Job ID = 6497398 SRX = SRX466517 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-25T21:38:54 prefetch.2.10.7: 1) Downloading 'SRR1163583'... 2020-06-25T21:38:54 prefetch.2.10.7: Downloading via HTTPS... 2020-06-25T21:39:47 prefetch.2.10.7: HTTPS download succeed 2020-06-25T21:39:48 prefetch.2.10.7: 'SRR1163583' is valid 2020-06-25T21:39:48 prefetch.2.10.7: 1) 'SRR1163583' was downloaded successfully Read 6078767 spots for SRR1163583/SRR1163583.sra Written 6078767 spots for SRR1163583/SRR1163583.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: 00:00:01 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:01:10 6078767 reads; of these: 6078767 (100.00%) were unpaired; of these: 319260 (5.25%) aligned 0 times 5061332 (83.26%) aligned exactly 1 time 698175 (11.49%) aligned >1 times 94.75% overall alignment rate Time searching: 00:01:11 Overall time: 00:01:11 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] 1457171 / 5759507 = 0.2530 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 06:43:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX466517/SRX466517.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX466517/SRX466517.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX466517/SRX466517.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX466517/SRX466517.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 06:43:04: #1 read tag files... INFO @ Fri, 26 Jun 2020 06:43:04: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 06:43:09: 1000000 INFO @ Fri, 26 Jun 2020 06:43:14: 2000000 INFO @ Fri, 26 Jun 2020 06:43:18: 3000000 INFO @ Fri, 26 Jun 2020 06:43:23: 4000000 INFO @ Fri, 26 Jun 2020 06:43:24: #1 tag size is determined as 42 bps INFO @ Fri, 26 Jun 2020 06:43:24: #1 tag size = 42 INFO @ Fri, 26 Jun 2020 06:43:24: #1 total tags in treatment: 4302336 INFO @ Fri, 26 Jun 2020 06:43:24: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 06:43:24: #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 06:43:24: #1 tags after filtering in treatment: 4302336 INFO @ Fri, 26 Jun 2020 06:43:24: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 06:43:24: #1 finished! INFO @ Fri, 26 Jun 2020 06:43:24: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 06:43:24: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 06:43:24: #2 number of paired peaks: 3393 INFO @ Fri, 26 Jun 2020 06:43:24: start model_add_line... INFO @ Fri, 26 Jun 2020 06:43:25: start X-correlation... INFO @ Fri, 26 Jun 2020 06:43:25: end of X-cor INFO @ Fri, 26 Jun 2020 06:43:25: #2 finished! INFO @ Fri, 26 Jun 2020 06:43:25: #2 predicted fragment length is 260 bps INFO @ Fri, 26 Jun 2020 06:43:25: #2 alternative fragment length(s) may be 260 bps INFO @ Fri, 26 Jun 2020 06:43:25: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX466517/SRX466517.05_model.r INFO @ Fri, 26 Jun 2020 06:43:25: #3 Call peaks... INFO @ Fri, 26 Jun 2020 06:43:25: #3 Pre-compute pvalue-qvalue table... 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 06:43:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX466517/SRX466517.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX466517/SRX466517.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX466517/SRX466517.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX466517/SRX466517.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 06:43:33: #1 read tag files... INFO @ Fri, 26 Jun 2020 06:43:33: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 06:43:35: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 06:43:38: 1000000 INFO @ Fri, 26 Jun 2020 06:43:40: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX466517/SRX466517.05_peaks.xls INFO @ Fri, 26 Jun 2020 06:43:41: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX466517/SRX466517.05_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 06:43:41: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX466517/SRX466517.05_summits.bed INFO @ Fri, 26 Jun 2020 06:43:41: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (6329 records, 4 fields): 202 millis CompletedMACS2peakCalling INFO @ Fri, 26 Jun 2020 06:43:42: 2000000 INFO @ Fri, 26 Jun 2020 06:43:47: 3000000 INFO @ Fri, 26 Jun 2020 06:43:51: 4000000 INFO @ Fri, 26 Jun 2020 06:43:52: #1 tag size is determined as 42 bps INFO @ Fri, 26 Jun 2020 06:43:52: #1 tag size = 42 INFO @ Fri, 26 Jun 2020 06:43:52: #1 total tags in treatment: 4302336 INFO @ Fri, 26 Jun 2020 06:43:52: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 06:43:52: #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 06:43:53: #1 tags after filtering in treatment: 4302336 INFO @ Fri, 26 Jun 2020 06:43:53: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 06:43:53: #1 finished! INFO @ Fri, 26 Jun 2020 06:43:53: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 06:43:53: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 06:43:53: #2 number of paired peaks: 3393 INFO @ Fri, 26 Jun 2020 06:43:53: start model_add_line... INFO @ Fri, 26 Jun 2020 06:43:53: start X-correlation... INFO @ Fri, 26 Jun 2020 06:43:53: end of X-cor INFO @ Fri, 26 Jun 2020 06:43:53: #2 finished! INFO @ Fri, 26 Jun 2020 06:43:53: #2 predicted fragment length is 260 bps INFO @ Fri, 26 Jun 2020 06:43:53: #2 alternative fragment length(s) may be 260 bps INFO @ Fri, 26 Jun 2020 06:43:53: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX466517/SRX466517.10_model.r INFO @ Fri, 26 Jun 2020 06:43:54: #3 Call peaks... INFO @ Fri, 26 Jun 2020 06:43:54: #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 @ Fri, 26 Jun 2020 06:44:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX466517/SRX466517.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX466517/SRX466517.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX466517/SRX466517.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX466517/SRX466517.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 06:44:03: #1 read tag files... INFO @ Fri, 26 Jun 2020 06:44:03: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 06:44:05: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 06:44:08: 1000000 INFO @ Fri, 26 Jun 2020 06:44:10: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX466517/SRX466517.10_peaks.xls INFO @ Fri, 26 Jun 2020 06:44:10: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX466517/SRX466517.10_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 06:44:10: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX466517/SRX466517.10_summits.bed INFO @ Fri, 26 Jun 2020 06:44:10: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (3391 records, 4 fields): 4 millis CompletedMACS2peakCalling INFO @ Fri, 26 Jun 2020 06:44:12: 2000000 INFO @ Fri, 26 Jun 2020 06:44:17: 3000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 26 Jun 2020 06:44:21: 4000000 INFO @ Fri, 26 Jun 2020 06:44:23: #1 tag size is determined as 42 bps INFO @ Fri, 26 Jun 2020 06:44:23: #1 tag size = 42 INFO @ Fri, 26 Jun 2020 06:44:23: #1 total tags in treatment: 4302336 INFO @ Fri, 26 Jun 2020 06:44:23: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 06:44:23: #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 06:44:23: #1 tags after filtering in treatment: 4302336 INFO @ Fri, 26 Jun 2020 06:44:23: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 06:44:23: #1 finished! INFO @ Fri, 26 Jun 2020 06:44:23: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 06:44:23: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 06:44:23: #2 number of paired peaks: 3393 INFO @ Fri, 26 Jun 2020 06:44:23: start model_add_line... INFO @ Fri, 26 Jun 2020 06:44:23: start X-correlation... INFO @ Fri, 26 Jun 2020 06:44:23: end of X-cor INFO @ Fri, 26 Jun 2020 06:44:23: #2 finished! INFO @ Fri, 26 Jun 2020 06:44:23: #2 predicted fragment length is 260 bps INFO @ Fri, 26 Jun 2020 06:44:23: #2 alternative fragment length(s) may be 260 bps INFO @ Fri, 26 Jun 2020 06:44:23: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX466517/SRX466517.20_model.r INFO @ Fri, 26 Jun 2020 06:44:23: #3 Call peaks... INFO @ Fri, 26 Jun 2020 06:44:23: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Fri, 26 Jun 2020 06:44:34: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 06:44:39: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX466517/SRX466517.20_peaks.xls INFO @ Fri, 26 Jun 2020 06:44:39: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX466517/SRX466517.20_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 06:44:39: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX466517/SRX466517.20_summits.bed INFO @ Fri, 26 Jun 2020 06:44:39: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (1008 records, 4 fields): 2 millis CompletedMACS2peakCalling