Job ID = 6497402 SRX = SRX466521 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-25T22:34:05 prefetch.2.10.7: 1) Downloading 'SRR1163587'... 2020-06-25T22:34:05 prefetch.2.10.7: Downloading via HTTPS... 2020-06-25T22:38:27 prefetch.2.10.7: HTTPS download succeed 2020-06-25T22:38:27 prefetch.2.10.7: 1) 'SRR1163587' was downloaded successfully Read 16298836 spots for SRR1163587/SRR1163587.sra Written 16298836 spots for SRR1163587/SRR1163587.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: 00:03:42 16298836 reads; of these: 16298836 (100.00%) were unpaired; of these: 830819 (5.10%) aligned 0 times 13546931 (83.12%) aligned exactly 1 time 1921086 (11.79%) aligned >1 times 94.90% overall alignment rate Time searching: 00:03:42 Overall time: 00:03:42 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] 10201136 / 15468017 = 0.6595 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 07:47:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX466521/SRX466521.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX466521/SRX466521.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX466521/SRX466521.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX466521/SRX466521.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 07:47:07: #1 read tag files... INFO @ Fri, 26 Jun 2020 07:47:07: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 07:47:14: 1000000 INFO @ Fri, 26 Jun 2020 07:47:22: 2000000 INFO @ Fri, 26 Jun 2020 07:47:30: 3000000 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 07:47:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX466521/SRX466521.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX466521/SRX466521.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX466521/SRX466521.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX466521/SRX466521.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 07:47:37: #1 read tag files... INFO @ Fri, 26 Jun 2020 07:47:37: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 07:47:38: 4000000 INFO @ Fri, 26 Jun 2020 07:47:44: 1000000 INFO @ Fri, 26 Jun 2020 07:47:46: 5000000 INFO @ Fri, 26 Jun 2020 07:47:48: #1 tag size is determined as 42 bps INFO @ Fri, 26 Jun 2020 07:47:48: #1 tag size = 42 INFO @ Fri, 26 Jun 2020 07:47:48: #1 total tags in treatment: 5266881 INFO @ Fri, 26 Jun 2020 07:47:48: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 07:47:48: #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 07:47:48: #1 tags after filtering in treatment: 5266881 INFO @ Fri, 26 Jun 2020 07:47:48: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 07:47:48: #1 finished! INFO @ Fri, 26 Jun 2020 07:47:48: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 07:47:48: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 07:47:48: #2 number of paired peaks: 4820 INFO @ Fri, 26 Jun 2020 07:47:48: start model_add_line... INFO @ Fri, 26 Jun 2020 07:47:49: start X-correlation... INFO @ Fri, 26 Jun 2020 07:47:49: end of X-cor INFO @ Fri, 26 Jun 2020 07:47:49: #2 finished! INFO @ Fri, 26 Jun 2020 07:47:49: #2 predicted fragment length is 291 bps INFO @ Fri, 26 Jun 2020 07:47:49: #2 alternative fragment length(s) may be 291 bps INFO @ Fri, 26 Jun 2020 07:47:49: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX466521/SRX466521.05_model.r INFO @ Fri, 26 Jun 2020 07:47:49: #3 Call peaks... INFO @ Fri, 26 Jun 2020 07:47:49: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 26 Jun 2020 07:47:51: 2000000 INFO @ Fri, 26 Jun 2020 07:47:58: 3000000 INFO @ Fri, 26 Jun 2020 07:48:04: 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 07:48:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX466521/SRX466521.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX466521/SRX466521.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX466521/SRX466521.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX466521/SRX466521.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 07:48:07: #1 read tag files... INFO @ Fri, 26 Jun 2020 07:48:07: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 07:48:09: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 07:48:11: 5000000 INFO @ Fri, 26 Jun 2020 07:48:12: #1 tag size is determined as 42 bps INFO @ Fri, 26 Jun 2020 07:48:12: #1 tag size = 42 INFO @ Fri, 26 Jun 2020 07:48:12: #1 total tags in treatment: 5266881 INFO @ Fri, 26 Jun 2020 07:48:12: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 07:48:12: #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 07:48:12: #1 tags after filtering in treatment: 5266881 INFO @ Fri, 26 Jun 2020 07:48:12: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 07:48:12: #1 finished! INFO @ Fri, 26 Jun 2020 07:48:12: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 07:48:12: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 07:48:13: #2 number of paired peaks: 4820 INFO @ Fri, 26 Jun 2020 07:48:13: start model_add_line... INFO @ Fri, 26 Jun 2020 07:48:13: start X-correlation... INFO @ Fri, 26 Jun 2020 07:48:13: end of X-cor INFO @ Fri, 26 Jun 2020 07:48:13: #2 finished! INFO @ Fri, 26 Jun 2020 07:48:13: #2 predicted fragment length is 291 bps INFO @ Fri, 26 Jun 2020 07:48:13: #2 alternative fragment length(s) may be 291 bps INFO @ Fri, 26 Jun 2020 07:48:13: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX466521/SRX466521.10_model.r INFO @ Fri, 26 Jun 2020 07:48:13: #3 Call peaks... INFO @ Fri, 26 Jun 2020 07:48:13: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 26 Jun 2020 07:48:13: 1000000 INFO @ Fri, 26 Jun 2020 07:48:18: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX466521/SRX466521.05_peaks.xls INFO @ Fri, 26 Jun 2020 07:48:18: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX466521/SRX466521.05_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 07:48:18: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX466521/SRX466521.05_summits.bed INFO @ Fri, 26 Jun 2020 07:48:18: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (5371 records, 4 fields): 7 millis CompletedMACS2peakCalling INFO @ Fri, 26 Jun 2020 07:48:20: 2000000 INFO @ Fri, 26 Jun 2020 07:48:26: 3000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 26 Jun 2020 07:48:33: 4000000 INFO @ Fri, 26 Jun 2020 07:48:35: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 07:48:39: 5000000 INFO @ Fri, 26 Jun 2020 07:48:41: #1 tag size is determined as 42 bps INFO @ Fri, 26 Jun 2020 07:48:41: #1 tag size = 42 INFO @ Fri, 26 Jun 2020 07:48:41: #1 total tags in treatment: 5266881 INFO @ Fri, 26 Jun 2020 07:48:41: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 07:48:41: #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 07:48:41: #1 tags after filtering in treatment: 5266881 INFO @ Fri, 26 Jun 2020 07:48:41: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 07:48:41: #1 finished! INFO @ Fri, 26 Jun 2020 07:48:41: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 07:48:41: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 07:48:41: #2 number of paired peaks: 4820 INFO @ Fri, 26 Jun 2020 07:48:41: start model_add_line... INFO @ Fri, 26 Jun 2020 07:48:41: start X-correlation... INFO @ Fri, 26 Jun 2020 07:48:42: end of X-cor INFO @ Fri, 26 Jun 2020 07:48:42: #2 finished! INFO @ Fri, 26 Jun 2020 07:48:42: #2 predicted fragment length is 291 bps INFO @ Fri, 26 Jun 2020 07:48:42: #2 alternative fragment length(s) may be 291 bps INFO @ Fri, 26 Jun 2020 07:48:42: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX466521/SRX466521.20_model.r INFO @ Fri, 26 Jun 2020 07:48:42: #3 Call peaks... INFO @ Fri, 26 Jun 2020 07:48:42: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 26 Jun 2020 07:48:44: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX466521/SRX466521.10_peaks.xls INFO @ Fri, 26 Jun 2020 07:48:44: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX466521/SRX466521.10_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 07:48:44: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX466521/SRX466521.10_summits.bed INFO @ Fri, 26 Jun 2020 07:48:44: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (4334 records, 4 fields): 36 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Fri, 26 Jun 2020 07:49:02: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 07:49:12: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX466521/SRX466521.20_peaks.xls INFO @ Fri, 26 Jun 2020 07:49:12: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX466521/SRX466521.20_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 07:49:12: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX466521/SRX466521.20_summits.bed INFO @ Fri, 26 Jun 2020 07:49:12: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (2992 records, 4 fields): 24 millis CompletedMACS2peakCalling