Job ID = 6626752 SRX = SRX7351017 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 19143908 spots for SRR10673647/SRR10673647.sra Written 19143908 spots for SRR10673647/SRR10673647.sra fastq に変換しました。 bowtie でマッピング中... Your job 6627026 ("srTdm6") has been submitted Time loading reference: 00:00:01 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:07:07 19143908 reads; of these: 19143908 (100.00%) were unpaired; of these: 512437 (2.68%) aligned 0 times 15536825 (81.16%) aligned exactly 1 time 3094646 (16.17%) aligned >1 times 97.32% overall alignment rate Time searching: 00:07:08 Overall time: 00:07:08 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] 4686430 / 18631471 = 0.2515 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/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 14 Jul 2020 08:49:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7351017/SRX7351017.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7351017/SRX7351017.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7351017/SRX7351017.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7351017/SRX7351017.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 @ Tue, 14 Jul 2020 08:49:28: #1 read tag files... INFO @ Tue, 14 Jul 2020 08:49:28: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 08:49:35: 1000000 INFO @ Tue, 14 Jul 2020 08:49:42: 2000000 INFO @ Tue, 14 Jul 2020 08:49:49: 3000000 WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 14 Jul 2020 08:49:56: 4000000 INFO @ Tue, 14 Jul 2020 08:49:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7351017/SRX7351017.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7351017/SRX7351017.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7351017/SRX7351017.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7351017/SRX7351017.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 @ Tue, 14 Jul 2020 08:49:58: #1 read tag files... INFO @ Tue, 14 Jul 2020 08:49:58: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 08:50:03: 5000000 INFO @ Tue, 14 Jul 2020 08:50:08: 1000000 INFO @ Tue, 14 Jul 2020 08:50:11: 6000000 INFO @ Tue, 14 Jul 2020 08:50:16: 2000000 INFO @ Tue, 14 Jul 2020 08:50:18: 7000000 INFO @ Tue, 14 Jul 2020 08:50:23: 3000000 INFO @ Tue, 14 Jul 2020 08:50:25: 8000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 14 Jul 2020 08:50:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7351017/SRX7351017.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7351017/SRX7351017.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7351017/SRX7351017.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7351017/SRX7351017.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 @ Tue, 14 Jul 2020 08:50:27: #1 read tag files... INFO @ Tue, 14 Jul 2020 08:50:27: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 08:50:31: 4000000 INFO @ Tue, 14 Jul 2020 08:50:33: 9000000 INFO @ Tue, 14 Jul 2020 08:50:35: 1000000 INFO @ Tue, 14 Jul 2020 08:50:38: 5000000 INFO @ Tue, 14 Jul 2020 08:50:40: 10000000 INFO @ Tue, 14 Jul 2020 08:50:43: 2000000 INFO @ Tue, 14 Jul 2020 08:50:46: 6000000 INFO @ Tue, 14 Jul 2020 08:50:48: 11000000 INFO @ Tue, 14 Jul 2020 08:50:50: 3000000 INFO @ Tue, 14 Jul 2020 08:50:54: 7000000 INFO @ Tue, 14 Jul 2020 08:50:56: 12000000 INFO @ Tue, 14 Jul 2020 08:50:58: 4000000 INFO @ Tue, 14 Jul 2020 08:51:02: 8000000 INFO @ Tue, 14 Jul 2020 08:51:05: 13000000 INFO @ Tue, 14 Jul 2020 08:51:05: 5000000 INFO @ Tue, 14 Jul 2020 08:51:09: 9000000 INFO @ Tue, 14 Jul 2020 08:51:13: #1 tag size is determined as 75 bps INFO @ Tue, 14 Jul 2020 08:51:13: #1 tag size = 75 INFO @ Tue, 14 Jul 2020 08:51:13: #1 total tags in treatment: 13945041 INFO @ Tue, 14 Jul 2020 08:51:13: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 08:51:13: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 14 Jul 2020 08:51:13: #1 tags after filtering in treatment: 13945041 INFO @ Tue, 14 Jul 2020 08:51:13: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 08:51:13: #1 finished! INFO @ Tue, 14 Jul 2020 08:51:13: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 08:51:13: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 08:51:13: 6000000 INFO @ Tue, 14 Jul 2020 08:51:15: #2 number of paired peaks: 9842 INFO @ Tue, 14 Jul 2020 08:51:15: start model_add_line... INFO @ Tue, 14 Jul 2020 08:51:15: start X-correlation... INFO @ Tue, 14 Jul 2020 08:51:15: end of X-cor INFO @ Tue, 14 Jul 2020 08:51:15: #2 finished! INFO @ Tue, 14 Jul 2020 08:51:15: #2 predicted fragment length is 158 bps INFO @ Tue, 14 Jul 2020 08:51:15: #2 alternative fragment length(s) may be 158 bps INFO @ Tue, 14 Jul 2020 08:51:15: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7351017/SRX7351017.05_model.r INFO @ Tue, 14 Jul 2020 08:51:15: #3 Call peaks... INFO @ Tue, 14 Jul 2020 08:51:15: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 08:51:17: 10000000 INFO @ Tue, 14 Jul 2020 08:51:22: 7000000 INFO @ Tue, 14 Jul 2020 08:51:25: 11000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 14 Jul 2020 08:51:32: 8000000 INFO @ Tue, 14 Jul 2020 08:51:33: 12000000 INFO @ Tue, 14 Jul 2020 08:51:39: 9000000 INFO @ Tue, 14 Jul 2020 08:51:41: 13000000 INFO @ Tue, 14 Jul 2020 08:51:47: 10000000 INFO @ Tue, 14 Jul 2020 08:51:48: #1 tag size is determined as 75 bps INFO @ Tue, 14 Jul 2020 08:51:48: #1 tag size = 75 INFO @ Tue, 14 Jul 2020 08:51:48: #1 total tags in treatment: 13945041 INFO @ Tue, 14 Jul 2020 08:51:48: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 08:51:48: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 14 Jul 2020 08:51:48: #1 tags after filtering in treatment: 13945041 INFO @ Tue, 14 Jul 2020 08:51:48: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 08:51:48: #1 finished! INFO @ Tue, 14 Jul 2020 08:51:48: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 08:51:48: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 08:51:50: #2 number of paired peaks: 9842 INFO @ Tue, 14 Jul 2020 08:51:50: start model_add_line... INFO @ Tue, 14 Jul 2020 08:51:50: start X-correlation... INFO @ Tue, 14 Jul 2020 08:51:50: end of X-cor INFO @ Tue, 14 Jul 2020 08:51:50: #2 finished! INFO @ Tue, 14 Jul 2020 08:51:50: #2 predicted fragment length is 158 bps INFO @ Tue, 14 Jul 2020 08:51:50: #2 alternative fragment length(s) may be 158 bps INFO @ Tue, 14 Jul 2020 08:51:50: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7351017/SRX7351017.10_model.r INFO @ Tue, 14 Jul 2020 08:51:50: #3 Call peaks... INFO @ Tue, 14 Jul 2020 08:51:50: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 08:51:54: 11000000 BigWig に変換しました。 INFO @ Tue, 14 Jul 2020 08:51:58: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 08:52:02: 12000000 INFO @ Tue, 14 Jul 2020 08:52:09: 13000000 INFO @ Tue, 14 Jul 2020 08:52:16: #1 tag size is determined as 75 bps INFO @ Tue, 14 Jul 2020 08:52:16: #1 tag size = 75 INFO @ Tue, 14 Jul 2020 08:52:16: #1 total tags in treatment: 13945041 INFO @ Tue, 14 Jul 2020 08:52:16: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 08:52:16: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 14 Jul 2020 08:52:16: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7351017/SRX7351017.05_peaks.xls INFO @ Tue, 14 Jul 2020 08:52:17: #1 tags after filtering in treatment: 13945041 INFO @ Tue, 14 Jul 2020 08:52:17: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 08:52:17: #1 finished! INFO @ Tue, 14 Jul 2020 08:52:17: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 08:52:17: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 08:52:17: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7351017/SRX7351017.05_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 08:52:17: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7351017/SRX7351017.05_summits.bed INFO @ Tue, 14 Jul 2020 08:52:17: Done! pass1 - making usageList (14 chroms): 3 millis pass2 - checking and writing primary data (13159 records, 4 fields): 16 millis CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 08:52:18: #2 number of paired peaks: 9842 INFO @ Tue, 14 Jul 2020 08:52:18: start model_add_line... INFO @ Tue, 14 Jul 2020 08:52:19: start X-correlation... INFO @ Tue, 14 Jul 2020 08:52:19: end of X-cor INFO @ Tue, 14 Jul 2020 08:52:19: #2 finished! INFO @ Tue, 14 Jul 2020 08:52:19: #2 predicted fragment length is 158 bps INFO @ Tue, 14 Jul 2020 08:52:19: #2 alternative fragment length(s) may be 158 bps INFO @ Tue, 14 Jul 2020 08:52:19: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7351017/SRX7351017.20_model.r INFO @ Tue, 14 Jul 2020 08:52:19: #3 Call peaks... INFO @ Tue, 14 Jul 2020 08:52:19: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 08:52:34: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 08:52:53: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7351017/SRX7351017.10_peaks.xls INFO @ Tue, 14 Jul 2020 08:52:53: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7351017/SRX7351017.10_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 08:52:53: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7351017/SRX7351017.10_summits.bed INFO @ Tue, 14 Jul 2020 08:52:53: Done! pass1 - making usageList (14 chroms): 2 millis pass2 - checking and writing primary data (11018 records, 4 fields): 14 millis CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 08:53:02: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 08:53:21: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7351017/SRX7351017.20_peaks.xls INFO @ Tue, 14 Jul 2020 08:53:21: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7351017/SRX7351017.20_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 08:53:21: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7351017/SRX7351017.20_summits.bed INFO @ Tue, 14 Jul 2020 08:53:21: Done! pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (7888 records, 4 fields): 22 millis CompletedMACS2peakCalling