Job ID = 12264792 SRX = SRX4082398 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 13885027 spots for SRR7164232/SRR7164232.sra Written 13885027 spots for SRR7164232/SRR7164232.sra Read 48134065 spots for SRR7164233/SRR7164233.sra Written 48134065 spots for SRR7164233/SRR7164233.sra fastq に変換しました。 bowtie でマッピング中... Your job 12265161 ("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: 00:07:32 62019092 reads; of these: 62019092 (100.00%) were unpaired; of these: 49003515 (79.01%) aligned 0 times 11471627 (18.50%) aligned exactly 1 time 1543950 (2.49%) aligned >1 times 20.99% overall alignment rate Time searching: 00:07:32 Overall time: 00:07:32 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] 6395939 / 13015577 = 0.4914 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/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 06:07:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX4082398/SRX4082398.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX4082398/SRX4082398.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX4082398/SRX4082398.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX4082398/SRX4082398.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 @ Sat, 03 Apr 2021 06:07:50: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:07:50: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:07:55: 1000000 INFO @ Sat, 03 Apr 2021 06:08:00: 2000000 INFO @ Sat, 03 Apr 2021 06:08:05: 3000000 INFO @ Sat, 03 Apr 2021 06:08:10: 4000000 INFO @ Sat, 03 Apr 2021 06:08:15: 5000000 WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 06:08:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX4082398/SRX4082398.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX4082398/SRX4082398.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX4082398/SRX4082398.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX4082398/SRX4082398.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 @ Sat, 03 Apr 2021 06:08:19: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:08:19: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:08:20: 6000000 INFO @ Sat, 03 Apr 2021 06:08:23: #1 tag size is determined as 48 bps INFO @ Sat, 03 Apr 2021 06:08:23: #1 tag size = 48 INFO @ Sat, 03 Apr 2021 06:08:23: #1 total tags in treatment: 6619638 INFO @ Sat, 03 Apr 2021 06:08:23: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:08:23: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 06:08:23: #1 tags after filtering in treatment: 6619638 INFO @ Sat, 03 Apr 2021 06:08:23: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:08:23: #1 finished! INFO @ Sat, 03 Apr 2021 06:08:23: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:08:23: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:08:24: 1000000 INFO @ Sat, 03 Apr 2021 06:08:24: #2 number of paired peaks: 2314 INFO @ Sat, 03 Apr 2021 06:08:24: start model_add_line... INFO @ Sat, 03 Apr 2021 06:08:24: start X-correlation... INFO @ Sat, 03 Apr 2021 06:08:24: end of X-cor INFO @ Sat, 03 Apr 2021 06:08:24: #2 finished! INFO @ Sat, 03 Apr 2021 06:08:24: #2 predicted fragment length is 73 bps INFO @ Sat, 03 Apr 2021 06:08:24: #2 alternative fragment length(s) may be 73 bps INFO @ Sat, 03 Apr 2021 06:08:24: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX4082398/SRX4082398.05_model.r WARNING @ Sat, 03 Apr 2021 06:08:24: #2 Since the d (73) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:08:24: #2 You may need to consider one of the other alternative d(s): 73 WARNING @ Sat, 03 Apr 2021 06:08:24: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 03 Apr 2021 06:08:24: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:08:24: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:08:29: 2000000 INFO @ Sat, 03 Apr 2021 06:08:34: 3000000 INFO @ Sat, 03 Apr 2021 06:08:38: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:08:39: 4000000 INFO @ Sat, 03 Apr 2021 06:08:44: 5000000 INFO @ Sat, 03 Apr 2021 06:08:45: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX4082398/SRX4082398.05_peaks.xls INFO @ Sat, 03 Apr 2021 06:08:45: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX4082398/SRX4082398.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:08:45: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX4082398/SRX4082398.05_summits.bed INFO @ Sat, 03 Apr 2021 06:08:45: Done! pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (11887 records, 4 fields): 22 millis CompletedMACS2peakCalling BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 06:08:49: 6000000 INFO @ Sat, 03 Apr 2021 06:08:49: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX4082398/SRX4082398.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX4082398/SRX4082398.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX4082398/SRX4082398.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX4082398/SRX4082398.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 @ Sat, 03 Apr 2021 06:08:49: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:08:49: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:08:52: #1 tag size is determined as 48 bps INFO @ Sat, 03 Apr 2021 06:08:52: #1 tag size = 48 INFO @ Sat, 03 Apr 2021 06:08:52: #1 total tags in treatment: 6619638 INFO @ Sat, 03 Apr 2021 06:08:52: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:08:52: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 06:08:52: #1 tags after filtering in treatment: 6619638 INFO @ Sat, 03 Apr 2021 06:08:52: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:08:52: #1 finished! INFO @ Sat, 03 Apr 2021 06:08:52: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:08:52: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:08:53: #2 number of paired peaks: 2314 INFO @ Sat, 03 Apr 2021 06:08:53: start model_add_line... INFO @ Sat, 03 Apr 2021 06:08:53: start X-correlation... INFO @ Sat, 03 Apr 2021 06:08:53: end of X-cor INFO @ Sat, 03 Apr 2021 06:08:53: #2 finished! INFO @ Sat, 03 Apr 2021 06:08:53: #2 predicted fragment length is 73 bps INFO @ Sat, 03 Apr 2021 06:08:53: #2 alternative fragment length(s) may be 73 bps INFO @ Sat, 03 Apr 2021 06:08:53: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX4082398/SRX4082398.10_model.r WARNING @ Sat, 03 Apr 2021 06:08:53: #2 Since the d (73) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:08:53: #2 You may need to consider one of the other alternative d(s): 73 WARNING @ Sat, 03 Apr 2021 06:08:53: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 03 Apr 2021 06:08:53: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:08:53: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:08:54: 1000000 INFO @ Sat, 03 Apr 2021 06:08:59: 2000000 INFO @ Sat, 03 Apr 2021 06:09:04: 3000000 INFO @ Sat, 03 Apr 2021 06:09:07: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:09:10: 4000000 INFO @ Sat, 03 Apr 2021 06:09:14: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX4082398/SRX4082398.10_peaks.xls INFO @ Sat, 03 Apr 2021 06:09:14: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX4082398/SRX4082398.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:09:14: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX4082398/SRX4082398.10_summits.bed INFO @ Sat, 03 Apr 2021 06:09:14: Done! pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (7793 records, 4 fields): 10 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:09:15: 5000000 INFO @ Sat, 03 Apr 2021 06:09:20: 6000000 INFO @ Sat, 03 Apr 2021 06:09:23: #1 tag size is determined as 48 bps INFO @ Sat, 03 Apr 2021 06:09:23: #1 tag size = 48 INFO @ Sat, 03 Apr 2021 06:09:23: #1 total tags in treatment: 6619638 INFO @ Sat, 03 Apr 2021 06:09:23: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:09:23: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 06:09:24: #1 tags after filtering in treatment: 6619638 INFO @ Sat, 03 Apr 2021 06:09:24: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:09:24: #1 finished! INFO @ Sat, 03 Apr 2021 06:09:24: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:09:24: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:09:24: #2 number of paired peaks: 2314 INFO @ Sat, 03 Apr 2021 06:09:24: start model_add_line... INFO @ Sat, 03 Apr 2021 06:09:24: start X-correlation... INFO @ Sat, 03 Apr 2021 06:09:24: end of X-cor INFO @ Sat, 03 Apr 2021 06:09:24: #2 finished! INFO @ Sat, 03 Apr 2021 06:09:24: #2 predicted fragment length is 73 bps INFO @ Sat, 03 Apr 2021 06:09:24: #2 alternative fragment length(s) may be 73 bps INFO @ Sat, 03 Apr 2021 06:09:24: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX4082398/SRX4082398.20_model.r WARNING @ Sat, 03 Apr 2021 06:09:24: #2 Since the d (73) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:09:24: #2 You may need to consider one of the other alternative d(s): 73 WARNING @ Sat, 03 Apr 2021 06:09:24: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 03 Apr 2021 06:09:24: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:09:24: #3 Pre-compute pvalue-qvalue table... BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 06:09:38: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 06:09:44: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX4082398/SRX4082398.20_peaks.xls INFO @ Sat, 03 Apr 2021 06:09:44: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX4082398/SRX4082398.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:09:44: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX4082398/SRX4082398.20_summits.bed INFO @ Sat, 03 Apr 2021 06:09:44: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (3866 records, 4 fields): 24 millis CompletedMACS2peakCalling