Job ID = 6509225 SRX = SRX750076 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-26T15:35:06 prefetch.2.10.7: 1) Downloading 'SRR1638764'... 2020-06-26T15:35:06 prefetch.2.10.7: Downloading via HTTPS... 2020-06-26T15:36:57 prefetch.2.10.7: HTTPS download succeed 2020-06-26T15:36:58 prefetch.2.10.7: 'SRR1638764' is valid 2020-06-26T15:36:58 prefetch.2.10.7: 1) 'SRR1638764' was downloaded successfully Read 14418185 spots for SRR1638764/SRR1638764.sra Written 14418185 spots for SRR1638764/SRR1638764.sra 2020-06-26T15:37:53 prefetch.2.10.7: 1) Downloading 'SRR1638765'... 2020-06-26T15:37:53 prefetch.2.10.7: Downloading via HTTPS... 2020-06-26T15:39:49 prefetch.2.10.7: HTTPS download succeed 2020-06-26T15:39:49 prefetch.2.10.7: 1) 'SRR1638765' was downloaded successfully Read 18362894 spots for SRR1638765/SRR1638765.sra Written 18362894 spots for SRR1638765/SRR1638765.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: 00:09:59 32781079 reads; of these: 32781079 (100.00%) were unpaired; of these: 3309940 (10.10%) aligned 0 times 25517297 (77.84%) aligned exactly 1 time 3953842 (12.06%) aligned >1 times 89.90% overall alignment rate Time searching: 00:09:59 Overall time: 00:09:59 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 16 files... [bam_rmdupse_core] 20080301 / 29471139 = 0.6814 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 @ Sat, 27 Jun 2020 00:57:21: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX750076/SRX750076.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX750076/SRX750076.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX750076/SRX750076.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX750076/SRX750076.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 @ Sat, 27 Jun 2020 00:57:21: #1 read tag files... INFO @ Sat, 27 Jun 2020 00:57:21: #1 read treatment tags... INFO @ Sat, 27 Jun 2020 00:57:27: 1000000 INFO @ Sat, 27 Jun 2020 00:57:33: 2000000 INFO @ Sat, 27 Jun 2020 00:57:39: 3000000 INFO @ Sat, 27 Jun 2020 00:57:45: 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 @ Sat, 27 Jun 2020 00:57:50: 5000000 INFO @ Sat, 27 Jun 2020 00:57:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX750076/SRX750076.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX750076/SRX750076.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX750076/SRX750076.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX750076/SRX750076.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 @ Sat, 27 Jun 2020 00:57:51: #1 read tag files... INFO @ Sat, 27 Jun 2020 00:57:51: #1 read treatment tags... INFO @ Sat, 27 Jun 2020 00:57:57: 6000000 INFO @ Sat, 27 Jun 2020 00:57:57: 1000000 INFO @ Sat, 27 Jun 2020 00:58:03: 7000000 INFO @ Sat, 27 Jun 2020 00:58:04: 2000000 INFO @ Sat, 27 Jun 2020 00:58:10: 8000000 INFO @ Sat, 27 Jun 2020 00:58:10: 3000000 INFO @ Sat, 27 Jun 2020 00:58:16: 9000000 INFO @ Sat, 27 Jun 2020 00:58:16: 4000000 INFO @ Sat, 27 Jun 2020 00:58:19: #1 tag size is determined as 67 bps INFO @ Sat, 27 Jun 2020 00:58:19: #1 tag size = 67 INFO @ Sat, 27 Jun 2020 00:58:19: #1 total tags in treatment: 9390838 INFO @ Sat, 27 Jun 2020 00:58:19: #1 user defined the maximum tags... INFO @ Sat, 27 Jun 2020 00:58:19: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) 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 @ Sat, 27 Jun 2020 00:58:19: #1 tags after filtering in treatment: 9390816 INFO @ Sat, 27 Jun 2020 00:58:19: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 27 Jun 2020 00:58:19: #1 finished! INFO @ Sat, 27 Jun 2020 00:58:19: #2 Build Peak Model... INFO @ Sat, 27 Jun 2020 00:58:19: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 27 Jun 2020 00:58:20: #2 number of paired peaks: 7624 INFO @ Sat, 27 Jun 2020 00:58:20: start model_add_line... INFO @ Sat, 27 Jun 2020 00:58:21: start X-correlation... INFO @ Sat, 27 Jun 2020 00:58:21: end of X-cor INFO @ Sat, 27 Jun 2020 00:58:21: #2 finished! INFO @ Sat, 27 Jun 2020 00:58:21: #2 predicted fragment length is 164 bps INFO @ Sat, 27 Jun 2020 00:58:21: #2 alternative fragment length(s) may be 164 bps INFO @ Sat, 27 Jun 2020 00:58:21: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX750076/SRX750076.05_model.r INFO @ Sat, 27 Jun 2020 00:58:21: #3 Call peaks... INFO @ Sat, 27 Jun 2020 00:58:21: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 27 Jun 2020 00:58:21: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX750076/SRX750076.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX750076/SRX750076.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX750076/SRX750076.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX750076/SRX750076.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 @ Sat, 27 Jun 2020 00:58:21: #1 read tag files... INFO @ Sat, 27 Jun 2020 00:58:21: #1 read treatment tags... INFO @ Sat, 27 Jun 2020 00:58:23: 5000000 INFO @ Sat, 27 Jun 2020 00:58:27: 1000000 INFO @ Sat, 27 Jun 2020 00:58:29: 6000000 INFO @ Sat, 27 Jun 2020 00:58:34: 2000000 INFO @ Sat, 27 Jun 2020 00:58:35: 7000000 INFO @ Sat, 27 Jun 2020 00:58:40: 3000000 INFO @ Sat, 27 Jun 2020 00:58:42: 8000000 INFO @ Sat, 27 Jun 2020 00:58:46: 4000000 INFO @ Sat, 27 Jun 2020 00:58:48: 9000000 INFO @ Sat, 27 Jun 2020 00:58:51: #1 tag size is determined as 67 bps INFO @ Sat, 27 Jun 2020 00:58:51: #1 tag size = 67 INFO @ Sat, 27 Jun 2020 00:58:51: #1 total tags in treatment: 9390838 INFO @ Sat, 27 Jun 2020 00:58:51: #1 user defined the maximum tags... INFO @ Sat, 27 Jun 2020 00:58:51: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 27 Jun 2020 00:58:52: #1 tags after filtering in treatment: 9390816 INFO @ Sat, 27 Jun 2020 00:58:52: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 27 Jun 2020 00:58:52: #1 finished! INFO @ Sat, 27 Jun 2020 00:58:52: #2 Build Peak Model... INFO @ Sat, 27 Jun 2020 00:58:52: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 27 Jun 2020 00:58:53: 5000000 INFO @ Sat, 27 Jun 2020 00:58:53: #3 Call peaks for each chromosome... INFO @ Sat, 27 Jun 2020 00:58:53: #2 number of paired peaks: 7624 INFO @ Sat, 27 Jun 2020 00:58:53: start model_add_line... INFO @ Sat, 27 Jun 2020 00:58:53: start X-correlation... INFO @ Sat, 27 Jun 2020 00:58:53: end of X-cor INFO @ Sat, 27 Jun 2020 00:58:53: #2 finished! INFO @ Sat, 27 Jun 2020 00:58:53: #2 predicted fragment length is 164 bps INFO @ Sat, 27 Jun 2020 00:58:53: #2 alternative fragment length(s) may be 164 bps INFO @ Sat, 27 Jun 2020 00:58:53: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX750076/SRX750076.10_model.r INFO @ Sat, 27 Jun 2020 00:58:53: #3 Call peaks... INFO @ Sat, 27 Jun 2020 00:58:53: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 27 Jun 2020 00:58:58: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 27 Jun 2020 00:59:04: 7000000 INFO @ Sat, 27 Jun 2020 00:59:06: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX750076/SRX750076.05_peaks.xls INFO @ Sat, 27 Jun 2020 00:59:06: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX750076/SRX750076.05_peaks.narrowPeak INFO @ Sat, 27 Jun 2020 00:59:06: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX750076/SRX750076.05_summits.bed INFO @ Sat, 27 Jun 2020 00:59:06: Done! pass1 - making usageList (454 chroms): 2 millis pass2 - checking and writing primary data (7187 records, 4 fields): 22 millis CompletedMACS2peakCalling INFO @ Sat, 27 Jun 2020 00:59:10: 8000000 INFO @ Sat, 27 Jun 2020 00:59:16: 9000000 INFO @ Sat, 27 Jun 2020 00:59:19: #1 tag size is determined as 67 bps INFO @ Sat, 27 Jun 2020 00:59:19: #1 tag size = 67 INFO @ Sat, 27 Jun 2020 00:59:19: #1 total tags in treatment: 9390838 INFO @ Sat, 27 Jun 2020 00:59:19: #1 user defined the maximum tags... INFO @ Sat, 27 Jun 2020 00:59:19: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 27 Jun 2020 00:59:19: #1 tags after filtering in treatment: 9390816 INFO @ Sat, 27 Jun 2020 00:59:19: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 27 Jun 2020 00:59:19: #1 finished! INFO @ Sat, 27 Jun 2020 00:59:19: #2 Build Peak Model... INFO @ Sat, 27 Jun 2020 00:59:19: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 27 Jun 2020 00:59:21: #2 number of paired peaks: 7624 INFO @ Sat, 27 Jun 2020 00:59:21: start model_add_line... INFO @ Sat, 27 Jun 2020 00:59:21: start X-correlation... INFO @ Sat, 27 Jun 2020 00:59:21: end of X-cor INFO @ Sat, 27 Jun 2020 00:59:21: #2 finished! INFO @ Sat, 27 Jun 2020 00:59:21: #2 predicted fragment length is 164 bps INFO @ Sat, 27 Jun 2020 00:59:21: #2 alternative fragment length(s) may be 164 bps INFO @ Sat, 27 Jun 2020 00:59:21: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX750076/SRX750076.20_model.r INFO @ Sat, 27 Jun 2020 00:59:21: #3 Call peaks... INFO @ Sat, 27 Jun 2020 00:59:21: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sat, 27 Jun 2020 00:59:25: #3 Call peaks for each chromosome... INFO @ Sat, 27 Jun 2020 00:59:38: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX750076/SRX750076.10_peaks.xls INFO @ Sat, 27 Jun 2020 00:59:38: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX750076/SRX750076.10_peaks.narrowPeak INFO @ Sat, 27 Jun 2020 00:59:38: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX750076/SRX750076.10_summits.bed INFO @ Sat, 27 Jun 2020 00:59:38: Done! pass1 - making usageList (362 chroms): 2 millis pass2 - checking and writing primary data (5490 records, 4 fields): 17 millis CompletedMACS2peakCalling INFO @ Sat, 27 Jun 2020 00:59:53: #3 Call peaks for each chromosome... INFO @ Sat, 27 Jun 2020 01:00:06: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX750076/SRX750076.20_peaks.xls INFO @ Sat, 27 Jun 2020 01:00:06: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX750076/SRX750076.20_peaks.narrowPeak INFO @ Sat, 27 Jun 2020 01:00:06: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX750076/SRX750076.20_summits.bed INFO @ Sat, 27 Jun 2020 01:00:06: Done! pass1 - making usageList (192 chroms): 1 millis pass2 - checking and writing primary data (3741 records, 4 fields): 11 millis CompletedMACS2peakCalling