Job ID = 14168466 SRX = SRX9730751 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 23339864 spots for SRR13301829/SRR13301829.sra Written 23339864 spots for SRR13301829/SRR13301829.sra fastq に変換しました。 bowtie でマッピング中... Your job 14169621 ("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: 00:10:33 23339864 reads; of these: 23339864 (100.00%) were unpaired; of these: 599615 (2.57%) aligned 0 times 18186105 (77.92%) aligned exactly 1 time 4554144 (19.51%) aligned >1 times 97.43% overall alignment rate Time searching: 00:10:34 Overall time: 00:10:34 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 12 files... [bam_rmdupse_core] 8353758 / 22740249 = 0.3674 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 18:53:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9730751/SRX9730751.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9730751/SRX9730751.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9730751/SRX9730751.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9730751/SRX9730751.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 18:53:43: #1 read tag files... INFO @ Fri, 10 Dec 2021 18:53:43: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 18:53:54: 1000000 INFO @ Fri, 10 Dec 2021 18:54:05: 2000000 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 18:54:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9730751/SRX9730751.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9730751/SRX9730751.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9730751/SRX9730751.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9730751/SRX9730751.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 18:54:12: #1 read tag files... INFO @ Fri, 10 Dec 2021 18:54:12: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 18:54:16: 3000000 INFO @ Fri, 10 Dec 2021 18:54:25: 1000000 INFO @ Fri, 10 Dec 2021 18:54:28: 4000000 INFO @ Fri, 10 Dec 2021 18:54:37: 2000000 INFO @ Fri, 10 Dec 2021 18:54:39: 5000000 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 18:54:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9730751/SRX9730751.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9730751/SRX9730751.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9730751/SRX9730751.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9730751/SRX9730751.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 18:54:42: #1 read tag files... INFO @ Fri, 10 Dec 2021 18:54:42: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 18:54:49: 3000000 INFO @ Fri, 10 Dec 2021 18:54:51: 6000000 INFO @ Fri, 10 Dec 2021 18:54:54: 1000000 INFO @ Fri, 10 Dec 2021 18:55:01: 4000000 INFO @ Fri, 10 Dec 2021 18:55:02: 2000000 INFO @ Fri, 10 Dec 2021 18:55:03: 7000000 INFO @ Fri, 10 Dec 2021 18:55:10: 3000000 INFO @ Fri, 10 Dec 2021 18:55:13: 5000000 INFO @ Fri, 10 Dec 2021 18:55:16: 8000000 INFO @ Fri, 10 Dec 2021 18:55:19: 4000000 INFO @ Fri, 10 Dec 2021 18:55:25: 6000000 INFO @ Fri, 10 Dec 2021 18:55:26: 5000000 INFO @ Fri, 10 Dec 2021 18:55:27: 9000000 INFO @ Fri, 10 Dec 2021 18:55:34: 6000000 INFO @ Fri, 10 Dec 2021 18:55:37: 7000000 INFO @ Fri, 10 Dec 2021 18:55:40: 10000000 INFO @ Fri, 10 Dec 2021 18:55:43: 7000000 INFO @ Fri, 10 Dec 2021 18:55:49: 8000000 INFO @ Fri, 10 Dec 2021 18:55:51: 8000000 INFO @ Fri, 10 Dec 2021 18:55:52: 11000000 INFO @ Fri, 10 Dec 2021 18:56:00: 9000000 INFO @ Fri, 10 Dec 2021 18:56:01: 9000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 10 Dec 2021 18:56:04: 12000000 INFO @ Fri, 10 Dec 2021 18:56:09: 10000000 INFO @ Fri, 10 Dec 2021 18:56:12: 10000000 INFO @ Fri, 10 Dec 2021 18:56:16: 13000000 INFO @ Fri, 10 Dec 2021 18:56:17: 11000000 INFO @ Fri, 10 Dec 2021 18:56:23: 11000000 INFO @ Fri, 10 Dec 2021 18:56:25: 12000000 INFO @ Fri, 10 Dec 2021 18:56:28: 14000000 INFO @ Fri, 10 Dec 2021 18:56:33: #1 tag size is determined as 75 bps INFO @ Fri, 10 Dec 2021 18:56:33: #1 tag size = 75 INFO @ Fri, 10 Dec 2021 18:56:33: #1 total tags in treatment: 14386491 INFO @ Fri, 10 Dec 2021 18:56:33: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 18:56:33: #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 18:56:33: #1 tags after filtering in treatment: 14386491 INFO @ Fri, 10 Dec 2021 18:56:33: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 18:56:33: #1 finished! INFO @ Fri, 10 Dec 2021 18:56:33: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 18:56:33: #2 looking for paired plus/minus strand peaks... BigWig に変換しました。 INFO @ Fri, 10 Dec 2021 18:56:33: 13000000 INFO @ Fri, 10 Dec 2021 18:56:34: 12000000 INFO @ Fri, 10 Dec 2021 18:56:35: #2 number of paired peaks: 10391 INFO @ Fri, 10 Dec 2021 18:56:35: start model_add_line... INFO @ Fri, 10 Dec 2021 18:56:36: start X-correlation... INFO @ Fri, 10 Dec 2021 18:56:36: end of X-cor INFO @ Fri, 10 Dec 2021 18:56:36: #2 finished! INFO @ Fri, 10 Dec 2021 18:56:36: #2 predicted fragment length is 189 bps INFO @ Fri, 10 Dec 2021 18:56:36: #2 alternative fragment length(s) may be 189 bps INFO @ Fri, 10 Dec 2021 18:56:36: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9730751/SRX9730751.05_model.r INFO @ Fri, 10 Dec 2021 18:56:36: #3 Call peaks... INFO @ Fri, 10 Dec 2021 18:56:36: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 18:56:42: 14000000 INFO @ Fri, 10 Dec 2021 18:56:45: #1 tag size is determined as 75 bps INFO @ Fri, 10 Dec 2021 18:56:45: #1 tag size = 75 INFO @ Fri, 10 Dec 2021 18:56:45: #1 total tags in treatment: 14386491 INFO @ Fri, 10 Dec 2021 18:56:45: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 18:56:45: #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 18:56:45: #1 tags after filtering in treatment: 14386491 INFO @ Fri, 10 Dec 2021 18:56:45: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 18:56:45: #1 finished! INFO @ Fri, 10 Dec 2021 18:56:45: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 18:56:45: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 18:56:45: 13000000 INFO @ Fri, 10 Dec 2021 18:56:47: #2 number of paired peaks: 10391 INFO @ Fri, 10 Dec 2021 18:56:47: start model_add_line... INFO @ Fri, 10 Dec 2021 18:56:48: start X-correlation... INFO @ Fri, 10 Dec 2021 18:56:48: end of X-cor INFO @ Fri, 10 Dec 2021 18:56:48: #2 finished! INFO @ Fri, 10 Dec 2021 18:56:48: #2 predicted fragment length is 189 bps INFO @ Fri, 10 Dec 2021 18:56:48: #2 alternative fragment length(s) may be 189 bps INFO @ Fri, 10 Dec 2021 18:56:48: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9730751/SRX9730751.20_model.r INFO @ Fri, 10 Dec 2021 18:56:48: #3 Call peaks... INFO @ Fri, 10 Dec 2021 18:56:48: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 18:56:56: 14000000 INFO @ Fri, 10 Dec 2021 18:56:59: #1 tag size is determined as 75 bps INFO @ Fri, 10 Dec 2021 18:56:59: #1 tag size = 75 INFO @ Fri, 10 Dec 2021 18:56:59: #1 total tags in treatment: 14386491 INFO @ Fri, 10 Dec 2021 18:56:59: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 18:56:59: #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 18:57:00: #1 tags after filtering in treatment: 14386491 INFO @ Fri, 10 Dec 2021 18:57:00: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 18:57:00: #1 finished! INFO @ Fri, 10 Dec 2021 18:57:00: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 18:57:00: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 18:57:02: #2 number of paired peaks: 10391 INFO @ Fri, 10 Dec 2021 18:57:02: start model_add_line... INFO @ Fri, 10 Dec 2021 18:57:03: start X-correlation... INFO @ Fri, 10 Dec 2021 18:57:03: end of X-cor INFO @ Fri, 10 Dec 2021 18:57:03: #2 finished! INFO @ Fri, 10 Dec 2021 18:57:03: #2 predicted fragment length is 189 bps INFO @ Fri, 10 Dec 2021 18:57:03: #2 alternative fragment length(s) may be 189 bps INFO @ Fri, 10 Dec 2021 18:57:03: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9730751/SRX9730751.10_model.r INFO @ Fri, 10 Dec 2021 18:57:03: #3 Call peaks... INFO @ Fri, 10 Dec 2021 18:57:03: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 18:57:33: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 18:57:44: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 18:57:53: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9730751/SRX9730751.05_peaks.xls INFO @ Fri, 10 Dec 2021 18:57:53: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9730751/SRX9730751.05_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 18:57:53: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9730751/SRX9730751.05_summits.bed INFO @ Fri, 10 Dec 2021 18:57:53: Done! pass1 - making usageList (14 chroms): 5 millis pass2 - checking and writing primary data (9803 records, 4 fields): 17 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 18:58:00: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 18:58:01: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9730751/SRX9730751.20_peaks.xls INFO @ Fri, 10 Dec 2021 18:58:02: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9730751/SRX9730751.20_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 18:58:02: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9730751/SRX9730751.20_summits.bed INFO @ Fri, 10 Dec 2021 18:58:02: Done! pass1 - making usageList (14 chroms): 3 millis pass2 - checking and writing primary data (6792 records, 4 fields): 18 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 18:58:19: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9730751/SRX9730751.10_peaks.xls INFO @ Fri, 10 Dec 2021 18:58:19: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9730751/SRX9730751.10_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 18:58:19: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9730751/SRX9730751.10_summits.bed INFO @ Fri, 10 Dec 2021 18:58:19: Done! pass1 - making usageList (14 chroms): 2 millis pass2 - checking and writing primary data (8376 records, 4 fields): 13 millis CompletedMACS2peakCalling