Job ID = 16433529 SRX = SRX10925679 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 21745646 spots for SRR14580047/SRR14580047.sra Written 21745646 spots for SRR14580047/SRR14580047.sra fastq に変換しました。 bowtie でマッピング中... Your job 16434492 ("srTce11") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:01 Multiseed full-index search: 00:04:25 21745646 reads; of these: 21745646 (100.00%) were unpaired; of these: 15415568 (70.89%) aligned 0 times 5163095 (23.74%) aligned exactly 1 time 1166983 (5.37%) aligned >1 times 29.11% overall alignment rate Time searching: 00:04:26 Overall time: 00:04:26 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] 1057683 / 6330078 = 0.1671 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 09:50:21: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX10925679/SRX10925679.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX10925679/SRX10925679.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX10925679/SRX10925679.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX10925679/SRX10925679.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 09:50:21: #1 read tag files... INFO @ Tue, 02 Aug 2022 09:50:21: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 09:50:27: 1000000 INFO @ Tue, 02 Aug 2022 09:50:33: 2000000 INFO @ Tue, 02 Aug 2022 09:50:39: 3000000 INFO @ Tue, 02 Aug 2022 09:50:45: 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 09:50:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX10925679/SRX10925679.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX10925679/SRX10925679.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX10925679/SRX10925679.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX10925679/SRX10925679.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 09:50:50: #1 read tag files... INFO @ Tue, 02 Aug 2022 09:50:50: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 09:50:50: 5000000 INFO @ Tue, 02 Aug 2022 09:50:52: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 09:50:52: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 09:50:52: #1 total tags in treatment: 5272395 INFO @ Tue, 02 Aug 2022 09:50:52: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 09:50:52: #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 09:50:52: #1 tags after filtering in treatment: 5272395 INFO @ Tue, 02 Aug 2022 09:50:52: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 09:50:52: #1 finished! INFO @ Tue, 02 Aug 2022 09:50:52: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 09:50:52: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 09:50:53: #2 number of paired peaks: 5842 INFO @ Tue, 02 Aug 2022 09:50:53: start model_add_line... INFO @ Tue, 02 Aug 2022 09:50:53: start X-correlation... INFO @ Tue, 02 Aug 2022 09:50:53: end of X-cor INFO @ Tue, 02 Aug 2022 09:50:53: #2 finished! INFO @ Tue, 02 Aug 2022 09:50:53: #2 predicted fragment length is 236 bps INFO @ Tue, 02 Aug 2022 09:50:53: #2 alternative fragment length(s) may be 236 bps INFO @ Tue, 02 Aug 2022 09:50:53: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX10925679/SRX10925679.05_model.r INFO @ Tue, 02 Aug 2022 09:50:53: #3 Call peaks... INFO @ Tue, 02 Aug 2022 09:50:53: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 09:50:56: 1000000 INFO @ Tue, 02 Aug 2022 09:51:02: 2000000 INFO @ Tue, 02 Aug 2022 09:51:09: 3000000 INFO @ Tue, 02 Aug 2022 09:51:11: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 09:51:16: 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 09:51:19: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX10925679/SRX10925679.05_peaks.xls INFO @ Tue, 02 Aug 2022 09:51:19: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX10925679/SRX10925679.05_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 09:51:19: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX10925679/SRX10925679.05_summits.bed INFO @ Tue, 02 Aug 2022 09:51:19: Done! pass1 - making usageList (6 chroms): 2 millis pass2 - checking and writing primary data (10087 records, 4 fields): 32 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 09:51:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX10925679/SRX10925679.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX10925679/SRX10925679.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX10925679/SRX10925679.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX10925679/SRX10925679.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 09:51:20: #1 read tag files... INFO @ Tue, 02 Aug 2022 09:51:20: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 09:51:23: 5000000 INFO @ Tue, 02 Aug 2022 09:51:26: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 09:51:26: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 09:51:26: #1 total tags in treatment: 5272395 INFO @ Tue, 02 Aug 2022 09:51:26: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 09:51:26: #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 09:51:26: #1 tags after filtering in treatment: 5272395 INFO @ Tue, 02 Aug 2022 09:51:26: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 09:51:26: #1 finished! INFO @ Tue, 02 Aug 2022 09:51:26: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 09:51:26: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 09:51:26: #2 number of paired peaks: 5842 INFO @ Tue, 02 Aug 2022 09:51:26: start model_add_line... INFO @ Tue, 02 Aug 2022 09:51:27: start X-correlation... INFO @ Tue, 02 Aug 2022 09:51:27: end of X-cor INFO @ Tue, 02 Aug 2022 09:51:27: #2 finished! INFO @ Tue, 02 Aug 2022 09:51:27: #2 predicted fragment length is 236 bps INFO @ Tue, 02 Aug 2022 09:51:27: #2 alternative fragment length(s) may be 236 bps INFO @ Tue, 02 Aug 2022 09:51:27: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX10925679/SRX10925679.10_model.r INFO @ Tue, 02 Aug 2022 09:51:27: #3 Call peaks... INFO @ Tue, 02 Aug 2022 09:51:27: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 09:51:27: 1000000 INFO @ Tue, 02 Aug 2022 09:51:35: 2000000 INFO @ Tue, 02 Aug 2022 09:51:43: 3000000 INFO @ Tue, 02 Aug 2022 09:51:45: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 09:51:51: 4000000 INFO @ Tue, 02 Aug 2022 09:51:53: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX10925679/SRX10925679.10_peaks.xls INFO @ Tue, 02 Aug 2022 09:51:53: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX10925679/SRX10925679.10_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 09:51:53: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX10925679/SRX10925679.10_summits.bed INFO @ Tue, 02 Aug 2022 09:51:53: Done! pass1 - making usageList (6 chroms): 2 millis pass2 - checking and writing primary data (5858 records, 4 fields): 20 millis CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 09:52:00: 5000000 INFO @ Tue, 02 Aug 2022 09:52:02: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 09:52:02: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 09:52:02: #1 total tags in treatment: 5272395 INFO @ Tue, 02 Aug 2022 09:52:02: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 09:52:02: #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 09:52:02: #1 tags after filtering in treatment: 5272395 INFO @ Tue, 02 Aug 2022 09:52:02: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 09:52:02: #1 finished! INFO @ Tue, 02 Aug 2022 09:52:02: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 09:52:02: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 09:52:03: #2 number of paired peaks: 5842 INFO @ Tue, 02 Aug 2022 09:52:03: start model_add_line... INFO @ Tue, 02 Aug 2022 09:52:03: start X-correlation... INFO @ Tue, 02 Aug 2022 09:52:03: end of X-cor INFO @ Tue, 02 Aug 2022 09:52:03: #2 finished! INFO @ Tue, 02 Aug 2022 09:52:03: #2 predicted fragment length is 236 bps INFO @ Tue, 02 Aug 2022 09:52:03: #2 alternative fragment length(s) may be 236 bps INFO @ Tue, 02 Aug 2022 09:52:03: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX10925679/SRX10925679.20_model.r INFO @ Tue, 02 Aug 2022 09:52:03: #3 Call peaks... INFO @ Tue, 02 Aug 2022 09:52:03: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 09:52:23: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 09:52:31: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX10925679/SRX10925679.20_peaks.xls INFO @ Tue, 02 Aug 2022 09:52:31: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX10925679/SRX10925679.20_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 09:52:31: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX10925679/SRX10925679.20_summits.bed INFO @ Tue, 02 Aug 2022 09:52:31: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (2508 records, 4 fields): 23 millis CompletedMACS2peakCalling