Job ID = 6498034 SRX = SRX287907 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-25T22:41:13 prefetch.2.10.7: 1) Downloading 'SRR870096'... 2020-06-25T22:41:13 prefetch.2.10.7: Downloading via HTTPS... 2020-06-25T22:44:01 prefetch.2.10.7: HTTPS download succeed 2020-06-25T22:44:01 prefetch.2.10.7: 1) 'SRR870096' was downloaded successfully Read 18721281 spots for SRR870096/SRR870096.sra Written 18721281 spots for SRR870096/SRR870096.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: 00:05:08 18721281 reads; of these: 18721281 (100.00%) were unpaired; of these: 1532488 (8.19%) aligned 0 times 14474694 (77.32%) aligned exactly 1 time 2714099 (14.50%) aligned >1 times 91.81% overall alignment rate Time searching: 00:05:08 Overall time: 00:05:08 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_sort_core] merging from 8 files... [bam_rmdupse_core] 3414395 / 17188793 = 0.1986 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 @ Fri, 26 Jun 2020 07:55:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX287907/SRX287907.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX287907/SRX287907.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX287907/SRX287907.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX287907/SRX287907.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 @ Fri, 26 Jun 2020 07:55:04: #1 read tag files... INFO @ Fri, 26 Jun 2020 07:55:04: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 07:55:12: 1000000 INFO @ Fri, 26 Jun 2020 07:55:19: 2000000 INFO @ Fri, 26 Jun 2020 07:55:27: 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 @ Fri, 26 Jun 2020 07:55:34: 4000000 INFO @ Fri, 26 Jun 2020 07:55:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX287907/SRX287907.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX287907/SRX287907.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX287907/SRX287907.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX287907/SRX287907.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 @ Fri, 26 Jun 2020 07:55:34: #1 read tag files... INFO @ Fri, 26 Jun 2020 07:55:34: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 07:55:42: 1000000 INFO @ Fri, 26 Jun 2020 07:55:42: 5000000 INFO @ Fri, 26 Jun 2020 07:55:50: 2000000 INFO @ Fri, 26 Jun 2020 07:55:50: 6000000 INFO @ Fri, 26 Jun 2020 07:55:57: 3000000 INFO @ Fri, 26 Jun 2020 07:55:58: 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 @ Fri, 26 Jun 2020 07:56:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX287907/SRX287907.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX287907/SRX287907.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX287907/SRX287907.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX287907/SRX287907.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 @ Fri, 26 Jun 2020 07:56:04: #1 read tag files... INFO @ Fri, 26 Jun 2020 07:56:04: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 07:56:05: 4000000 INFO @ Fri, 26 Jun 2020 07:56:06: 8000000 INFO @ Fri, 26 Jun 2020 07:56:12: 1000000 INFO @ Fri, 26 Jun 2020 07:56:13: 5000000 INFO @ Fri, 26 Jun 2020 07:56:14: 9000000 INFO @ Fri, 26 Jun 2020 07:56:19: 2000000 INFO @ Fri, 26 Jun 2020 07:56:21: 6000000 INFO @ Fri, 26 Jun 2020 07:56:22: 10000000 INFO @ Fri, 26 Jun 2020 07:56:27: 3000000 INFO @ Fri, 26 Jun 2020 07:56:29: 7000000 INFO @ Fri, 26 Jun 2020 07:56:30: 11000000 INFO @ Fri, 26 Jun 2020 07:56:35: 4000000 INFO @ Fri, 26 Jun 2020 07:56:37: 8000000 INFO @ Fri, 26 Jun 2020 07:56:38: 12000000 INFO @ Fri, 26 Jun 2020 07:56:42: 5000000 INFO @ Fri, 26 Jun 2020 07:56:45: 9000000 INFO @ Fri, 26 Jun 2020 07:56:45: 13000000 INFO @ Fri, 26 Jun 2020 07:56:50: 6000000 INFO @ Fri, 26 Jun 2020 07:56:51: #1 tag size is determined as 50 bps INFO @ Fri, 26 Jun 2020 07:56:51: #1 tag size = 50 INFO @ Fri, 26 Jun 2020 07:56:51: #1 total tags in treatment: 13774398 INFO @ Fri, 26 Jun 2020 07:56:51: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 07:56:51: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 26 Jun 2020 07:56:52: #1 tags after filtering in treatment: 13774398 INFO @ Fri, 26 Jun 2020 07:56:52: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 07:56:52: #1 finished! INFO @ Fri, 26 Jun 2020 07:56:52: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 07:56:52: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 07:56:53: 10000000 INFO @ Fri, 26 Jun 2020 07:56:53: #2 number of paired peaks: 1738 INFO @ Fri, 26 Jun 2020 07:56:53: start model_add_line... INFO @ Fri, 26 Jun 2020 07:56:53: start X-correlation... INFO @ Fri, 26 Jun 2020 07:56:53: end of X-cor INFO @ Fri, 26 Jun 2020 07:56:53: #2 finished! INFO @ Fri, 26 Jun 2020 07:56:53: #2 predicted fragment length is 212 bps INFO @ Fri, 26 Jun 2020 07:56:53: #2 alternative fragment length(s) may be 212,598 bps INFO @ Fri, 26 Jun 2020 07:56:53: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX287907/SRX287907.05_model.r INFO @ Fri, 26 Jun 2020 07:56:53: #3 Call peaks... INFO @ Fri, 26 Jun 2020 07:56:53: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 26 Jun 2020 07:56:58: 7000000 INFO @ Fri, 26 Jun 2020 07:57:00: 11000000 INFO @ Fri, 26 Jun 2020 07:57:05: 8000000 INFO @ Fri, 26 Jun 2020 07:57:09: 12000000 INFO @ Fri, 26 Jun 2020 07:57:13: 9000000 INFO @ Fri, 26 Jun 2020 07:57:17: 13000000 INFO @ Fri, 26 Jun 2020 07:57:21: 10000000 INFO @ Fri, 26 Jun 2020 07:57:23: #1 tag size is determined as 50 bps INFO @ Fri, 26 Jun 2020 07:57:23: #1 tag size = 50 INFO @ Fri, 26 Jun 2020 07:57:23: #1 total tags in treatment: 13774398 INFO @ Fri, 26 Jun 2020 07:57:23: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 07:57:23: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 26 Jun 2020 07:57:23: #1 tags after filtering in treatment: 13774398 INFO @ Fri, 26 Jun 2020 07:57:23: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 07:57:23: #1 finished! INFO @ Fri, 26 Jun 2020 07:57:23: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 07:57:23: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 07:57:25: #2 number of paired peaks: 1738 INFO @ Fri, 26 Jun 2020 07:57:25: start model_add_line... INFO @ Fri, 26 Jun 2020 07:57:25: start X-correlation... INFO @ Fri, 26 Jun 2020 07:57:25: end of X-cor INFO @ Fri, 26 Jun 2020 07:57:25: #2 finished! INFO @ Fri, 26 Jun 2020 07:57:25: #2 predicted fragment length is 212 bps INFO @ Fri, 26 Jun 2020 07:57:25: #2 alternative fragment length(s) may be 212,598 bps INFO @ Fri, 26 Jun 2020 07:57:25: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX287907/SRX287907.10_model.r INFO @ Fri, 26 Jun 2020 07:57:25: #3 Call peaks... INFO @ Fri, 26 Jun 2020 07:57:25: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 26 Jun 2020 07:57:28: 11000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 26 Jun 2020 07:57:35: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 07:57:35: 12000000 INFO @ Fri, 26 Jun 2020 07:57:42: 13000000 INFO @ Fri, 26 Jun 2020 07:57:48: #1 tag size is determined as 50 bps INFO @ Fri, 26 Jun 2020 07:57:48: #1 tag size = 50 INFO @ Fri, 26 Jun 2020 07:57:48: #1 total tags in treatment: 13774398 INFO @ Fri, 26 Jun 2020 07:57:48: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 07:57:48: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 26 Jun 2020 07:57:48: #1 tags after filtering in treatment: 13774398 INFO @ Fri, 26 Jun 2020 07:57:48: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 07:57:48: #1 finished! INFO @ Fri, 26 Jun 2020 07:57:48: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 07:57:48: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 07:57:49: #2 number of paired peaks: 1738 INFO @ Fri, 26 Jun 2020 07:57:49: start model_add_line... INFO @ Fri, 26 Jun 2020 07:57:49: start X-correlation... INFO @ Fri, 26 Jun 2020 07:57:49: end of X-cor INFO @ Fri, 26 Jun 2020 07:57:49: #2 finished! INFO @ Fri, 26 Jun 2020 07:57:49: #2 predicted fragment length is 212 bps INFO @ Fri, 26 Jun 2020 07:57:49: #2 alternative fragment length(s) may be 212,598 bps INFO @ Fri, 26 Jun 2020 07:57:49: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX287907/SRX287907.20_model.r INFO @ Fri, 26 Jun 2020 07:57:49: #3 Call peaks... INFO @ Fri, 26 Jun 2020 07:57:49: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 26 Jun 2020 07:57:56: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX287907/SRX287907.05_peaks.xls INFO @ Fri, 26 Jun 2020 07:57:56: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX287907/SRX287907.05_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 07:57:56: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX287907/SRX287907.05_summits.bed INFO @ Fri, 26 Jun 2020 07:57:56: Done! pass1 - making usageList (14 chroms): 2 millis pass2 - checking and writing primary data (7908 records, 4 fields): 11 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Fri, 26 Jun 2020 07:58:07: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 07:58:28: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX287907/SRX287907.10_peaks.xls INFO @ Fri, 26 Jun 2020 07:58:28: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX287907/SRX287907.10_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 07:58:28: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX287907/SRX287907.10_summits.bed INFO @ Fri, 26 Jun 2020 07:58:28: Done! pass1 - making usageList (14 chroms): 2 millis pass2 - checking and writing primary data (5986 records, 4 fields): 8 millis CompletedMACS2peakCalling INFO @ Fri, 26 Jun 2020 07:58:31: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 07:58:52: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX287907/SRX287907.20_peaks.xls INFO @ Fri, 26 Jun 2020 07:58:52: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX287907/SRX287907.20_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 07:58:52: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX287907/SRX287907.20_summits.bed INFO @ Fri, 26 Jun 2020 07:58:52: Done! pass1 - making usageList (13 chroms): 1 millis pass2 - checking and writing primary data (4203 records, 4 fields): 7 millis CompletedMACS2peakCalling