Job ID = 6626581 SRX = SRX7262526 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 30252534 spots for SRR10582153/SRR10582153.sra Written 30252534 spots for SRR10582153/SRR10582153.sra fastq に変換しました。 bowtie でマッピング中... Your job 6626708 ("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: 00:05:27 30252534 reads; of these: 30252534 (100.00%) were unpaired; of these: 26164549 (86.49%) aligned 0 times 3394986 (11.22%) aligned exactly 1 time 692999 (2.29%) aligned >1 times 13.51% overall alignment rate Time searching: 00:05:27 Overall time: 00:05:27 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_rmdupse_core] 721667 / 4087985 = 0.1765 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 07:46:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7262526/SRX7262526.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7262526/SRX7262526.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7262526/SRX7262526.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7262526/SRX7262526.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 07:46:44: #1 read tag files... INFO @ Tue, 14 Jul 2020 07:46:44: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 07:46:50: 1000000 INFO @ Tue, 14 Jul 2020 07:46:55: 2000000 INFO @ Tue, 14 Jul 2020 07:47:01: 3000000 INFO @ Tue, 14 Jul 2020 07:47:02: #1 tag size is determined as 75 bps INFO @ Tue, 14 Jul 2020 07:47:02: #1 tag size = 75 INFO @ Tue, 14 Jul 2020 07:47:02: #1 total tags in treatment: 3366318 INFO @ Tue, 14 Jul 2020 07:47:02: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 07:47:02: #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 07:47:03: #1 tags after filtering in treatment: 3366318 INFO @ Tue, 14 Jul 2020 07:47:03: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 07:47:03: #1 finished! INFO @ Tue, 14 Jul 2020 07:47:03: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 07:47:03: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 07:47:03: #2 number of paired peaks: 8872 INFO @ Tue, 14 Jul 2020 07:47:03: start model_add_line... INFO @ Tue, 14 Jul 2020 07:47:03: start X-correlation... INFO @ Tue, 14 Jul 2020 07:47:03: end of X-cor INFO @ Tue, 14 Jul 2020 07:47:03: #2 finished! INFO @ Tue, 14 Jul 2020 07:47:03: #2 predicted fragment length is 209 bps INFO @ Tue, 14 Jul 2020 07:47:03: #2 alternative fragment length(s) may be 209 bps INFO @ Tue, 14 Jul 2020 07:47:03: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7262526/SRX7262526.05_model.r INFO @ Tue, 14 Jul 2020 07:47:03: #3 Call peaks... INFO @ Tue, 14 Jul 2020 07:47:03: #3 Pre-compute pvalue-qvalue table... 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 07:47:14: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 07:47:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7262526/SRX7262526.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7262526/SRX7262526.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7262526/SRX7262526.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7262526/SRX7262526.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 07:47:14: #1 read tag files... INFO @ Tue, 14 Jul 2020 07:47:14: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 07:47:18: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7262526/SRX7262526.05_peaks.xls INFO @ Tue, 14 Jul 2020 07:47:18: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7262526/SRX7262526.05_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 07:47:18: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7262526/SRX7262526.05_summits.bed INFO @ Tue, 14 Jul 2020 07:47:18: Done! pass1 - making usageList (14 chroms): 2 millis pass2 - checking and writing primary data (5452 records, 4 fields): 15 millis CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 07:47:20: 1000000 INFO @ Tue, 14 Jul 2020 07:47:25: 2000000 INFO @ Tue, 14 Jul 2020 07:47:31: 3000000 INFO @ Tue, 14 Jul 2020 07:47:33: #1 tag size is determined as 75 bps INFO @ Tue, 14 Jul 2020 07:47:33: #1 tag size = 75 INFO @ Tue, 14 Jul 2020 07:47:33: #1 total tags in treatment: 3366318 INFO @ Tue, 14 Jul 2020 07:47:33: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 07:47:33: #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 07:47:33: #1 tags after filtering in treatment: 3366318 INFO @ Tue, 14 Jul 2020 07:47:33: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 07:47:33: #1 finished! INFO @ Tue, 14 Jul 2020 07:47:33: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 07:47:33: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 07:47:33: #2 number of paired peaks: 8872 INFO @ Tue, 14 Jul 2020 07:47:33: start model_add_line... INFO @ Tue, 14 Jul 2020 07:47:33: start X-correlation... INFO @ Tue, 14 Jul 2020 07:47:33: end of X-cor INFO @ Tue, 14 Jul 2020 07:47:33: #2 finished! INFO @ Tue, 14 Jul 2020 07:47:33: #2 predicted fragment length is 209 bps INFO @ Tue, 14 Jul 2020 07:47:33: #2 alternative fragment length(s) may be 209 bps INFO @ Tue, 14 Jul 2020 07:47:33: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7262526/SRX7262526.10_model.r INFO @ Tue, 14 Jul 2020 07:47:33: #3 Call peaks... INFO @ Tue, 14 Jul 2020 07:47:33: #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 07:47:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7262526/SRX7262526.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7262526/SRX7262526.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7262526/SRX7262526.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7262526/SRX7262526.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 07:47:44: #1 read tag files... INFO @ Tue, 14 Jul 2020 07:47:44: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 07:47:45: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 07:47:50: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7262526/SRX7262526.10_peaks.xls INFO @ Tue, 14 Jul 2020 07:47:50: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7262526/SRX7262526.10_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 07:47:50: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7262526/SRX7262526.10_summits.bed INFO @ Tue, 14 Jul 2020 07:47:50: Done! pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (3950 records, 4 fields): 6 millis CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 07:47:51: 1000000 INFO @ Tue, 14 Jul 2020 07:47:57: 2000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 14 Jul 2020 07:48:04: 3000000 BigWig に変換しました。 INFO @ Tue, 14 Jul 2020 07:48:06: #1 tag size is determined as 75 bps INFO @ Tue, 14 Jul 2020 07:48:06: #1 tag size = 75 INFO @ Tue, 14 Jul 2020 07:48:06: #1 total tags in treatment: 3366318 INFO @ Tue, 14 Jul 2020 07:48:06: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 07:48:06: #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 07:48:06: #1 tags after filtering in treatment: 3366318 INFO @ Tue, 14 Jul 2020 07:48:06: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 07:48:06: #1 finished! INFO @ Tue, 14 Jul 2020 07:48:06: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 07:48:06: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 07:48:07: #2 number of paired peaks: 8872 INFO @ Tue, 14 Jul 2020 07:48:07: start model_add_line... INFO @ Tue, 14 Jul 2020 07:48:07: start X-correlation... INFO @ Tue, 14 Jul 2020 07:48:07: end of X-cor INFO @ Tue, 14 Jul 2020 07:48:07: #2 finished! INFO @ Tue, 14 Jul 2020 07:48:07: #2 predicted fragment length is 209 bps INFO @ Tue, 14 Jul 2020 07:48:07: #2 alternative fragment length(s) may be 209 bps INFO @ Tue, 14 Jul 2020 07:48:07: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7262526/SRX7262526.20_model.r INFO @ Tue, 14 Jul 2020 07:48:07: #3 Call peaks... INFO @ Tue, 14 Jul 2020 07:48:07: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 07:48:17: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 07:48:21: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7262526/SRX7262526.20_peaks.xls INFO @ Tue, 14 Jul 2020 07:48:21: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7262526/SRX7262526.20_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 07:48:21: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7262526/SRX7262526.20_summits.bed INFO @ Tue, 14 Jul 2020 07:48:21: Done! pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (2532 records, 4 fields): 4 millis CompletedMACS2peakCalling