Job ID = 6451801 SRX = ERX011417 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T06:55:43 prefetch.2.10.7: 1) Downloading 'ERR031138'... 2020-06-21T06:55:43 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T06:58:25 prefetch.2.10.7: HTTPS download succeed 2020-06-21T06:58:26 prefetch.2.10.7: 'ERR031138' is valid 2020-06-21T06:58:26 prefetch.2.10.7: 1) 'ERR031138' was downloaded successfully 2020-06-21T06:59:17 prefetch.2.10.7: 'ERR031138' has 10 unresolved dependencies 2020-06-21T06:59:17 prefetch.2.10.7: 2) Downloading 'ncbi-acc:AE013599.4?vdb-ctx=refseq'... 2020-06-21T06:59:17 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T06:59:35 prefetch.2.10.7: HTTPS download succeed 2020-06-21T06:59:35 prefetch.2.10.7: 2) 'ncbi-acc:AE013599.4?vdb-ctx=refseq' was downloaded successfully 2020-06-21T06:59:35 prefetch.2.10.7: 3) Downloading 'ncbi-acc:AE014134.5?vdb-ctx=refseq'... 2020-06-21T06:59:35 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T06:59:53 prefetch.2.10.7: HTTPS download succeed 2020-06-21T06:59:53 prefetch.2.10.7: 3) 'ncbi-acc:AE014134.5?vdb-ctx=refseq' was downloaded successfully 2020-06-21T06:59:53 prefetch.2.10.7: 4) Downloading 'ncbi-acc:AE014135.3?vdb-ctx=refseq'... 2020-06-21T06:59:53 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T07:00:05 prefetch.2.10.7: HTTPS download succeed 2020-06-21T07:00:05 prefetch.2.10.7: 4) 'ncbi-acc:AE014135.3?vdb-ctx=refseq' was downloaded successfully 2020-06-21T07:00:05 prefetch.2.10.7: 5) Downloading 'ncbi-acc:AE014296.4?vdb-ctx=refseq'... 2020-06-21T07:00:05 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T07:00:23 prefetch.2.10.7: HTTPS download succeed 2020-06-21T07:00:23 prefetch.2.10.7: 5) 'ncbi-acc:AE014296.4?vdb-ctx=refseq' was downloaded successfully 2020-06-21T07:00:23 prefetch.2.10.7: 6) Downloading 'ncbi-acc:AE014297.2?vdb-ctx=refseq'... 2020-06-21T07:00:23 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T07:00:40 prefetch.2.10.7: HTTPS download succeed 2020-06-21T07:00:40 prefetch.2.10.7: 6) 'ncbi-acc:AE014297.2?vdb-ctx=refseq' was downloaded successfully 2020-06-21T07:00:40 prefetch.2.10.7: 7) Downloading 'ncbi-acc:AE014298.4?vdb-ctx=refseq'... 2020-06-21T07:00:40 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T07:00:56 prefetch.2.10.7: HTTPS download succeed 2020-06-21T07:00:56 prefetch.2.10.7: 7) 'ncbi-acc:AE014298.4?vdb-ctx=refseq' was downloaded successfully 2020-06-21T07:00:56 prefetch.2.10.7: 8) Downloading 'ncbi-acc:CM000457.1?vdb-ctx=refseq'... 2020-06-21T07:00:56 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T07:01:10 prefetch.2.10.7: HTTPS download succeed 2020-06-21T07:01:10 prefetch.2.10.7: 8) 'ncbi-acc:CM000457.1?vdb-ctx=refseq' was downloaded successfully 2020-06-21T07:01:10 prefetch.2.10.7: 9) Downloading 'ncbi-acc:CM000458.1?vdb-ctx=refseq'... 2020-06-21T07:01:10 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T07:01:23 prefetch.2.10.7: HTTPS download succeed 2020-06-21T07:01:23 prefetch.2.10.7: 9) 'ncbi-acc:CM000458.1?vdb-ctx=refseq' was downloaded successfully 2020-06-21T07:01:23 prefetch.2.10.7: 10) Downloading 'ncbi-acc:CM000459.1?vdb-ctx=refseq'... 2020-06-21T07:01:23 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T07:01:37 prefetch.2.10.7: HTTPS download succeed 2020-06-21T07:01:37 prefetch.2.10.7: 10) 'ncbi-acc:CM000459.1?vdb-ctx=refseq' was downloaded successfully 2020-06-21T07:01:37 prefetch.2.10.7: 11) Downloading 'ncbi-acc:FA000001.1?vdb-ctx=refseq'... 2020-06-21T07:01:37 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T07:01:52 prefetch.2.10.7: HTTPS download succeed 2020-06-21T07:01:52 prefetch.2.10.7: 11) 'ncbi-acc:FA000001.1?vdb-ctx=refseq' was downloaded successfully Read 18359977 spots for ERR031138/ERR031138.sra Written 18359977 spots for ERR031138/ERR031138.sra fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:01 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:01 Multiseed full-index search: 00:02:07 18359977 reads; of these: 18359977 (100.00%) were unpaired; of these: 583251 (3.18%) aligned 0 times 16399543 (89.32%) aligned exactly 1 time 1377183 (7.50%) aligned >1 times 96.82% overall alignment rate Time searching: 00:02:09 Overall time: 00:02:09 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] 11594970 / 17776726 = 0.6523 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 16:08:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/ERX011417/ERX011417.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/ERX011417/ERX011417.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/ERX011417/ERX011417.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/ERX011417/ERX011417.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 16:08:01: #1 read tag files... INFO @ Sun, 21 Jun 2020 16:08:01: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 16:08:06: 1000000 INFO @ Sun, 21 Jun 2020 16:08:12: 2000000 INFO @ Sun, 21 Jun 2020 16:08:17: 3000000 INFO @ Sun, 21 Jun 2020 16:08:22: 4000000 INFO @ Sun, 21 Jun 2020 16:08:28: 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 16:08:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/ERX011417/ERX011417.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/ERX011417/ERX011417.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/ERX011417/ERX011417.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/ERX011417/ERX011417.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 16:08:31: #1 read tag files... INFO @ Sun, 21 Jun 2020 16:08:31: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 16:08:34: 6000000 INFO @ Sun, 21 Jun 2020 16:08:35: #1 tag size is determined as 36 bps INFO @ Sun, 21 Jun 2020 16:08:35: #1 tag size = 36 INFO @ Sun, 21 Jun 2020 16:08:35: #1 total tags in treatment: 6181756 INFO @ Sun, 21 Jun 2020 16:08:35: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 16:08:35: #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 16:08:35: #1 tags after filtering in treatment: 6181533 INFO @ Sun, 21 Jun 2020 16:08:35: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 16:08:35: #1 finished! INFO @ Sun, 21 Jun 2020 16:08:35: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 16:08:35: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 16:08:36: #2 number of paired peaks: 9456 INFO @ Sun, 21 Jun 2020 16:08:36: start model_add_line... INFO @ Sun, 21 Jun 2020 16:08:36: start X-correlation... INFO @ Sun, 21 Jun 2020 16:08:36: end of X-cor INFO @ Sun, 21 Jun 2020 16:08:36: #2 finished! INFO @ Sun, 21 Jun 2020 16:08:36: #2 predicted fragment length is 161 bps INFO @ Sun, 21 Jun 2020 16:08:36: #2 alternative fragment length(s) may be 161 bps INFO @ Sun, 21 Jun 2020 16:08:36: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/ERX011417/ERX011417.05_model.r INFO @ Sun, 21 Jun 2020 16:08:36: #3 Call peaks... INFO @ Sun, 21 Jun 2020 16:08:36: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 16:08:37: 1000000 INFO @ Sun, 21 Jun 2020 16:08:42: 2000000 INFO @ Sun, 21 Jun 2020 16:08:47: 3000000 INFO @ Sun, 21 Jun 2020 16:08:53: 4000000 INFO @ Sun, 21 Jun 2020 16:08:55: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 16:08:58: 5000000 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 16:09:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/ERX011417/ERX011417.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/ERX011417/ERX011417.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/ERX011417/ERX011417.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/ERX011417/ERX011417.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 16:09:01: #1 read tag files... INFO @ Sun, 21 Jun 2020 16:09:01: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 16:09:04: 6000000 INFO @ Sun, 21 Jun 2020 16:09:05: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/ERX011417/ERX011417.05_peaks.xls INFO @ Sun, 21 Jun 2020 16:09:05: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/ERX011417/ERX011417.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 16:09:05: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/ERX011417/ERX011417.05_summits.bed INFO @ Sun, 21 Jun 2020 16:09:05: Done! pass1 - making usageList (79 chroms): 2 millis pass2 - checking and writing primary data (7687 records, 4 fields): 10 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 16:09:05: #1 tag size is determined as 36 bps INFO @ Sun, 21 Jun 2020 16:09:05: #1 tag size = 36 INFO @ Sun, 21 Jun 2020 16:09:05: #1 total tags in treatment: 6181756 INFO @ Sun, 21 Jun 2020 16:09:05: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 16:09:05: #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 16:09:06: #1 tags after filtering in treatment: 6181533 INFO @ Sun, 21 Jun 2020 16:09:06: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 16:09:06: #1 finished! INFO @ Sun, 21 Jun 2020 16:09:06: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 16:09:06: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 16:09:07: #2 number of paired peaks: 9456 INFO @ Sun, 21 Jun 2020 16:09:07: start model_add_line... INFO @ Sun, 21 Jun 2020 16:09:07: 1000000 INFO @ Sun, 21 Jun 2020 16:09:07: start X-correlation... INFO @ Sun, 21 Jun 2020 16:09:07: end of X-cor INFO @ Sun, 21 Jun 2020 16:09:07: #2 finished! INFO @ Sun, 21 Jun 2020 16:09:07: #2 predicted fragment length is 161 bps INFO @ Sun, 21 Jun 2020 16:09:07: #2 alternative fragment length(s) may be 161 bps INFO @ Sun, 21 Jun 2020 16:09:07: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/ERX011417/ERX011417.10_model.r INFO @ Sun, 21 Jun 2020 16:09:07: #3 Call peaks... INFO @ Sun, 21 Jun 2020 16:09:07: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 16:09:12: 2000000 INFO @ Sun, 21 Jun 2020 16:09:17: 3000000 INFO @ Sun, 21 Jun 2020 16:09:23: 4000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 16:09:26: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 16:09:28: 5000000 INFO @ Sun, 21 Jun 2020 16:09:34: 6000000 INFO @ Sun, 21 Jun 2020 16:09:35: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/ERX011417/ERX011417.10_peaks.xls INFO @ Sun, 21 Jun 2020 16:09:35: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/ERX011417/ERX011417.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 16:09:35: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/ERX011417/ERX011417.10_summits.bed INFO @ Sun, 21 Jun 2020 16:09:35: #1 tag size is determined as 36 bps INFO @ Sun, 21 Jun 2020 16:09:35: #1 tag size = 36 INFO @ Sun, 21 Jun 2020 16:09:35: #1 total tags in treatment: 6181756 INFO @ Sun, 21 Jun 2020 16:09:35: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 16:09:35: #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 16:09:35: Done! pass1 - making usageList (62 chroms): 1 millis pass2 - checking and writing primary data (4183 records, 4 fields): 7 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 16:09:35: #1 tags after filtering in treatment: 6181533 INFO @ Sun, 21 Jun 2020 16:09:35: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 16:09:35: #1 finished! INFO @ Sun, 21 Jun 2020 16:09:35: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 16:09:35: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 16:09:36: #2 number of paired peaks: 9456 INFO @ Sun, 21 Jun 2020 16:09:36: start model_add_line... INFO @ Sun, 21 Jun 2020 16:09:36: start X-correlation... INFO @ Sun, 21 Jun 2020 16:09:36: end of X-cor INFO @ Sun, 21 Jun 2020 16:09:36: #2 finished! INFO @ Sun, 21 Jun 2020 16:09:36: #2 predicted fragment length is 161 bps INFO @ Sun, 21 Jun 2020 16:09:36: #2 alternative fragment length(s) may be 161 bps INFO @ Sun, 21 Jun 2020 16:09:36: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/ERX011417/ERX011417.20_model.r INFO @ Sun, 21 Jun 2020 16:09:36: #3 Call peaks... INFO @ Sun, 21 Jun 2020 16:09:36: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 16:09:56: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 16:10:05: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/ERX011417/ERX011417.20_peaks.xls INFO @ Sun, 21 Jun 2020 16:10:05: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/ERX011417/ERX011417.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 16:10:05: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/ERX011417/ERX011417.20_summits.bed INFO @ Sun, 21 Jun 2020 16:10:05: Done! pass1 - making usageList (40 chroms): 1 millis pass2 - checking and writing primary data (1522 records, 4 fields): 4 millis CompletedMACS2peakCalling