Job ID = 14172057 SRX = SRX10089757 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 28266790 spots for SRR13700644/SRR13700644.sra Written 28266790 spots for SRR13700644/SRR13700644.sra fastq に変換しました。 bowtie でマッピング中... Your job 14172516 ("srTdm6") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:01 Multiseed full-index search: 00:06:15 28266790 reads; of these: 28266790 (100.00%) were unpaired; of these: 4517096 (15.98%) aligned 0 times 20228153 (71.56%) aligned exactly 1 time 3521541 (12.46%) aligned >1 times 84.02% overall alignment rate Time searching: 00:06:16 Overall time: 00:06:16 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] 7203292 / 23749694 = 0.3033 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 @ Sat, 11 Dec 2021 14:07:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX10089757/SRX10089757.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX10089757/SRX10089757.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX10089757/SRX10089757.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX10089757/SRX10089757.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, 11 Dec 2021 14:07:26: #1 read tag files... INFO @ Sat, 11 Dec 2021 14:07:26: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 14:07:35: 1000000 INFO @ Sat, 11 Dec 2021 14:07:43: 2000000 INFO @ Sat, 11 Dec 2021 14:07:50: 3000000 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 @ Sat, 11 Dec 2021 14:07:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX10089757/SRX10089757.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX10089757/SRX10089757.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX10089757/SRX10089757.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX10089757/SRX10089757.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, 11 Dec 2021 14:07:56: #1 read tag files... INFO @ Sat, 11 Dec 2021 14:07:56: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 14:07:58: 4000000 INFO @ Sat, 11 Dec 2021 14:08:04: 1000000 INFO @ Sat, 11 Dec 2021 14:08:06: 5000000 INFO @ Sat, 11 Dec 2021 14:08:11: 2000000 INFO @ Sat, 11 Dec 2021 14:08:14: 6000000 INFO @ Sat, 11 Dec 2021 14:08:19: 3000000 INFO @ Sat, 11 Dec 2021 14:08:22: 7000000 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 @ Sat, 11 Dec 2021 14:08:26: 4000000 INFO @ Sat, 11 Dec 2021 14:08:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX10089757/SRX10089757.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX10089757/SRX10089757.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX10089757/SRX10089757.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX10089757/SRX10089757.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, 11 Dec 2021 14:08:26: #1 read tag files... INFO @ Sat, 11 Dec 2021 14:08:26: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 14:08:30: 8000000 INFO @ Sat, 11 Dec 2021 14:08:34: 5000000 INFO @ Sat, 11 Dec 2021 14:08:35: 1000000 INFO @ Sat, 11 Dec 2021 14:08:38: 9000000 INFO @ Sat, 11 Dec 2021 14:08:41: 6000000 INFO @ Sat, 11 Dec 2021 14:08:43: 2000000 INFO @ Sat, 11 Dec 2021 14:08:45: 10000000 INFO @ Sat, 11 Dec 2021 14:08:48: 7000000 INFO @ Sat, 11 Dec 2021 14:08:51: 3000000 INFO @ Sat, 11 Dec 2021 14:08:53: 11000000 INFO @ Sat, 11 Dec 2021 14:08:55: 8000000 INFO @ Sat, 11 Dec 2021 14:08:58: 4000000 INFO @ Sat, 11 Dec 2021 14:09:01: 12000000 INFO @ Sat, 11 Dec 2021 14:09:03: 9000000 INFO @ Sat, 11 Dec 2021 14:09:06: 5000000 INFO @ Sat, 11 Dec 2021 14:09:09: 13000000 INFO @ Sat, 11 Dec 2021 14:09:10: 10000000 INFO @ Sat, 11 Dec 2021 14:09:14: 6000000 INFO @ Sat, 11 Dec 2021 14:09:17: 11000000 INFO @ Sat, 11 Dec 2021 14:09:17: 14000000 INFO @ Sat, 11 Dec 2021 14:09:22: 7000000 INFO @ Sat, 11 Dec 2021 14:09:24: 12000000 INFO @ Sat, 11 Dec 2021 14:09:25: 15000000 INFO @ Sat, 11 Dec 2021 14:09:30: 8000000 INFO @ Sat, 11 Dec 2021 14:09:31: 13000000 INFO @ Sat, 11 Dec 2021 14:09:33: 16000000 INFO @ Sat, 11 Dec 2021 14:09:37: #1 tag size is determined as 40 bps INFO @ Sat, 11 Dec 2021 14:09:37: #1 tag size = 40 INFO @ Sat, 11 Dec 2021 14:09:37: #1 total tags in treatment: 16546402 INFO @ Sat, 11 Dec 2021 14:09:37: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 14:09:37: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 14:09:38: #1 tags after filtering in treatment: 16546402 INFO @ Sat, 11 Dec 2021 14:09:38: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 14:09:38: #1 finished! INFO @ Sat, 11 Dec 2021 14:09:38: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 14:09:38: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 14:09:38: 9000000 INFO @ Sat, 11 Dec 2021 14:09:38: 14000000 INFO @ Sat, 11 Dec 2021 14:09:39: #2 number of paired peaks: 1530 INFO @ Sat, 11 Dec 2021 14:09:39: start model_add_line... INFO @ Sat, 11 Dec 2021 14:09:39: start X-correlation... INFO @ Sat, 11 Dec 2021 14:09:39: end of X-cor INFO @ Sat, 11 Dec 2021 14:09:39: #2 finished! INFO @ Sat, 11 Dec 2021 14:09:39: #2 predicted fragment length is 206 bps INFO @ Sat, 11 Dec 2021 14:09:39: #2 alternative fragment length(s) may be 206 bps INFO @ Sat, 11 Dec 2021 14:09:39: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX10089757/SRX10089757.05_model.r INFO @ Sat, 11 Dec 2021 14:09:39: #3 Call peaks... INFO @ Sat, 11 Dec 2021 14:09:39: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 14:09:45: 15000000 INFO @ Sat, 11 Dec 2021 14:09:45: 10000000 INFO @ Sat, 11 Dec 2021 14:09:53: 16000000 INFO @ Sat, 11 Dec 2021 14:09:53: 11000000 INFO @ Sat, 11 Dec 2021 14:09:57: #1 tag size is determined as 40 bps INFO @ Sat, 11 Dec 2021 14:09:57: #1 tag size = 40 INFO @ Sat, 11 Dec 2021 14:09:57: #1 total tags in treatment: 16546402 INFO @ Sat, 11 Dec 2021 14:09:57: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 14:09:57: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 14:09:57: #1 tags after filtering in treatment: 16546402 INFO @ Sat, 11 Dec 2021 14:09:57: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 14:09:57: #1 finished! INFO @ Sat, 11 Dec 2021 14:09:57: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 14:09:57: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 14:09:59: #2 number of paired peaks: 1530 INFO @ Sat, 11 Dec 2021 14:09:59: start model_add_line... INFO @ Sat, 11 Dec 2021 14:09:59: start X-correlation... INFO @ Sat, 11 Dec 2021 14:09:59: end of X-cor INFO @ Sat, 11 Dec 2021 14:09:59: #2 finished! INFO @ Sat, 11 Dec 2021 14:09:59: #2 predicted fragment length is 206 bps INFO @ Sat, 11 Dec 2021 14:09:59: #2 alternative fragment length(s) may be 206 bps INFO @ Sat, 11 Dec 2021 14:09:59: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX10089757/SRX10089757.10_model.r INFO @ Sat, 11 Dec 2021 14:09:59: #3 Call peaks... INFO @ Sat, 11 Dec 2021 14:09:59: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 14:10:01: 12000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 14:10:08: 13000000 INFO @ Sat, 11 Dec 2021 14:10:17: 14000000 INFO @ Sat, 11 Dec 2021 14:10:21: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 14:10:25: 15000000 INFO @ Sat, 11 Dec 2021 14:10:32: 16000000 INFO @ Sat, 11 Dec 2021 14:10:36: #1 tag size is determined as 40 bps INFO @ Sat, 11 Dec 2021 14:10:36: #1 tag size = 40 INFO @ Sat, 11 Dec 2021 14:10:36: #1 total tags in treatment: 16546402 INFO @ Sat, 11 Dec 2021 14:10:36: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 14:10:36: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 14:10:37: #1 tags after filtering in treatment: 16546402 INFO @ Sat, 11 Dec 2021 14:10:37: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 14:10:37: #1 finished! INFO @ Sat, 11 Dec 2021 14:10:37: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 14:10:37: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 14:10:38: #2 number of paired peaks: 1530 INFO @ Sat, 11 Dec 2021 14:10:38: start model_add_line... INFO @ Sat, 11 Dec 2021 14:10:38: start X-correlation... INFO @ Sat, 11 Dec 2021 14:10:38: end of X-cor INFO @ Sat, 11 Dec 2021 14:10:38: #2 finished! INFO @ Sat, 11 Dec 2021 14:10:38: #2 predicted fragment length is 206 bps INFO @ Sat, 11 Dec 2021 14:10:38: #2 alternative fragment length(s) may be 206 bps INFO @ Sat, 11 Dec 2021 14:10:38: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX10089757/SRX10089757.20_model.r INFO @ Sat, 11 Dec 2021 14:10:38: #3 Call peaks... INFO @ Sat, 11 Dec 2021 14:10:38: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 14:10:41: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 14:10:43: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX10089757/SRX10089757.05_peaks.xls INFO @ Sat, 11 Dec 2021 14:10:43: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX10089757/SRX10089757.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 14:10:43: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX10089757/SRX10089757.05_summits.bed INFO @ Sat, 11 Dec 2021 14:10:43: Done! pass1 - making usageList (14 chroms): 2 millis pass2 - checking and writing primary data (8957 records, 4 fields): 13 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 14:11:04: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX10089757/SRX10089757.10_peaks.xls INFO @ Sat, 11 Dec 2021 14:11:04: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX10089757/SRX10089757.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 14:11:04: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX10089757/SRX10089757.10_summits.bed INFO @ Sat, 11 Dec 2021 14:11:04: Done! pass1 - making usageList (12 chroms): 1 millis pass2 - checking and writing primary data (6201 records, 4 fields): 10 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 14:11:20: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 14:11:42: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX10089757/SRX10089757.20_peaks.xls INFO @ Sat, 11 Dec 2021 14:11:42: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX10089757/SRX10089757.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 14:11:42: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX10089757/SRX10089757.20_summits.bed INFO @ Sat, 11 Dec 2021 14:11:42: Done! pass1 - making usageList (12 chroms): 1 millis pass2 - checking and writing primary data (3758 records, 4 fields): 7 millis CompletedMACS2peakCalling