Job ID = 8069476 SRX = SRX7191471 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-08-08T03:33:11 prefetch.2.10.7: 1) Downloading 'SRR10502455'... 2020-08-08T03:33:11 prefetch.2.10.7: Downloading via HTTPS... 2020-08-08T03:34:26 prefetch.2.10.7: HTTPS download succeed 2020-08-08T03:34:26 prefetch.2.10.7: 'SRR10502455' is valid 2020-08-08T03:34:26 prefetch.2.10.7: 1) 'SRR10502455' was downloaded successfully Read 16748185 spots for SRR10502455/SRR10502455.sra Written 16748185 spots for SRR10502455/SRR10502455.sra fastq に変換しました。 bowtie でマッピング中... Your job 8069890 ("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: 00:04:11 16748185 reads; of these: 16748185 (100.00%) were unpaired; of these: 2679492 (16.00%) aligned 0 times 11455985 (68.40%) aligned exactly 1 time 2612708 (15.60%) aligned >1 times 84.00% overall alignment rate Time searching: 00:04:11 Overall time: 00:04:11 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] 2581343 / 14068693 = 0.1835 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 @ Sat, 08 Aug 2020 12:42:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7191471/SRX7191471.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7191471/SRX7191471.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7191471/SRX7191471.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7191471/SRX7191471.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, 08 Aug 2020 12:42:38: #1 read tag files... INFO @ Sat, 08 Aug 2020 12:42:38: #1 read treatment tags... INFO @ Sat, 08 Aug 2020 12:42:43: 1000000 INFO @ Sat, 08 Aug 2020 12:42:48: 2000000 INFO @ Sat, 08 Aug 2020 12:42:52: 3000000 INFO @ Sat, 08 Aug 2020 12:42:57: 4000000 INFO @ Sat, 08 Aug 2020 12:43:02: 5000000 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 @ Sat, 08 Aug 2020 12:43:07: 6000000 INFO @ Sat, 08 Aug 2020 12:43:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7191471/SRX7191471.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7191471/SRX7191471.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7191471/SRX7191471.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7191471/SRX7191471.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, 08 Aug 2020 12:43:08: #1 read tag files... INFO @ Sat, 08 Aug 2020 12:43:08: #1 read treatment tags... INFO @ Sat, 08 Aug 2020 12:43:12: 7000000 INFO @ Sat, 08 Aug 2020 12:43:13: 1000000 INFO @ Sat, 08 Aug 2020 12:43:17: 8000000 INFO @ Sat, 08 Aug 2020 12:43:18: 2000000 INFO @ Sat, 08 Aug 2020 12:43:22: 9000000 INFO @ Sat, 08 Aug 2020 12:43:23: 3000000 INFO @ Sat, 08 Aug 2020 12:43:28: 10000000 INFO @ Sat, 08 Aug 2020 12:43:28: 4000000 INFO @ Sat, 08 Aug 2020 12:43:33: 11000000 INFO @ Sat, 08 Aug 2020 12:43:33: 5000000 INFO @ Sat, 08 Aug 2020 12:43:35: #1 tag size is determined as 50 bps INFO @ Sat, 08 Aug 2020 12:43:35: #1 tag size = 50 INFO @ Sat, 08 Aug 2020 12:43:35: #1 total tags in treatment: 11487350 INFO @ Sat, 08 Aug 2020 12:43:35: #1 user defined the maximum tags... INFO @ Sat, 08 Aug 2020 12:43:35: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 08 Aug 2020 12:43:35: #1 tags after filtering in treatment: 11487350 INFO @ Sat, 08 Aug 2020 12:43:35: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 08 Aug 2020 12:43:35: #1 finished! INFO @ Sat, 08 Aug 2020 12:43:35: #2 Build Peak Model... INFO @ Sat, 08 Aug 2020 12:43:35: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 08 Aug 2020 12:43:36: #2 number of paired peaks: 2324 INFO @ Sat, 08 Aug 2020 12:43:36: start model_add_line... 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 @ Sat, 08 Aug 2020 12:43:36: start X-correlation... INFO @ Sat, 08 Aug 2020 12:43:36: end of X-cor INFO @ Sat, 08 Aug 2020 12:43:36: #2 finished! INFO @ Sat, 08 Aug 2020 12:43:36: #2 predicted fragment length is 230 bps INFO @ Sat, 08 Aug 2020 12:43:36: #2 alternative fragment length(s) may be 230 bps INFO @ Sat, 08 Aug 2020 12:43:36: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7191471/SRX7191471.05_model.r INFO @ Sat, 08 Aug 2020 12:43:36: #3 Call peaks... INFO @ Sat, 08 Aug 2020 12:43:36: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 08 Aug 2020 12:43:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7191471/SRX7191471.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7191471/SRX7191471.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7191471/SRX7191471.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7191471/SRX7191471.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, 08 Aug 2020 12:43:38: #1 read tag files... INFO @ Sat, 08 Aug 2020 12:43:38: #1 read treatment tags... INFO @ Sat, 08 Aug 2020 12:43:38: 6000000 INFO @ Sat, 08 Aug 2020 12:43:43: 1000000 INFO @ Sat, 08 Aug 2020 12:43:43: 7000000 INFO @ Sat, 08 Aug 2020 12:43:49: 8000000 INFO @ Sat, 08 Aug 2020 12:43:49: 2000000 INFO @ Sat, 08 Aug 2020 12:43:54: 9000000 INFO @ Sat, 08 Aug 2020 12:43:54: 3000000 INFO @ Sat, 08 Aug 2020 12:43:59: 10000000 INFO @ Sat, 08 Aug 2020 12:43:59: 4000000 INFO @ Sat, 08 Aug 2020 12:44:04: 11000000 INFO @ Sat, 08 Aug 2020 12:44:04: 5000000 INFO @ Sat, 08 Aug 2020 12:44:06: #3 Call peaks for each chromosome... INFO @ Sat, 08 Aug 2020 12:44:06: #1 tag size is determined as 50 bps INFO @ Sat, 08 Aug 2020 12:44:06: #1 tag size = 50 INFO @ Sat, 08 Aug 2020 12:44:06: #1 total tags in treatment: 11487350 INFO @ Sat, 08 Aug 2020 12:44:06: #1 user defined the maximum tags... INFO @ Sat, 08 Aug 2020 12:44:06: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 08 Aug 2020 12:44:06: #1 tags after filtering in treatment: 11487350 INFO @ Sat, 08 Aug 2020 12:44:06: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 08 Aug 2020 12:44:06: #1 finished! INFO @ Sat, 08 Aug 2020 12:44:06: #2 Build Peak Model... INFO @ Sat, 08 Aug 2020 12:44:06: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 08 Aug 2020 12:44:07: #2 number of paired peaks: 2324 INFO @ Sat, 08 Aug 2020 12:44:07: start model_add_line... INFO @ Sat, 08 Aug 2020 12:44:08: start X-correlation... INFO @ Sat, 08 Aug 2020 12:44:08: end of X-cor INFO @ Sat, 08 Aug 2020 12:44:08: #2 finished! INFO @ Sat, 08 Aug 2020 12:44:08: #2 predicted fragment length is 230 bps INFO @ Sat, 08 Aug 2020 12:44:08: #2 alternative fragment length(s) may be 230 bps INFO @ Sat, 08 Aug 2020 12:44:08: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7191471/SRX7191471.10_model.r INFO @ Sat, 08 Aug 2020 12:44:08: #3 Call peaks... INFO @ Sat, 08 Aug 2020 12:44:08: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 08 Aug 2020 12:44:09: 6000000 INFO @ Sat, 08 Aug 2020 12:44:14: 7000000 INFO @ Sat, 08 Aug 2020 12:44:19: 8000000 INFO @ Sat, 08 Aug 2020 12:44:20: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7191471/SRX7191471.05_peaks.xls INFO @ Sat, 08 Aug 2020 12:44:20: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7191471/SRX7191471.05_peaks.narrowPeak INFO @ Sat, 08 Aug 2020 12:44:20: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7191471/SRX7191471.05_summits.bed INFO @ Sat, 08 Aug 2020 12:44:20: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (9699 records, 4 fields): 10 millis CompletedMACS2peakCalling INFO @ Sat, 08 Aug 2020 12:44:24: 9000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 08 Aug 2020 12:44:29: 10000000 INFO @ Sat, 08 Aug 2020 12:44:34: 11000000 INFO @ Sat, 08 Aug 2020 12:44:36: #3 Call peaks for each chromosome... INFO @ Sat, 08 Aug 2020 12:44:36: #1 tag size is determined as 50 bps INFO @ Sat, 08 Aug 2020 12:44:36: #1 tag size = 50 INFO @ Sat, 08 Aug 2020 12:44:36: #1 total tags in treatment: 11487350 INFO @ Sat, 08 Aug 2020 12:44:36: #1 user defined the maximum tags... INFO @ Sat, 08 Aug 2020 12:44:36: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 08 Aug 2020 12:44:37: #1 tags after filtering in treatment: 11487350 INFO @ Sat, 08 Aug 2020 12:44:37: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 08 Aug 2020 12:44:37: #1 finished! INFO @ Sat, 08 Aug 2020 12:44:37: #2 Build Peak Model... INFO @ Sat, 08 Aug 2020 12:44:37: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 08 Aug 2020 12:44:38: #2 number of paired peaks: 2324 INFO @ Sat, 08 Aug 2020 12:44:38: start model_add_line... INFO @ Sat, 08 Aug 2020 12:44:38: start X-correlation... INFO @ Sat, 08 Aug 2020 12:44:38: end of X-cor INFO @ Sat, 08 Aug 2020 12:44:38: #2 finished! INFO @ Sat, 08 Aug 2020 12:44:38: #2 predicted fragment length is 230 bps INFO @ Sat, 08 Aug 2020 12:44:38: #2 alternative fragment length(s) may be 230 bps INFO @ Sat, 08 Aug 2020 12:44:38: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7191471/SRX7191471.20_model.r INFO @ Sat, 08 Aug 2020 12:44:38: #3 Call peaks... INFO @ Sat, 08 Aug 2020 12:44:38: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 08 Aug 2020 12:44:50: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7191471/SRX7191471.10_peaks.xls INFO @ Sat, 08 Aug 2020 12:44:50: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7191471/SRX7191471.10_peaks.narrowPeak INFO @ Sat, 08 Aug 2020 12:44:50: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7191471/SRX7191471.10_summits.bed INFO @ Sat, 08 Aug 2020 12:44:50: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (6714 records, 4 fields): 7 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Sat, 08 Aug 2020 12:45:06: #3 Call peaks for each chromosome... INFO @ Sat, 08 Aug 2020 12:45:19: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7191471/SRX7191471.20_peaks.xls INFO @ Sat, 08 Aug 2020 12:45:19: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7191471/SRX7191471.20_peaks.narrowPeak INFO @ Sat, 08 Aug 2020 12:45:20: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7191471/SRX7191471.20_summits.bed INFO @ Sat, 08 Aug 2020 12:45:20: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (4237 records, 4 fields): 6 millis CompletedMACS2peakCalling