Job ID = 14168485 SRX = SRX9730755 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 36808411 spots for SRR13301833/SRR13301833.sra Written 36808411 spots for SRR13301833/SRR13301833.sra fastq に変換しました。 bowtie でマッピング中... Your job 14169648 ("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: 00:16:52 36808411 reads; of these: 36808411 (100.00%) were unpaired; of these: 1001917 (2.72%) aligned 0 times 29130271 (79.14%) aligned exactly 1 time 6676223 (18.14%) aligned >1 times 97.28% overall alignment rate Time searching: 00:16:52 Overall time: 00:16:53 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 16 files... [bam_rmdupse_core] 15162219 / 35806494 = 0.4234 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 19:10:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9730755/SRX9730755.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9730755/SRX9730755.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9730755/SRX9730755.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9730755/SRX9730755.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 19:10:34: #1 read tag files... INFO @ Fri, 10 Dec 2021 19:10:34: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 19:10:44: 1000000 INFO @ Fri, 10 Dec 2021 19:10:53: 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 19:11:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9730755/SRX9730755.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9730755/SRX9730755.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9730755/SRX9730755.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9730755/SRX9730755.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 19:11:03: #1 read tag files... INFO @ Fri, 10 Dec 2021 19:11:03: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 19:11:03: 3000000 INFO @ Fri, 10 Dec 2021 19:11:12: 1000000 INFO @ Fri, 10 Dec 2021 19:11:13: 4000000 INFO @ Fri, 10 Dec 2021 19:11:21: 2000000 INFO @ Fri, 10 Dec 2021 19:11:23: 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 19:11:31: 3000000 INFO @ Fri, 10 Dec 2021 19:11:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9730755/SRX9730755.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9730755/SRX9730755.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9730755/SRX9730755.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9730755/SRX9730755.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 19:11:33: #1 read tag files... INFO @ Fri, 10 Dec 2021 19:11:33: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 19:11:33: 6000000 INFO @ Fri, 10 Dec 2021 19:11:41: 4000000 INFO @ Fri, 10 Dec 2021 19:11:42: 1000000 INFO @ Fri, 10 Dec 2021 19:11:43: 7000000 INFO @ Fri, 10 Dec 2021 19:11:51: 2000000 INFO @ Fri, 10 Dec 2021 19:11:51: 5000000 INFO @ Fri, 10 Dec 2021 19:11:52: 8000000 INFO @ Fri, 10 Dec 2021 19:12:01: 6000000 INFO @ Fri, 10 Dec 2021 19:12:01: 3000000 INFO @ Fri, 10 Dec 2021 19:12:01: 9000000 INFO @ Fri, 10 Dec 2021 19:12:10: 7000000 INFO @ Fri, 10 Dec 2021 19:12:10: 10000000 INFO @ Fri, 10 Dec 2021 19:12:11: 4000000 INFO @ Fri, 10 Dec 2021 19:12:19: 11000000 INFO @ Fri, 10 Dec 2021 19:12:20: 8000000 INFO @ Fri, 10 Dec 2021 19:12:20: 5000000 INFO @ Fri, 10 Dec 2021 19:12:29: 9000000 INFO @ Fri, 10 Dec 2021 19:12:29: 6000000 INFO @ Fri, 10 Dec 2021 19:12:29: 12000000 INFO @ Fri, 10 Dec 2021 19:12:38: 10000000 INFO @ Fri, 10 Dec 2021 19:12:38: 7000000 INFO @ Fri, 10 Dec 2021 19:12:38: 13000000 INFO @ Fri, 10 Dec 2021 19:12:47: 8000000 INFO @ Fri, 10 Dec 2021 19:12:47: 11000000 INFO @ Fri, 10 Dec 2021 19:12:48: 14000000 INFO @ Fri, 10 Dec 2021 19:12:56: 9000000 INFO @ Fri, 10 Dec 2021 19:12:57: 12000000 INFO @ Fri, 10 Dec 2021 19:12:58: 15000000 INFO @ Fri, 10 Dec 2021 19:13:04: 10000000 INFO @ Fri, 10 Dec 2021 19:13:06: 13000000 INFO @ Fri, 10 Dec 2021 19:13:08: 16000000 INFO @ Fri, 10 Dec 2021 19:13:13: 11000000 INFO @ Fri, 10 Dec 2021 19:13:16: 14000000 INFO @ Fri, 10 Dec 2021 19:13:17: 17000000 INFO @ Fri, 10 Dec 2021 19:13:23: 12000000 INFO @ Fri, 10 Dec 2021 19:13:26: 15000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 10 Dec 2021 19:13:27: 18000000 INFO @ Fri, 10 Dec 2021 19:13:32: 13000000 INFO @ Fri, 10 Dec 2021 19:13:36: 16000000 INFO @ Fri, 10 Dec 2021 19:13:36: 19000000 INFO @ Fri, 10 Dec 2021 19:13:42: 14000000 INFO @ Fri, 10 Dec 2021 19:13:45: 17000000 INFO @ Fri, 10 Dec 2021 19:13:46: 20000000 INFO @ Fri, 10 Dec 2021 19:13:51: 15000000 INFO @ Fri, 10 Dec 2021 19:13:52: #1 tag size is determined as 75 bps INFO @ Fri, 10 Dec 2021 19:13:52: #1 tag size = 75 INFO @ Fri, 10 Dec 2021 19:13:52: #1 total tags in treatment: 20644275 INFO @ Fri, 10 Dec 2021 19:13:52: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 19:13:52: #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 19:13:52: #1 tags after filtering in treatment: 20644275 INFO @ Fri, 10 Dec 2021 19:13:52: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 19:13:52: #1 finished! INFO @ Fri, 10 Dec 2021 19:13:52: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 19:13:52: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 19:13:55: 18000000 INFO @ Fri, 10 Dec 2021 19:13:55: #2 number of paired peaks: 9684 INFO @ Fri, 10 Dec 2021 19:13:55: start model_add_line... INFO @ Fri, 10 Dec 2021 19:13:56: start X-correlation... INFO @ Fri, 10 Dec 2021 19:13:56: end of X-cor INFO @ Fri, 10 Dec 2021 19:13:56: #2 finished! INFO @ Fri, 10 Dec 2021 19:13:56: #2 predicted fragment length is 201 bps INFO @ Fri, 10 Dec 2021 19:13:56: #2 alternative fragment length(s) may be 201 bps INFO @ Fri, 10 Dec 2021 19:13:56: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9730755/SRX9730755.05_model.r INFO @ Fri, 10 Dec 2021 19:13:56: #3 Call peaks... INFO @ Fri, 10 Dec 2021 19:13:56: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 19:14:00: 16000000 INFO @ Fri, 10 Dec 2021 19:14:04: 19000000 INFO @ Fri, 10 Dec 2021 19:14:09: 17000000 BigWig に変換しました。 INFO @ Fri, 10 Dec 2021 19:14:14: 20000000 INFO @ Fri, 10 Dec 2021 19:14:18: 18000000 INFO @ Fri, 10 Dec 2021 19:14:20: #1 tag size is determined as 75 bps INFO @ Fri, 10 Dec 2021 19:14:20: #1 tag size = 75 INFO @ Fri, 10 Dec 2021 19:14:20: #1 total tags in treatment: 20644275 INFO @ Fri, 10 Dec 2021 19:14:20: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 19:14:20: #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 19:14:21: #1 tags after filtering in treatment: 20644275 INFO @ Fri, 10 Dec 2021 19:14:21: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 19:14:21: #1 finished! INFO @ Fri, 10 Dec 2021 19:14:21: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 19:14:21: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 19:14:24: #2 number of paired peaks: 9684 INFO @ Fri, 10 Dec 2021 19:14:24: start model_add_line... INFO @ Fri, 10 Dec 2021 19:14:24: start X-correlation... INFO @ Fri, 10 Dec 2021 19:14:24: end of X-cor INFO @ Fri, 10 Dec 2021 19:14:24: #2 finished! INFO @ Fri, 10 Dec 2021 19:14:24: #2 predicted fragment length is 201 bps INFO @ Fri, 10 Dec 2021 19:14:24: #2 alternative fragment length(s) may be 201 bps INFO @ Fri, 10 Dec 2021 19:14:24: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9730755/SRX9730755.10_model.r INFO @ Fri, 10 Dec 2021 19:14:24: #3 Call peaks... INFO @ Fri, 10 Dec 2021 19:14:24: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 19:14:27: 19000000 INFO @ Fri, 10 Dec 2021 19:14:36: 20000000 INFO @ Fri, 10 Dec 2021 19:14:42: #1 tag size is determined as 75 bps INFO @ Fri, 10 Dec 2021 19:14:42: #1 tag size = 75 INFO @ Fri, 10 Dec 2021 19:14:42: #1 total tags in treatment: 20644275 INFO @ Fri, 10 Dec 2021 19:14:42: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 19:14:42: #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 19:14:42: #1 tags after filtering in treatment: 20644275 INFO @ Fri, 10 Dec 2021 19:14:42: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 19:14:42: #1 finished! INFO @ Fri, 10 Dec 2021 19:14:42: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 19:14:42: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 19:14:45: #2 number of paired peaks: 9684 INFO @ Fri, 10 Dec 2021 19:14:45: start model_add_line... INFO @ Fri, 10 Dec 2021 19:14:46: start X-correlation... INFO @ Fri, 10 Dec 2021 19:14:46: end of X-cor INFO @ Fri, 10 Dec 2021 19:14:46: #2 finished! INFO @ Fri, 10 Dec 2021 19:14:46: #2 predicted fragment length is 201 bps INFO @ Fri, 10 Dec 2021 19:14:46: #2 alternative fragment length(s) may be 201 bps INFO @ Fri, 10 Dec 2021 19:14:46: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9730755/SRX9730755.20_model.r INFO @ Fri, 10 Dec 2021 19:14:46: #3 Call peaks... INFO @ Fri, 10 Dec 2021 19:14:46: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 19:15:14: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 19:15:37: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9730755/SRX9730755.05_peaks.xls INFO @ Fri, 10 Dec 2021 19:15:37: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9730755/SRX9730755.05_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 19:15:37: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9730755/SRX9730755.05_summits.bed INFO @ Fri, 10 Dec 2021 19:15:37: Done! pass1 - making usageList (14 chroms): 6 millis pass2 - checking and writing primary data (10515 records, 4 fields): 21 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 19:15:46: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 19:16:05: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 19:16:15: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9730755/SRX9730755.10_peaks.xls INFO @ Fri, 10 Dec 2021 19:16:15: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9730755/SRX9730755.10_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 19:16:15: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9730755/SRX9730755.10_summits.bed INFO @ Fri, 10 Dec 2021 19:16:15: Done! pass1 - making usageList (14 chroms): 3 millis pass2 - checking and writing primary data (8857 records, 4 fields): 21 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 19:16:30: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9730755/SRX9730755.20_peaks.xls INFO @ Fri, 10 Dec 2021 19:16:30: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9730755/SRX9730755.20_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 19:16:30: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9730755/SRX9730755.20_summits.bed INFO @ Fri, 10 Dec 2021 19:16:30: Done! pass1 - making usageList (14 chroms): 2 millis pass2 - checking and writing primary data (6792 records, 4 fields): 11 millis CompletedMACS2peakCalling