Job ID = 6452061 SRX = ERX1432617 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T08:00:13 prefetch.2.10.7: 1) Downloading 'ERR1361146'... 2020-06-21T08:00:13 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T08:00:38 prefetch.2.10.7: HTTPS download succeed 2020-06-21T08:00:39 prefetch.2.10.7: 'ERR1361146' is valid 2020-06-21T08:00:39 prefetch.2.10.7: 1) 'ERR1361146' was downloaded successfully 2020-06-21T08:01:25 prefetch.2.10.7: 'ERR1361146' has 9 unresolved dependencies 2020-06-21T08:01:25 prefetch.2.10.7: 2) Downloading 'ncbi-acc:AE013599.4?vdb-ctx=refseq'... 2020-06-21T08:01:25 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T08:01:41 prefetch.2.10.7: HTTPS download succeed 2020-06-21T08:01:41 prefetch.2.10.7: 2) 'ncbi-acc:AE013599.4?vdb-ctx=refseq' was downloaded successfully 2020-06-21T08:01:41 prefetch.2.10.7: 3) Downloading 'ncbi-acc:AE014134.5?vdb-ctx=refseq'... 2020-06-21T08:01:41 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T08:01:57 prefetch.2.10.7: HTTPS download succeed 2020-06-21T08:01:57 prefetch.2.10.7: 3) 'ncbi-acc:AE014134.5?vdb-ctx=refseq' was downloaded successfully 2020-06-21T08:01:57 prefetch.2.10.7: 4) Downloading 'ncbi-acc:AE014135.3?vdb-ctx=refseq'... 2020-06-21T08:01:57 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T08:02:10 prefetch.2.10.7: HTTPS download succeed 2020-06-21T08:02:10 prefetch.2.10.7: 4) 'ncbi-acc:AE014135.3?vdb-ctx=refseq' was downloaded successfully 2020-06-21T08:02:10 prefetch.2.10.7: 5) Downloading 'ncbi-acc:AE014296.4?vdb-ctx=refseq'... 2020-06-21T08:02:10 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T08:02:28 prefetch.2.10.7: HTTPS download succeed 2020-06-21T08:02:28 prefetch.2.10.7: 5) 'ncbi-acc:AE014296.4?vdb-ctx=refseq' was downloaded successfully 2020-06-21T08:02:28 prefetch.2.10.7: 6) Downloading 'ncbi-acc:AE014297.2?vdb-ctx=refseq'... 2020-06-21T08:02:28 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T08:02:44 prefetch.2.10.7: HTTPS download succeed 2020-06-21T08:02:44 prefetch.2.10.7: 6) 'ncbi-acc:AE014297.2?vdb-ctx=refseq' was downloaded successfully 2020-06-21T08:02:44 prefetch.2.10.7: 7) Downloading 'ncbi-acc:AE014298.4?vdb-ctx=refseq'... 2020-06-21T08:02:44 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T08:03:03 prefetch.2.10.7: HTTPS download succeed 2020-06-21T08:03:03 prefetch.2.10.7: 7) 'ncbi-acc:AE014298.4?vdb-ctx=refseq' was downloaded successfully 2020-06-21T08:03:03 prefetch.2.10.7: 8) Downloading 'ncbi-acc:CM000457.1?vdb-ctx=refseq'... 2020-06-21T08:03:03 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T08:03:17 prefetch.2.10.7: HTTPS download succeed 2020-06-21T08:03:17 prefetch.2.10.7: 8) 'ncbi-acc:CM000457.1?vdb-ctx=refseq' was downloaded successfully 2020-06-21T08:03:17 prefetch.2.10.7: 9) Downloading 'ncbi-acc:CM000458.1?vdb-ctx=refseq'... 2020-06-21T08:03:17 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T08:03:30 prefetch.2.10.7: HTTPS download succeed 2020-06-21T08:03:30 prefetch.2.10.7: 9) 'ncbi-acc:CM000458.1?vdb-ctx=refseq' was downloaded successfully 2020-06-21T08:03:30 prefetch.2.10.7: 10) Downloading 'ncbi-acc:CM000459.1?vdb-ctx=refseq'... 2020-06-21T08:03:30 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T08:03:45 prefetch.2.10.7: HTTPS download succeed 2020-06-21T08:03:45 prefetch.2.10.7: 10) 'ncbi-acc:CM000459.1?vdb-ctx=refseq' was downloaded successfully Read 5503469 spots for ERR1361146/ERR1361146.sra Written 5503469 spots for ERR1361146/ERR1361146.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: 00:01:47 5503469 reads; of these: 5503469 (100.00%) were unpaired; of these: 882778 (16.04%) aligned 0 times 2596489 (47.18%) aligned exactly 1 time 2024202 (36.78%) aligned >1 times 83.96% overall alignment rate Time searching: 00:01:47 Overall time: 00:01:47 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] 1627221 / 4620691 = 0.3522 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 17:07:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/ERX1432617/ERX1432617.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/ERX1432617/ERX1432617.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/ERX1432617/ERX1432617.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/ERX1432617/ERX1432617.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 17:07:38: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:07:38: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:07:44: 1000000 INFO @ Sun, 21 Jun 2020 17:07:49: 2000000 INFO @ Sun, 21 Jun 2020 17:07:56: #1 tag size is determined as 44 bps INFO @ Sun, 21 Jun 2020 17:07:56: #1 tag size = 44 INFO @ Sun, 21 Jun 2020 17:07:56: #1 total tags in treatment: 2993470 INFO @ Sun, 21 Jun 2020 17:07:56: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:07:56: #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 17:07:57: #1 tags after filtering in treatment: 2993301 INFO @ Sun, 21 Jun 2020 17:07:57: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:07:57: #1 finished! INFO @ Sun, 21 Jun 2020 17:07:57: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:07:57: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:07:57: #2 number of paired peaks: 2630 INFO @ Sun, 21 Jun 2020 17:07:57: start model_add_line... INFO @ Sun, 21 Jun 2020 17:07:57: start X-correlation... INFO @ Sun, 21 Jun 2020 17:07:57: end of X-cor INFO @ Sun, 21 Jun 2020 17:07:57: #2 finished! INFO @ Sun, 21 Jun 2020 17:07:57: #2 predicted fragment length is 167 bps INFO @ Sun, 21 Jun 2020 17:07:57: #2 alternative fragment length(s) may be 152,167 bps INFO @ Sun, 21 Jun 2020 17:07:57: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/ERX1432617/ERX1432617.05_model.r INFO @ Sun, 21 Jun 2020 17:07:57: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:07:57: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 17:08:04: #3 Call peaks for each chromosome... 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 17:08:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/ERX1432617/ERX1432617.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/ERX1432617/ERX1432617.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/ERX1432617/ERX1432617.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/ERX1432617/ERX1432617.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 17:08:08: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:08:08: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:08:08: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/ERX1432617/ERX1432617.05_peaks.xls INFO @ Sun, 21 Jun 2020 17:08:08: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/ERX1432617/ERX1432617.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:08:08: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/ERX1432617/ERX1432617.05_summits.bed INFO @ Sun, 21 Jun 2020 17:08:08: Done! pass1 - making usageList (715 chroms): 2 millis pass2 - checking and writing primary data (6095 records, 4 fields): 45 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 17:08:15: 1000000 INFO @ Sun, 21 Jun 2020 17:08:21: 2000000 INFO @ Sun, 21 Jun 2020 17:08:29: #1 tag size is determined as 44 bps INFO @ Sun, 21 Jun 2020 17:08:29: #1 tag size = 44 INFO @ Sun, 21 Jun 2020 17:08:29: #1 total tags in treatment: 2993470 INFO @ Sun, 21 Jun 2020 17:08:29: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:08:29: #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 17:08:29: #1 tags after filtering in treatment: 2993301 INFO @ Sun, 21 Jun 2020 17:08:29: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:08:29: #1 finished! INFO @ Sun, 21 Jun 2020 17:08:29: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:08:29: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:08:30: #2 number of paired peaks: 2630 INFO @ Sun, 21 Jun 2020 17:08:30: start model_add_line... INFO @ Sun, 21 Jun 2020 17:08:30: start X-correlation... INFO @ Sun, 21 Jun 2020 17:08:30: end of X-cor INFO @ Sun, 21 Jun 2020 17:08:30: #2 finished! INFO @ Sun, 21 Jun 2020 17:08:30: #2 predicted fragment length is 167 bps INFO @ Sun, 21 Jun 2020 17:08:30: #2 alternative fragment length(s) may be 152,167 bps INFO @ Sun, 21 Jun 2020 17:08:30: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/ERX1432617/ERX1432617.10_model.r INFO @ Sun, 21 Jun 2020 17:08:30: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:08:30: #3 Pre-compute pvalue-qvalue table... 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 17:08:37: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 17:08:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/ERX1432617/ERX1432617.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/ERX1432617/ERX1432617.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/ERX1432617/ERX1432617.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/ERX1432617/ERX1432617.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 17:08:38: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:08:38: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:08:41: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/ERX1432617/ERX1432617.10_peaks.xls INFO @ Sun, 21 Jun 2020 17:08:41: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/ERX1432617/ERX1432617.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:08:41: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/ERX1432617/ERX1432617.10_summits.bed INFO @ Sun, 21 Jun 2020 17:08:41: Done! pass1 - making usageList (622 chroms): 1 millis pass2 - checking and writing primary data (1810 records, 4 fields): 34 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 17:08:44: 1000000 INFO @ Sun, 21 Jun 2020 17:08:49: 2000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 17:08:57: #1 tag size is determined as 44 bps INFO @ Sun, 21 Jun 2020 17:08:57: #1 tag size = 44 INFO @ Sun, 21 Jun 2020 17:08:57: #1 total tags in treatment: 2993470 INFO @ Sun, 21 Jun 2020 17:08:57: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:08:57: #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 17:08:57: #1 tags after filtering in treatment: 2993301 INFO @ Sun, 21 Jun 2020 17:08:57: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:08:57: #1 finished! INFO @ Sun, 21 Jun 2020 17:08:57: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:08:57: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:08:58: #2 number of paired peaks: 2630 INFO @ Sun, 21 Jun 2020 17:08:58: start model_add_line... INFO @ Sun, 21 Jun 2020 17:08:58: start X-correlation... INFO @ Sun, 21 Jun 2020 17:08:58: end of X-cor INFO @ Sun, 21 Jun 2020 17:08:58: #2 finished! INFO @ Sun, 21 Jun 2020 17:08:58: #2 predicted fragment length is 167 bps INFO @ Sun, 21 Jun 2020 17:08:58: #2 alternative fragment length(s) may be 152,167 bps INFO @ Sun, 21 Jun 2020 17:08:58: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/ERX1432617/ERX1432617.20_model.r INFO @ Sun, 21 Jun 2020 17:08:58: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:08:58: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 17:09:05: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 17:09:09: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/ERX1432617/ERX1432617.20_peaks.xls INFO @ Sun, 21 Jun 2020 17:09:09: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/ERX1432617/ERX1432617.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:09:09: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/ERX1432617/ERX1432617.20_summits.bed INFO @ Sun, 21 Jun 2020 17:09:09: Done! pass1 - making usageList (419 chroms): 1 millis pass2 - checking and writing primary data (705 records, 4 fields): 23 millis CompletedMACS2peakCalling