Job ID = 14160403 SRX = SRX8832093 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: 00:04:01 22250857 reads; of these: 22250857 (100.00%) were unpaired; of these: 6838813 (30.74%) aligned 0 times 13190320 (59.28%) aligned exactly 1 time 2221724 (9.98%) aligned >1 times 69.26% overall alignment rate Time searching: 00:04:01 Overall time: 00:04:01 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_sort_core] merging from 8 files... [bam_rmdupse_core] 5663854 / 15412044 = 0.3675 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 02:18:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8832093/SRX8832093.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8832093/SRX8832093.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8832093/SRX8832093.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8832093/SRX8832093.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 02:18:13: #1 read tag files... INFO @ Thu, 09 Dec 2021 02:18:13: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 02:18:19: 1000000 INFO @ Thu, 09 Dec 2021 02:18:24: 2000000 INFO @ Thu, 09 Dec 2021 02:18:29: 3000000 INFO @ Thu, 09 Dec 2021 02:18:35: 4000000 INFO @ Thu, 09 Dec 2021 02:18:40: 5000000 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 02:18:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8832093/SRX8832093.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8832093/SRX8832093.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8832093/SRX8832093.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8832093/SRX8832093.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 02:18:43: #1 read tag files... INFO @ Thu, 09 Dec 2021 02:18:43: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 02:18:46: 6000000 INFO @ Thu, 09 Dec 2021 02:18:49: 1000000 INFO @ Thu, 09 Dec 2021 02:18:52: 7000000 INFO @ Thu, 09 Dec 2021 02:18:56: 2000000 INFO @ Thu, 09 Dec 2021 02:18:58: 8000000 INFO @ Thu, 09 Dec 2021 02:19:02: 3000000 INFO @ Thu, 09 Dec 2021 02:19:04: 9000000 INFO @ Thu, 09 Dec 2021 02:19:09: 4000000 INFO @ Thu, 09 Dec 2021 02:19:09: #1 tag size is determined as 50 bps INFO @ Thu, 09 Dec 2021 02:19:09: #1 tag size = 50 INFO @ Thu, 09 Dec 2021 02:19:09: #1 total tags in treatment: 9748190 INFO @ Thu, 09 Dec 2021 02:19:09: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 02:19:09: #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 02:19:09: #1 tags after filtering in treatment: 9748190 INFO @ Thu, 09 Dec 2021 02:19:09: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 02:19:09: #1 finished! INFO @ Thu, 09 Dec 2021 02:19:09: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 02:19:09: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 02:19:10: #2 number of paired peaks: 2123 INFO @ Thu, 09 Dec 2021 02:19:10: start model_add_line... INFO @ Thu, 09 Dec 2021 02:19:10: start X-correlation... INFO @ Thu, 09 Dec 2021 02:19:10: end of X-cor INFO @ Thu, 09 Dec 2021 02:19:10: #2 finished! INFO @ Thu, 09 Dec 2021 02:19:10: #2 predicted fragment length is 143 bps INFO @ Thu, 09 Dec 2021 02:19:10: #2 alternative fragment length(s) may be 143 bps INFO @ Thu, 09 Dec 2021 02:19:10: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8832093/SRX8832093.05_model.r INFO @ Thu, 09 Dec 2021 02:19:10: #3 Call peaks... INFO @ Thu, 09 Dec 2021 02:19:10: #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 02:19:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8832093/SRX8832093.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8832093/SRX8832093.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8832093/SRX8832093.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8832093/SRX8832093.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 02:19:13: #1 read tag files... INFO @ Thu, 09 Dec 2021 02:19:13: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 02:19:15: 5000000 INFO @ Thu, 09 Dec 2021 02:19:19: 1000000 INFO @ Thu, 09 Dec 2021 02:19:21: 6000000 INFO @ Thu, 09 Dec 2021 02:19:25: 2000000 INFO @ Thu, 09 Dec 2021 02:19:27: 7000000 INFO @ Thu, 09 Dec 2021 02:19:31: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 02:19:31: 3000000 INFO @ Thu, 09 Dec 2021 02:19:34: 8000000 INFO @ Thu, 09 Dec 2021 02:19:37: 4000000 INFO @ Thu, 09 Dec 2021 02:19:40: 9000000 INFO @ Thu, 09 Dec 2021 02:19:42: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8832093/SRX8832093.05_peaks.xls INFO @ Thu, 09 Dec 2021 02:19:42: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8832093/SRX8832093.05_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 02:19:42: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8832093/SRX8832093.05_summits.bed INFO @ Thu, 09 Dec 2021 02:19:42: Done! pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (6693 records, 4 fields): 7 millis CompletedMACS2peakCalling INFO @ Thu, 09 Dec 2021 02:19:43: 5000000 INFO @ Thu, 09 Dec 2021 02:19:45: #1 tag size is determined as 50 bps INFO @ Thu, 09 Dec 2021 02:19:45: #1 tag size = 50 INFO @ Thu, 09 Dec 2021 02:19:45: #1 total tags in treatment: 9748190 INFO @ Thu, 09 Dec 2021 02:19:45: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 02:19:45: #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 02:19:45: #1 tags after filtering in treatment: 9748190 INFO @ Thu, 09 Dec 2021 02:19:45: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 02:19:45: #1 finished! INFO @ Thu, 09 Dec 2021 02:19:45: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 02:19:45: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 02:19:46: #2 number of paired peaks: 2123 INFO @ Thu, 09 Dec 2021 02:19:46: start model_add_line... INFO @ Thu, 09 Dec 2021 02:19:46: start X-correlation... INFO @ Thu, 09 Dec 2021 02:19:46: end of X-cor INFO @ Thu, 09 Dec 2021 02:19:46: #2 finished! INFO @ Thu, 09 Dec 2021 02:19:46: #2 predicted fragment length is 143 bps INFO @ Thu, 09 Dec 2021 02:19:46: #2 alternative fragment length(s) may be 143 bps INFO @ Thu, 09 Dec 2021 02:19:46: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8832093/SRX8832093.10_model.r INFO @ Thu, 09 Dec 2021 02:19:46: #3 Call peaks... INFO @ Thu, 09 Dec 2021 02:19:46: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 02:19:49: 6000000 INFO @ Thu, 09 Dec 2021 02:19:54: 7000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 09 Dec 2021 02:19:59: 8000000 INFO @ Thu, 09 Dec 2021 02:20:04: 9000000 INFO @ Thu, 09 Dec 2021 02:20:07: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 02:20:08: #1 tag size is determined as 50 bps INFO @ Thu, 09 Dec 2021 02:20:08: #1 tag size = 50 INFO @ Thu, 09 Dec 2021 02:20:08: #1 total tags in treatment: 9748190 INFO @ Thu, 09 Dec 2021 02:20:08: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 02:20:08: #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 02:20:08: #1 tags after filtering in treatment: 9748190 INFO @ Thu, 09 Dec 2021 02:20:08: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 02:20:08: #1 finished! INFO @ Thu, 09 Dec 2021 02:20:08: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 02:20:08: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 02:20:09: #2 number of paired peaks: 2123 INFO @ Thu, 09 Dec 2021 02:20:09: start model_add_line... INFO @ Thu, 09 Dec 2021 02:20:09: start X-correlation... INFO @ Thu, 09 Dec 2021 02:20:09: end of X-cor INFO @ Thu, 09 Dec 2021 02:20:09: #2 finished! INFO @ Thu, 09 Dec 2021 02:20:09: #2 predicted fragment length is 143 bps INFO @ Thu, 09 Dec 2021 02:20:09: #2 alternative fragment length(s) may be 143 bps INFO @ Thu, 09 Dec 2021 02:20:09: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8832093/SRX8832093.20_model.r INFO @ Thu, 09 Dec 2021 02:20:09: #3 Call peaks... INFO @ Thu, 09 Dec 2021 02:20:09: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Thu, 09 Dec 2021 02:20:17: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8832093/SRX8832093.10_peaks.xls INFO @ Thu, 09 Dec 2021 02:20:17: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8832093/SRX8832093.10_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 02:20:17: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8832093/SRX8832093.10_summits.bed INFO @ Thu, 09 Dec 2021 02:20:17: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (5464 records, 4 fields): 7 millis CompletedMACS2peakCalling INFO @ Thu, 09 Dec 2021 02:20:32: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 02:20:43: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8832093/SRX8832093.20_peaks.xls INFO @ Thu, 09 Dec 2021 02:20:43: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8832093/SRX8832093.20_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 02:20:43: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8832093/SRX8832093.20_summits.bed INFO @ Thu, 09 Dec 2021 02:20:43: Done! pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (4138 records, 4 fields): 5 millis CompletedMACS2peakCalling