Job ID = 6453689 SRX = SRX1361358 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T08:53:19 prefetch.2.10.7: 1) Downloading 'SRR2749796'... 2020-06-21T08:53:19 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T09:01:19 prefetch.2.10.7: HTTPS download succeed 2020-06-21T09:01:19 prefetch.2.10.7: 1) 'SRR2749796' was downloaded successfully Read 56523575 spots for SRR2749796/SRR2749796.sra Written 56523575 spots for SRR2749796/SRR2749796.sra 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: 00:15:27 56523575 reads; of these: 56523575 (100.00%) were unpaired; of these: 3538443 (6.26%) aligned 0 times 37151084 (65.73%) aligned exactly 1 time 15834048 (28.01%) aligned >1 times 93.74% overall alignment rate Time searching: 00:15:27 Overall time: 00:15:27 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_sort_core] merging from 24 files... [bam_rmdupse_core] 29415094 / 52985132 = 0.5552 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 @ Sun, 21 Jun 2020 18:29:46: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX1361358/SRX1361358.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX1361358/SRX1361358.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX1361358/SRX1361358.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX1361358/SRX1361358.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 @ Sun, 21 Jun 2020 18:29:46: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:29:46: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:29:51: 1000000 INFO @ Sun, 21 Jun 2020 18:29:57: 2000000 INFO @ Sun, 21 Jun 2020 18:30:03: 3000000 INFO @ Sun, 21 Jun 2020 18:30:08: 4000000 INFO @ Sun, 21 Jun 2020 18:30:14: 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 @ Sun, 21 Jun 2020 18:30:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX1361358/SRX1361358.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX1361358/SRX1361358.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX1361358/SRX1361358.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX1361358/SRX1361358.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 @ Sun, 21 Jun 2020 18:30:16: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:30:16: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:30:20: 6000000 INFO @ Sun, 21 Jun 2020 18:30:23: 1000000 INFO @ Sun, 21 Jun 2020 18:30:26: 7000000 INFO @ Sun, 21 Jun 2020 18:30:30: 2000000 INFO @ Sun, 21 Jun 2020 18:30:32: 8000000 INFO @ Sun, 21 Jun 2020 18:30:37: 3000000 INFO @ Sun, 21 Jun 2020 18:30:38: 9000000 INFO @ Sun, 21 Jun 2020 18:30:44: 4000000 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 @ Sun, 21 Jun 2020 18:30:44: 10000000 INFO @ Sun, 21 Jun 2020 18:30:46: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX1361358/SRX1361358.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX1361358/SRX1361358.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX1361358/SRX1361358.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX1361358/SRX1361358.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 @ Sun, 21 Jun 2020 18:30:46: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:30:46: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:30:51: 11000000 INFO @ Sun, 21 Jun 2020 18:30:51: 5000000 INFO @ Sun, 21 Jun 2020 18:30:53: 1000000 INFO @ Sun, 21 Jun 2020 18:30:58: 12000000 INFO @ Sun, 21 Jun 2020 18:30:59: 6000000 INFO @ Sun, 21 Jun 2020 18:31:01: 2000000 INFO @ Sun, 21 Jun 2020 18:31:05: 13000000 INFO @ Sun, 21 Jun 2020 18:31:07: 7000000 INFO @ Sun, 21 Jun 2020 18:31:08: 3000000 INFO @ Sun, 21 Jun 2020 18:31:12: 14000000 INFO @ Sun, 21 Jun 2020 18:31:15: 8000000 INFO @ Sun, 21 Jun 2020 18:31:16: 4000000 INFO @ Sun, 21 Jun 2020 18:31:19: 15000000 INFO @ Sun, 21 Jun 2020 18:31:23: 9000000 INFO @ Sun, 21 Jun 2020 18:31:23: 5000000 INFO @ Sun, 21 Jun 2020 18:31:26: 16000000 INFO @ Sun, 21 Jun 2020 18:31:31: 10000000 INFO @ Sun, 21 Jun 2020 18:31:31: 6000000 INFO @ Sun, 21 Jun 2020 18:31:34: 17000000 INFO @ Sun, 21 Jun 2020 18:31:38: 7000000 INFO @ Sun, 21 Jun 2020 18:31:39: 11000000 INFO @ Sun, 21 Jun 2020 18:31:41: 18000000 INFO @ Sun, 21 Jun 2020 18:31:46: 8000000 INFO @ Sun, 21 Jun 2020 18:31:46: 12000000 INFO @ Sun, 21 Jun 2020 18:31:48: 19000000 INFO @ Sun, 21 Jun 2020 18:31:53: 9000000 INFO @ Sun, 21 Jun 2020 18:31:54: 13000000 INFO @ Sun, 21 Jun 2020 18:31:55: 20000000 INFO @ Sun, 21 Jun 2020 18:32:01: 10000000 INFO @ Sun, 21 Jun 2020 18:32:02: 21000000 INFO @ Sun, 21 Jun 2020 18:32:02: 14000000 INFO @ Sun, 21 Jun 2020 18:32:08: 11000000 INFO @ Sun, 21 Jun 2020 18:32:08: 22000000 INFO @ Sun, 21 Jun 2020 18:32:09: 15000000 INFO @ Sun, 21 Jun 2020 18:32:15: 23000000 INFO @ Sun, 21 Jun 2020 18:32:16: 12000000 INFO @ Sun, 21 Jun 2020 18:32:16: 16000000 INFO @ Sun, 21 Jun 2020 18:32:20: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 18:32:20: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 18:32:20: #1 total tags in treatment: 23570038 INFO @ Sun, 21 Jun 2020 18:32:20: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:32:20: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 21 Jun 2020 18:32:20: #1 tags after filtering in treatment: 23570002 INFO @ Sun, 21 Jun 2020 18:32:20: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:32:20: #1 finished! INFO @ Sun, 21 Jun 2020 18:32:20: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:32:20: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:32:22: #2 number of paired peaks: 1388 INFO @ Sun, 21 Jun 2020 18:32:22: start model_add_line... INFO @ Sun, 21 Jun 2020 18:32:22: start X-correlation... INFO @ Sun, 21 Jun 2020 18:32:22: end of X-cor INFO @ Sun, 21 Jun 2020 18:32:22: #2 finished! INFO @ Sun, 21 Jun 2020 18:32:22: #2 predicted fragment length is 148 bps INFO @ Sun, 21 Jun 2020 18:32:22: #2 alternative fragment length(s) may be 4,148 bps INFO @ Sun, 21 Jun 2020 18:32:22: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX1361358/SRX1361358.05_model.r INFO @ Sun, 21 Jun 2020 18:32:22: #3 Call peaks... INFO @ Sun, 21 Jun 2020 18:32:22: #3 Pre-compute pvalue-qvalue table... BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 18:32:23: 13000000 INFO @ Sun, 21 Jun 2020 18:32:24: 17000000 INFO @ Sun, 21 Jun 2020 18:32:31: 14000000 INFO @ Sun, 21 Jun 2020 18:32:31: 18000000 INFO @ Sun, 21 Jun 2020 18:32:38: 15000000 INFO @ Sun, 21 Jun 2020 18:32:38: 19000000 INFO @ Sun, 21 Jun 2020 18:32:45: 20000000 INFO @ Sun, 21 Jun 2020 18:32:46: 16000000 INFO @ Sun, 21 Jun 2020 18:32:52: 21000000 INFO @ Sun, 21 Jun 2020 18:32:53: 17000000 INFO @ Sun, 21 Jun 2020 18:32:59: 22000000 INFO @ Sun, 21 Jun 2020 18:33:00: 18000000 INFO @ Sun, 21 Jun 2020 18:33:07: 23000000 INFO @ Sun, 21 Jun 2020 18:33:08: 19000000 INFO @ Sun, 21 Jun 2020 18:33:10: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 18:33:11: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 18:33:11: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 18:33:11: #1 total tags in treatment: 23570038 INFO @ Sun, 21 Jun 2020 18:33:11: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:33:11: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 21 Jun 2020 18:33:11: #1 tags after filtering in treatment: 23570002 INFO @ Sun, 21 Jun 2020 18:33:11: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:33:11: #1 finished! INFO @ Sun, 21 Jun 2020 18:33:11: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:33:11: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:33:13: #2 number of paired peaks: 1388 INFO @ Sun, 21 Jun 2020 18:33:13: start model_add_line... INFO @ Sun, 21 Jun 2020 18:33:13: start X-correlation... INFO @ Sun, 21 Jun 2020 18:33:13: end of X-cor INFO @ Sun, 21 Jun 2020 18:33:13: #2 finished! INFO @ Sun, 21 Jun 2020 18:33:13: #2 predicted fragment length is 148 bps INFO @ Sun, 21 Jun 2020 18:33:13: #2 alternative fragment length(s) may be 4,148 bps INFO @ Sun, 21 Jun 2020 18:33:13: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX1361358/SRX1361358.10_model.r INFO @ Sun, 21 Jun 2020 18:33:13: #3 Call peaks... INFO @ Sun, 21 Jun 2020 18:33:13: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 18:33:15: 20000000 BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 18:33:22: 21000000 INFO @ Sun, 21 Jun 2020 18:33:28: 22000000 INFO @ Sun, 21 Jun 2020 18:33:34: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX1361358/SRX1361358.05_peaks.xls INFO @ Sun, 21 Jun 2020 18:33:35: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX1361358/SRX1361358.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 18:33:35: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX1361358/SRX1361358.05_summits.bed INFO @ Sun, 21 Jun 2020 18:33:35: Done! pass1 - making usageList (923 chroms): 2 millis pass2 - checking and writing primary data (9548 records, 4 fields): 31 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 18:33:35: 23000000 INFO @ Sun, 21 Jun 2020 18:33:39: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 18:33:39: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 18:33:39: #1 total tags in treatment: 23570038 INFO @ Sun, 21 Jun 2020 18:33:39: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:33:39: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 21 Jun 2020 18:33:40: #1 tags after filtering in treatment: 23570002 INFO @ Sun, 21 Jun 2020 18:33:40: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:33:40: #1 finished! INFO @ Sun, 21 Jun 2020 18:33:40: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:33:40: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:33:42: #2 number of paired peaks: 1388 INFO @ Sun, 21 Jun 2020 18:33:42: start model_add_line... INFO @ Sun, 21 Jun 2020 18:33:42: start X-correlation... INFO @ Sun, 21 Jun 2020 18:33:42: end of X-cor INFO @ Sun, 21 Jun 2020 18:33:42: #2 finished! INFO @ Sun, 21 Jun 2020 18:33:42: #2 predicted fragment length is 148 bps INFO @ Sun, 21 Jun 2020 18:33:42: #2 alternative fragment length(s) may be 4,148 bps INFO @ Sun, 21 Jun 2020 18:33:42: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX1361358/SRX1361358.20_model.r INFO @ Sun, 21 Jun 2020 18:33:42: #3 Call peaks... INFO @ Sun, 21 Jun 2020 18:33:42: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 18:34:00: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 18:34:23: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX1361358/SRX1361358.10_peaks.xls INFO @ Sun, 21 Jun 2020 18:34:23: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX1361358/SRX1361358.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 18:34:23: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX1361358/SRX1361358.10_summits.bed INFO @ Sun, 21 Jun 2020 18:34:23: Done! pass1 - making usageList (778 chroms): 1 millis pass2 - checking and writing primary data (7290 records, 4 fields): 25 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 18:34:29: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 18:34:52: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX1361358/SRX1361358.20_peaks.xls INFO @ Sun, 21 Jun 2020 18:34:52: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX1361358/SRX1361358.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 18:34:52: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX1361358/SRX1361358.20_summits.bed INFO @ Sun, 21 Jun 2020 18:34:52: Done! pass1 - making usageList (673 chroms): 2 millis pass2 - checking and writing primary data (5313 records, 4 fields): 22 millis CompletedMACS2peakCalling