Job ID = 6508003 SRX = SRX747296 Genome = ce11 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-26T13:30:48 prefetch.2.10.7: 1) Downloading 'SRR1634994'... 2020-06-26T13:30:48 prefetch.2.10.7: Downloading via HTTPS... 2020-06-26T13:31:16 prefetch.2.10.7: HTTPS download succeed 2020-06-26T13:31:17 prefetch.2.10.7: 'SRR1634994' is valid 2020-06-26T13:31:17 prefetch.2.10.7: 1) 'SRR1634994' was downloaded successfully 2020-06-26T13:31:49 prefetch.2.10.7: 'SRR1634994' has 6 unresolved dependencies 2020-06-26T13:31:49 prefetch.2.10.7: 2) Downloading 'ncbi-acc:BX284601.4?vdb-ctx=refseq'... 2020-06-26T13:31:49 prefetch.2.10.7: Downloading via HTTPS... 2020-06-26T13:32:05 prefetch.2.10.7: HTTPS download succeed 2020-06-26T13:32:05 prefetch.2.10.7: 2) 'ncbi-acc:BX284601.4?vdb-ctx=refseq' was downloaded successfully 2020-06-26T13:32:05 prefetch.2.10.7: 3) Downloading 'ncbi-acc:BX284602.4?vdb-ctx=refseq'... 2020-06-26T13:32:05 prefetch.2.10.7: Downloading via HTTPS... 2020-06-26T13:32:20 prefetch.2.10.7: HTTPS download succeed 2020-06-26T13:32:20 prefetch.2.10.7: 3) 'ncbi-acc:BX284602.4?vdb-ctx=refseq' was downloaded successfully 2020-06-26T13:32:20 prefetch.2.10.7: 4) Downloading 'ncbi-acc:BX284603.3?vdb-ctx=refseq'... 2020-06-26T13:32:20 prefetch.2.10.7: Downloading via HTTPS... 2020-06-26T13:32:36 prefetch.2.10.7: HTTPS download succeed 2020-06-26T13:32:36 prefetch.2.10.7: 4) 'ncbi-acc:BX284603.3?vdb-ctx=refseq' was downloaded successfully 2020-06-26T13:32:36 prefetch.2.10.7: 5) Downloading 'ncbi-acc:BX284604.3?vdb-ctx=refseq'... 2020-06-26T13:32:36 prefetch.2.10.7: Downloading via HTTPS... 2020-06-26T13:32:52 prefetch.2.10.7: HTTPS download succeed 2020-06-26T13:32:52 prefetch.2.10.7: 5) 'ncbi-acc:BX284604.3?vdb-ctx=refseq' was downloaded successfully 2020-06-26T13:32:52 prefetch.2.10.7: 6) Downloading 'ncbi-acc:BX284605.4?vdb-ctx=refseq'... 2020-06-26T13:32:52 prefetch.2.10.7: Downloading via HTTPS... 2020-06-26T13:33:08 prefetch.2.10.7: HTTPS download succeed 2020-06-26T13:33:08 prefetch.2.10.7: 6) 'ncbi-acc:BX284605.4?vdb-ctx=refseq' was downloaded successfully 2020-06-26T13:33:08 prefetch.2.10.7: 7) Downloading 'ncbi-acc:BX284606.4?vdb-ctx=refseq'... 2020-06-26T13:33:08 prefetch.2.10.7: Downloading via HTTPS... 2020-06-26T13:33:24 prefetch.2.10.7: HTTPS download succeed 2020-06-26T13:33:24 prefetch.2.10.7: 7) 'ncbi-acc:BX284606.4?vdb-ctx=refseq' was downloaded successfully Read 16294611 spots for SRR1634994/SRR1634994.sra Written 16294611 spots for SRR1634994/SRR1634994.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: 00:02:01 16294611 reads; of these: 16294611 (100.00%) were unpaired; of these: 482784 (2.96%) aligned 0 times 13888649 (85.23%) aligned exactly 1 time 1923178 (11.80%) aligned >1 times 97.04% overall alignment rate Time searching: 00:02:01 Overall time: 00:02:01 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 7 sequences. [bam_rmdupse_core] 2368235 / 15811827 = 0.1498 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 22:38:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX747296/SRX747296.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX747296/SRX747296.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX747296/SRX747296.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX747296/SRX747296.bam'] # control file = None # effective genome size = 9.00e+07 # 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 22:38:44: #1 read tag files... INFO @ Fri, 26 Jun 2020 22:38:44: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 22:38:49: 1000000 INFO @ Fri, 26 Jun 2020 22:38:54: 2000000 INFO @ Fri, 26 Jun 2020 22:38:59: 3000000 INFO @ Fri, 26 Jun 2020 22:39:04: 4000000 INFO @ Fri, 26 Jun 2020 22:39:09: 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 @ Fri, 26 Jun 2020 22:39:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX747296/SRX747296.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX747296/SRX747296.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX747296/SRX747296.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX747296/SRX747296.bam'] # control file = None # effective genome size = 9.00e+07 # 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 22:39:14: #1 read tag files... INFO @ Fri, 26 Jun 2020 22:39:14: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 22:39:14: 6000000 INFO @ Fri, 26 Jun 2020 22:39:21: 7000000 INFO @ Fri, 26 Jun 2020 22:39:21: 1000000 INFO @ Fri, 26 Jun 2020 22:39:27: 8000000 INFO @ Fri, 26 Jun 2020 22:39:27: 2000000 INFO @ Fri, 26 Jun 2020 22:39:33: 9000000 INFO @ Fri, 26 Jun 2020 22:39:34: 3000000 INFO @ Fri, 26 Jun 2020 22:39:39: 10000000 INFO @ Fri, 26 Jun 2020 22:39:40: 4000000 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 22:39:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX747296/SRX747296.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX747296/SRX747296.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX747296/SRX747296.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX747296/SRX747296.bam'] # control file = None # effective genome size = 9.00e+07 # 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 22:39:44: #1 read tag files... INFO @ Fri, 26 Jun 2020 22:39:44: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 22:39:45: 11000000 INFO @ Fri, 26 Jun 2020 22:39:47: 5000000 INFO @ Fri, 26 Jun 2020 22:39:50: 1000000 INFO @ Fri, 26 Jun 2020 22:39:52: 12000000 INFO @ Fri, 26 Jun 2020 22:39:54: 6000000 INFO @ Fri, 26 Jun 2020 22:39:57: 2000000 INFO @ Fri, 26 Jun 2020 22:39:58: 13000000 INFO @ Fri, 26 Jun 2020 22:40:00: 7000000 INFO @ Fri, 26 Jun 2020 22:40:01: #1 tag size is determined as 36 bps INFO @ Fri, 26 Jun 2020 22:40:01: #1 tag size = 36 INFO @ Fri, 26 Jun 2020 22:40:01: #1 total tags in treatment: 13443592 INFO @ Fri, 26 Jun 2020 22:40:01: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 22:40:01: #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 22:40:01: #1 tags after filtering in treatment: 13443592 INFO @ Fri, 26 Jun 2020 22:40:01: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 22:40:01: #1 finished! INFO @ Fri, 26 Jun 2020 22:40:01: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 22:40:01: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 22:40:02: #2 number of paired peaks: 1601 INFO @ Fri, 26 Jun 2020 22:40:02: start model_add_line... INFO @ Fri, 26 Jun 2020 22:40:02: start X-correlation... INFO @ Fri, 26 Jun 2020 22:40:02: end of X-cor INFO @ Fri, 26 Jun 2020 22:40:02: #2 finished! INFO @ Fri, 26 Jun 2020 22:40:02: #2 predicted fragment length is 115 bps INFO @ Fri, 26 Jun 2020 22:40:02: #2 alternative fragment length(s) may be 4,115 bps INFO @ Fri, 26 Jun 2020 22:40:02: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX747296/SRX747296.05_model.r INFO @ Fri, 26 Jun 2020 22:40:02: #3 Call peaks... INFO @ Fri, 26 Jun 2020 22:40:02: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 26 Jun 2020 22:40:03: 3000000 INFO @ Fri, 26 Jun 2020 22:40:07: 8000000 INFO @ Fri, 26 Jun 2020 22:40:09: 4000000 INFO @ Fri, 26 Jun 2020 22:40:14: 9000000 INFO @ Fri, 26 Jun 2020 22:40:16: 5000000 INFO @ Fri, 26 Jun 2020 22:40:20: 10000000 INFO @ Fri, 26 Jun 2020 22:40:22: 6000000 INFO @ Fri, 26 Jun 2020 22:40:27: 11000000 INFO @ Fri, 26 Jun 2020 22:40:28: 7000000 INFO @ Fri, 26 Jun 2020 22:40:33: 12000000 INFO @ Fri, 26 Jun 2020 22:40:34: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 22:40:35: 8000000 INFO @ Fri, 26 Jun 2020 22:40:40: 13000000 INFO @ Fri, 26 Jun 2020 22:40:41: 9000000 INFO @ Fri, 26 Jun 2020 22:40:43: #1 tag size is determined as 36 bps INFO @ Fri, 26 Jun 2020 22:40:43: #1 tag size = 36 INFO @ Fri, 26 Jun 2020 22:40:43: #1 total tags in treatment: 13443592 INFO @ Fri, 26 Jun 2020 22:40:43: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 22:40:43: #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 22:40:43: #1 tags after filtering in treatment: 13443592 INFO @ Fri, 26 Jun 2020 22:40:43: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 22:40:43: #1 finished! INFO @ Fri, 26 Jun 2020 22:40:43: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 22:40:43: #2 looking for paired plus/minus strand peaks... BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 26 Jun 2020 22:40:44: #2 number of paired peaks: 1601 INFO @ Fri, 26 Jun 2020 22:40:44: start model_add_line... INFO @ Fri, 26 Jun 2020 22:40:44: start X-correlation... INFO @ Fri, 26 Jun 2020 22:40:44: end of X-cor INFO @ Fri, 26 Jun 2020 22:40:44: #2 finished! INFO @ Fri, 26 Jun 2020 22:40:44: #2 predicted fragment length is 115 bps INFO @ Fri, 26 Jun 2020 22:40:44: #2 alternative fragment length(s) may be 4,115 bps INFO @ Fri, 26 Jun 2020 22:40:44: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX747296/SRX747296.10_model.r INFO @ Fri, 26 Jun 2020 22:40:44: #3 Call peaks... INFO @ Fri, 26 Jun 2020 22:40:44: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 26 Jun 2020 22:40:47: 10000000 INFO @ Fri, 26 Jun 2020 22:40:52: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX747296/SRX747296.05_peaks.xls INFO @ Fri, 26 Jun 2020 22:40:52: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX747296/SRX747296.05_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 22:40:52: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX747296/SRX747296.05_summits.bed INFO @ Fri, 26 Jun 2020 22:40:52: Done! pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (14951 records, 4 fields): 16 millis CompletedMACS2peakCalling INFO @ Fri, 26 Jun 2020 22:40:52: 11000000 INFO @ Fri, 26 Jun 2020 22:40:58: 12000000 INFO @ Fri, 26 Jun 2020 22:41:04: 13000000 INFO @ Fri, 26 Jun 2020 22:41:06: #1 tag size is determined as 36 bps INFO @ Fri, 26 Jun 2020 22:41:06: #1 tag size = 36 INFO @ Fri, 26 Jun 2020 22:41:06: #1 total tags in treatment: 13443592 INFO @ Fri, 26 Jun 2020 22:41:06: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 22:41:06: #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 22:41:06: #1 tags after filtering in treatment: 13443592 INFO @ Fri, 26 Jun 2020 22:41:06: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 22:41:06: #1 finished! INFO @ Fri, 26 Jun 2020 22:41:06: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 22:41:06: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 22:41:07: #2 number of paired peaks: 1601 INFO @ Fri, 26 Jun 2020 22:41:07: start model_add_line... INFO @ Fri, 26 Jun 2020 22:41:07: start X-correlation... INFO @ Fri, 26 Jun 2020 22:41:07: end of X-cor INFO @ Fri, 26 Jun 2020 22:41:07: #2 finished! INFO @ Fri, 26 Jun 2020 22:41:07: #2 predicted fragment length is 115 bps INFO @ Fri, 26 Jun 2020 22:41:07: #2 alternative fragment length(s) may be 4,115 bps INFO @ Fri, 26 Jun 2020 22:41:07: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX747296/SRX747296.20_model.r INFO @ Fri, 26 Jun 2020 22:41:07: #3 Call peaks... INFO @ Fri, 26 Jun 2020 22:41:07: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Fri, 26 Jun 2020 22:41:17: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 22:41:34: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX747296/SRX747296.10_peaks.xls INFO @ Fri, 26 Jun 2020 22:41:34: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX747296/SRX747296.10_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 22:41:34: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX747296/SRX747296.10_summits.bed INFO @ Fri, 26 Jun 2020 22:41:34: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (8750 records, 4 fields): 10 millis CompletedMACS2peakCalling INFO @ Fri, 26 Jun 2020 22:41:39: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 22:41:54: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX747296/SRX747296.20_peaks.xls INFO @ Fri, 26 Jun 2020 22:41:54: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX747296/SRX747296.20_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 22:41:54: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX747296/SRX747296.20_summits.bed INFO @ Fri, 26 Jun 2020 22:41:54: Done! pass1 - making usageList (6 chroms): 0 millis pass2 - checking and writing primary data (3104 records, 4 fields): 5 millis CompletedMACS2peakCalling