Job ID = 16433526 SRX = SRX10925656 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 22645149 spots for SRR14580046/SRR14580046.sra Written 22645149 spots for SRR14580046/SRR14580046.sra fastq に変換しました。 bowtie でマッピング中... Your job 16434620 ("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: 00:06:01 22645149 reads; of these: 22645149 (100.00%) were unpaired; of these: 9295969 (41.05%) aligned 0 times 9672863 (42.71%) aligned exactly 1 time 3676317 (16.23%) aligned >1 times 58.95% overall alignment rate Time searching: 00:06:02 Overall time: 00:06:02 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] 3369560 / 13349180 = 0.2524 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 09:52:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX10925656/SRX10925656.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX10925656/SRX10925656.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX10925656/SRX10925656.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX10925656/SRX10925656.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 09:52:48: #1 read tag files... INFO @ Tue, 02 Aug 2022 09:52:48: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 09:52:54: 1000000 INFO @ Tue, 02 Aug 2022 09:52:59: 2000000 INFO @ Tue, 02 Aug 2022 09:53:05: 3000000 INFO @ Tue, 02 Aug 2022 09:53:11: 4000000 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 09:53:17: 5000000 INFO @ Tue, 02 Aug 2022 09:53:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX10925656/SRX10925656.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX10925656/SRX10925656.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX10925656/SRX10925656.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX10925656/SRX10925656.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 09:53:17: #1 read tag files... INFO @ Tue, 02 Aug 2022 09:53:17: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 09:53:23: 6000000 INFO @ Tue, 02 Aug 2022 09:53:24: 1000000 INFO @ Tue, 02 Aug 2022 09:53:29: 7000000 INFO @ Tue, 02 Aug 2022 09:53:30: 2000000 INFO @ Tue, 02 Aug 2022 09:53:36: 8000000 INFO @ Tue, 02 Aug 2022 09:53:37: 3000000 INFO @ Tue, 02 Aug 2022 09:53:42: 9000000 INFO @ Tue, 02 Aug 2022 09:53:43: 4000000 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 09:53:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX10925656/SRX10925656.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX10925656/SRX10925656.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX10925656/SRX10925656.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX10925656/SRX10925656.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 09:53:47: #1 read tag files... INFO @ Tue, 02 Aug 2022 09:53:47: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 09:53:48: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 09:53:48: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 09:53:48: #1 total tags in treatment: 9979620 INFO @ Tue, 02 Aug 2022 09:53:48: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 09:53:48: #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 09:53:48: #1 tags after filtering in treatment: 9979620 INFO @ Tue, 02 Aug 2022 09:53:48: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 09:53:48: #1 finished! INFO @ Tue, 02 Aug 2022 09:53:48: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 09:53:48: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 09:53:49: #2 number of paired peaks: 3999 INFO @ Tue, 02 Aug 2022 09:53:49: start model_add_line... INFO @ Tue, 02 Aug 2022 09:53:50: start X-correlation... INFO @ Tue, 02 Aug 2022 09:53:50: 5000000 INFO @ Tue, 02 Aug 2022 09:53:50: end of X-cor INFO @ Tue, 02 Aug 2022 09:53:50: #2 finished! INFO @ Tue, 02 Aug 2022 09:53:50: #2 predicted fragment length is 199 bps INFO @ Tue, 02 Aug 2022 09:53:50: #2 alternative fragment length(s) may be 199 bps INFO @ Tue, 02 Aug 2022 09:53:50: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX10925656/SRX10925656.05_model.r INFO @ Tue, 02 Aug 2022 09:53:50: #3 Call peaks... INFO @ Tue, 02 Aug 2022 09:53:50: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 09:53:54: 1000000 INFO @ Tue, 02 Aug 2022 09:53:56: 6000000 INFO @ Tue, 02 Aug 2022 09:54:00: 2000000 INFO @ Tue, 02 Aug 2022 09:54:03: 7000000 INFO @ Tue, 02 Aug 2022 09:54:07: 3000000 INFO @ Tue, 02 Aug 2022 09:54:09: 8000000 INFO @ Tue, 02 Aug 2022 09:54:14: 4000000 INFO @ Tue, 02 Aug 2022 09:54:16: 9000000 INFO @ Tue, 02 Aug 2022 09:54:16: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 09:54:20: 5000000 INFO @ Tue, 02 Aug 2022 09:54:22: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 09:54:22: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 09:54:22: #1 total tags in treatment: 9979620 INFO @ Tue, 02 Aug 2022 09:54:22: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 09:54:22: #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 09:54:22: #1 tags after filtering in treatment: 9979620 INFO @ Tue, 02 Aug 2022 09:54:22: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 09:54:22: #1 finished! INFO @ Tue, 02 Aug 2022 09:54:22: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 09:54:22: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 09:54:23: #2 number of paired peaks: 3999 INFO @ Tue, 02 Aug 2022 09:54:23: start model_add_line... INFO @ Tue, 02 Aug 2022 09:54:23: start X-correlation... INFO @ Tue, 02 Aug 2022 09:54:23: end of X-cor INFO @ Tue, 02 Aug 2022 09:54:23: #2 finished! INFO @ Tue, 02 Aug 2022 09:54:23: #2 predicted fragment length is 199 bps INFO @ Tue, 02 Aug 2022 09:54:23: #2 alternative fragment length(s) may be 199 bps INFO @ Tue, 02 Aug 2022 09:54:23: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX10925656/SRX10925656.10_model.r INFO @ Tue, 02 Aug 2022 09:54:23: #3 Call peaks... INFO @ Tue, 02 Aug 2022 09:54:23: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 09:54:26: 6000000 INFO @ Tue, 02 Aug 2022 09:54:30: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX10925656/SRX10925656.05_peaks.xls INFO @ Tue, 02 Aug 2022 09:54:30: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX10925656/SRX10925656.05_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 09:54:30: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX10925656/SRX10925656.05_summits.bed INFO @ Tue, 02 Aug 2022 09:54:30: Done! BedGraph に変換しました。 BigWig に変換中... pass1 - making usageList (6 chroms): 4 millis pass2 - checking and writing primary data (21215 records, 4 fields): 44 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 09:54:33: 7000000 INFO @ Tue, 02 Aug 2022 09:54:39: 8000000 INFO @ Tue, 02 Aug 2022 09:54:45: 9000000 BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 09:54:51: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 09:54:51: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 09:54:51: #1 total tags in treatment: 9979620 INFO @ Tue, 02 Aug 2022 09:54:51: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 09:54:51: #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 09:54:51: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 09:54:51: #1 tags after filtering in treatment: 9979620 INFO @ Tue, 02 Aug 2022 09:54:51: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 09:54:51: #1 finished! INFO @ Tue, 02 Aug 2022 09:54:51: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 09:54:51: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 09:54:52: #2 number of paired peaks: 3999 INFO @ Tue, 02 Aug 2022 09:54:52: start model_add_line... INFO @ Tue, 02 Aug 2022 09:54:52: start X-correlation... INFO @ Tue, 02 Aug 2022 09:54:52: end of X-cor INFO @ Tue, 02 Aug 2022 09:54:52: #2 finished! INFO @ Tue, 02 Aug 2022 09:54:52: #2 predicted fragment length is 199 bps INFO @ Tue, 02 Aug 2022 09:54:52: #2 alternative fragment length(s) may be 199 bps INFO @ Tue, 02 Aug 2022 09:54:52: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX10925656/SRX10925656.20_model.r INFO @ Tue, 02 Aug 2022 09:54:52: #3 Call peaks... INFO @ Tue, 02 Aug 2022 09:54:52: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 09:55:04: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX10925656/SRX10925656.10_peaks.xls INFO @ Tue, 02 Aug 2022 09:55:04: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX10925656/SRX10925656.10_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 09:55:04: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX10925656/SRX10925656.10_summits.bed INFO @ Tue, 02 Aug 2022 09:55:04: Done! pass1 - making usageList (6 chroms): 2 millis pass2 - checking and writing primary data (14151 records, 4 fields): 30 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 09:55:19: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 09:55:32: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX10925656/SRX10925656.20_peaks.xls INFO @ Tue, 02 Aug 2022 09:55:32: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX10925656/SRX10925656.20_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 09:55:32: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX10925656/SRX10925656.20_summits.bed INFO @ Tue, 02 Aug 2022 09:55:32: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (6448 records, 4 fields): 24 millis CompletedMACS2peakCalling