Job ID = 6626538 SRX = SRX6813076 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 13982318 spots for SRR10080066/SRR10080066.sra Written 13982318 spots for SRR10080066/SRR10080066.sra fastq に変換しました。 bowtie でマッピング中... Your job 6626662 ("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: 00:02:50 13982318 reads; of these: 13982318 (100.00%) were unpaired; of these: 2496625 (17.86%) aligned 0 times 10781177 (77.11%) aligned exactly 1 time 704516 (5.04%) aligned >1 times 82.14% overall alignment rate Time searching: 00:02:50 Overall time: 00:02:50 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] 1940508 / 11485693 = 0.1690 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 07:29:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX6813076/SRX6813076.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX6813076/SRX6813076.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX6813076/SRX6813076.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX6813076/SRX6813076.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 07:29:13: #1 read tag files... INFO @ Tue, 14 Jul 2020 07:29:13: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 07:29:18: 1000000 INFO @ Tue, 14 Jul 2020 07:29:24: 2000000 INFO @ Tue, 14 Jul 2020 07:29:29: 3000000 INFO @ Tue, 14 Jul 2020 07:29:35: 4000000 INFO @ Tue, 14 Jul 2020 07:29:40: 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 @ Tue, 14 Jul 2020 07:29:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX6813076/SRX6813076.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX6813076/SRX6813076.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX6813076/SRX6813076.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX6813076/SRX6813076.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 07:29:43: #1 read tag files... INFO @ Tue, 14 Jul 2020 07:29:43: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 07:29:45: 6000000 INFO @ Tue, 14 Jul 2020 07:29:49: 1000000 INFO @ Tue, 14 Jul 2020 07:29:51: 7000000 INFO @ Tue, 14 Jul 2020 07:29:55: 2000000 INFO @ Tue, 14 Jul 2020 07:29:56: 8000000 INFO @ Tue, 14 Jul 2020 07:30:00: 3000000 INFO @ Tue, 14 Jul 2020 07:30:02: 9000000 INFO @ Tue, 14 Jul 2020 07:30:05: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 07:30:05: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 07:30:05: #1 total tags in treatment: 9545185 INFO @ Tue, 14 Jul 2020 07:30:05: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 07:30:05: #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 07:30:05: #1 tags after filtering in treatment: 9545185 INFO @ Tue, 14 Jul 2020 07:30:05: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 07:30:05: #1 finished! INFO @ Tue, 14 Jul 2020 07:30:05: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 07:30:05: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 07:30:06: 4000000 INFO @ Tue, 14 Jul 2020 07:30:07: #2 number of paired peaks: 14776 INFO @ Tue, 14 Jul 2020 07:30:07: start model_add_line... INFO @ Tue, 14 Jul 2020 07:30:07: start X-correlation... INFO @ Tue, 14 Jul 2020 07:30:07: end of X-cor INFO @ Tue, 14 Jul 2020 07:30:07: #2 finished! INFO @ Tue, 14 Jul 2020 07:30:07: #2 predicted fragment length is 230 bps INFO @ Tue, 14 Jul 2020 07:30:07: #2 alternative fragment length(s) may be 230 bps INFO @ Tue, 14 Jul 2020 07:30:07: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX6813076/SRX6813076.05_model.r INFO @ Tue, 14 Jul 2020 07:30:07: #3 Call peaks... INFO @ Tue, 14 Jul 2020 07:30:07: #3 Pre-compute pvalue-qvalue table... 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 07:30:11: 5000000 INFO @ Tue, 14 Jul 2020 07:30:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX6813076/SRX6813076.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX6813076/SRX6813076.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX6813076/SRX6813076.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX6813076/SRX6813076.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 07:30:13: #1 read tag files... INFO @ Tue, 14 Jul 2020 07:30:13: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 07:30:17: 6000000 INFO @ Tue, 14 Jul 2020 07:30:19: 1000000 INFO @ Tue, 14 Jul 2020 07:30:23: 7000000 INFO @ Tue, 14 Jul 2020 07:30:26: 2000000 INFO @ Tue, 14 Jul 2020 07:30:29: 8000000 INFO @ Tue, 14 Jul 2020 07:30:33: 3000000 INFO @ Tue, 14 Jul 2020 07:30:34: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 07:30:35: 9000000 INFO @ Tue, 14 Jul 2020 07:30:38: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 07:30:38: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 07:30:38: #1 total tags in treatment: 9545185 INFO @ Tue, 14 Jul 2020 07:30:38: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 07:30:38: #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 07:30:38: #1 tags after filtering in treatment: 9545185 INFO @ Tue, 14 Jul 2020 07:30:38: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 07:30:38: #1 finished! INFO @ Tue, 14 Jul 2020 07:30:38: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 07:30:38: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 07:30:40: #2 number of paired peaks: 14776 INFO @ Tue, 14 Jul 2020 07:30:40: start model_add_line... INFO @ Tue, 14 Jul 2020 07:30:40: start X-correlation... INFO @ Tue, 14 Jul 2020 07:30:40: end of X-cor INFO @ Tue, 14 Jul 2020 07:30:40: #2 finished! INFO @ Tue, 14 Jul 2020 07:30:40: #2 predicted fragment length is 230 bps INFO @ Tue, 14 Jul 2020 07:30:40: #2 alternative fragment length(s) may be 230 bps INFO @ Tue, 14 Jul 2020 07:30:40: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX6813076/SRX6813076.10_model.r INFO @ Tue, 14 Jul 2020 07:30:40: #3 Call peaks... INFO @ Tue, 14 Jul 2020 07:30:40: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 07:30:41: 4000000 INFO @ Tue, 14 Jul 2020 07:30:46: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX6813076/SRX6813076.05_peaks.xls INFO @ Tue, 14 Jul 2020 07:30:46: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX6813076/SRX6813076.05_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 07:30:46: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX6813076/SRX6813076.05_summits.bed INFO @ Tue, 14 Jul 2020 07:30:46: Done! pass1 - making usageList (14 chroms): 2 millis pass2 - checking and writing primary data (9314 records, 4 fields): 24 millis CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 07:30:47: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 14 Jul 2020 07:30:53: 6000000 INFO @ Tue, 14 Jul 2020 07:30:58: 7000000 INFO @ Tue, 14 Jul 2020 07:31:03: 8000000 BigWig に変換しました。 INFO @ Tue, 14 Jul 2020 07:31:09: 9000000 INFO @ Tue, 14 Jul 2020 07:31:10: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 07:31:12: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 07:31:12: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 07:31:12: #1 total tags in treatment: 9545185 INFO @ Tue, 14 Jul 2020 07:31:12: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 07:31:12: #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 07:31:12: #1 tags after filtering in treatment: 9545185 INFO @ Tue, 14 Jul 2020 07:31:12: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 07:31:12: #1 finished! INFO @ Tue, 14 Jul 2020 07:31:12: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 07:31:12: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 07:31:14: #2 number of paired peaks: 14776 INFO @ Tue, 14 Jul 2020 07:31:14: start model_add_line... INFO @ Tue, 14 Jul 2020 07:31:14: start X-correlation... INFO @ Tue, 14 Jul 2020 07:31:14: end of X-cor INFO @ Tue, 14 Jul 2020 07:31:14: #2 finished! INFO @ Tue, 14 Jul 2020 07:31:14: #2 predicted fragment length is 230 bps INFO @ Tue, 14 Jul 2020 07:31:14: #2 alternative fragment length(s) may be 230 bps INFO @ Tue, 14 Jul 2020 07:31:14: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX6813076/SRX6813076.20_model.r INFO @ Tue, 14 Jul 2020 07:31:14: #3 Call peaks... INFO @ Tue, 14 Jul 2020 07:31:14: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 07:31:22: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX6813076/SRX6813076.10_peaks.xls INFO @ Tue, 14 Jul 2020 07:31:22: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX6813076/SRX6813076.10_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 07:31:22: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX6813076/SRX6813076.10_summits.bed INFO @ Tue, 14 Jul 2020 07:31:22: Done! pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (7709 records, 4 fields): 29 millis CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 07:31:41: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 07:31:53: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX6813076/SRX6813076.20_peaks.xls INFO @ Tue, 14 Jul 2020 07:31:53: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX6813076/SRX6813076.20_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 07:31:53: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX6813076/SRX6813076.20_summits.bed INFO @ Tue, 14 Jul 2020 07:31:53: Done! pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (5218 records, 4 fields): 19 millis CompletedMACS2peakCalling