Job ID = 6626714 SRX = SRX7262529 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... fastq に変換しました。 bowtie でマッピング中... 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 28464357 reads; of these: 28464357 (100.00%) were unpaired; of these: 19726695 (69.30%) aligned 0 times 7247961 (25.46%) aligned exactly 1 time 1489701 (5.23%) aligned >1 times 30.70% 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: 1870 sequences. [bam_rmdupse_core] 1807230 / 8737662 = 0.2068 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 08:34:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7262529/SRX7262529.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7262529/SRX7262529.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7262529/SRX7262529.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/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 08:34:44: #1 read tag files... INFO @ Tue, 14 Jul 2020 08:34:44: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 08:34:50: 1000000 INFO @ Tue, 14 Jul 2020 08:34:57: 2000000 INFO @ Tue, 14 Jul 2020 08:35:03: 3000000 INFO @ Tue, 14 Jul 2020 08:35:09: 4000000 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 08:35:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7262529/SRX7262529.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7262529/SRX7262529.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7262529/SRX7262529.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/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 08:35:14: #1 read tag files... INFO @ Tue, 14 Jul 2020 08:35:14: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 08:35:15: 5000000 INFO @ Tue, 14 Jul 2020 08:35:20: 1000000 INFO @ Tue, 14 Jul 2020 08:35:22: 6000000 INFO @ Tue, 14 Jul 2020 08:35:25: 2000000 INFO @ Tue, 14 Jul 2020 08:35:28: #1 tag size is determined as 75 bps INFO @ Tue, 14 Jul 2020 08:35:28: #1 tag size = 75 INFO @ Tue, 14 Jul 2020 08:35:28: #1 total tags in treatment: 6930432 INFO @ Tue, 14 Jul 2020 08:35:28: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 08:35:28: #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 08:35:28: #1 tags after filtering in treatment: 6929754 INFO @ Tue, 14 Jul 2020 08:35:28: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 08:35:28: #1 finished! INFO @ Tue, 14 Jul 2020 08:35:28: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 08:35:28: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 08:35:29: #2 number of paired peaks: 9962 INFO @ Tue, 14 Jul 2020 08:35:29: start model_add_line... INFO @ Tue, 14 Jul 2020 08:35:29: start X-correlation... INFO @ Tue, 14 Jul 2020 08:35:29: end of X-cor INFO @ Tue, 14 Jul 2020 08:35:29: #2 finished! INFO @ Tue, 14 Jul 2020 08:35:29: #2 predicted fragment length is 209 bps INFO @ Tue, 14 Jul 2020 08:35:29: #2 alternative fragment length(s) may be 209 bps INFO @ Tue, 14 Jul 2020 08:35:29: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7262529/SRX7262529.05_model.r INFO @ Tue, 14 Jul 2020 08:35:29: #3 Call peaks... INFO @ Tue, 14 Jul 2020 08:35:29: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 08:35:31: 3000000 INFO @ Tue, 14 Jul 2020 08:35:37: 4000000 INFO @ Tue, 14 Jul 2020 08:35:42: 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 08:35:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7262529/SRX7262529.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7262529/SRX7262529.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7262529/SRX7262529.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/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 08:35:44: #1 read tag files... INFO @ Tue, 14 Jul 2020 08:35:44: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 08:35:48: 6000000 INFO @ Tue, 14 Jul 2020 08:35:50: 1000000 INFO @ Tue, 14 Jul 2020 08:35:52: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 08:35:53: #1 tag size is determined as 75 bps INFO @ Tue, 14 Jul 2020 08:35:53: #1 tag size = 75 INFO @ Tue, 14 Jul 2020 08:35:53: #1 total tags in treatment: 6930432 INFO @ Tue, 14 Jul 2020 08:35:53: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 08:35:53: #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 08:35:53: #1 tags after filtering in treatment: 6929754 INFO @ Tue, 14 Jul 2020 08:35:53: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 08:35:53: #1 finished! INFO @ Tue, 14 Jul 2020 08:35:53: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 08:35:53: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 08:35:54: #2 number of paired peaks: 9962 INFO @ Tue, 14 Jul 2020 08:35:54: start model_add_line... INFO @ Tue, 14 Jul 2020 08:35:55: start X-correlation... INFO @ Tue, 14 Jul 2020 08:35:55: end of X-cor INFO @ Tue, 14 Jul 2020 08:35:55: #2 finished! INFO @ Tue, 14 Jul 2020 08:35:55: #2 predicted fragment length is 209 bps INFO @ Tue, 14 Jul 2020 08:35:55: #2 alternative fragment length(s) may be 209 bps INFO @ Tue, 14 Jul 2020 08:35:55: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7262529/SRX7262529.10_model.r INFO @ Tue, 14 Jul 2020 08:35:55: #3 Call peaks... INFO @ Tue, 14 Jul 2020 08:35:55: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 08:35:56: 2000000 INFO @ Tue, 14 Jul 2020 08:36:01: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7262529/SRX7262529.05_peaks.xls INFO @ Tue, 14 Jul 2020 08:36:01: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7262529/SRX7262529.05_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 08:36:01: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7262529/SRX7262529.05_summits.bed INFO @ Tue, 14 Jul 2020 08:36:01: Done! pass1 - making usageList (138 chroms): 2 millis pass2 - checking and writing primary data (6440 records, 4 fields): 11 millis CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 08:36:02: 3000000 INFO @ Tue, 14 Jul 2020 08:36:08: 4000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 14 Jul 2020 08:36:14: 5000000 INFO @ Tue, 14 Jul 2020 08:36:18: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 08:36:20: 6000000 BigWig に変換しました。 INFO @ Tue, 14 Jul 2020 08:36:26: #1 tag size is determined as 75 bps INFO @ Tue, 14 Jul 2020 08:36:26: #1 tag size = 75 INFO @ Tue, 14 Jul 2020 08:36:26: #1 total tags in treatment: 6930432 INFO @ Tue, 14 Jul 2020 08:36:26: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 08:36:26: #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 08:36:26: #1 tags after filtering in treatment: 6929754 INFO @ Tue, 14 Jul 2020 08:36:26: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 08:36:26: #1 finished! INFO @ Tue, 14 Jul 2020 08:36:26: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 08:36:26: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 08:36:27: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7262529/SRX7262529.10_peaks.xls INFO @ Tue, 14 Jul 2020 08:36:27: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7262529/SRX7262529.10_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 08:36:27: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7262529/SRX7262529.10_summits.bed INFO @ Tue, 14 Jul 2020 08:36:27: Done! pass1 - making usageList (120 chroms): 1 millis pass2 - checking and writing primary data (4992 records, 4 fields): 10 millis CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 08:36:27: #2 number of paired peaks: 9962 INFO @ Tue, 14 Jul 2020 08:36:27: start model_add_line... INFO @ Tue, 14 Jul 2020 08:36:27: start X-correlation... INFO @ Tue, 14 Jul 2020 08:36:27: end of X-cor INFO @ Tue, 14 Jul 2020 08:36:27: #2 finished! INFO @ Tue, 14 Jul 2020 08:36:27: #2 predicted fragment length is 209 bps INFO @ Tue, 14 Jul 2020 08:36:27: #2 alternative fragment length(s) may be 209 bps INFO @ Tue, 14 Jul 2020 08:36:27: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7262529/SRX7262529.20_model.r INFO @ Tue, 14 Jul 2020 08:36:27: #3 Call peaks... INFO @ Tue, 14 Jul 2020 08:36:27: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 08:36:50: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 08:36:59: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7262529/SRX7262529.20_peaks.xls INFO @ Tue, 14 Jul 2020 08:36:59: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7262529/SRX7262529.20_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 08:36:59: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7262529/SRX7262529.20_summits.bed INFO @ Tue, 14 Jul 2020 08:36:59: Done! pass1 - making usageList (99 chroms): 1 millis pass2 - checking and writing primary data (3569 records, 4 fields): 7 millis CompletedMACS2peakCalling