Job ID = 6626539 SRX = SRX6813077 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 12837980 spots for SRR10080065/SRR10080065.sra Written 12837980 spots for SRR10080065/SRR10080065.sra fastq に変換しました。 bowtie でマッピング中... Your job 6626661 ("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: 00:02:34 12837980 reads; of these: 12837980 (100.00%) were unpaired; of these: 2180470 (16.98%) aligned 0 times 10071511 (78.45%) aligned exactly 1 time 585999 (4.56%) aligned >1 times 83.02% overall alignment rate Time searching: 00:02:34 Overall time: 00:02:34 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 8 files... [bam_rmdupse_core] 1824463 / 10657510 = 0.1712 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 07:28:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX6813077/SRX6813077.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX6813077/SRX6813077.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX6813077/SRX6813077.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX6813077/SRX6813077.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 07:28:52: #1 read tag files... INFO @ Tue, 14 Jul 2020 07:28:52: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 07:28:57: 1000000 INFO @ Tue, 14 Jul 2020 07:29:02: 2000000 INFO @ Tue, 14 Jul 2020 07:29:07: 3000000 INFO @ Tue, 14 Jul 2020 07:29:12: 4000000 INFO @ Tue, 14 Jul 2020 07:29:17: 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 07:29:21: 6000000 INFO @ Tue, 14 Jul 2020 07:29:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX6813077/SRX6813077.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX6813077/SRX6813077.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX6813077/SRX6813077.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX6813077/SRX6813077.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 07:29:22: #1 read tag files... INFO @ Tue, 14 Jul 2020 07:29:22: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 07:29:26: 7000000 INFO @ Tue, 14 Jul 2020 07:29:28: 1000000 INFO @ Tue, 14 Jul 2020 07:29:31: 8000000 INFO @ Tue, 14 Jul 2020 07:29:33: 2000000 INFO @ Tue, 14 Jul 2020 07:29:35: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 07:29:35: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 07:29:35: #1 total tags in treatment: 8833047 INFO @ Tue, 14 Jul 2020 07:29:35: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 07:29:35: #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 07:29:36: #1 tags after filtering in treatment: 8833047 INFO @ Tue, 14 Jul 2020 07:29:36: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 07:29:36: #1 finished! INFO @ Tue, 14 Jul 2020 07:29:36: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 07:29:36: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 07:29:37: #2 number of paired peaks: 15567 INFO @ Tue, 14 Jul 2020 07:29:37: start model_add_line... INFO @ Tue, 14 Jul 2020 07:29:37: start X-correlation... INFO @ Tue, 14 Jul 2020 07:29:37: end of X-cor INFO @ Tue, 14 Jul 2020 07:29:37: #2 finished! INFO @ Tue, 14 Jul 2020 07:29:37: #2 predicted fragment length is 243 bps INFO @ Tue, 14 Jul 2020 07:29:37: #2 alternative fragment length(s) may be 243 bps INFO @ Tue, 14 Jul 2020 07:29:37: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX6813077/SRX6813077.05_model.r INFO @ Tue, 14 Jul 2020 07:29:37: #3 Call peaks... INFO @ Tue, 14 Jul 2020 07:29:37: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 07:29:39: 3000000 INFO @ Tue, 14 Jul 2020 07:29:44: 4000000 INFO @ Tue, 14 Jul 2020 07:29:49: 5000000 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 07:29:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX6813077/SRX6813077.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX6813077/SRX6813077.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX6813077/SRX6813077.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX6813077/SRX6813077.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 07:29:52: #1 read tag files... INFO @ Tue, 14 Jul 2020 07:29:52: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 07:29:55: 6000000 INFO @ Tue, 14 Jul 2020 07:29:58: 1000000 INFO @ Tue, 14 Jul 2020 07:30:00: 7000000 INFO @ Tue, 14 Jul 2020 07:30:03: 2000000 INFO @ Tue, 14 Jul 2020 07:30:04: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 07:30:06: 8000000 INFO @ Tue, 14 Jul 2020 07:30:08: 3000000 INFO @ Tue, 14 Jul 2020 07:30:10: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 07:30:10: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 07:30:10: #1 total tags in treatment: 8833047 INFO @ Tue, 14 Jul 2020 07:30:10: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 07:30:10: #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 07:30:10: #1 tags after filtering in treatment: 8833047 INFO @ Tue, 14 Jul 2020 07:30:10: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 07:30:10: #1 finished! INFO @ Tue, 14 Jul 2020 07:30:10: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 07:30:10: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 07:30:12: #2 number of paired peaks: 15567 INFO @ Tue, 14 Jul 2020 07:30:12: start model_add_line... INFO @ Tue, 14 Jul 2020 07:30:12: start X-correlation... INFO @ Tue, 14 Jul 2020 07:30:12: end of X-cor INFO @ Tue, 14 Jul 2020 07:30:12: #2 finished! INFO @ Tue, 14 Jul 2020 07:30:12: #2 predicted fragment length is 243 bps INFO @ Tue, 14 Jul 2020 07:30:12: #2 alternative fragment length(s) may be 243 bps INFO @ Tue, 14 Jul 2020 07:30:12: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX6813077/SRX6813077.10_model.r INFO @ Tue, 14 Jul 2020 07:30:12: #3 Call peaks... INFO @ Tue, 14 Jul 2020 07:30:12: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 07:30:13: 4000000 INFO @ Tue, 14 Jul 2020 07:30:14: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX6813077/SRX6813077.05_peaks.xls INFO @ Tue, 14 Jul 2020 07:30:14: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX6813077/SRX6813077.05_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 07:30:14: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX6813077/SRX6813077.05_summits.bed INFO @ Tue, 14 Jul 2020 07:30:14: Done! pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (9110 records, 4 fields): 23 millis CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 07:30:18: 5000000 INFO @ Tue, 14 Jul 2020 07:30:22: 6000000 INFO @ Tue, 14 Jul 2020 07:30:27: 7000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 14 Jul 2020 07:30:32: 8000000 INFO @ Tue, 14 Jul 2020 07:30:36: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 07:30:36: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 07:30:36: #1 total tags in treatment: 8833047 INFO @ Tue, 14 Jul 2020 07:30:36: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 07:30:36: #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 07:30:36: #1 tags after filtering in treatment: 8833047 INFO @ Tue, 14 Jul 2020 07:30:36: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 07:30:36: #1 finished! INFO @ Tue, 14 Jul 2020 07:30:36: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 07:30:36: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 07:30:38: #2 number of paired peaks: 15567 INFO @ Tue, 14 Jul 2020 07:30:38: start model_add_line... INFO @ Tue, 14 Jul 2020 07:30:38: start X-correlation... INFO @ Tue, 14 Jul 2020 07:30:38: end of X-cor INFO @ Tue, 14 Jul 2020 07:30:38: #2 finished! INFO @ Tue, 14 Jul 2020 07:30:38: #2 predicted fragment length is 243 bps INFO @ Tue, 14 Jul 2020 07:30:38: #2 alternative fragment length(s) may be 243 bps INFO @ Tue, 14 Jul 2020 07:30:38: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX6813077/SRX6813077.20_model.r INFO @ Tue, 14 Jul 2020 07:30:38: #3 Call peaks... INFO @ Tue, 14 Jul 2020 07:30:38: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 07:30:38: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Tue, 14 Jul 2020 07:30:49: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX6813077/SRX6813077.10_peaks.xls INFO @ Tue, 14 Jul 2020 07:30:49: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX6813077/SRX6813077.10_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 07:30:49: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX6813077/SRX6813077.10_summits.bed INFO @ Tue, 14 Jul 2020 07:30:49: Done! pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (7476 records, 4 fields): 24 millis CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 07:31:06: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 07:31:17: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX6813077/SRX6813077.20_peaks.xls INFO @ Tue, 14 Jul 2020 07:31:17: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX6813077/SRX6813077.20_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 07:31:17: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX6813077/SRX6813077.20_summits.bed INFO @ Tue, 14 Jul 2020 07:31:17: Done! pass1 - making usageList (13 chroms): 1 millis pass2 - checking and writing primary data (5141 records, 4 fields): 19 millis CompletedMACS2peakCalling