Job ID = 12264804 SRX = SRX7246261 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 7670801 spots for SRR10564663/SRR10564663.sra Written 7670801 spots for SRR10564663/SRR10564663.sra Read 7780353 spots for SRR10564664/SRR10564664.sra Written 7780353 spots for SRR10564664/SRR10564664.sra fastq に変換しました。 bowtie でマッピング中... Your job 12265017 ("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: 00:03:08 15451154 reads; of these: 15451154 (100.00%) were unpaired; of these: 620199 (4.01%) aligned 0 times 12559158 (81.28%) aligned exactly 1 time 2271797 (14.70%) aligned >1 times 95.99% overall alignment rate Time searching: 00:03:08 Overall time: 00:03:08 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] 7871074 / 14830955 = 0.5307 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 06:00:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX7246261/SRX7246261.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX7246261/SRX7246261.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX7246261/SRX7246261.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX7246261/SRX7246261.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 06:00:41: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:00:41: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:00:49: 1000000 INFO @ Sat, 03 Apr 2021 06:00:57: 2000000 INFO @ Sat, 03 Apr 2021 06:01:04: 3000000 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 06:01:11: 4000000 INFO @ Sat, 03 Apr 2021 06:01:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX7246261/SRX7246261.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX7246261/SRX7246261.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX7246261/SRX7246261.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX7246261/SRX7246261.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 06:01:11: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:01:11: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:01:17: 5000000 INFO @ Sat, 03 Apr 2021 06:01:20: 1000000 INFO @ Sat, 03 Apr 2021 06:01:24: 6000000 INFO @ Sat, 03 Apr 2021 06:01:30: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:01:30: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:01:30: #1 total tags in treatment: 6959881 INFO @ Sat, 03 Apr 2021 06:01:30: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:01:30: #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 06:01:30: 2000000 INFO @ Sat, 03 Apr 2021 06:01:30: #1 tags after filtering in treatment: 6959881 INFO @ Sat, 03 Apr 2021 06:01:30: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:01:30: #1 finished! INFO @ Sat, 03 Apr 2021 06:01:30: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:01:30: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:01:30: #2 number of paired peaks: 1122 INFO @ Sat, 03 Apr 2021 06:01:30: start model_add_line... INFO @ Sat, 03 Apr 2021 06:01:31: start X-correlation... INFO @ Sat, 03 Apr 2021 06:01:31: end of X-cor INFO @ Sat, 03 Apr 2021 06:01:31: #2 finished! INFO @ Sat, 03 Apr 2021 06:01:31: #2 predicted fragment length is 93 bps INFO @ Sat, 03 Apr 2021 06:01:31: #2 alternative fragment length(s) may be 93 bps INFO @ Sat, 03 Apr 2021 06:01:31: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX7246261/SRX7246261.05_model.r WARNING @ Sat, 03 Apr 2021 06:01:31: #2 Since the d (93) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:01:31: #2 You may need to consider one of the other alternative d(s): 93 WARNING @ Sat, 03 Apr 2021 06:01:31: #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 06:01:31: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:01:31: #3 Pre-compute pvalue-qvalue table... 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 06:01:39: 3000000 INFO @ Sat, 03 Apr 2021 06:01:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX7246261/SRX7246261.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX7246261/SRX7246261.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX7246261/SRX7246261.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX7246261/SRX7246261.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 06:01:41: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:01:41: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:01:45: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:01:49: 4000000 INFO @ Sat, 03 Apr 2021 06:01:51: 1000000 INFO @ Sat, 03 Apr 2021 06:01:52: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX7246261/SRX7246261.05_peaks.xls INFO @ Sat, 03 Apr 2021 06:01:52: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX7246261/SRX7246261.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:01:52: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX7246261/SRX7246261.05_summits.bed INFO @ Sat, 03 Apr 2021 06:01:52: Done! pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (5016 records, 4 fields): 7 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:01:58: 5000000 INFO @ Sat, 03 Apr 2021 06:02:01: 2000000 INFO @ Sat, 03 Apr 2021 06:02:07: 6000000 INFO @ Sat, 03 Apr 2021 06:02:09: 3000000 INFO @ Sat, 03 Apr 2021 06:02:15: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:02:15: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:02:15: #1 total tags in treatment: 6959881 INFO @ Sat, 03 Apr 2021 06:02:15: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:02:15: #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 06:02:15: #1 tags after filtering in treatment: 6959881 INFO @ Sat, 03 Apr 2021 06:02:15: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:02:15: #1 finished! INFO @ Sat, 03 Apr 2021 06:02:15: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:02:15: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:02:15: #2 number of paired peaks: 1122 INFO @ Sat, 03 Apr 2021 06:02:15: start model_add_line... INFO @ Sat, 03 Apr 2021 06:02:16: start X-correlation... INFO @ Sat, 03 Apr 2021 06:02:16: end of X-cor INFO @ Sat, 03 Apr 2021 06:02:16: #2 finished! INFO @ Sat, 03 Apr 2021 06:02:16: #2 predicted fragment length is 93 bps INFO @ Sat, 03 Apr 2021 06:02:16: #2 alternative fragment length(s) may be 93 bps INFO @ Sat, 03 Apr 2021 06:02:16: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX7246261/SRX7246261.10_model.r WARNING @ Sat, 03 Apr 2021 06:02:16: #2 Since the d (93) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:02:16: #2 You may need to consider one of the other alternative d(s): 93 WARNING @ Sat, 03 Apr 2021 06:02:16: #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 06:02:16: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:02:16: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:02:17: 4000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 06:02:25: 5000000 INFO @ Sat, 03 Apr 2021 06:02:30: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:02:32: 6000000 INFO @ Sat, 03 Apr 2021 06:02:37: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX7246261/SRX7246261.10_peaks.xls INFO @ Sat, 03 Apr 2021 06:02:37: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX7246261/SRX7246261.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:02:37: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX7246261/SRX7246261.10_summits.bed INFO @ Sat, 03 Apr 2021 06:02:37: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (3121 records, 4 fields): 5 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:02:38: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:02:38: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:02:38: #1 total tags in treatment: 6959881 INFO @ Sat, 03 Apr 2021 06:02:38: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:02:38: #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 06:02:38: #1 tags after filtering in treatment: 6959881 INFO @ Sat, 03 Apr 2021 06:02:38: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:02:38: #1 finished! INFO @ Sat, 03 Apr 2021 06:02:38: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:02:38: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:02:39: #2 number of paired peaks: 1122 INFO @ Sat, 03 Apr 2021 06:02:39: start model_add_line... INFO @ Sat, 03 Apr 2021 06:02:39: start X-correlation... INFO @ Sat, 03 Apr 2021 06:02:39: end of X-cor INFO @ Sat, 03 Apr 2021 06:02:39: #2 finished! INFO @ Sat, 03 Apr 2021 06:02:39: #2 predicted fragment length is 93 bps INFO @ Sat, 03 Apr 2021 06:02:39: #2 alternative fragment length(s) may be 93 bps INFO @ Sat, 03 Apr 2021 06:02:39: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX7246261/SRX7246261.20_model.r WARNING @ Sat, 03 Apr 2021 06:02:39: #2 Since the d (93) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:02:39: #2 You may need to consider one of the other alternative d(s): 93 WARNING @ Sat, 03 Apr 2021 06:02:39: #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 06:02:39: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:02:39: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 06:02:53: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:03:00: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX7246261/SRX7246261.20_peaks.xls INFO @ Sat, 03 Apr 2021 06:03:00: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX7246261/SRX7246261.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:03:00: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX7246261/SRX7246261.20_summits.bed INFO @ Sat, 03 Apr 2021 06:03:00: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (1614 records, 4 fields): 3 millis CompletedMACS2peakCalling