Job ID = 14520426 SRX = SRX11781023 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2022-01-15T10:05:07 prefetch.2.10.7: 1) Downloading 'SRR15480966'... 2022-01-15T10:05:07 prefetch.2.10.7: Downloading via HTTPS... 2022-01-15T10:05:33 prefetch.2.10.7: HTTPS download succeed 2022-01-15T10:05:34 prefetch.2.10.7: 'SRR15480966' is valid 2022-01-15T10:05:34 prefetch.2.10.7: 1) 'SRR15480966' was downloaded successfully 2022-01-15T10:05:34 prefetch.2.10.7: 'SRR15480966' has 0 unresolved dependencies Read 7699394 spots for SRR15480966/SRR15480966.sra Written 7699394 spots for SRR15480966/SRR15480966.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: 00:05:51 7699394 reads; of these: 7699394 (100.00%) were paired; of these: 1110869 (14.43%) aligned concordantly 0 times 4912650 (63.81%) aligned concordantly exactly 1 time 1675875 (21.77%) aligned concordantly >1 times ---- 1110869 pairs aligned concordantly 0 times; of these: 370752 (33.37%) aligned discordantly 1 time ---- 740117 pairs aligned 0 times concordantly or discordantly; of these: 1480234 mates make up the pairs; of these: 1146312 (77.44%) aligned 0 times 84102 (5.68%) aligned exactly 1 time 249820 (16.88%) aligned >1 times 92.56% overall alignment rate Time searching: 00:05:51 Overall time: 00:05:51 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_sort_core] merging from 8 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 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] 351551 / 6920309 = 0.0508 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 19:16:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781023/SRX11781023.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781023/SRX11781023.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781023/SRX11781023.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781023/SRX11781023.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 19:16:15: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:16:15: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:16:22: 1000000 INFO @ Sat, 15 Jan 2022 19:16:28: 2000000 INFO @ Sat, 15 Jan 2022 19:16:35: 3000000 INFO @ Sat, 15 Jan 2022 19:16:41: 4000000 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 19:16:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781023/SRX11781023.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781023/SRX11781023.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781023/SRX11781023.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781023/SRX11781023.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 19:16:45: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:16:45: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:16:48: 5000000 INFO @ Sat, 15 Jan 2022 19:16:52: 1000000 INFO @ Sat, 15 Jan 2022 19:16:56: 6000000 INFO @ Sat, 15 Jan 2022 19:17:00: 2000000 INFO @ Sat, 15 Jan 2022 19:17:03: 7000000 INFO @ Sat, 15 Jan 2022 19:17:07: 3000000 INFO @ Sat, 15 Jan 2022 19:17:10: 8000000 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 @ Sat, 15 Jan 2022 19:17:15: 4000000 INFO @ Sat, 15 Jan 2022 19:17:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781023/SRX11781023.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781023/SRX11781023.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781023/SRX11781023.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781023/SRX11781023.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 19:17:15: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:17:15: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:17:18: 9000000 INFO @ Sat, 15 Jan 2022 19:17:22: 5000000 INFO @ Sat, 15 Jan 2022 19:17:22: 1000000 INFO @ Sat, 15 Jan 2022 19:17:25: 10000000 INFO @ Sat, 15 Jan 2022 19:17:30: 2000000 INFO @ Sat, 15 Jan 2022 19:17:30: 6000000 INFO @ Sat, 15 Jan 2022 19:17:33: 11000000 INFO @ Sat, 15 Jan 2022 19:17:37: 3000000 INFO @ Sat, 15 Jan 2022 19:17:38: 7000000 INFO @ Sat, 15 Jan 2022 19:17:41: 12000000 INFO @ Sat, 15 Jan 2022 19:17:44: 4000000 INFO @ Sat, 15 Jan 2022 19:17:45: 8000000 INFO @ Sat, 15 Jan 2022 19:17:48: 13000000 INFO @ Sat, 15 Jan 2022 19:17:51: 5000000 INFO @ Sat, 15 Jan 2022 19:17:52: #1 tag size is determined as 80 bps INFO @ Sat, 15 Jan 2022 19:17:52: #1 tag size = 80 INFO @ Sat, 15 Jan 2022 19:17:52: #1 total tags in treatment: 6248079 INFO @ Sat, 15 Jan 2022 19:17:52: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:17:52: #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 19:17:53: #1 tags after filtering in treatment: 4498467 INFO @ Sat, 15 Jan 2022 19:17:53: #1 Redundant rate of treatment: 0.28 INFO @ Sat, 15 Jan 2022 19:17:53: #1 finished! INFO @ Sat, 15 Jan 2022 19:17:53: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:17:53: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:17:53: #2 number of paired peaks: 42 WARNING @ Sat, 15 Jan 2022 19:17:53: Too few paired peaks (42) 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 19:17:53: Process for pairing-model is terminated! INFO @ Sat, 15 Jan 2022 19:17:53: 9000000 cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781023/SRX11781023.05_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/SRX11781023/SRX11781023.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781023/SRX11781023.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781023/SRX11781023.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:17:58: 6000000 INFO @ Sat, 15 Jan 2022 19:18:00: 10000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 19:18:05: 7000000 INFO @ Sat, 15 Jan 2022 19:18:08: 11000000 INFO @ Sat, 15 Jan 2022 19:18:11: 8000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 19:18:15: 12000000 INFO @ Sat, 15 Jan 2022 19:18:18: 9000000 INFO @ Sat, 15 Jan 2022 19:18:23: 13000000 INFO @ Sat, 15 Jan 2022 19:18:25: 10000000 INFO @ Sat, 15 Jan 2022 19:18:27: #1 tag size is determined as 80 bps INFO @ Sat, 15 Jan 2022 19:18:27: #1 tag size = 80 INFO @ Sat, 15 Jan 2022 19:18:27: #1 total tags in treatment: 6248079 INFO @ Sat, 15 Jan 2022 19:18:27: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:18:27: #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 19:18:27: #1 tags after filtering in treatment: 4498467 INFO @ Sat, 15 Jan 2022 19:18:27: #1 Redundant rate of treatment: 0.28 INFO @ Sat, 15 Jan 2022 19:18:27: #1 finished! INFO @ Sat, 15 Jan 2022 19:18:27: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:18:27: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:18:27: #2 number of paired peaks: 42 WARNING @ Sat, 15 Jan 2022 19:18:27: Too few paired peaks (42) 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 19:18:27: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781023/SRX11781023.10_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/SRX11781023/SRX11781023.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781023/SRX11781023.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781023/SRX11781023.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:18:32: 11000000 INFO @ Sat, 15 Jan 2022 19:18:38: 12000000 INFO @ Sat, 15 Jan 2022 19:18:44: 13000000 INFO @ Sat, 15 Jan 2022 19:18:47: #1 tag size is determined as 80 bps INFO @ Sat, 15 Jan 2022 19:18:47: #1 tag size = 80 INFO @ Sat, 15 Jan 2022 19:18:47: #1 total tags in treatment: 6248079 INFO @ Sat, 15 Jan 2022 19:18:47: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:18:47: #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 19:18:47: #1 tags after filtering in treatment: 4498467 INFO @ Sat, 15 Jan 2022 19:18:47: #1 Redundant rate of treatment: 0.28 INFO @ Sat, 15 Jan 2022 19:18:47: #1 finished! INFO @ Sat, 15 Jan 2022 19:18:47: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:18:47: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:18:47: #2 number of paired peaks: 42 WARNING @ Sat, 15 Jan 2022 19:18:47: Too few paired peaks (42) 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 19:18:47: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781023/SRX11781023.20_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/SRX11781023/SRX11781023.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781023/SRX11781023.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781023/SRX11781023.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling