Job ID = 6367884 SRX = SRX4107869 Genome = ce11 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-15T23:44:29 prefetch.2.10.7: 1) Downloading 'SRR7191145'... 2020-06-15T23:44:29 prefetch.2.10.7: Downloading via HTTPS... 2020-06-15T23:46:01 prefetch.2.10.7: HTTPS download succeed 2020-06-15T23:46:01 prefetch.2.10.7: 'SRR7191145' is valid 2020-06-15T23:46:01 prefetch.2.10.7: 1) 'SRR7191145' was downloaded successfully 2020-06-15T23:46:34 prefetch.2.10.7: 'SRR7191145' has 6 unresolved dependencies 2020-06-15T23:46:34 prefetch.2.10.7: 2) Downloading 'ncbi-acc:BX284601.5?vdb-ctx=refseq'... 2020-06-15T23:46:34 prefetch.2.10.7: Downloading via HTTPS... 2020-06-15T23:46:49 prefetch.2.10.7: HTTPS download succeed 2020-06-15T23:46:49 prefetch.2.10.7: 2) 'ncbi-acc:BX284601.5?vdb-ctx=refseq' was downloaded successfully 2020-06-15T23:46:49 prefetch.2.10.7: 3) Downloading 'ncbi-acc:BX284602.5?vdb-ctx=refseq'... 2020-06-15T23:46:49 prefetch.2.10.7: Downloading via HTTPS... 2020-06-15T23:47:04 prefetch.2.10.7: HTTPS download succeed 2020-06-15T23:47:04 prefetch.2.10.7: 3) 'ncbi-acc:BX284602.5?vdb-ctx=refseq' was downloaded successfully 2020-06-15T23:47:04 prefetch.2.10.7: 4) Downloading 'ncbi-acc:BX284603.4?vdb-ctx=refseq'... 2020-06-15T23:47:04 prefetch.2.10.7: Downloading via HTTPS... 2020-06-15T23:47:20 prefetch.2.10.7: HTTPS download succeed 2020-06-15T23:47:20 prefetch.2.10.7: 4) 'ncbi-acc:BX284603.4?vdb-ctx=refseq' was downloaded successfully 2020-06-15T23:47:20 prefetch.2.10.7: 5) Downloading 'ncbi-acc:BX284604.4?vdb-ctx=refseq'... 2020-06-15T23:47:20 prefetch.2.10.7: Downloading via HTTPS... 2020-06-15T23:47:37 prefetch.2.10.7: HTTPS download succeed 2020-06-15T23:47:37 prefetch.2.10.7: 5) 'ncbi-acc:BX284604.4?vdb-ctx=refseq' was downloaded successfully 2020-06-15T23:47:37 prefetch.2.10.7: 6) Downloading 'ncbi-acc:BX284605.5?vdb-ctx=refseq'... 2020-06-15T23:47:37 prefetch.2.10.7: Downloading via HTTPS... 2020-06-15T23:47:54 prefetch.2.10.7: HTTPS download succeed 2020-06-15T23:47:54 prefetch.2.10.7: 6) 'ncbi-acc:BX284605.5?vdb-ctx=refseq' was downloaded successfully 2020-06-15T23:47:54 prefetch.2.10.7: 7) Downloading 'ncbi-acc:BX284606.5?vdb-ctx=refseq'... 2020-06-15T23:47:54 prefetch.2.10.7: Downloading via HTTPS... 2020-06-15T23:48:11 prefetch.2.10.7: HTTPS download succeed 2020-06-15T23:48:11 prefetch.2.10.7: 7) 'ncbi-acc:BX284606.5?vdb-ctx=refseq' was downloaded successfully Read 17452600 spots for SRR7191145/SRR7191145.sra Written 17452600 spots for SRR7191145/SRR7191145.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: 00:02:49 17452600 reads; of these: 17452600 (100.00%) were unpaired; of these: 2240311 (12.84%) aligned 0 times 13225935 (75.78%) aligned exactly 1 time 1986354 (11.38%) aligned >1 times 87.16% overall alignment rate Time searching: 00:02:49 Overall time: 00:02:49 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 7 sequences. [bam_sort_core] merging from 8 files... [bam_rmdupse_core] 3632410 / 15212289 = 0.2388 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 @ Tue, 16 Jun 2020 08:55:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX4107869/SRX4107869.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX4107869/SRX4107869.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX4107869/SRX4107869.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX4107869/SRX4107869.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 @ Tue, 16 Jun 2020 08:55:23: #1 read tag files... INFO @ Tue, 16 Jun 2020 08:55:23: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 08:55:28: 1000000 INFO @ Tue, 16 Jun 2020 08:55:34: 2000000 INFO @ Tue, 16 Jun 2020 08:55:40: 3000000 INFO @ Tue, 16 Jun 2020 08:55:45: 4000000 INFO @ Tue, 16 Jun 2020 08:55:51: 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 @ Tue, 16 Jun 2020 08:55:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX4107869/SRX4107869.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX4107869/SRX4107869.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX4107869/SRX4107869.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX4107869/SRX4107869.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 @ Tue, 16 Jun 2020 08:55:53: #1 read tag files... INFO @ Tue, 16 Jun 2020 08:55:53: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 08:55:57: 6000000 INFO @ Tue, 16 Jun 2020 08:55:59: 1000000 INFO @ Tue, 16 Jun 2020 08:56:03: 7000000 INFO @ Tue, 16 Jun 2020 08:56:05: 2000000 INFO @ Tue, 16 Jun 2020 08:56:09: 8000000 INFO @ Tue, 16 Jun 2020 08:56:11: 3000000 INFO @ Tue, 16 Jun 2020 08:56:15: 9000000 INFO @ Tue, 16 Jun 2020 08:56:18: 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 @ Tue, 16 Jun 2020 08:56:22: 10000000 INFO @ Tue, 16 Jun 2020 08:56:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX4107869/SRX4107869.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX4107869/SRX4107869.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX4107869/SRX4107869.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX4107869/SRX4107869.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 @ Tue, 16 Jun 2020 08:56:23: #1 read tag files... INFO @ Tue, 16 Jun 2020 08:56:23: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 08:56:24: 5000000 INFO @ Tue, 16 Jun 2020 08:56:29: 11000000 INFO @ Tue, 16 Jun 2020 08:56:31: 1000000 INFO @ Tue, 16 Jun 2020 08:56:31: 6000000 INFO @ Tue, 16 Jun 2020 08:56:33: #1 tag size is determined as 50 bps INFO @ Tue, 16 Jun 2020 08:56:33: #1 tag size = 50 INFO @ Tue, 16 Jun 2020 08:56:33: #1 total tags in treatment: 11579879 INFO @ Tue, 16 Jun 2020 08:56:33: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 08:56:33: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 16 Jun 2020 08:56:33: #1 tags after filtering in treatment: 11579879 INFO @ Tue, 16 Jun 2020 08:56:33: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 08:56:33: #1 finished! INFO @ Tue, 16 Jun 2020 08:56:33: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 08:56:33: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 08:56:34: #2 number of paired peaks: 1160 INFO @ Tue, 16 Jun 2020 08:56:34: start model_add_line... INFO @ Tue, 16 Jun 2020 08:56:34: start X-correlation... INFO @ Tue, 16 Jun 2020 08:56:34: end of X-cor INFO @ Tue, 16 Jun 2020 08:56:34: #2 finished! INFO @ Tue, 16 Jun 2020 08:56:34: #2 predicted fragment length is 119 bps INFO @ Tue, 16 Jun 2020 08:56:34: #2 alternative fragment length(s) may be 119 bps INFO @ Tue, 16 Jun 2020 08:56:34: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX4107869/SRX4107869.05_model.r INFO @ Tue, 16 Jun 2020 08:56:34: #3 Call peaks... INFO @ Tue, 16 Jun 2020 08:56:34: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 16 Jun 2020 08:56:38: 2000000 INFO @ Tue, 16 Jun 2020 08:56:39: 7000000 INFO @ Tue, 16 Jun 2020 08:56:46: 8000000 INFO @ Tue, 16 Jun 2020 08:56:46: 3000000 INFO @ Tue, 16 Jun 2020 08:56:53: 9000000 INFO @ Tue, 16 Jun 2020 08:56:54: 4000000 INFO @ Tue, 16 Jun 2020 08:57:00: 10000000 INFO @ Tue, 16 Jun 2020 08:57:01: #3 Call peaks for each chromosome... INFO @ Tue, 16 Jun 2020 08:57:01: 5000000 INFO @ Tue, 16 Jun 2020 08:57:07: 11000000 INFO @ Tue, 16 Jun 2020 08:57:09: 6000000 INFO @ Tue, 16 Jun 2020 08:57:11: #1 tag size is determined as 50 bps INFO @ Tue, 16 Jun 2020 08:57:11: #1 tag size = 50 INFO @ Tue, 16 Jun 2020 08:57:11: #1 total tags in treatment: 11579879 INFO @ Tue, 16 Jun 2020 08:57:11: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 08:57:11: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 16 Jun 2020 08:57:11: #1 tags after filtering in treatment: 11579879 INFO @ Tue, 16 Jun 2020 08:57:11: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 08:57:11: #1 finished! INFO @ Tue, 16 Jun 2020 08:57:11: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 08:57:11: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 08:57:12: #2 number of paired peaks: 1160 INFO @ Tue, 16 Jun 2020 08:57:12: start model_add_line... INFO @ Tue, 16 Jun 2020 08:57:12: start X-correlation... INFO @ Tue, 16 Jun 2020 08:57:12: end of X-cor INFO @ Tue, 16 Jun 2020 08:57:12: #2 finished! INFO @ Tue, 16 Jun 2020 08:57:12: #2 predicted fragment length is 119 bps INFO @ Tue, 16 Jun 2020 08:57:12: #2 alternative fragment length(s) may be 119 bps INFO @ Tue, 16 Jun 2020 08:57:12: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX4107869/SRX4107869.10_model.r INFO @ Tue, 16 Jun 2020 08:57:12: #3 Call peaks... INFO @ Tue, 16 Jun 2020 08:57:12: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 16 Jun 2020 08:57:14: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX4107869/SRX4107869.05_peaks.xls INFO @ Tue, 16 Jun 2020 08:57:14: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX4107869/SRX4107869.05_peaks.narrowPeak INFO @ Tue, 16 Jun 2020 08:57:14: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX4107869/SRX4107869.05_summits.bed INFO @ Tue, 16 Jun 2020 08:57:14: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (5525 records, 4 fields): 6 millis CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 08:57:16: 7000000 INFO @ Tue, 16 Jun 2020 08:57:23: 8000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 16 Jun 2020 08:57:30: 9000000 INFO @ Tue, 16 Jun 2020 08:57:36: 10000000 INFO @ Tue, 16 Jun 2020 08:57:38: #3 Call peaks for each chromosome... INFO @ Tue, 16 Jun 2020 08:57:43: 11000000 INFO @ Tue, 16 Jun 2020 08:57:47: #1 tag size is determined as 50 bps INFO @ Tue, 16 Jun 2020 08:57:47: #1 tag size = 50 INFO @ Tue, 16 Jun 2020 08:57:47: #1 total tags in treatment: 11579879 INFO @ Tue, 16 Jun 2020 08:57:47: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 08:57:47: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 16 Jun 2020 08:57:47: #1 tags after filtering in treatment: 11579879 INFO @ Tue, 16 Jun 2020 08:57:47: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 08:57:47: #1 finished! INFO @ Tue, 16 Jun 2020 08:57:47: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 08:57:47: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 08:57:48: #2 number of paired peaks: 1160 INFO @ Tue, 16 Jun 2020 08:57:48: start model_add_line... INFO @ Tue, 16 Jun 2020 08:57:48: start X-correlation... INFO @ Tue, 16 Jun 2020 08:57:48: end of X-cor INFO @ Tue, 16 Jun 2020 08:57:48: #2 finished! INFO @ Tue, 16 Jun 2020 08:57:48: #2 predicted fragment length is 119 bps INFO @ Tue, 16 Jun 2020 08:57:48: #2 alternative fragment length(s) may be 119 bps INFO @ Tue, 16 Jun 2020 08:57:48: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX4107869/SRX4107869.20_model.r INFO @ Tue, 16 Jun 2020 08:57:48: #3 Call peaks... INFO @ Tue, 16 Jun 2020 08:57:48: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Tue, 16 Jun 2020 08:57:51: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX4107869/SRX4107869.10_peaks.xls INFO @ Tue, 16 Jun 2020 08:57:51: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX4107869/SRX4107869.10_peaks.narrowPeak INFO @ Tue, 16 Jun 2020 08:57:51: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX4107869/SRX4107869.10_summits.bed INFO @ Tue, 16 Jun 2020 08:57:51: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (4200 records, 4 fields): 9 millis CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 08:58:13: #3 Call peaks for each chromosome... INFO @ Tue, 16 Jun 2020 08:58:27: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX4107869/SRX4107869.20_peaks.xls INFO @ Tue, 16 Jun 2020 08:58:27: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX4107869/SRX4107869.20_peaks.narrowPeak INFO @ Tue, 16 Jun 2020 08:58:27: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX4107869/SRX4107869.20_summits.bed INFO @ Tue, 16 Jun 2020 08:58:27: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (2904 records, 4 fields): 4 millis CompletedMACS2peakCalling