Job ID = 14520444 SRX = SRX11781148 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2022-01-15T10:06:51 prefetch.2.10.7: 1) Downloading 'SRR15481091'... 2022-01-15T10:06:51 prefetch.2.10.7: Downloading via HTTPS... 2022-01-15T10:07:11 prefetch.2.10.7: HTTPS download succeed 2022-01-15T10:07:11 prefetch.2.10.7: 'SRR15481091' is valid 2022-01-15T10:07:11 prefetch.2.10.7: 1) 'SRR15481091' was downloaded successfully 2022-01-15T10:07:11 prefetch.2.10.7: 'SRR15481091' has 0 unresolved dependencies Read 9707337 spots for SRR15481091/SRR15481091.sra Written 9707337 spots for SRR15481091/SRR15481091.sra fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:05:24 9707337 reads; of these: 9707337 (100.00%) were paired; of these: 5596662 (57.65%) aligned concordantly 0 times 3335962 (34.37%) aligned concordantly exactly 1 time 774713 (7.98%) aligned concordantly >1 times ---- 5596662 pairs aligned concordantly 0 times; of these: 16322 (0.29%) aligned discordantly 1 time ---- 5580340 pairs aligned 0 times concordantly or discordantly; of these: 11160680 mates make up the pairs; of these: 5868940 (52.59%) aligned 0 times 4326179 (38.76%) aligned exactly 1 time 965561 (8.65%) aligned >1 times 69.77% overall alignment rate Time searching: 00:05:24 Overall time: 00:05:24 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 17 sequences. [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 chrIX... [bam_rmdup_core] processing reference chrM... [bam_rmdup_core] processing reference chrV... [bam_rmdup_core] processing reference chrVI... [bam_rmdup_core] processing reference chrVII... [bam_rmdup_core] processing reference chrVIII... [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] processing reference chrXI... [bam_rmdup_core] processing reference chrXII... [bam_rmdup_core] processing reference chrXIII... [bam_rmdup_core] processing reference chrXIV... [bam_rmdup_core] processing reference chrXV... [bam_rmdup_core] processing reference chrXVI... [bam_rmdup_core] 182654 / 4126114 = 0.0443 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 @ Sat, 15 Jan 2022 19:16:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781148/SRX11781148.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781148/SRX11781148.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781148/SRX11781148.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781148/SRX11781148.bam'] # control file = None # effective genome size = 1.21e+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, 15 Jan 2022 19:16:40: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:16:40: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:16:44: 1000000 INFO @ Sat, 15 Jan 2022 19:16:48: 2000000 INFO @ Sat, 15 Jan 2022 19:16:53: 3000000 INFO @ Sat, 15 Jan 2022 19:16:56: 4000000 INFO @ Sat, 15 Jan 2022 19:17:00: 5000000 INFO @ Sat, 15 Jan 2022 19:17:04: 6000000 INFO @ Sat, 15 Jan 2022 19:17:08: 7000000 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 @ Sat, 15 Jan 2022 19:17:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781148/SRX11781148.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781148/SRX11781148.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781148/SRX11781148.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781148/SRX11781148.bam'] # control file = None # effective genome size = 1.21e+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, 15 Jan 2022 19:17:10: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:17:10: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:17:12: 8000000 INFO @ Sat, 15 Jan 2022 19:17:14: 1000000 INFO @ Sat, 15 Jan 2022 19:17:16: 9000000 INFO @ Sat, 15 Jan 2022 19:17:18: 2000000 INFO @ Sat, 15 Jan 2022 19:17:20: 10000000 INFO @ Sat, 15 Jan 2022 19:17:22: 3000000 INFO @ Sat, 15 Jan 2022 19:17:25: 11000000 INFO @ Sat, 15 Jan 2022 19:17:26: 4000000 INFO @ Sat, 15 Jan 2022 19:17:29: 12000000 INFO @ Sat, 15 Jan 2022 19:17:30: 5000000 INFO @ Sat, 15 Jan 2022 19:17:34: 6000000 INFO @ Sat, 15 Jan 2022 19:17:34: 13000000 INFO @ Sat, 15 Jan 2022 19:17:35: #1 tag size is determined as 38 bps INFO @ Sat, 15 Jan 2022 19:17:35: #1 tag size = 38 INFO @ Sat, 15 Jan 2022 19:17:35: #1 total tags in treatment: 3928357 INFO @ Sat, 15 Jan 2022 19:17:35: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:17:35: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 19:17:35: #1 tags after filtering in treatment: 3040561 INFO @ Sat, 15 Jan 2022 19:17:35: #1 Redundant rate of treatment: 0.23 INFO @ Sat, 15 Jan 2022 19:17:35: #1 finished! INFO @ Sat, 15 Jan 2022 19:17:35: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:17:35: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:17:35: #2 number of paired peaks: 30 WARNING @ Sat, 15 Jan 2022 19:17:35: Too few paired peaks (30) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Sat, 15 Jan 2022 19:17:35: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781148/SRX11781148.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781148/SRX11781148.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781148/SRX11781148.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781148/SRX11781148.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換中... INFO @ Sat, 15 Jan 2022 19:17:38: 7000000 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 @ Sat, 15 Jan 2022 19:17:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781148/SRX11781148.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781148/SRX11781148.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781148/SRX11781148.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781148/SRX11781148.bam'] # control file = None # effective genome size = 1.21e+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, 15 Jan 2022 19:17:40: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:17:40: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:17:42: 8000000 INFO @ Sat, 15 Jan 2022 19:17:45: 1000000 INFO @ Sat, 15 Jan 2022 19:17:46: 9000000 INFO @ Sat, 15 Jan 2022 19:17:49: 2000000 INFO @ Sat, 15 Jan 2022 19:17:50: 10000000 INFO @ Sat, 15 Jan 2022 19:17:54: 3000000 INFO @ Sat, 15 Jan 2022 19:17:54: 11000000 INFO @ Sat, 15 Jan 2022 19:17:58: 12000000 INFO @ Sat, 15 Jan 2022 19:17:58: 4000000 INFO @ Sat, 15 Jan 2022 19:18:02: 13000000 INFO @ Sat, 15 Jan 2022 19:18:03: #1 tag size is determined as 38 bps INFO @ Sat, 15 Jan 2022 19:18:03: #1 tag size = 38 INFO @ Sat, 15 Jan 2022 19:18:03: #1 total tags in treatment: 3928357 INFO @ Sat, 15 Jan 2022 19:18:03: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:18:03: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 19:18:03: 5000000 INFO @ Sat, 15 Jan 2022 19:18:03: #1 tags after filtering in treatment: 3040561 INFO @ Sat, 15 Jan 2022 19:18:03: #1 Redundant rate of treatment: 0.23 INFO @ Sat, 15 Jan 2022 19:18:03: #1 finished! INFO @ Sat, 15 Jan 2022 19:18:03: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:18:03: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:18:03: #2 number of paired peaks: 30 WARNING @ Sat, 15 Jan 2022 19:18:03: Too few paired peaks (30) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Sat, 15 Jan 2022 19:18:03: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781148/SRX11781148.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781148/SRX11781148.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781148/SRX11781148.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781148/SRX11781148.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:18:07: 6000000 INFO @ Sat, 15 Jan 2022 19:18:11: 7000000 INFO @ Sat, 15 Jan 2022 19:18:15: 8000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 19:18:19: 9000000 INFO @ Sat, 15 Jan 2022 19:18:23: 10000000 INFO @ Sat, 15 Jan 2022 19:18:27: 11000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 19:18:32: 12000000 INFO @ Sat, 15 Jan 2022 19:18:36: 13000000 INFO @ Sat, 15 Jan 2022 19:18:37: #1 tag size is determined as 38 bps INFO @ Sat, 15 Jan 2022 19:18:37: #1 tag size = 38 INFO @ Sat, 15 Jan 2022 19:18:37: #1 total tags in treatment: 3928357 INFO @ Sat, 15 Jan 2022 19:18:37: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:18:37: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 19:18:37: #1 tags after filtering in treatment: 3040561 INFO @ Sat, 15 Jan 2022 19:18:37: #1 Redundant rate of treatment: 0.23 INFO @ Sat, 15 Jan 2022 19:18:37: #1 finished! INFO @ Sat, 15 Jan 2022 19:18:37: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:18:37: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:18:37: #2 number of paired peaks: 30 WARNING @ Sat, 15 Jan 2022 19:18:37: Too few paired peaks (30) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Sat, 15 Jan 2022 19:18:37: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781148/SRX11781148.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781148/SRX11781148.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781148/SRX11781148.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781148/SRX11781148.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling