Job ID = 14160522 SRX = SRX8331158 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 11882389 spots for SRR11778471/SRR11778471.sra Written 11882389 spots for SRR11778471/SRR11778471.sra fastq に変換しました。 bowtie でマッピング中... Your job 14160646 ("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: 00:04:25 11882389 reads; of these: 11882389 (100.00%) were unpaired; of these: 1667116 (14.03%) aligned 0 times 7786436 (65.53%) aligned exactly 1 time 2428837 (20.44%) aligned >1 times 85.97% overall alignment rate Time searching: 00:04:25 Overall time: 00:04:25 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] 9325573 / 10215273 = 0.9129 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/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Thu, 09 Dec 2021 03:05:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8331158/SRX8331158.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8331158/SRX8331158.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8331158/SRX8331158.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8331158/SRX8331158.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 @ Thu, 09 Dec 2021 03:05:01: #1 read tag files... INFO @ Thu, 09 Dec 2021 03:05:01: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 03:05:06: #1 tag size is determined as 74 bps INFO @ Thu, 09 Dec 2021 03:05:06: #1 tag size = 74 INFO @ Thu, 09 Dec 2021 03:05:06: #1 total tags in treatment: 889700 INFO @ Thu, 09 Dec 2021 03:05:06: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 03:05:06: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 09 Dec 2021 03:05:06: #1 tags after filtering in treatment: 889700 INFO @ Thu, 09 Dec 2021 03:05:06: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 03:05:06: #1 finished! INFO @ Thu, 09 Dec 2021 03:05:06: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 03:05:06: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 03:05:07: #2 number of paired peaks: 1713 INFO @ Thu, 09 Dec 2021 03:05:07: start model_add_line... INFO @ Thu, 09 Dec 2021 03:05:07: start X-correlation... INFO @ Thu, 09 Dec 2021 03:05:07: end of X-cor INFO @ Thu, 09 Dec 2021 03:05:07: #2 finished! INFO @ Thu, 09 Dec 2021 03:05:07: #2 predicted fragment length is 65 bps INFO @ Thu, 09 Dec 2021 03:05:07: #2 alternative fragment length(s) may be 65 bps INFO @ Thu, 09 Dec 2021 03:05:07: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8331158/SRX8331158.05_model.r WARNING @ Thu, 09 Dec 2021 03:05:07: #2 Since the d (65) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Thu, 09 Dec 2021 03:05:07: #2 You may need to consider one of the other alternative d(s): 65 WARNING @ Thu, 09 Dec 2021 03:05:07: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Thu, 09 Dec 2021 03:05:07: #3 Call peaks... INFO @ Thu, 09 Dec 2021 03:05:07: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 03:05:09: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 03:05:10: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8331158/SRX8331158.05_peaks.xls INFO @ Thu, 09 Dec 2021 03:05:10: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8331158/SRX8331158.05_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 03:05:10: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8331158/SRX8331158.05_summits.bed INFO @ Thu, 09 Dec 2021 03:05:10: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (946 records, 4 fields): 3 millis CompletedMACS2peakCalling WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Thu, 09 Dec 2021 03:05:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8331158/SRX8331158.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8331158/SRX8331158.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8331158/SRX8331158.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8331158/SRX8331158.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 @ Thu, 09 Dec 2021 03:05:31: #1 read tag files... INFO @ Thu, 09 Dec 2021 03:05:31: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 03:05:37: #1 tag size is determined as 74 bps INFO @ Thu, 09 Dec 2021 03:05:37: #1 tag size = 74 INFO @ Thu, 09 Dec 2021 03:05:37: #1 total tags in treatment: 889700 INFO @ Thu, 09 Dec 2021 03:05:37: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 03:05:37: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 09 Dec 2021 03:05:37: #1 tags after filtering in treatment: 889700 INFO @ Thu, 09 Dec 2021 03:05:37: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 03:05:37: #1 finished! INFO @ Thu, 09 Dec 2021 03:05:37: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 03:05:37: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 03:05:38: #2 number of paired peaks: 1713 INFO @ Thu, 09 Dec 2021 03:05:38: start model_add_line... INFO @ Thu, 09 Dec 2021 03:05:38: start X-correlation... INFO @ Thu, 09 Dec 2021 03:05:38: end of X-cor INFO @ Thu, 09 Dec 2021 03:05:38: #2 finished! INFO @ Thu, 09 Dec 2021 03:05:38: #2 predicted fragment length is 65 bps INFO @ Thu, 09 Dec 2021 03:05:38: #2 alternative fragment length(s) may be 65 bps INFO @ Thu, 09 Dec 2021 03:05:38: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8331158/SRX8331158.10_model.r WARNING @ Thu, 09 Dec 2021 03:05:38: #2 Since the d (65) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Thu, 09 Dec 2021 03:05:38: #2 You may need to consider one of the other alternative d(s): 65 WARNING @ Thu, 09 Dec 2021 03:05:38: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Thu, 09 Dec 2021 03:05:38: #3 Call peaks... INFO @ Thu, 09 Dec 2021 03:05:38: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 03:05:40: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 03:05:41: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8331158/SRX8331158.10_peaks.xls INFO @ Thu, 09 Dec 2021 03:05:41: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8331158/SRX8331158.10_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 03:05:41: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8331158/SRX8331158.10_summits.bed INFO @ Thu, 09 Dec 2021 03:05:41: Done! pass1 - making usageList (6 chroms): 0 millis pass2 - checking and writing primary data (540 records, 4 fields): 2 millis CompletedMACS2peakCalling BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Thu, 09 Dec 2021 03:06:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8331158/SRX8331158.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8331158/SRX8331158.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8331158/SRX8331158.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8331158/SRX8331158.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 @ Thu, 09 Dec 2021 03:06:01: #1 read tag files... INFO @ Thu, 09 Dec 2021 03:06:01: #1 read treatment tags... BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。 INFO @ Thu, 09 Dec 2021 03:06:09: #1 tag size is determined as 74 bps INFO @ Thu, 09 Dec 2021 03:06:09: #1 tag size = 74 INFO @ Thu, 09 Dec 2021 03:06:09: #1 total tags in treatment: 889700 INFO @ Thu, 09 Dec 2021 03:06:09: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 03:06:09: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 09 Dec 2021 03:06:09: #1 tags after filtering in treatment: 889700 INFO @ Thu, 09 Dec 2021 03:06:09: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 03:06:09: #1 finished! INFO @ Thu, 09 Dec 2021 03:06:09: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 03:06:09: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 03:06:09: #2 number of paired peaks: 1713 INFO @ Thu, 09 Dec 2021 03:06:09: start model_add_line... INFO @ Thu, 09 Dec 2021 03:06:09: start X-correlation... INFO @ Thu, 09 Dec 2021 03:06:09: end of X-cor INFO @ Thu, 09 Dec 2021 03:06:09: #2 finished! INFO @ Thu, 09 Dec 2021 03:06:09: #2 predicted fragment length is 65 bps INFO @ Thu, 09 Dec 2021 03:06:09: #2 alternative fragment length(s) may be 65 bps INFO @ Thu, 09 Dec 2021 03:06:09: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8331158/SRX8331158.20_model.r WARNING @ Thu, 09 Dec 2021 03:06:09: #2 Since the d (65) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Thu, 09 Dec 2021 03:06:09: #2 You may need to consider one of the other alternative d(s): 65 WARNING @ Thu, 09 Dec 2021 03:06:09: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Thu, 09 Dec 2021 03:06:09: #3 Call peaks... INFO @ Thu, 09 Dec 2021 03:06:09: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 03:06:11: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 03:06:12: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8331158/SRX8331158.20_peaks.xls INFO @ Thu, 09 Dec 2021 03:06:12: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8331158/SRX8331158.20_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 03:06:12: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8331158/SRX8331158.20_summits.bed INFO @ Thu, 09 Dec 2021 03:06:12: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (265 records, 4 fields): 1 millis CompletedMACS2peakCalling