Job ID = 6626585 SRX = SRX7262529 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 28464357 spots for SRR10582156/SRR10582156.sra Written 28464357 spots for SRR10582156/SRR10582156.sra fastq に変換しました。 bowtie でマッピング中... Your job 6626714 ("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: 00:06:02 28464357 reads; of these: 28464357 (100.00%) were unpaired; of these: 19533969 (68.63%) aligned 0 times 7403077 (26.01%) aligned exactly 1 time 1527311 (5.37%) aligned >1 times 31.37% overall alignment rate Time searching: 00:06:02 Overall time: 00:06:02 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] 1948064 / 8930388 = 0.2181 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 07:49:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7262529/SRX7262529.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7262529/SRX7262529.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7262529/SRX7262529.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7262529/SRX7262529.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 07:49:25: #1 read tag files... INFO @ Tue, 14 Jul 2020 07:49:25: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 07:49:33: 1000000 INFO @ Tue, 14 Jul 2020 07:49:41: 2000000 INFO @ Tue, 14 Jul 2020 07:49:48: 3000000 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 07:49:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7262529/SRX7262529.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7262529/SRX7262529.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7262529/SRX7262529.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7262529/SRX7262529.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 07:49:55: #1 read tag files... INFO @ Tue, 14 Jul 2020 07:49:55: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 07:49:56: 4000000 INFO @ Tue, 14 Jul 2020 07:50:04: 5000000 INFO @ Tue, 14 Jul 2020 07:50:04: 1000000 INFO @ Tue, 14 Jul 2020 07:50:12: 6000000 INFO @ Tue, 14 Jul 2020 07:50:13: 2000000 INFO @ Tue, 14 Jul 2020 07:50:20: #1 tag size is determined as 75 bps INFO @ Tue, 14 Jul 2020 07:50:20: #1 tag size = 75 INFO @ Tue, 14 Jul 2020 07:50:20: #1 total tags in treatment: 6982324 INFO @ Tue, 14 Jul 2020 07:50:20: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 07:50:20: #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 07:50:20: #1 tags after filtering in treatment: 6982324 INFO @ Tue, 14 Jul 2020 07:50:20: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 07:50:20: #1 finished! INFO @ Tue, 14 Jul 2020 07:50:20: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 07:50:20: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 07:50:21: 3000000 INFO @ Tue, 14 Jul 2020 07:50:21: #2 number of paired peaks: 9724 INFO @ Tue, 14 Jul 2020 07:50:21: start model_add_line... INFO @ Tue, 14 Jul 2020 07:50:21: start X-correlation... INFO @ Tue, 14 Jul 2020 07:50:21: end of X-cor INFO @ Tue, 14 Jul 2020 07:50:21: #2 finished! INFO @ Tue, 14 Jul 2020 07:50:21: #2 predicted fragment length is 206 bps INFO @ Tue, 14 Jul 2020 07:50:21: #2 alternative fragment length(s) may be 206 bps INFO @ Tue, 14 Jul 2020 07:50:21: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7262529/SRX7262529.05_model.r INFO @ Tue, 14 Jul 2020 07:50:21: #3 Call peaks... INFO @ Tue, 14 Jul 2020 07:50:21: #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 07:50:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7262529/SRX7262529.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7262529/SRX7262529.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7262529/SRX7262529.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7262529/SRX7262529.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 07:50:25: #1 read tag files... INFO @ Tue, 14 Jul 2020 07:50:25: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 07:50:28: 4000000 INFO @ Tue, 14 Jul 2020 07:50:33: 1000000 INFO @ Tue, 14 Jul 2020 07:50:35: 5000000 INFO @ Tue, 14 Jul 2020 07:50:40: 2000000 INFO @ Tue, 14 Jul 2020 07:50:42: 6000000 INFO @ Tue, 14 Jul 2020 07:50:45: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 07:50:46: 3000000 INFO @ Tue, 14 Jul 2020 07:50:49: #1 tag size is determined as 75 bps INFO @ Tue, 14 Jul 2020 07:50:49: #1 tag size = 75 INFO @ Tue, 14 Jul 2020 07:50:49: #1 total tags in treatment: 6982324 INFO @ Tue, 14 Jul 2020 07:50:49: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 07:50:49: #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 07:50:49: #1 tags after filtering in treatment: 6982324 INFO @ Tue, 14 Jul 2020 07:50:49: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 07:50:49: #1 finished! INFO @ Tue, 14 Jul 2020 07:50:49: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 07:50:49: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 07:50:50: #2 number of paired peaks: 9724 INFO @ Tue, 14 Jul 2020 07:50:50: start model_add_line... INFO @ Tue, 14 Jul 2020 07:50:50: start X-correlation... INFO @ Tue, 14 Jul 2020 07:50:50: end of X-cor INFO @ Tue, 14 Jul 2020 07:50:50: #2 finished! INFO @ Tue, 14 Jul 2020 07:50:50: #2 predicted fragment length is 206 bps INFO @ Tue, 14 Jul 2020 07:50:50: #2 alternative fragment length(s) may be 206 bps INFO @ Tue, 14 Jul 2020 07:50:50: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7262529/SRX7262529.10_model.r INFO @ Tue, 14 Jul 2020 07:50:50: #3 Call peaks... INFO @ Tue, 14 Jul 2020 07:50:50: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 07:50:53: 4000000 INFO @ Tue, 14 Jul 2020 07:50:55: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7262529/SRX7262529.05_peaks.xls INFO @ Tue, 14 Jul 2020 07:50:55: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7262529/SRX7262529.05_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 07:50:55: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7262529/SRX7262529.05_summits.bed INFO @ Tue, 14 Jul 2020 07:50:55: Done! pass1 - making usageList (14 chroms): 2 millis pass2 - checking and writing primary data (7243 records, 4 fields): 8 millis CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 14 Jul 2020 07:51:00: 5000000 INFO @ Tue, 14 Jul 2020 07:51:07: 6000000 BigWig に変換しました。 INFO @ Tue, 14 Jul 2020 07:51:13: #1 tag size is determined as 75 bps INFO @ Tue, 14 Jul 2020 07:51:13: #1 tag size = 75 INFO @ Tue, 14 Jul 2020 07:51:13: #1 total tags in treatment: 6982324 INFO @ Tue, 14 Jul 2020 07:51:13: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 07:51:13: #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 07:51:13: #1 tags after filtering in treatment: 6982324 INFO @ Tue, 14 Jul 2020 07:51:13: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 07:51:13: #1 finished! INFO @ Tue, 14 Jul 2020 07:51:13: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 07:51:13: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 07:51:14: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 07:51:14: #2 number of paired peaks: 9724 INFO @ Tue, 14 Jul 2020 07:51:14: start model_add_line... INFO @ Tue, 14 Jul 2020 07:51:14: start X-correlation... INFO @ Tue, 14 Jul 2020 07:51:14: end of X-cor INFO @ Tue, 14 Jul 2020 07:51:14: #2 finished! INFO @ Tue, 14 Jul 2020 07:51:14: #2 predicted fragment length is 206 bps INFO @ Tue, 14 Jul 2020 07:51:14: #2 alternative fragment length(s) may be 206 bps INFO @ Tue, 14 Jul 2020 07:51:14: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7262529/SRX7262529.20_model.r INFO @ Tue, 14 Jul 2020 07:51:14: #3 Call peaks... INFO @ Tue, 14 Jul 2020 07:51:14: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 07:51:23: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7262529/SRX7262529.10_peaks.xls INFO @ Tue, 14 Jul 2020 07:51:23: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7262529/SRX7262529.10_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 07:51:23: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7262529/SRX7262529.10_summits.bed INFO @ Tue, 14 Jul 2020 07:51:23: Done! pass1 - making usageList (14 chroms): 2 millis pass2 - checking and writing primary data (5670 records, 4 fields): 17 millis CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 07:51:37: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 07:51:47: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7262529/SRX7262529.20_peaks.xls INFO @ Tue, 14 Jul 2020 07:51:47: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7262529/SRX7262529.20_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 07:51:47: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7262529/SRX7262529.20_summits.bed INFO @ Tue, 14 Jul 2020 07:51:47: Done! pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (3920 records, 4 fields): 24 millis CompletedMACS2peakCalling