Job ID = 6454992 SRX = SRX2618528 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T09:40:55 prefetch.2.10.7: 1) Downloading 'SRR5319082'... 2020-06-21T09:40:55 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T09:42:53 prefetch.2.10.7: HTTPS download succeed 2020-06-21T09:42:54 prefetch.2.10.7: 'SRR5319082' is valid 2020-06-21T09:42:54 prefetch.2.10.7: 1) 'SRR5319082' was downloaded successfully 2020-06-21T09:42:54 prefetch.2.10.7: 'SRR5319082' has 0 unresolved dependencies Read 13456519 spots for SRR5319082/SRR5319082.sra Written 13456519 spots for SRR5319082/SRR5319082.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: 00:02:55 13456519 reads; of these: 13456519 (100.00%) were unpaired; of these: 1105590 (8.22%) aligned 0 times 10968766 (81.51%) aligned exactly 1 time 1382163 (10.27%) aligned >1 times 91.78% overall alignment rate Time searching: 00:02:55 Overall time: 00:02:55 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 8 files... [bam_rmdupse_core] 1817977 / 12350929 = 0.1472 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 18:49:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX2618528/SRX2618528.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX2618528/SRX2618528.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX2618528/SRX2618528.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX2618528/SRX2618528.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 18:49:58: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:49:58: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:50:07: 1000000 INFO @ Sun, 21 Jun 2020 18:50:15: 2000000 INFO @ Sun, 21 Jun 2020 18:50:23: 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 @ Sun, 21 Jun 2020 18:50:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX2618528/SRX2618528.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX2618528/SRX2618528.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX2618528/SRX2618528.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX2618528/SRX2618528.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 18:50:28: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:50:28: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:50:31: 4000000 INFO @ Sun, 21 Jun 2020 18:50:35: 1000000 INFO @ Sun, 21 Jun 2020 18:50:39: 5000000 INFO @ Sun, 21 Jun 2020 18:50:42: 2000000 INFO @ Sun, 21 Jun 2020 18:50:47: 6000000 INFO @ Sun, 21 Jun 2020 18:50:49: 3000000 INFO @ Sun, 21 Jun 2020 18:50:55: 7000000 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 18:50:56: 4000000 INFO @ Sun, 21 Jun 2020 18:50:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX2618528/SRX2618528.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX2618528/SRX2618528.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX2618528/SRX2618528.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX2618528/SRX2618528.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 18:50:58: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:50:58: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:51:04: 5000000 INFO @ Sun, 21 Jun 2020 18:51:04: 8000000 INFO @ Sun, 21 Jun 2020 18:51:06: 1000000 INFO @ Sun, 21 Jun 2020 18:51:11: 6000000 INFO @ Sun, 21 Jun 2020 18:51:12: 9000000 INFO @ Sun, 21 Jun 2020 18:51:13: 2000000 INFO @ Sun, 21 Jun 2020 18:51:19: 7000000 INFO @ Sun, 21 Jun 2020 18:51:20: 10000000 INFO @ Sun, 21 Jun 2020 18:51:20: 3000000 INFO @ Sun, 21 Jun 2020 18:51:24: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 18:51:24: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 18:51:24: #1 total tags in treatment: 10532952 INFO @ Sun, 21 Jun 2020 18:51:24: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:51:24: #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 18:51:25: #1 tags after filtering in treatment: 10532889 INFO @ Sun, 21 Jun 2020 18:51:25: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:51:25: #1 finished! INFO @ Sun, 21 Jun 2020 18:51:25: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:51:25: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:51:26: #2 number of paired peaks: 3084 INFO @ Sun, 21 Jun 2020 18:51:26: start model_add_line... INFO @ Sun, 21 Jun 2020 18:51:26: start X-correlation... INFO @ Sun, 21 Jun 2020 18:51:26: end of X-cor INFO @ Sun, 21 Jun 2020 18:51:26: #2 finished! INFO @ Sun, 21 Jun 2020 18:51:26: #2 predicted fragment length is 161 bps INFO @ Sun, 21 Jun 2020 18:51:26: #2 alternative fragment length(s) may be 161 bps INFO @ Sun, 21 Jun 2020 18:51:26: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX2618528/SRX2618528.05_model.r INFO @ Sun, 21 Jun 2020 18:51:26: #3 Call peaks... INFO @ Sun, 21 Jun 2020 18:51:26: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 18:51:26: 8000000 INFO @ Sun, 21 Jun 2020 18:51:27: 4000000 INFO @ Sun, 21 Jun 2020 18:51:33: 9000000 INFO @ Sun, 21 Jun 2020 18:51:34: 5000000 INFO @ Sun, 21 Jun 2020 18:51:40: 10000000 INFO @ Sun, 21 Jun 2020 18:51:40: 6000000 INFO @ Sun, 21 Jun 2020 18:51:44: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 18:51:44: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 18:51:44: #1 total tags in treatment: 10532952 INFO @ Sun, 21 Jun 2020 18:51:44: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:51:44: #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 18:51:44: #1 tags after filtering in treatment: 10532889 INFO @ Sun, 21 Jun 2020 18:51:44: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:51:44: #1 finished! INFO @ Sun, 21 Jun 2020 18:51:44: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:51:44: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:51:45: #2 number of paired peaks: 3084 INFO @ Sun, 21 Jun 2020 18:51:45: start model_add_line... INFO @ Sun, 21 Jun 2020 18:51:45: start X-correlation... INFO @ Sun, 21 Jun 2020 18:51:45: end of X-cor INFO @ Sun, 21 Jun 2020 18:51:45: #2 finished! INFO @ Sun, 21 Jun 2020 18:51:45: #2 predicted fragment length is 161 bps INFO @ Sun, 21 Jun 2020 18:51:45: #2 alternative fragment length(s) may be 161 bps INFO @ Sun, 21 Jun 2020 18:51:45: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX2618528/SRX2618528.10_model.r INFO @ Sun, 21 Jun 2020 18:51:45: #3 Call peaks... INFO @ Sun, 21 Jun 2020 18:51:45: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 18:51:47: 7000000 INFO @ Sun, 21 Jun 2020 18:51:52: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 18:51:53: 8000000 INFO @ Sun, 21 Jun 2020 18:52:00: 9000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 18:52:06: 10000000 INFO @ Sun, 21 Jun 2020 18:52:06: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX2618528/SRX2618528.05_peaks.xls INFO @ Sun, 21 Jun 2020 18:52:06: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX2618528/SRX2618528.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 18:52:06: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX2618528/SRX2618528.05_summits.bed INFO @ Sun, 21 Jun 2020 18:52:06: Done! pass1 - making usageList (283 chroms): 3 millis pass2 - checking and writing primary data (9578 records, 4 fields): 19 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 18:52:09: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 18:52:09: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 18:52:09: #1 total tags in treatment: 10532952 INFO @ Sun, 21 Jun 2020 18:52:09: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:52:09: #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 18:52:09: #1 tags after filtering in treatment: 10532889 INFO @ Sun, 21 Jun 2020 18:52:09: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:52:09: #1 finished! INFO @ Sun, 21 Jun 2020 18:52:09: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:52:09: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:52:10: #2 number of paired peaks: 3084 INFO @ Sun, 21 Jun 2020 18:52:10: start model_add_line... INFO @ Sun, 21 Jun 2020 18:52:10: start X-correlation... INFO @ Sun, 21 Jun 2020 18:52:10: end of X-cor INFO @ Sun, 21 Jun 2020 18:52:10: #2 finished! INFO @ Sun, 21 Jun 2020 18:52:10: #2 predicted fragment length is 161 bps INFO @ Sun, 21 Jun 2020 18:52:10: #2 alternative fragment length(s) may be 161 bps INFO @ Sun, 21 Jun 2020 18:52:10: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX2618528/SRX2618528.20_model.r INFO @ Sun, 21 Jun 2020 18:52:10: #3 Call peaks... INFO @ Sun, 21 Jun 2020 18:52:10: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 18:52:13: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 18:52:27: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX2618528/SRX2618528.10_peaks.xls INFO @ Sun, 21 Jun 2020 18:52:27: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX2618528/SRX2618528.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 18:52:27: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX2618528/SRX2618528.10_summits.bed INFO @ Sun, 21 Jun 2020 18:52:27: Done! pass1 - making usageList (174 chroms): 1 millis pass2 - checking and writing primary data (6684 records, 4 fields): 13 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 18:52:37: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 18:52:49: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX2618528/SRX2618528.20_peaks.xls INFO @ Sun, 21 Jun 2020 18:52:49: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX2618528/SRX2618528.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 18:52:49: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX2618528/SRX2618528.20_summits.bed INFO @ Sun, 21 Jun 2020 18:52:49: Done! pass1 - making usageList (111 chroms): 1 millis pass2 - checking and writing primary data (3624 records, 4 fields): 9 millis CompletedMACS2peakCalling