Job ID = 16433523 SRX = SRX10925653 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 20163185 spots for SRR14580043/SRR14580043.sra Written 20163185 spots for SRR14580043/SRR14580043.sra fastq に変換しました。 bowtie でマッピング中... Your job 16434708 ("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: 00:07:27 20163185 reads; of these: 20163185 (100.00%) were unpaired; of these: 7757063 (38.47%) aligned 0 times 8897156 (44.13%) aligned exactly 1 time 3508966 (17.40%) aligned >1 times 61.53% overall alignment rate Time searching: 00:07:27 Overall time: 00:07:27 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] 3163673 / 12406122 = 0.2550 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 09:55:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX10925653/SRX10925653.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX10925653/SRX10925653.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX10925653/SRX10925653.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX10925653/SRX10925653.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 09:55:01: #1 read tag files... INFO @ Tue, 02 Aug 2022 09:55:01: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 09:55:09: 1000000 INFO @ Tue, 02 Aug 2022 09:55:17: 2000000 INFO @ Tue, 02 Aug 2022 09:55:24: 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 09:55:32: 4000000 INFO @ Tue, 02 Aug 2022 09:55:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX10925653/SRX10925653.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX10925653/SRX10925653.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX10925653/SRX10925653.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX10925653/SRX10925653.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 09:55:32: #1 read tag files... INFO @ Tue, 02 Aug 2022 09:55:32: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 09:55:40: 5000000 INFO @ Tue, 02 Aug 2022 09:55:41: 1000000 INFO @ Tue, 02 Aug 2022 09:55:49: 6000000 INFO @ Tue, 02 Aug 2022 09:55:51: 2000000 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 09:55:58: 7000000 INFO @ Tue, 02 Aug 2022 09:55:59: 3000000 INFO @ Tue, 02 Aug 2022 09:56:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX10925653/SRX10925653.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX10925653/SRX10925653.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX10925653/SRX10925653.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX10925653/SRX10925653.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 09:56:02: #1 read tag files... INFO @ Tue, 02 Aug 2022 09:56:02: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 09:56:07: 8000000 INFO @ Tue, 02 Aug 2022 09:56:09: 4000000 INFO @ Tue, 02 Aug 2022 09:56:11: 1000000 INFO @ Tue, 02 Aug 2022 09:56:16: 9000000 INFO @ Tue, 02 Aug 2022 09:56:18: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 09:56:18: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 09:56:18: #1 total tags in treatment: 9242449 INFO @ Tue, 02 Aug 2022 09:56:18: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 09:56:18: #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 09:56:19: #1 tags after filtering in treatment: 9242449 INFO @ Tue, 02 Aug 2022 09:56:19: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 09:56:19: #1 finished! INFO @ Tue, 02 Aug 2022 09:56:19: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 09:56:19: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 09:56:19: 5000000 INFO @ Tue, 02 Aug 2022 09:56:20: #2 number of paired peaks: 4653 INFO @ Tue, 02 Aug 2022 09:56:20: start model_add_line... INFO @ Tue, 02 Aug 2022 09:56:20: start X-correlation... INFO @ Tue, 02 Aug 2022 09:56:20: 2000000 INFO @ Tue, 02 Aug 2022 09:56:20: end of X-cor INFO @ Tue, 02 Aug 2022 09:56:20: #2 finished! INFO @ Tue, 02 Aug 2022 09:56:20: #2 predicted fragment length is 200 bps INFO @ Tue, 02 Aug 2022 09:56:20: #2 alternative fragment length(s) may be 200 bps INFO @ Tue, 02 Aug 2022 09:56:20: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX10925653/SRX10925653.05_model.r INFO @ Tue, 02 Aug 2022 09:56:21: #3 Call peaks... INFO @ Tue, 02 Aug 2022 09:56:21: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 09:56:28: 6000000 INFO @ Tue, 02 Aug 2022 09:56:30: 3000000 INFO @ Tue, 02 Aug 2022 09:56:37: 7000000 INFO @ Tue, 02 Aug 2022 09:56:38: 4000000 INFO @ Tue, 02 Aug 2022 09:56:46: 8000000 INFO @ Tue, 02 Aug 2022 09:56:47: 5000000 INFO @ Tue, 02 Aug 2022 09:56:52: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 09:56:54: 9000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 09:56:56: 6000000 INFO @ Tue, 02 Aug 2022 09:56:56: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 09:56:56: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 09:56:56: #1 total tags in treatment: 9242449 INFO @ Tue, 02 Aug 2022 09:56:56: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 09:56:56: #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 09:56:57: #1 tags after filtering in treatment: 9242449 INFO @ Tue, 02 Aug 2022 09:56:57: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 09:56:57: #1 finished! INFO @ Tue, 02 Aug 2022 09:56:57: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 09:56:57: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 09:56:58: #2 number of paired peaks: 4653 INFO @ Tue, 02 Aug 2022 09:56:58: start model_add_line... INFO @ Tue, 02 Aug 2022 09:56:58: start X-correlation... INFO @ Tue, 02 Aug 2022 09:56:59: end of X-cor INFO @ Tue, 02 Aug 2022 09:56:59: #2 finished! INFO @ Tue, 02 Aug 2022 09:56:59: #2 predicted fragment length is 200 bps INFO @ Tue, 02 Aug 2022 09:56:59: #2 alternative fragment length(s) may be 200 bps INFO @ Tue, 02 Aug 2022 09:56:59: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX10925653/SRX10925653.10_model.r INFO @ Tue, 02 Aug 2022 09:56:59: #3 Call peaks... INFO @ Tue, 02 Aug 2022 09:56:59: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 09:57:04: 7000000 INFO @ Tue, 02 Aug 2022 09:57:07: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX10925653/SRX10925653.05_peaks.xls INFO @ Tue, 02 Aug 2022 09:57:07: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX10925653/SRX10925653.05_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 09:57:08: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX10925653/SRX10925653.05_summits.bed INFO @ Tue, 02 Aug 2022 09:57:08: Done! pass1 - making usageList (6 chroms): 4 millis pass2 - checking and writing primary data (20775 records, 4 fields): 42 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 09:57:13: 8000000 BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 09:57:22: 9000000 INFO @ Tue, 02 Aug 2022 09:57:24: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 09:57:24: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 09:57:24: #1 total tags in treatment: 9242449 INFO @ Tue, 02 Aug 2022 09:57:24: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 09:57:24: #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 09:57:24: #1 tags after filtering in treatment: 9242449 INFO @ Tue, 02 Aug 2022 09:57:24: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 09:57:24: #1 finished! INFO @ Tue, 02 Aug 2022 09:57:24: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 09:57:24: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 09:57:25: #2 number of paired peaks: 4653 INFO @ Tue, 02 Aug 2022 09:57:25: start model_add_line... INFO @ Tue, 02 Aug 2022 09:57:25: start X-correlation... INFO @ Tue, 02 Aug 2022 09:57:26: end of X-cor INFO @ Tue, 02 Aug 2022 09:57:26: #2 finished! INFO @ Tue, 02 Aug 2022 09:57:26: #2 predicted fragment length is 200 bps INFO @ Tue, 02 Aug 2022 09:57:26: #2 alternative fragment length(s) may be 200 bps INFO @ Tue, 02 Aug 2022 09:57:26: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX10925653/SRX10925653.20_model.r INFO @ Tue, 02 Aug 2022 09:57:26: #3 Call peaks... INFO @ Tue, 02 Aug 2022 09:57:26: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 09:57:30: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 09:57:45: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX10925653/SRX10925653.10_peaks.xls INFO @ Tue, 02 Aug 2022 09:57:46: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX10925653/SRX10925653.10_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 09:57:46: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX10925653/SRX10925653.10_summits.bed INFO @ Tue, 02 Aug 2022 09:57:46: Done! pass1 - making usageList (6 chroms): 3 millis pass2 - checking and writing primary data (13841 records, 4 fields): 50 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 09:57:56: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 09:58:10: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX10925653/SRX10925653.20_peaks.xls INFO @ Tue, 02 Aug 2022 09:58:10: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX10925653/SRX10925653.20_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 09:58:10: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX10925653/SRX10925653.20_summits.bed INFO @ Tue, 02 Aug 2022 09:58:10: Done! pass1 - making usageList (6 chroms): 2 millis pass2 - checking and writing primary data (6660 records, 4 fields): 46 millis CompletedMACS2peakCalling