Job ID = 6626586 SRX = SRX7262530 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 26691880 spots for SRR10582157/SRR10582157.sra Written 26691880 spots for SRR10582157/SRR10582157.sra fastq に変換しました。 bowtie でマッピング中... Your job 6626706 ("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: 00:04:26 26691880 reads; of these: 26691880 (100.00%) were unpaired; of these: 23809832 (89.20%) aligned 0 times 2399086 (8.99%) aligned exactly 1 time 482962 (1.81%) aligned >1 times 10.80% overall alignment rate Time searching: 00:04:26 Overall time: 00:04:26 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] 486639 / 2882048 = 0.1689 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 07:46:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7262530/SRX7262530.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7262530/SRX7262530.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7262530/SRX7262530.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7262530/SRX7262530.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 07:46:04: #1 read tag files... INFO @ Tue, 14 Jul 2020 07:46:04: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 07:46:10: 1000000 INFO @ Tue, 14 Jul 2020 07:46:17: 2000000 INFO @ Tue, 14 Jul 2020 07:46:19: #1 tag size is determined as 75 bps INFO @ Tue, 14 Jul 2020 07:46:19: #1 tag size = 75 INFO @ Tue, 14 Jul 2020 07:46:19: #1 total tags in treatment: 2395409 INFO @ Tue, 14 Jul 2020 07:46:19: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 07:46:19: #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 07:46:19: #1 tags after filtering in treatment: 2395409 INFO @ Tue, 14 Jul 2020 07:46:19: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 07:46:19: #1 finished! INFO @ Tue, 14 Jul 2020 07:46:19: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 07:46:19: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 07:46:20: #2 number of paired peaks: 8361 INFO @ Tue, 14 Jul 2020 07:46:20: start model_add_line... INFO @ Tue, 14 Jul 2020 07:46:20: start X-correlation... INFO @ Tue, 14 Jul 2020 07:46:20: end of X-cor INFO @ Tue, 14 Jul 2020 07:46:20: #2 finished! INFO @ Tue, 14 Jul 2020 07:46:20: #2 predicted fragment length is 194 bps INFO @ Tue, 14 Jul 2020 07:46:20: #2 alternative fragment length(s) may be 194 bps INFO @ Tue, 14 Jul 2020 07:46:20: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7262530/SRX7262530.05_model.r INFO @ Tue, 14 Jul 2020 07:46:20: #3 Call peaks... INFO @ Tue, 14 Jul 2020 07:46:20: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 07:46:27: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 07:46:30: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7262530/SRX7262530.05_peaks.xls INFO @ Tue, 14 Jul 2020 07:46:30: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7262530/SRX7262530.05_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 07:46:30: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7262530/SRX7262530.05_summits.bed INFO @ Tue, 14 Jul 2020 07:46:30: Done! pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (4722 records, 4 fields): 26 millis CompletedMACS2peakCalling 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 07:46:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7262530/SRX7262530.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7262530/SRX7262530.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7262530/SRX7262530.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7262530/SRX7262530.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 07:46:34: #1 read tag files... INFO @ Tue, 14 Jul 2020 07:46:34: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 07:46:40: 1000000 INFO @ Tue, 14 Jul 2020 07:46:47: 2000000 INFO @ Tue, 14 Jul 2020 07:46:49: #1 tag size is determined as 75 bps INFO @ Tue, 14 Jul 2020 07:46:49: #1 tag size = 75 INFO @ Tue, 14 Jul 2020 07:46:49: #1 total tags in treatment: 2395409 INFO @ Tue, 14 Jul 2020 07:46:49: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 07:46:49: #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 07:46:49: #1 tags after filtering in treatment: 2395409 INFO @ Tue, 14 Jul 2020 07:46:49: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 07:46:49: #1 finished! INFO @ Tue, 14 Jul 2020 07:46:49: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 07:46:49: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 07:46:50: #2 number of paired peaks: 8361 INFO @ Tue, 14 Jul 2020 07:46:50: start model_add_line... INFO @ Tue, 14 Jul 2020 07:46:50: start X-correlation... INFO @ Tue, 14 Jul 2020 07:46:50: end of X-cor INFO @ Tue, 14 Jul 2020 07:46:50: #2 finished! INFO @ Tue, 14 Jul 2020 07:46:50: #2 predicted fragment length is 194 bps INFO @ Tue, 14 Jul 2020 07:46:50: #2 alternative fragment length(s) may be 194 bps INFO @ Tue, 14 Jul 2020 07:46:50: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7262530/SRX7262530.10_model.r INFO @ Tue, 14 Jul 2020 07:46:50: #3 Call peaks... INFO @ Tue, 14 Jul 2020 07:46:50: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 07:46:57: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 07:47:00: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7262530/SRX7262530.10_peaks.xls INFO @ Tue, 14 Jul 2020 07:47:00: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7262530/SRX7262530.10_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 07:47:00: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7262530/SRX7262530.10_summits.bed INFO @ Tue, 14 Jul 2020 07:47:00: Done! pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (3358 records, 4 fields): 5 millis CompletedMACS2peakCalling 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 07:47:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7262530/SRX7262530.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7262530/SRX7262530.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7262530/SRX7262530.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7262530/SRX7262530.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 07:47:04: #1 read tag files... INFO @ Tue, 14 Jul 2020 07:47:04: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 07:47:10: 1000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 14 Jul 2020 07:47:17: 2000000 BigWig に変換しました。 INFO @ Tue, 14 Jul 2020 07:47:20: #1 tag size is determined as 75 bps INFO @ Tue, 14 Jul 2020 07:47:20: #1 tag size = 75 INFO @ Tue, 14 Jul 2020 07:47:20: #1 total tags in treatment: 2395409 INFO @ Tue, 14 Jul 2020 07:47:20: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 07:47:20: #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 07:47:20: #1 tags after filtering in treatment: 2395409 INFO @ Tue, 14 Jul 2020 07:47:20: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 07:47:20: #1 finished! INFO @ Tue, 14 Jul 2020 07:47:20: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 07:47:20: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 07:47:20: #2 number of paired peaks: 8361 INFO @ Tue, 14 Jul 2020 07:47:20: start model_add_line... INFO @ Tue, 14 Jul 2020 07:47:20: start X-correlation... INFO @ Tue, 14 Jul 2020 07:47:20: end of X-cor INFO @ Tue, 14 Jul 2020 07:47:20: #2 finished! INFO @ Tue, 14 Jul 2020 07:47:20: #2 predicted fragment length is 194 bps INFO @ Tue, 14 Jul 2020 07:47:20: #2 alternative fragment length(s) may be 194 bps INFO @ Tue, 14 Jul 2020 07:47:20: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7262530/SRX7262530.20_model.r INFO @ Tue, 14 Jul 2020 07:47:20: #3 Call peaks... INFO @ Tue, 14 Jul 2020 07:47:20: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 07:47:27: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 07:47:30: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7262530/SRX7262530.20_peaks.xls INFO @ Tue, 14 Jul 2020 07:47:30: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7262530/SRX7262530.20_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 07:47:30: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7262530/SRX7262530.20_summits.bed INFO @ Tue, 14 Jul 2020 07:47:30: Done! pass1 - making usageList (13 chroms): 1 millis pass2 - checking and writing primary data (1984 records, 4 fields): 9 millis CompletedMACS2peakCalling