Job ID = 10166020 SRX = SRX8832100 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: 00:03:54 18824022 reads; of these: 18824022 (100.00%) were unpaired; of these: 1062909 (5.65%) aligned 0 times 15355485 (81.57%) aligned exactly 1 time 2405628 (12.78%) aligned >1 times 94.35% overall alignment rate Time searching: 00:03:54 Overall time: 00:03:54 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] 8712944 / 17761113 = 0.4906 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 @ Thu, 08 Oct 2020 20:32:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8832100/SRX8832100.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8832100/SRX8832100.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8832100/SRX8832100.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8832100/SRX8832100.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, 08 Oct 2020 20:32:51: #1 read tag files... INFO @ Thu, 08 Oct 2020 20:32:51: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 20:32:56: 1000000 INFO @ Thu, 08 Oct 2020 20:33:00: 2000000 INFO @ Thu, 08 Oct 2020 20:33:05: 3000000 INFO @ Thu, 08 Oct 2020 20:33:10: 4000000 INFO @ Thu, 08 Oct 2020 20:33:15: 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 @ Thu, 08 Oct 2020 20:33:20: 6000000 INFO @ Thu, 08 Oct 2020 20:33:21: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8832100/SRX8832100.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8832100/SRX8832100.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8832100/SRX8832100.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8832100/SRX8832100.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, 08 Oct 2020 20:33:21: #1 read tag files... INFO @ Thu, 08 Oct 2020 20:33:21: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 20:33:25: 7000000 INFO @ Thu, 08 Oct 2020 20:33:26: 1000000 INFO @ Thu, 08 Oct 2020 20:33:31: 8000000 INFO @ Thu, 08 Oct 2020 20:33:31: 2000000 INFO @ Thu, 08 Oct 2020 20:33:36: 9000000 INFO @ Thu, 08 Oct 2020 20:33:36: 3000000 INFO @ Thu, 08 Oct 2020 20:33:37: #1 tag size is determined as 49 bps INFO @ Thu, 08 Oct 2020 20:33:37: #1 tag size = 49 INFO @ Thu, 08 Oct 2020 20:33:37: #1 total tags in treatment: 9048169 INFO @ Thu, 08 Oct 2020 20:33:37: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 20:33:37: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 08 Oct 2020 20:33:37: #1 tags after filtering in treatment: 9048169 INFO @ Thu, 08 Oct 2020 20:33:37: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 20:33:37: #1 finished! INFO @ Thu, 08 Oct 2020 20:33:37: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 20:33:37: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 20:33:38: #2 number of paired peaks: 4235 INFO @ Thu, 08 Oct 2020 20:33:38: start model_add_line... INFO @ Thu, 08 Oct 2020 20:33:38: start X-correlation... INFO @ Thu, 08 Oct 2020 20:33:38: end of X-cor INFO @ Thu, 08 Oct 2020 20:33:38: #2 finished! INFO @ Thu, 08 Oct 2020 20:33:38: #2 predicted fragment length is 151 bps INFO @ Thu, 08 Oct 2020 20:33:38: #2 alternative fragment length(s) may be 151 bps INFO @ Thu, 08 Oct 2020 20:33:38: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8832100/SRX8832100.05_model.r INFO @ Thu, 08 Oct 2020 20:33:38: #3 Call peaks... INFO @ Thu, 08 Oct 2020 20:33:38: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 20:33:41: 4000000 INFO @ Thu, 08 Oct 2020 20:33:47: 5000000 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 @ Thu, 08 Oct 2020 20:33:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8832100/SRX8832100.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8832100/SRX8832100.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8832100/SRX8832100.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8832100/SRX8832100.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, 08 Oct 2020 20:33:51: #1 read tag files... INFO @ Thu, 08 Oct 2020 20:33:51: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 20:33:52: 6000000 INFO @ Thu, 08 Oct 2020 20:33:56: 1000000 INFO @ Thu, 08 Oct 2020 20:33:57: 7000000 INFO @ Thu, 08 Oct 2020 20:34:00: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 20:34:01: 2000000 INFO @ Thu, 08 Oct 2020 20:34:02: 8000000 INFO @ Thu, 08 Oct 2020 20:34:07: 3000000 INFO @ Thu, 08 Oct 2020 20:34:08: 9000000 INFO @ Thu, 08 Oct 2020 20:34:08: #1 tag size is determined as 49 bps INFO @ Thu, 08 Oct 2020 20:34:08: #1 tag size = 49 INFO @ Thu, 08 Oct 2020 20:34:08: #1 total tags in treatment: 9048169 INFO @ Thu, 08 Oct 2020 20:34:08: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 20:34:08: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 08 Oct 2020 20:34:08: #1 tags after filtering in treatment: 9048169 INFO @ Thu, 08 Oct 2020 20:34:08: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 20:34:08: #1 finished! INFO @ Thu, 08 Oct 2020 20:34:08: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 20:34:08: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 20:34:09: #2 number of paired peaks: 4235 INFO @ Thu, 08 Oct 2020 20:34:09: start model_add_line... INFO @ Thu, 08 Oct 2020 20:34:09: start X-correlation... INFO @ Thu, 08 Oct 2020 20:34:09: end of X-cor INFO @ Thu, 08 Oct 2020 20:34:09: #2 finished! INFO @ Thu, 08 Oct 2020 20:34:09: #2 predicted fragment length is 151 bps INFO @ Thu, 08 Oct 2020 20:34:09: #2 alternative fragment length(s) may be 151 bps INFO @ Thu, 08 Oct 2020 20:34:09: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8832100/SRX8832100.10_model.r INFO @ Thu, 08 Oct 2020 20:34:09: #3 Call peaks... INFO @ Thu, 08 Oct 2020 20:34:09: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 20:34:11: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8832100/SRX8832100.05_peaks.xls INFO @ Thu, 08 Oct 2020 20:34:11: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8832100/SRX8832100.05_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 20:34:11: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8832100/SRX8832100.05_summits.bed INFO @ Thu, 08 Oct 2020 20:34:11: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (7603 records, 4 fields): 9 millis CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 20:34:12: 4000000 INFO @ Thu, 08 Oct 2020 20:34:17: 5000000 INFO @ Thu, 08 Oct 2020 20:34:22: 6000000 INFO @ Thu, 08 Oct 2020 20:34:27: 7000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 08 Oct 2020 20:34:32: 8000000 INFO @ Thu, 08 Oct 2020 20:34:32: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 20:34:37: 9000000 INFO @ Thu, 08 Oct 2020 20:34:37: #1 tag size is determined as 49 bps INFO @ Thu, 08 Oct 2020 20:34:37: #1 tag size = 49 INFO @ Thu, 08 Oct 2020 20:34:37: #1 total tags in treatment: 9048169 INFO @ Thu, 08 Oct 2020 20:34:37: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 20:34:37: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 08 Oct 2020 20:34:37: #1 tags after filtering in treatment: 9048169 INFO @ Thu, 08 Oct 2020 20:34:37: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 20:34:37: #1 finished! INFO @ Thu, 08 Oct 2020 20:34:37: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 20:34:37: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 20:34:38: #2 number of paired peaks: 4235 INFO @ Thu, 08 Oct 2020 20:34:38: start model_add_line... INFO @ Thu, 08 Oct 2020 20:34:38: start X-correlation... INFO @ Thu, 08 Oct 2020 20:34:38: end of X-cor INFO @ Thu, 08 Oct 2020 20:34:38: #2 finished! INFO @ Thu, 08 Oct 2020 20:34:38: #2 predicted fragment length is 151 bps INFO @ Thu, 08 Oct 2020 20:34:38: #2 alternative fragment length(s) may be 151 bps INFO @ Thu, 08 Oct 2020 20:34:38: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8832100/SRX8832100.20_model.r INFO @ Thu, 08 Oct 2020 20:34:38: #3 Call peaks... INFO @ Thu, 08 Oct 2020 20:34:38: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 20:34:44: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8832100/SRX8832100.10_peaks.xls INFO @ Thu, 08 Oct 2020 20:34:44: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8832100/SRX8832100.10_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 20:34:44: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8832100/SRX8832100.10_summits.bed INFO @ Thu, 08 Oct 2020 20:34:44: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (6241 records, 4 fields): 7 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Thu, 08 Oct 2020 20:35:01: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 20:35:11: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8832100/SRX8832100.20_peaks.xls INFO @ Thu, 08 Oct 2020 20:35:11: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8832100/SRX8832100.20_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 20:35:11: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8832100/SRX8832100.20_summits.bed INFO @ Thu, 08 Oct 2020 20:35:11: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (4842 records, 4 fields): 6 millis CompletedMACS2peakCalling