Job ID = 14160235 SRX = SRX8832105 Genome = ce11 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 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: 00:01:35 6997969 reads; of these: 6997969 (100.00%) were unpaired; of these: 773309 (11.05%) aligned 0 times 4956210 (70.82%) aligned exactly 1 time 1268450 (18.13%) aligned >1 times 88.95% overall alignment rate Time searching: 00:01:35 Overall time: 00:01:35 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] 1200217 / 6224660 = 0.1928 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/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Thu, 09 Dec 2021 01:06:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8832105/SRX8832105.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8832105/SRX8832105.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8832105/SRX8832105.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8832105/SRX8832105.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 @ Thu, 09 Dec 2021 01:06:35: #1 read tag files... INFO @ Thu, 09 Dec 2021 01:06:35: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 01:06:40: 1000000 INFO @ Thu, 09 Dec 2021 01:06:44: 2000000 INFO @ Thu, 09 Dec 2021 01:06:49: 3000000 INFO @ Thu, 09 Dec 2021 01:06:53: 4000000 INFO @ Thu, 09 Dec 2021 01:06:58: 5000000 INFO @ Thu, 09 Dec 2021 01:06:58: #1 tag size is determined as 50 bps INFO @ Thu, 09 Dec 2021 01:06:58: #1 tag size = 50 INFO @ Thu, 09 Dec 2021 01:06:58: #1 total tags in treatment: 5024443 INFO @ Thu, 09 Dec 2021 01:06:58: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 01:06:58: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 09 Dec 2021 01:06:58: #1 tags after filtering in treatment: 5024443 INFO @ Thu, 09 Dec 2021 01:06:58: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 01:06:58: #1 finished! INFO @ Thu, 09 Dec 2021 01:06:58: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 01:06:58: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 01:06:59: #2 number of paired peaks: 3373 INFO @ Thu, 09 Dec 2021 01:06:59: start model_add_line... INFO @ Thu, 09 Dec 2021 01:06:59: start X-correlation... INFO @ Thu, 09 Dec 2021 01:06:59: end of X-cor INFO @ Thu, 09 Dec 2021 01:06:59: #2 finished! INFO @ Thu, 09 Dec 2021 01:06:59: #2 predicted fragment length is 151 bps INFO @ Thu, 09 Dec 2021 01:06:59: #2 alternative fragment length(s) may be 151 bps INFO @ Thu, 09 Dec 2021 01:06:59: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8832105/SRX8832105.05_model.r INFO @ Thu, 09 Dec 2021 01:06:59: #3 Call peaks... INFO @ Thu, 09 Dec 2021 01:06:59: #3 Pre-compute pvalue-qvalue table... WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Thu, 09 Dec 2021 01:07:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8832105/SRX8832105.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8832105/SRX8832105.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8832105/SRX8832105.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8832105/SRX8832105.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 @ Thu, 09 Dec 2021 01:07:05: #1 read tag files... INFO @ Thu, 09 Dec 2021 01:07:05: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 01:07:11: 1000000 INFO @ Thu, 09 Dec 2021 01:07:11: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 01:07:16: 2000000 INFO @ Thu, 09 Dec 2021 01:07:16: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8832105/SRX8832105.05_peaks.xls INFO @ Thu, 09 Dec 2021 01:07:16: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8832105/SRX8832105.05_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 01:07:16: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8832105/SRX8832105.05_summits.bed INFO @ Thu, 09 Dec 2021 01:07:16: Done! pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (7251 records, 4 fields): 8 millis CompletedMACS2peakCalling INFO @ Thu, 09 Dec 2021 01:07:21: 3000000 INFO @ Thu, 09 Dec 2021 01:07:26: 4000000 INFO @ Thu, 09 Dec 2021 01:07:32: 5000000 INFO @ Thu, 09 Dec 2021 01:07:32: #1 tag size is determined as 50 bps INFO @ Thu, 09 Dec 2021 01:07:32: #1 tag size = 50 INFO @ Thu, 09 Dec 2021 01:07:32: #1 total tags in treatment: 5024443 INFO @ Thu, 09 Dec 2021 01:07:32: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 01:07:32: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 09 Dec 2021 01:07:32: #1 tags after filtering in treatment: 5024443 INFO @ Thu, 09 Dec 2021 01:07:32: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 01:07:32: #1 finished! INFO @ Thu, 09 Dec 2021 01:07:32: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 01:07:32: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 01:07:33: #2 number of paired peaks: 3373 INFO @ Thu, 09 Dec 2021 01:07:33: start model_add_line... INFO @ Thu, 09 Dec 2021 01:07:33: start X-correlation... INFO @ Thu, 09 Dec 2021 01:07:33: end of X-cor INFO @ Thu, 09 Dec 2021 01:07:33: #2 finished! INFO @ Thu, 09 Dec 2021 01:07:33: #2 predicted fragment length is 151 bps INFO @ Thu, 09 Dec 2021 01:07:33: #2 alternative fragment length(s) may be 151 bps INFO @ Thu, 09 Dec 2021 01:07:33: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8832105/SRX8832105.10_model.r INFO @ Thu, 09 Dec 2021 01:07:33: #3 Call peaks... INFO @ Thu, 09 Dec 2021 01:07:33: #3 Pre-compute pvalue-qvalue table... BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Thu, 09 Dec 2021 01:07:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8832105/SRX8832105.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8832105/SRX8832105.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8832105/SRX8832105.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8832105/SRX8832105.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 @ Thu, 09 Dec 2021 01:07:35: #1 read tag files... INFO @ Thu, 09 Dec 2021 01:07:35: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 01:07:40: 1000000 INFO @ Thu, 09 Dec 2021 01:07:44: 2000000 INFO @ Thu, 09 Dec 2021 01:07:45: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 01:07:49: 3000000 INFO @ Thu, 09 Dec 2021 01:07:50: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8832105/SRX8832105.10_peaks.xls INFO @ Thu, 09 Dec 2021 01:07:50: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8832105/SRX8832105.10_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 01:07:50: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8832105/SRX8832105.10_summits.bed INFO @ Thu, 09 Dec 2021 01:07:51: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (5743 records, 4 fields): 7 millis CompletedMACS2peakCalling INFO @ Thu, 09 Dec 2021 01:07:54: 4000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 09 Dec 2021 01:07:58: 5000000 INFO @ Thu, 09 Dec 2021 01:07:58: #1 tag size is determined as 50 bps INFO @ Thu, 09 Dec 2021 01:07:58: #1 tag size = 50 INFO @ Thu, 09 Dec 2021 01:07:58: #1 total tags in treatment: 5024443 INFO @ Thu, 09 Dec 2021 01:07:58: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 01:07:58: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 09 Dec 2021 01:07:59: #1 tags after filtering in treatment: 5024443 INFO @ Thu, 09 Dec 2021 01:07:59: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 01:07:59: #1 finished! INFO @ Thu, 09 Dec 2021 01:07:59: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 01:07:59: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 01:07:59: #2 number of paired peaks: 3373 INFO @ Thu, 09 Dec 2021 01:07:59: start model_add_line... INFO @ Thu, 09 Dec 2021 01:07:59: start X-correlation... INFO @ Thu, 09 Dec 2021 01:07:59: end of X-cor INFO @ Thu, 09 Dec 2021 01:07:59: #2 finished! INFO @ Thu, 09 Dec 2021 01:07:59: #2 predicted fragment length is 151 bps INFO @ Thu, 09 Dec 2021 01:07:59: #2 alternative fragment length(s) may be 151 bps INFO @ Thu, 09 Dec 2021 01:07:59: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8832105/SRX8832105.20_model.r INFO @ Thu, 09 Dec 2021 01:07:59: #3 Call peaks... INFO @ Thu, 09 Dec 2021 01:07:59: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Thu, 09 Dec 2021 01:08:11: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 01:08:16: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8832105/SRX8832105.20_peaks.xls INFO @ Thu, 09 Dec 2021 01:08:16: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8832105/SRX8832105.20_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 01:08:16: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8832105/SRX8832105.20_summits.bed INFO @ Thu, 09 Dec 2021 01:08:16: Done! pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (4146 records, 4 fields): 5 millis CompletedMACS2peakCalling