Job ID = 14160533 SRX = SRX8331164 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 22929440 spots for SRR11778477/SRR11778477.sra Written 22929440 spots for SRR11778477/SRR11778477.sra fastq に変換しました。 bowtie でマッピング中... Your job 14160665 ("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: 00:08:11 22929440 reads; of these: 22929440 (100.00%) were unpaired; of these: 4735877 (20.65%) aligned 0 times 14077416 (61.39%) aligned exactly 1 time 4116147 (17.95%) aligned >1 times 79.35% overall alignment rate Time searching: 00:08:11 Overall time: 00:08:11 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] 17620377 / 18193563 = 0.9685 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 03:15:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8331164/SRX8331164.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8331164/SRX8331164.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8331164/SRX8331164.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8331164/SRX8331164.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 03:15:29: #1 read tag files... INFO @ Thu, 09 Dec 2021 03:15:29: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 03:15:34: #1 tag size is determined as 71 bps INFO @ Thu, 09 Dec 2021 03:15:34: #1 tag size = 71 INFO @ Thu, 09 Dec 2021 03:15:34: #1 total tags in treatment: 573186 INFO @ Thu, 09 Dec 2021 03:15:34: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 03:15:34: #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 03:15:34: #1 tags after filtering in treatment: 573186 INFO @ Thu, 09 Dec 2021 03:15:34: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 03:15:34: #1 finished! INFO @ Thu, 09 Dec 2021 03:15:34: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 03:15:34: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 03:15:35: #2 number of paired peaks: 2085 INFO @ Thu, 09 Dec 2021 03:15:35: start model_add_line... INFO @ Thu, 09 Dec 2021 03:15:35: start X-correlation... INFO @ Thu, 09 Dec 2021 03:15:35: end of X-cor INFO @ Thu, 09 Dec 2021 03:15:35: #2 finished! INFO @ Thu, 09 Dec 2021 03:15:35: #2 predicted fragment length is 75 bps INFO @ Thu, 09 Dec 2021 03:15:35: #2 alternative fragment length(s) may be 75 bps INFO @ Thu, 09 Dec 2021 03:15:35: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8331164/SRX8331164.05_model.r WARNING @ Thu, 09 Dec 2021 03:15:35: #2 Since the d (75) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Thu, 09 Dec 2021 03:15:35: #2 You may need to consider one of the other alternative d(s): 75 WARNING @ Thu, 09 Dec 2021 03:15:35: #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 03:15:35: #3 Call peaks... INFO @ Thu, 09 Dec 2021 03:15:35: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 03:15:37: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 03:15:38: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8331164/SRX8331164.05_peaks.xls INFO @ Thu, 09 Dec 2021 03:15:38: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8331164/SRX8331164.05_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 03:15:38: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8331164/SRX8331164.05_summits.bed INFO @ Thu, 09 Dec 2021 03:15:38: Done! pass1 - making usageList (6 chroms): 2 millis pass2 - checking and writing primary data (1014 records, 4 fields): 4 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 03:15:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8331164/SRX8331164.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8331164/SRX8331164.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8331164/SRX8331164.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8331164/SRX8331164.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 03:15:59: #1 read tag files... INFO @ Thu, 09 Dec 2021 03:15:59: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 03:16:04: #1 tag size is determined as 71 bps INFO @ Thu, 09 Dec 2021 03:16:04: #1 tag size = 71 INFO @ Thu, 09 Dec 2021 03:16:04: #1 total tags in treatment: 573186 INFO @ Thu, 09 Dec 2021 03:16:04: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 03:16:04: #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 03:16:04: #1 tags after filtering in treatment: 573186 INFO @ Thu, 09 Dec 2021 03:16:04: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 03:16:04: #1 finished! INFO @ Thu, 09 Dec 2021 03:16:04: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 03:16:04: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 03:16:05: #2 number of paired peaks: 2085 INFO @ Thu, 09 Dec 2021 03:16:05: start model_add_line... INFO @ Thu, 09 Dec 2021 03:16:05: start X-correlation... INFO @ Thu, 09 Dec 2021 03:16:05: end of X-cor INFO @ Thu, 09 Dec 2021 03:16:05: #2 finished! INFO @ Thu, 09 Dec 2021 03:16:05: #2 predicted fragment length is 75 bps INFO @ Thu, 09 Dec 2021 03:16:05: #2 alternative fragment length(s) may be 75 bps INFO @ Thu, 09 Dec 2021 03:16:05: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8331164/SRX8331164.10_model.r WARNING @ Thu, 09 Dec 2021 03:16:05: #2 Since the d (75) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Thu, 09 Dec 2021 03:16:05: #2 You may need to consider one of the other alternative d(s): 75 WARNING @ Thu, 09 Dec 2021 03:16:05: #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 03:16:05: #3 Call peaks... INFO @ Thu, 09 Dec 2021 03:16:05: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 03:16:07: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 03:16:08: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8331164/SRX8331164.10_peaks.xls INFO @ Thu, 09 Dec 2021 03:16:08: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8331164/SRX8331164.10_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 03:16:08: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8331164/SRX8331164.10_summits.bed INFO @ Thu, 09 Dec 2021 03:16:08: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (525 records, 4 fields): 3 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 03:16:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8331164/SRX8331164.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8331164/SRX8331164.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8331164/SRX8331164.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8331164/SRX8331164.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 03:16:29: #1 read tag files... INFO @ Thu, 09 Dec 2021 03:16:29: #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 03:16:34: #1 tag size is determined as 71 bps INFO @ Thu, 09 Dec 2021 03:16:34: #1 tag size = 71 INFO @ Thu, 09 Dec 2021 03:16:34: #1 total tags in treatment: 573186 INFO @ Thu, 09 Dec 2021 03:16:34: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 03:16:34: #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 03:16:34: #1 tags after filtering in treatment: 573186 INFO @ Thu, 09 Dec 2021 03:16:34: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 03:16:34: #1 finished! INFO @ Thu, 09 Dec 2021 03:16:34: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 03:16:34: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 03:16:34: #2 number of paired peaks: 2085 INFO @ Thu, 09 Dec 2021 03:16:34: start model_add_line... INFO @ Thu, 09 Dec 2021 03:16:34: start X-correlation... INFO @ Thu, 09 Dec 2021 03:16:34: end of X-cor INFO @ Thu, 09 Dec 2021 03:16:34: #2 finished! INFO @ Thu, 09 Dec 2021 03:16:34: #2 predicted fragment length is 75 bps INFO @ Thu, 09 Dec 2021 03:16:34: #2 alternative fragment length(s) may be 75 bps INFO @ Thu, 09 Dec 2021 03:16:34: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8331164/SRX8331164.20_model.r WARNING @ Thu, 09 Dec 2021 03:16:34: #2 Since the d (75) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Thu, 09 Dec 2021 03:16:34: #2 You may need to consider one of the other alternative d(s): 75 WARNING @ Thu, 09 Dec 2021 03:16:34: #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 03:16:34: #3 Call peaks... INFO @ Thu, 09 Dec 2021 03:16:34: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 03:16:36: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 03:16:37: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8331164/SRX8331164.20_peaks.xls INFO @ Thu, 09 Dec 2021 03:16:37: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8331164/SRX8331164.20_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 03:16:37: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8331164/SRX8331164.20_summits.bed INFO @ Thu, 09 Dec 2021 03:16:37: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (228 records, 4 fields): 3 millis CompletedMACS2peakCalling