Job ID = 6459792 SRX = SRX858993 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T13:41:33 prefetch.2.10.7: 1) Downloading 'SRR1779549'... 2020-06-21T13:41:33 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T13:42:16 prefetch.2.10.7: HTTPS download succeed 2020-06-21T13:42:17 prefetch.2.10.7: 'SRR1779549' is valid 2020-06-21T13:42:17 prefetch.2.10.7: 1) 'SRR1779549' was downloaded successfully 2020-06-21T13:43:08 prefetch.2.10.7: 'SRR1779549' has 10 unresolved dependencies 2020-06-21T13:43:08 prefetch.2.10.7: 2) Downloading 'ncbi-acc:AE013599.4?vdb-ctx=refseq'... 2020-06-21T13:43:08 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T13:43:24 prefetch.2.10.7: HTTPS download succeed 2020-06-21T13:43:24 prefetch.2.10.7: 2) 'ncbi-acc:AE013599.4?vdb-ctx=refseq' was downloaded successfully 2020-06-21T13:43:24 prefetch.2.10.7: 3) Downloading 'ncbi-acc:AE014134.5?vdb-ctx=refseq'... 2020-06-21T13:43:24 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T13:43:41 prefetch.2.10.7: HTTPS download succeed 2020-06-21T13:43:41 prefetch.2.10.7: 3) 'ncbi-acc:AE014134.5?vdb-ctx=refseq' was downloaded successfully 2020-06-21T13:43:41 prefetch.2.10.7: 4) Downloading 'ncbi-acc:AE014135.3?vdb-ctx=refseq'... 2020-06-21T13:43:41 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T13:43:53 prefetch.2.10.7: HTTPS download succeed 2020-06-21T13:43:53 prefetch.2.10.7: 4) 'ncbi-acc:AE014135.3?vdb-ctx=refseq' was downloaded successfully 2020-06-21T13:43:53 prefetch.2.10.7: 5) Downloading 'ncbi-acc:AE014296.4?vdb-ctx=refseq'... 2020-06-21T13:43:53 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T13:44:09 prefetch.2.10.7: HTTPS download succeed 2020-06-21T13:44:09 prefetch.2.10.7: 5) 'ncbi-acc:AE014296.4?vdb-ctx=refseq' was downloaded successfully 2020-06-21T13:44:09 prefetch.2.10.7: 6) Downloading 'ncbi-acc:AE014297.2?vdb-ctx=refseq'... 2020-06-21T13:44:09 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T13:44:26 prefetch.2.10.7: HTTPS download succeed 2020-06-21T13:44:26 prefetch.2.10.7: 6) 'ncbi-acc:AE014297.2?vdb-ctx=refseq' was downloaded successfully 2020-06-21T13:44:26 prefetch.2.10.7: 7) Downloading 'ncbi-acc:AE014298.4?vdb-ctx=refseq'... 2020-06-21T13:44:26 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T13:44:42 prefetch.2.10.7: HTTPS download succeed 2020-06-21T13:44:42 prefetch.2.10.7: 7) 'ncbi-acc:AE014298.4?vdb-ctx=refseq' was downloaded successfully 2020-06-21T13:44:42 prefetch.2.10.7: 8) Downloading 'ncbi-acc:CM000457.1?vdb-ctx=refseq'... 2020-06-21T13:44:42 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T13:44:56 prefetch.2.10.7: HTTPS download succeed 2020-06-21T13:44:56 prefetch.2.10.7: 8) 'ncbi-acc:CM000457.1?vdb-ctx=refseq' was downloaded successfully 2020-06-21T13:44:56 prefetch.2.10.7: 9) Downloading 'ncbi-acc:CM000458.1?vdb-ctx=refseq'... 2020-06-21T13:44:56 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T13:45:09 prefetch.2.10.7: HTTPS download succeed 2020-06-21T13:45:09 prefetch.2.10.7: 9) 'ncbi-acc:CM000458.1?vdb-ctx=refseq' was downloaded successfully 2020-06-21T13:45:09 prefetch.2.10.7: 10) Downloading 'ncbi-acc:CM000459.1?vdb-ctx=refseq'... 2020-06-21T13:45:09 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T13:45:22 prefetch.2.10.7: HTTPS download succeed 2020-06-21T13:45:22 prefetch.2.10.7: 10) 'ncbi-acc:CM000459.1?vdb-ctx=refseq' was downloaded successfully 2020-06-21T13:45:22 prefetch.2.10.7: 11) Downloading 'ncbi-acc:FA000001.1?vdb-ctx=refseq'... 2020-06-21T13:45:22 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T13:45:37 prefetch.2.10.7: HTTPS download succeed 2020-06-21T13:45:37 prefetch.2.10.7: 11) 'ncbi-acc:FA000001.1?vdb-ctx=refseq' was downloaded successfully Read 6874820 spots for SRR1779549/SRR1779549.sra Written 6874820 spots for SRR1779549/SRR1779549.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: 00:00:49 6874820 reads; of these: 6874820 (100.00%) were unpaired; of these: 177502 (2.58%) aligned 0 times 6518565 (94.82%) aligned exactly 1 time 178753 (2.60%) aligned >1 times 97.42% overall alignment rate Time searching: 00:00:49 Overall time: 00:00:49 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] 760 / 6697318 = 0.0001 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 22:48:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX858993/SRX858993.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX858993/SRX858993.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX858993/SRX858993.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX858993/SRX858993.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 22:48:29: #1 read tag files... INFO @ Sun, 21 Jun 2020 22:48:29: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 22:48:34: 1000000 INFO @ Sun, 21 Jun 2020 22:48:39: 2000000 INFO @ Sun, 21 Jun 2020 22:48:45: 3000000 INFO @ Sun, 21 Jun 2020 22:48:50: 4000000 INFO @ Sun, 21 Jun 2020 22:48:56: 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 22:48:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX858993/SRX858993.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX858993/SRX858993.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX858993/SRX858993.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX858993/SRX858993.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 22:48:59: #1 read tag files... INFO @ Sun, 21 Jun 2020 22:48:59: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 22:49:02: 6000000 INFO @ Sun, 21 Jun 2020 22:49:05: 1000000 INFO @ Sun, 21 Jun 2020 22:49:06: #1 tag size is determined as 34 bps INFO @ Sun, 21 Jun 2020 22:49:06: #1 tag size = 34 INFO @ Sun, 21 Jun 2020 22:49:06: #1 total tags in treatment: 6696558 INFO @ Sun, 21 Jun 2020 22:49:06: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 22:49:06: #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 22:49:07: #1 tags after filtering in treatment: 6695917 INFO @ Sun, 21 Jun 2020 22:49:07: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 22:49:07: #1 finished! INFO @ Sun, 21 Jun 2020 22:49:07: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 22:49:07: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 22:49:07: #2 number of paired peaks: 2691 INFO @ Sun, 21 Jun 2020 22:49:07: start model_add_line... INFO @ Sun, 21 Jun 2020 22:49:07: start X-correlation... INFO @ Sun, 21 Jun 2020 22:49:07: end of X-cor INFO @ Sun, 21 Jun 2020 22:49:07: #2 finished! INFO @ Sun, 21 Jun 2020 22:49:07: #2 predicted fragment length is 99 bps INFO @ Sun, 21 Jun 2020 22:49:07: #2 alternative fragment length(s) may be 99 bps INFO @ Sun, 21 Jun 2020 22:49:07: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX858993/SRX858993.05_model.r INFO @ Sun, 21 Jun 2020 22:49:07: #3 Call peaks... INFO @ Sun, 21 Jun 2020 22:49:07: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 22:49:11: 2000000 INFO @ Sun, 21 Jun 2020 22:49:17: 3000000 INFO @ Sun, 21 Jun 2020 22:49:22: 4000000 INFO @ Sun, 21 Jun 2020 22:49:25: #3 Call peaks for each chromosome... 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 22:49:28: 5000000 INFO @ Sun, 21 Jun 2020 22:49:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX858993/SRX858993.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX858993/SRX858993.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX858993/SRX858993.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX858993/SRX858993.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 22:49:29: #1 read tag files... INFO @ Sun, 21 Jun 2020 22:49:29: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 22:49:33: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX858993/SRX858993.05_peaks.xls INFO @ Sun, 21 Jun 2020 22:49:34: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX858993/SRX858993.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 22:49:34: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX858993/SRX858993.05_summits.bed INFO @ Sun, 21 Jun 2020 22:49:34: Done! pass1 - making usageList (27 chroms): 2 millis pass2 - checking and writing primary data (8654 records, 4 fields): 11 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 22:49:34: 6000000 INFO @ Sun, 21 Jun 2020 22:49:36: 1000000 INFO @ Sun, 21 Jun 2020 22:49:39: #1 tag size is determined as 34 bps INFO @ Sun, 21 Jun 2020 22:49:39: #1 tag size = 34 INFO @ Sun, 21 Jun 2020 22:49:39: #1 total tags in treatment: 6696558 INFO @ Sun, 21 Jun 2020 22:49:39: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 22:49:39: #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 22:49:39: #1 tags after filtering in treatment: 6695917 INFO @ Sun, 21 Jun 2020 22:49:39: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 22:49:39: #1 finished! INFO @ Sun, 21 Jun 2020 22:49:39: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 22:49:39: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 22:49:39: #2 number of paired peaks: 2691 INFO @ Sun, 21 Jun 2020 22:49:39: start model_add_line... INFO @ Sun, 21 Jun 2020 22:49:40: start X-correlation... INFO @ Sun, 21 Jun 2020 22:49:40: end of X-cor INFO @ Sun, 21 Jun 2020 22:49:40: #2 finished! INFO @ Sun, 21 Jun 2020 22:49:40: #2 predicted fragment length is 99 bps INFO @ Sun, 21 Jun 2020 22:49:40: #2 alternative fragment length(s) may be 99 bps INFO @ Sun, 21 Jun 2020 22:49:40: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX858993/SRX858993.10_model.r INFO @ Sun, 21 Jun 2020 22:49:40: #3 Call peaks... INFO @ Sun, 21 Jun 2020 22:49:40: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 22:49:42: 2000000 INFO @ Sun, 21 Jun 2020 22:49:47: 3000000 INFO @ Sun, 21 Jun 2020 22:49:53: 4000000 INFO @ Sun, 21 Jun 2020 22:49:57: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 22:49:58: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 22:50:04: 6000000 INFO @ Sun, 21 Jun 2020 22:50:06: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX858993/SRX858993.10_peaks.xls INFO @ Sun, 21 Jun 2020 22:50:06: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX858993/SRX858993.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 22:50:06: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX858993/SRX858993.10_summits.bed INFO @ Sun, 21 Jun 2020 22:50:06: Done! pass1 - making usageList (21 chroms): 2 millis pass2 - checking and writing primary data (5063 records, 4 fields): 6 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 22:50:08: #1 tag size is determined as 34 bps INFO @ Sun, 21 Jun 2020 22:50:08: #1 tag size = 34 INFO @ Sun, 21 Jun 2020 22:50:08: #1 total tags in treatment: 6696558 INFO @ Sun, 21 Jun 2020 22:50:08: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 22:50:08: #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 22:50:08: #1 tags after filtering in treatment: 6695917 INFO @ Sun, 21 Jun 2020 22:50:08: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 22:50:08: #1 finished! INFO @ Sun, 21 Jun 2020 22:50:08: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 22:50:08: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 22:50:08: #2 number of paired peaks: 2691 INFO @ Sun, 21 Jun 2020 22:50:08: start model_add_line... INFO @ Sun, 21 Jun 2020 22:50:09: start X-correlation... INFO @ Sun, 21 Jun 2020 22:50:09: end of X-cor INFO @ Sun, 21 Jun 2020 22:50:09: #2 finished! INFO @ Sun, 21 Jun 2020 22:50:09: #2 predicted fragment length is 99 bps INFO @ Sun, 21 Jun 2020 22:50:09: #2 alternative fragment length(s) may be 99 bps INFO @ Sun, 21 Jun 2020 22:50:09: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX858993/SRX858993.20_model.r INFO @ Sun, 21 Jun 2020 22:50:09: #3 Call peaks... INFO @ Sun, 21 Jun 2020 22:50:09: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 22:50:25: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 22:50:34: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX858993/SRX858993.20_peaks.xls INFO @ Sun, 21 Jun 2020 22:50:34: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX858993/SRX858993.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 22:50:34: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX858993/SRX858993.20_summits.bed INFO @ Sun, 21 Jun 2020 22:50:34: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (2455 records, 4 fields): 4 millis CompletedMACS2peakCalling