Job ID = 16433331 SRX = SRX10925645 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 20799027 spots for SRR14580035/SRR14580035.sra Written 20799027 spots for SRR14580035/SRR14580035.sra fastq に変換しました。 bowtie でマッピング中... Your job 16434284 ("srTce11") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:05:32 20799027 reads; of these: 20799027 (100.00%) were unpaired; of these: 13758922 (66.15%) aligned 0 times 5718097 (27.49%) aligned exactly 1 time 1322008 (6.36%) aligned >1 times 33.85% overall alignment rate Time searching: 00:05:32 Overall time: 00:05:32 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] 1151543 / 7040105 = 0.1636 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/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 09:48:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX10925645/SRX10925645.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX10925645/SRX10925645.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX10925645/SRX10925645.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX10925645/SRX10925645.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 @ Tue, 02 Aug 2022 09:48:17: #1 read tag files... INFO @ Tue, 02 Aug 2022 09:48:17: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 09:48:25: 1000000 INFO @ Tue, 02 Aug 2022 09:48:33: 2000000 INFO @ Tue, 02 Aug 2022 09:48:41: 3000000 WARNING: Skipping mount /opt/pkg/singularity/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 09:48:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX10925645/SRX10925645.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX10925645/SRX10925645.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX10925645/SRX10925645.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX10925645/SRX10925645.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 @ Tue, 02 Aug 2022 09:48:47: #1 read tag files... INFO @ Tue, 02 Aug 2022 09:48:47: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 09:48:48: 4000000 INFO @ Tue, 02 Aug 2022 09:48:58: 1000000 INFO @ Tue, 02 Aug 2022 09:48:59: 5000000 INFO @ Tue, 02 Aug 2022 09:49:08: 2000000 INFO @ Tue, 02 Aug 2022 09:49:09: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 09:49:09: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 09:49:09: #1 total tags in treatment: 5888562 INFO @ Tue, 02 Aug 2022 09:49:09: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 09:49:09: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 09:49:09: #1 tags after filtering in treatment: 5888562 INFO @ Tue, 02 Aug 2022 09:49:09: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 09:49:09: #1 finished! INFO @ Tue, 02 Aug 2022 09:49:09: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 09:49:09: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 09:49:10: #2 number of paired peaks: 5029 INFO @ Tue, 02 Aug 2022 09:49:10: start model_add_line... INFO @ Tue, 02 Aug 2022 09:49:10: start X-correlation... INFO @ Tue, 02 Aug 2022 09:49:10: end of X-cor INFO @ Tue, 02 Aug 2022 09:49:10: #2 finished! INFO @ Tue, 02 Aug 2022 09:49:10: #2 predicted fragment length is 237 bps INFO @ Tue, 02 Aug 2022 09:49:10: #2 alternative fragment length(s) may be 237 bps INFO @ Tue, 02 Aug 2022 09:49:10: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX10925645/SRX10925645.05_model.r INFO @ Tue, 02 Aug 2022 09:49:10: #3 Call peaks... INFO @ Tue, 02 Aug 2022 09:49:10: #3 Pre-compute pvalue-qvalue table... BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 09:49:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX10925645/SRX10925645.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX10925645/SRX10925645.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX10925645/SRX10925645.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX10925645/SRX10925645.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 @ Tue, 02 Aug 2022 09:49:18: #1 read tag files... INFO @ Tue, 02 Aug 2022 09:49:18: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 09:49:20: 3000000 INFO @ Tue, 02 Aug 2022 09:49:29: 1000000 INFO @ Tue, 02 Aug 2022 09:49:30: 4000000 INFO @ Tue, 02 Aug 2022 09:49:31: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 09:49:40: 5000000 INFO @ Tue, 02 Aug 2022 09:49:40: 2000000 INFO @ Tue, 02 Aug 2022 09:49:40: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX10925645/SRX10925645.05_peaks.xls INFO @ Tue, 02 Aug 2022 09:49:40: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX10925645/SRX10925645.05_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 09:49:40: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX10925645/SRX10925645.05_summits.bed INFO @ Tue, 02 Aug 2022 09:49:40: Done! pass1 - making usageList (6 chroms): 2 millis pass2 - checking and writing primary data (10082 records, 4 fields): 28 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 09:49:47: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 09:49:47: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 09:49:47: #1 total tags in treatment: 5888562 INFO @ Tue, 02 Aug 2022 09:49:47: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 09:49:47: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 09:49:47: #1 tags after filtering in treatment: 5888562 INFO @ Tue, 02 Aug 2022 09:49:47: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 09:49:47: #1 finished! INFO @ Tue, 02 Aug 2022 09:49:47: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 09:49:47: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 09:49:48: #2 number of paired peaks: 5029 INFO @ Tue, 02 Aug 2022 09:49:48: start model_add_line... INFO @ Tue, 02 Aug 2022 09:49:48: start X-correlation... INFO @ Tue, 02 Aug 2022 09:49:48: end of X-cor INFO @ Tue, 02 Aug 2022 09:49:48: #2 finished! INFO @ Tue, 02 Aug 2022 09:49:48: #2 predicted fragment length is 237 bps INFO @ Tue, 02 Aug 2022 09:49:48: #2 alternative fragment length(s) may be 237 bps INFO @ Tue, 02 Aug 2022 09:49:48: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX10925645/SRX10925645.10_model.r INFO @ Tue, 02 Aug 2022 09:49:48: #3 Call peaks... INFO @ Tue, 02 Aug 2022 09:49:48: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 09:49:50: 3000000 INFO @ Tue, 02 Aug 2022 09:50:00: 4000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 09:50:08: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 09:50:09: 5000000 INFO @ Tue, 02 Aug 2022 09:50:17: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX10925645/SRX10925645.10_peaks.xls INFO @ Tue, 02 Aug 2022 09:50:17: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX10925645/SRX10925645.10_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 09:50:17: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX10925645/SRX10925645.10_summits.bed INFO @ Tue, 02 Aug 2022 09:50:17: Done! pass1 - making usageList (6 chroms): 2 millis pass2 - checking and writing primary data (5587 records, 4 fields): 24 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 09:50:18: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 09:50:18: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 09:50:18: #1 total tags in treatment: 5888562 INFO @ Tue, 02 Aug 2022 09:50:18: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 09:50:18: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 09:50:18: #1 tags after filtering in treatment: 5888562 INFO @ Tue, 02 Aug 2022 09:50:18: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 09:50:18: #1 finished! INFO @ Tue, 02 Aug 2022 09:50:18: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 09:50:18: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 09:50:19: #2 number of paired peaks: 5029 INFO @ Tue, 02 Aug 2022 09:50:19: start model_add_line... INFO @ Tue, 02 Aug 2022 09:50:19: start X-correlation... INFO @ Tue, 02 Aug 2022 09:50:19: end of X-cor INFO @ Tue, 02 Aug 2022 09:50:19: #2 finished! INFO @ Tue, 02 Aug 2022 09:50:19: #2 predicted fragment length is 237 bps INFO @ Tue, 02 Aug 2022 09:50:19: #2 alternative fragment length(s) may be 237 bps INFO @ Tue, 02 Aug 2022 09:50:19: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX10925645/SRX10925645.20_model.r INFO @ Tue, 02 Aug 2022 09:50:19: #3 Call peaks... INFO @ Tue, 02 Aug 2022 09:50:19: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 09:50:39: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 09:50:47: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX10925645/SRX10925645.20_peaks.xls INFO @ Tue, 02 Aug 2022 09:50:47: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX10925645/SRX10925645.20_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 09:50:47: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX10925645/SRX10925645.20_summits.bed INFO @ Tue, 02 Aug 2022 09:50:47: Done! pass1 - making usageList (6 chroms): 6 millis pass2 - checking and writing primary data (2242 records, 4 fields): 17 millis CompletedMACS2peakCalling