Job ID = 16433525 SRX = SRX10925655 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 24657757 spots for SRR14580045/SRR14580045.sra Written 24657757 spots for SRR14580045/SRR14580045.sra fastq に変換しました。 bowtie でマッピング中... Your job 16434655 ("srTce11") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:01 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:06:29 24657757 reads; of these: 24657757 (100.00%) were unpaired; of these: 9916954 (40.22%) aligned 0 times 10699970 (43.39%) aligned exactly 1 time 4040833 (16.39%) aligned >1 times 59.78% overall alignment rate Time searching: 00:06:30 Overall time: 00:06:30 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] 3977566 / 14740803 = 0.2698 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 09:53:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX10925655/SRX10925655.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX10925655/SRX10925655.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX10925655/SRX10925655.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX10925655/SRX10925655.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 09:53:20: #1 read tag files... INFO @ Tue, 02 Aug 2022 09:53:20: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 09:53:26: 1000000 INFO @ Tue, 02 Aug 2022 09:53:32: 2000000 INFO @ Tue, 02 Aug 2022 09:53:38: 3000000 INFO @ Tue, 02 Aug 2022 09:53:44: 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 09:53:50: 5000000 INFO @ Tue, 02 Aug 2022 09:53:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX10925655/SRX10925655.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX10925655/SRX10925655.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX10925655/SRX10925655.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX10925655/SRX10925655.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 09:53:50: #1 read tag files... INFO @ Tue, 02 Aug 2022 09:53:50: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 09:53:56: 6000000 INFO @ Tue, 02 Aug 2022 09:53:57: 1000000 INFO @ Tue, 02 Aug 2022 09:54:03: 7000000 INFO @ Tue, 02 Aug 2022 09:54:04: 2000000 INFO @ Tue, 02 Aug 2022 09:54:09: 8000000 INFO @ Tue, 02 Aug 2022 09:54:11: 3000000 INFO @ Tue, 02 Aug 2022 09:54:15: 9000000 INFO @ Tue, 02 Aug 2022 09:54:17: 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 09:54:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX10925655/SRX10925655.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX10925655/SRX10925655.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX10925655/SRX10925655.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX10925655/SRX10925655.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 09:54:20: #1 read tag files... INFO @ Tue, 02 Aug 2022 09:54:20: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 09:54:22: 10000000 INFO @ Tue, 02 Aug 2022 09:54:24: 5000000 INFO @ Tue, 02 Aug 2022 09:54:26: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 09:54:26: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 09:54:26: #1 total tags in treatment: 10763237 INFO @ Tue, 02 Aug 2022 09:54:26: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 09:54:26: #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 09:54:27: #1 tags after filtering in treatment: 10763237 INFO @ Tue, 02 Aug 2022 09:54:27: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 09:54:27: #1 finished! INFO @ Tue, 02 Aug 2022 09:54:27: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 09:54:27: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 09:54:27: 1000000 INFO @ Tue, 02 Aug 2022 09:54:28: #2 number of paired peaks: 3804 INFO @ Tue, 02 Aug 2022 09:54:28: start model_add_line... INFO @ Tue, 02 Aug 2022 09:54:28: start X-correlation... INFO @ Tue, 02 Aug 2022 09:54:28: end of X-cor INFO @ Tue, 02 Aug 2022 09:54:28: #2 finished! INFO @ Tue, 02 Aug 2022 09:54:28: #2 predicted fragment length is 206 bps INFO @ Tue, 02 Aug 2022 09:54:28: #2 alternative fragment length(s) may be 206 bps INFO @ Tue, 02 Aug 2022 09:54:28: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX10925655/SRX10925655.05_model.r INFO @ Tue, 02 Aug 2022 09:54:28: #3 Call peaks... INFO @ Tue, 02 Aug 2022 09:54:28: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 09:54:31: 6000000 INFO @ Tue, 02 Aug 2022 09:54:34: 2000000 INFO @ Tue, 02 Aug 2022 09:54:38: 7000000 INFO @ Tue, 02 Aug 2022 09:54:40: 3000000 INFO @ Tue, 02 Aug 2022 09:54:45: 8000000 INFO @ Tue, 02 Aug 2022 09:54:47: 4000000 INFO @ Tue, 02 Aug 2022 09:54:52: 9000000 INFO @ Tue, 02 Aug 2022 09:54:54: 5000000 INFO @ Tue, 02 Aug 2022 09:54:56: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 09:54:59: 10000000 INFO @ Tue, 02 Aug 2022 09:55:00: 6000000 INFO @ Tue, 02 Aug 2022 09:55:05: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 09:55:05: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 09:55:05: #1 total tags in treatment: 10763237 INFO @ Tue, 02 Aug 2022 09:55:05: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 09:55:05: #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 09:55:05: #1 tags after filtering in treatment: 10763237 INFO @ Tue, 02 Aug 2022 09:55:05: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 09:55:05: #1 finished! INFO @ Tue, 02 Aug 2022 09:55:05: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 09:55:05: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 09:55:06: #2 number of paired peaks: 3804 INFO @ Tue, 02 Aug 2022 09:55:06: start model_add_line... INFO @ Tue, 02 Aug 2022 09:55:06: start X-correlation... INFO @ Tue, 02 Aug 2022 09:55:06: end of X-cor INFO @ Tue, 02 Aug 2022 09:55:06: #2 finished! INFO @ Tue, 02 Aug 2022 09:55:06: #2 predicted fragment length is 206 bps INFO @ Tue, 02 Aug 2022 09:55:06: #2 alternative fragment length(s) may be 206 bps INFO @ Tue, 02 Aug 2022 09:55:06: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX10925655/SRX10925655.10_model.r INFO @ Tue, 02 Aug 2022 09:55:06: 7000000 INFO @ Tue, 02 Aug 2022 09:55:06: #3 Call peaks... INFO @ Tue, 02 Aug 2022 09:55:06: #3 Pre-compute pvalue-qvalue table... BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 09:55:09: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX10925655/SRX10925655.05_peaks.xls INFO @ Tue, 02 Aug 2022 09:55:10: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX10925655/SRX10925655.05_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 09:55:10: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX10925655/SRX10925655.05_summits.bed INFO @ Tue, 02 Aug 2022 09:55:10: Done! pass1 - making usageList (6 chroms): 4 millis pass2 - checking and writing primary data (21510 records, 4 fields): 39 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 09:55:12: 8000000 INFO @ Tue, 02 Aug 2022 09:55:17: 9000000 INFO @ Tue, 02 Aug 2022 09:55:23: 10000000 INFO @ Tue, 02 Aug 2022 09:55:27: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 09:55:27: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 09:55:27: #1 total tags in treatment: 10763237 INFO @ Tue, 02 Aug 2022 09:55:27: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 09:55:27: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 09:55:27: #1 tags after filtering in treatment: 10763237 INFO @ Tue, 02 Aug 2022 09:55:27: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 09:55:27: #1 finished! INFO @ Tue, 02 Aug 2022 09:55:27: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 09:55:27: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 09:55:28: #2 number of paired peaks: 3804 INFO @ Tue, 02 Aug 2022 09:55:28: start model_add_line... INFO @ Tue, 02 Aug 2022 09:55:28: start X-correlation... INFO @ Tue, 02 Aug 2022 09:55:28: end of X-cor INFO @ Tue, 02 Aug 2022 09:55:28: #2 finished! INFO @ Tue, 02 Aug 2022 09:55:28: #2 predicted fragment length is 206 bps INFO @ Tue, 02 Aug 2022 09:55:28: #2 alternative fragment length(s) may be 206 bps INFO @ Tue, 02 Aug 2022 09:55:28: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX10925655/SRX10925655.20_model.r INFO @ Tue, 02 Aug 2022 09:55:28: #3 Call peaks... INFO @ Tue, 02 Aug 2022 09:55:28: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 09:55:35: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 09:55:47: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX10925655/SRX10925655.10_peaks.xls INFO @ Tue, 02 Aug 2022 09:55:48: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX10925655/SRX10925655.10_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 09:55:48: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX10925655/SRX10925655.10_summits.bed INFO @ Tue, 02 Aug 2022 09:55:48: Done! pass1 - making usageList (6 chroms): 3 millis pass2 - checking and writing primary data (14389 records, 4 fields): 26 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 09:55:58: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 09:56:11: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX10925655/SRX10925655.20_peaks.xls INFO @ Tue, 02 Aug 2022 09:56:11: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX10925655/SRX10925655.20_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 09:56:11: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX10925655/SRX10925655.20_summits.bed INFO @ Tue, 02 Aug 2022 09:56:11: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (6833 records, 4 fields): 7 millis CompletedMACS2peakCalling