ Sat, 03 Apr 2021 09:14:40: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7282929/SRX7282929.20_model.r INFO @ Sat, 03 Apr 2021 09:14:40: #3 Call peaks... INFO @ Sat, 03 Apr 2021 09:14:40: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 09:14:40: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7282929/SRX7282929.10_peaks.xls INFO @ Sat, 03 Apr 2021 09:14:40: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7282929/SRX7282929.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 09:14:40: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7282929/SRX7282929.10_summits.bed INFO @ Sat, 03 Apr 2021 09:14:40: Done! pass1 - making usageList (15 chroms): 3 millis pass2 - checking and writing primary data (13183 records, 4 fields): 21 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 09:15:04: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 09:15:17: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7282929/SRX7282929.20_peaks.xls INFO @ Sat, 03 Apr 2021 09:15:18: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7282929/SRX7282929.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 09:15:18: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7282929/SRX7282929.20_summits.bed INFO @ Sat, 03 Apr 2021 09:15:18: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (6041 records, 4 fields): 10 millis CompletedMACS2peakCalling