Job ID = 16433355 SRX = SRX10925647 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 22878026 spots for SRR14580037/SRR14580037.sra Written 22878026 spots for SRR14580037/SRR14580037.sra fastq に変換しました。 bowtie でマッピング中... Your job 16434288 ("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: 00:05:26 22878026 reads; of these: 22878026 (100.00%) were unpaired; of these: 16465560 (71.97%) aligned 0 times 5211919 (22.78%) aligned exactly 1 time 1200547 (5.25%) aligned >1 times 28.03% overall alignment rate Time searching: 00:05:26 Overall time: 00:05:26 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] 1013596 / 6412466 = 0.1581 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 09:48:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX10925647/SRX10925647.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX10925647/SRX10925647.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX10925647/SRX10925647.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX10925647/SRX10925647.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 09:48:12: #1 read tag files... INFO @ Tue, 02 Aug 2022 09:48:12: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 09:48:19: 1000000 INFO @ Tue, 02 Aug 2022 09:48:27: 2000000 INFO @ Tue, 02 Aug 2022 09:48:35: 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 09:48:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX10925647/SRX10925647.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX10925647/SRX10925647.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX10925647/SRX10925647.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX10925647/SRX10925647.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 09:48:42: #1 read tag files... INFO @ Tue, 02 Aug 2022 09:48:42: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 09:48:43: 4000000 INFO @ Tue, 02 Aug 2022 09:48:50: 1000000 INFO @ Tue, 02 Aug 2022 09:48:51: 5000000 INFO @ Tue, 02 Aug 2022 09:48:54: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 09:48:54: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 09:48:54: #1 total tags in treatment: 5398870 INFO @ Tue, 02 Aug 2022 09:48:54: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 09:48:54: #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 09:48:55: #1 tags after filtering in treatment: 5398870 INFO @ Tue, 02 Aug 2022 09:48:55: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 09:48:55: #1 finished! INFO @ Tue, 02 Aug 2022 09:48:55: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 09:48:55: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 09:48:55: #2 number of paired peaks: 4838 INFO @ Tue, 02 Aug 2022 09:48:55: start model_add_line... INFO @ Tue, 02 Aug 2022 09:48:55: start X-correlation... INFO @ Tue, 02 Aug 2022 09:48:55: end of X-cor INFO @ Tue, 02 Aug 2022 09:48:55: #2 finished! INFO @ Tue, 02 Aug 2022 09:48:55: #2 predicted fragment length is 234 bps INFO @ Tue, 02 Aug 2022 09:48:55: #2 alternative fragment length(s) may be 234 bps INFO @ Tue, 02 Aug 2022 09:48:55: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX10925647/SRX10925647.05_model.r INFO @ Tue, 02 Aug 2022 09:48:55: #3 Call peaks... INFO @ Tue, 02 Aug 2022 09:48:55: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 09:48:58: 2000000 INFO @ Tue, 02 Aug 2022 09:49:06: 3000000 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 09:49:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX10925647/SRX10925647.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX10925647/SRX10925647.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX10925647/SRX10925647.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX10925647/SRX10925647.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 09:49:12: #1 read tag files... INFO @ Tue, 02 Aug 2022 09:49:12: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 09:49:14: 4000000 INFO @ Tue, 02 Aug 2022 09:49:14: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 09:49:21: 1000000 INFO @ Tue, 02 Aug 2022 09:49:22: 5000000 INFO @ Tue, 02 Aug 2022 09:49:23: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX10925647/SRX10925647.05_peaks.xls INFO @ Tue, 02 Aug 2022 09:49:23: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX10925647/SRX10925647.05_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 09:49:23: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX10925647/SRX10925647.05_summits.bed INFO @ Tue, 02 Aug 2022 09:49:23: Done! pass1 - making usageList (6 chroms): 12 millis pass2 - checking and writing primary data (9969 records, 4 fields): 37 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 09:49:26: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 09:49:26: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 09:49:26: #1 total tags in treatment: 5398870 INFO @ Tue, 02 Aug 2022 09:49:26: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 09:49:26: #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 09:49:26: #1 tags after filtering in treatment: 5398870 INFO @ Tue, 02 Aug 2022 09:49:26: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 09:49:26: #1 finished! INFO @ Tue, 02 Aug 2022 09:49:26: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 09:49:26: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 09:49:27: #2 number of paired peaks: 4838 INFO @ Tue, 02 Aug 2022 09:49:27: start model_add_line... INFO @ Tue, 02 Aug 2022 09:49:27: start X-correlation... INFO @ Tue, 02 Aug 2022 09:49:27: end of X-cor INFO @ Tue, 02 Aug 2022 09:49:27: #2 finished! INFO @ Tue, 02 Aug 2022 09:49:27: #2 predicted fragment length is 234 bps INFO @ Tue, 02 Aug 2022 09:49:27: #2 alternative fragment length(s) may be 234 bps INFO @ Tue, 02 Aug 2022 09:49:27: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX10925647/SRX10925647.10_model.r INFO @ Tue, 02 Aug 2022 09:49:27: #3 Call peaks... INFO @ Tue, 02 Aug 2022 09:49:27: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 09:49:28: 2000000 INFO @ Tue, 02 Aug 2022 09:49:37: 3000000 INFO @ Tue, 02 Aug 2022 09:49:44: 4000000 INFO @ Tue, 02 Aug 2022 09:49:46: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 09:49:52: 5000000 INFO @ Tue, 02 Aug 2022 09:49:53: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX10925647/SRX10925647.10_peaks.xls INFO @ Tue, 02 Aug 2022 09:49:53: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX10925647/SRX10925647.10_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 09:49:53: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX10925647/SRX10925647.10_summits.bed INFO @ Tue, 02 Aug 2022 09:49:53: Done! pass1 - making usageList (6 chroms): 13 millis pass2 - checking and writing primary data (5333 records, 4 fields): 55 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 09:49:55: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 09:49:55: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 09:49:55: #1 total tags in treatment: 5398870 INFO @ Tue, 02 Aug 2022 09:49:55: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 09:49:55: #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 09:49:55: #1 tags after filtering in treatment: 5398870 INFO @ Tue, 02 Aug 2022 09:49:55: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 09:49:55: #1 finished! INFO @ Tue, 02 Aug 2022 09:49:55: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 09:49:55: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 09:49:56: #2 number of paired peaks: 4838 INFO @ Tue, 02 Aug 2022 09:49:56: start model_add_line... INFO @ Tue, 02 Aug 2022 09:49:56: start X-correlation... INFO @ Tue, 02 Aug 2022 09:49:56: end of X-cor INFO @ Tue, 02 Aug 2022 09:49:56: #2 finished! INFO @ Tue, 02 Aug 2022 09:49:56: #2 predicted fragment length is 234 bps INFO @ Tue, 02 Aug 2022 09:49:56: #2 alternative fragment length(s) may be 234 bps INFO @ Tue, 02 Aug 2022 09:49:56: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX10925647/SRX10925647.20_model.r INFO @ Tue, 02 Aug 2022 09:49:56: #3 Call peaks... INFO @ Tue, 02 Aug 2022 09:49:56: #3 Pre-compute pvalue-qvalue table... BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 09:50:14: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 09:50:21: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX10925647/SRX10925647.20_peaks.xls INFO @ Tue, 02 Aug 2022 09:50:21: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX10925647/SRX10925647.20_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 09:50:21: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX10925647/SRX10925647.20_summits.bed INFO @ Tue, 02 Aug 2022 09:50:21: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (2071 records, 4 fields): 19 millis CompletedMACS2peakCalling