Job ID = 12264810 SRX = SRX7246267 Genome = ce10 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 5854530 spots for SRR10564680/SRR10564680.sra Written 5854530 spots for SRR10564680/SRR10564680.sra Read 5898263 spots for SRR10564681/SRR10564681.sra Written 5898263 spots for SRR10564681/SRR10564681.sra fastq に変換しました。 bowtie でマッピング中... Your job 12265320 ("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: 00:18:21 11752793 reads; of these: 11752793 (100.00%) were paired; of these: 641922 (5.46%) aligned concordantly 0 times 9984822 (84.96%) aligned concordantly exactly 1 time 1126049 (9.58%) aligned concordantly >1 times ---- 641922 pairs aligned concordantly 0 times; of these: 233795 (36.42%) aligned discordantly 1 time ---- 408127 pairs aligned 0 times concordantly or discordantly; of these: 816254 mates make up the pairs; of these: 575875 (70.55%) aligned 0 times 163735 (20.06%) aligned exactly 1 time 76644 (9.39%) aligned >1 times 97.55% overall alignment rate Time searching: 00:18:21 Overall time: 00:18:21 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 12 files... [bam_rmdup_core] processing reference chrI... [bam_rmdup_core] processing reference chrII... [bam_rmdup_core] processing reference chrIII... [bam_rmdup_core] processing reference chrIV... [bam_rmdup_core] processing reference chrV... [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] processing reference chrM... [bam_rmdup_core] 2696590 / 7964136 = 0.3386 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 06:26:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX7246267/SRX7246267.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX7246267/SRX7246267.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX7246267/SRX7246267.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX7246267/SRX7246267.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 06:26:32: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:26:32: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:26:40: 1000000 INFO @ Sat, 03 Apr 2021 06:26:48: 2000000 INFO @ Sat, 03 Apr 2021 06:26:56: 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 06:27:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX7246267/SRX7246267.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX7246267/SRX7246267.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX7246267/SRX7246267.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX7246267/SRX7246267.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 06:27:00: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:27:00: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:27:05: 4000000 INFO @ Sat, 03 Apr 2021 06:27:09: 1000000 INFO @ Sat, 03 Apr 2021 06:27:14: 5000000 INFO @ Sat, 03 Apr 2021 06:27:18: 2000000 INFO @ Sat, 03 Apr 2021 06:27:23: 6000000 INFO @ Sat, 03 Apr 2021 06:27:26: 3000000 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 06:27:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX7246267/SRX7246267.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX7246267/SRX7246267.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX7246267/SRX7246267.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX7246267/SRX7246267.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 06:27:31: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:27:31: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:27:33: 7000000 INFO @ Sat, 03 Apr 2021 06:27:35: 4000000 INFO @ Sat, 03 Apr 2021 06:27:41: 1000000 INFO @ Sat, 03 Apr 2021 06:27:42: 8000000 INFO @ Sat, 03 Apr 2021 06:27:45: 5000000 INFO @ Sat, 03 Apr 2021 06:27:50: 2000000 INFO @ Sat, 03 Apr 2021 06:27:52: 9000000 INFO @ Sat, 03 Apr 2021 06:27:54: 6000000 INFO @ Sat, 03 Apr 2021 06:28:01: 3000000 INFO @ Sat, 03 Apr 2021 06:28:02: 10000000 INFO @ Sat, 03 Apr 2021 06:28:05: 7000000 INFO @ Sat, 03 Apr 2021 06:28:11: 4000000 INFO @ Sat, 03 Apr 2021 06:28:13: 11000000 INFO @ Sat, 03 Apr 2021 06:28:15: 8000000 INFO @ Sat, 03 Apr 2021 06:28:22: 5000000 INFO @ Sat, 03 Apr 2021 06:28:23: 12000000 INFO @ Sat, 03 Apr 2021 06:28:26: 9000000 INFO @ Sat, 03 Apr 2021 06:28:32: 6000000 INFO @ Sat, 03 Apr 2021 06:28:34: 13000000 INFO @ Sat, 03 Apr 2021 06:28:36: 10000000 INFO @ Sat, 03 Apr 2021 06:28:43: 7000000 INFO @ Sat, 03 Apr 2021 06:28:44: 14000000 INFO @ Sat, 03 Apr 2021 06:28:47: 11000000 INFO @ Sat, 03 Apr 2021 06:28:53: 8000000 INFO @ Sat, 03 Apr 2021 06:28:54: 15000000 INFO @ Sat, 03 Apr 2021 06:28:57: 12000000 INFO @ Sat, 03 Apr 2021 06:29:04: 16000000 INFO @ Sat, 03 Apr 2021 06:29:04: 9000000 INFO @ Sat, 03 Apr 2021 06:29:06: 13000000 INFO @ Sat, 03 Apr 2021 06:29:13: 17000000 INFO @ Sat, 03 Apr 2021 06:29:14: 10000000 INFO @ Sat, 03 Apr 2021 06:29:17: 14000000 INFO @ Sat, 03 Apr 2021 06:29:17: #1 tag size is determined as 95 bps INFO @ Sat, 03 Apr 2021 06:29:17: #1 tag size = 95 INFO @ Sat, 03 Apr 2021 06:29:17: #1 total tags in treatment: 8418967 INFO @ Sat, 03 Apr 2021 06:29:17: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:29:17: #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 06:29:17: #1 tags after filtering in treatment: 4380954 INFO @ Sat, 03 Apr 2021 06:29:17: #1 Redundant rate of treatment: 0.48 INFO @ Sat, 03 Apr 2021 06:29:17: #1 finished! INFO @ Sat, 03 Apr 2021 06:29:17: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:29:17: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:29:18: #2 number of paired peaks: 3780 INFO @ Sat, 03 Apr 2021 06:29:18: start model_add_line... INFO @ Sat, 03 Apr 2021 06:29:18: start X-correlation... INFO @ Sat, 03 Apr 2021 06:29:18: end of X-cor INFO @ Sat, 03 Apr 2021 06:29:18: #2 finished! INFO @ Sat, 03 Apr 2021 06:29:18: #2 predicted fragment length is 106 bps INFO @ Sat, 03 Apr 2021 06:29:18: #2 alternative fragment length(s) may be 106 bps INFO @ Sat, 03 Apr 2021 06:29:18: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX7246267/SRX7246267.05_model.r WARNING @ Sat, 03 Apr 2021 06:29:18: #2 Since the d (106) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:29:18: #2 You may need to consider one of the other alternative d(s): 106 WARNING @ Sat, 03 Apr 2021 06:29:18: #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 06:29:18: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:29:18: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:29:26: 11000000 INFO @ Sat, 03 Apr 2021 06:29:27: 15000000 INFO @ Sat, 03 Apr 2021 06:29:31: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:29:36: 12000000 INFO @ Sat, 03 Apr 2021 06:29:36: 16000000 INFO @ Sat, 03 Apr 2021 06:29:39: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX7246267/SRX7246267.05_peaks.xls INFO @ Sat, 03 Apr 2021 06:29:39: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX7246267/SRX7246267.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:29:39: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX7246267/SRX7246267.05_summits.bed INFO @ Sat, 03 Apr 2021 06:29:39: Done! pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (8535 records, 4 fields): 19 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:29:45: 17000000 INFO @ Sat, 03 Apr 2021 06:29:46: 13000000 INFO @ Sat, 03 Apr 2021 06:29:50: #1 tag size is determined as 95 bps INFO @ Sat, 03 Apr 2021 06:29:50: #1 tag size = 95 INFO @ Sat, 03 Apr 2021 06:29:50: #1 total tags in treatment: 8418967 INFO @ Sat, 03 Apr 2021 06:29:50: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:29:50: #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 06:29:51: #1 tags after filtering in treatment: 4380954 INFO @ Sat, 03 Apr 2021 06:29:51: #1 Redundant rate of treatment: 0.48 INFO @ Sat, 03 Apr 2021 06:29:51: #1 finished! INFO @ Sat, 03 Apr 2021 06:29:51: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:29:51: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:29:51: #2 number of paired peaks: 3780 INFO @ Sat, 03 Apr 2021 06:29:51: start model_add_line... INFO @ Sat, 03 Apr 2021 06:29:52: start X-correlation... INFO @ Sat, 03 Apr 2021 06:29:52: end of X-cor INFO @ Sat, 03 Apr 2021 06:29:52: #2 finished! INFO @ Sat, 03 Apr 2021 06:29:52: #2 predicted fragment length is 106 bps INFO @ Sat, 03 Apr 2021 06:29:52: #2 alternative fragment length(s) may be 106 bps INFO @ Sat, 03 Apr 2021 06:29:52: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX7246267/SRX7246267.10_model.r WARNING @ Sat, 03 Apr 2021 06:29:52: #2 Since the d (106) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:29:52: #2 You may need to consider one of the other alternative d(s): 106 WARNING @ Sat, 03 Apr 2021 06:29:52: #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 06:29:52: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:29:52: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:29:55: 14000000 INFO @ Sat, 03 Apr 2021 06:30:04: 15000000 INFO @ Sat, 03 Apr 2021 06:30:05: #3 Call peaks for each chromosome... BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 06:30:12: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX7246267/SRX7246267.10_peaks.xls INFO @ Sat, 03 Apr 2021 06:30:12: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX7246267/SRX7246267.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:30:12: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX7246267/SRX7246267.10_summits.bed INFO @ Sat, 03 Apr 2021 06:30:12: Done! pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (6208 records, 4 fields): 9 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:30:14: 16000000 INFO @ Sat, 03 Apr 2021 06:30:23: 17000000 INFO @ Sat, 03 Apr 2021 06:30:28: #1 tag size is determined as 95 bps INFO @ Sat, 03 Apr 2021 06:30:28: #1 tag size = 95 INFO @ Sat, 03 Apr 2021 06:30:28: #1 total tags in treatment: 8418967 INFO @ Sat, 03 Apr 2021 06:30:28: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:30:28: #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 06:30:29: #1 tags after filtering in treatment: 4380954 INFO @ Sat, 03 Apr 2021 06:30:29: #1 Redundant rate of treatment: 0.48 INFO @ Sat, 03 Apr 2021 06:30:29: #1 finished! INFO @ Sat, 03 Apr 2021 06:30:29: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:30:29: #2 looking for paired plus/minus strand peaks... BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 06:30:29: #2 number of paired peaks: 3780 INFO @ Sat, 03 Apr 2021 06:30:29: start model_add_line... INFO @ Sat, 03 Apr 2021 06:30:29: start X-correlation... INFO @ Sat, 03 Apr 2021 06:30:29: end of X-cor INFO @ Sat, 03 Apr 2021 06:30:29: #2 finished! INFO @ Sat, 03 Apr 2021 06:30:29: #2 predicted fragment length is 106 bps INFO @ Sat, 03 Apr 2021 06:30:29: #2 alternative fragment length(s) may be 106 bps INFO @ Sat, 03 Apr 2021 06:30:29: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX7246267/SRX7246267.20_model.r WARNING @ Sat, 03 Apr 2021 06:30:29: #2 Since the d (106) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:30:29: #2 You may need to consider one of the other alternative d(s): 106 WARNING @ Sat, 03 Apr 2021 06:30:29: #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 06:30:29: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:30:29: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:30:42: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:30:49: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX7246267/SRX7246267.20_peaks.xls INFO @ Sat, 03 Apr 2021 06:30:49: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX7246267/SRX7246267.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:30:49: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX7246267/SRX7246267.20_summits.bed INFO @ Sat, 03 Apr 2021 06:30:49: Done! pass1 - making usageList (6 chroms): 11 millis pass2 - checking and writing primary data (3833 records, 4 fields): 7 millis CompletedMACS2peakCalling