Job ID = 14520488 SRX = SRX11781162 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2022-01-15T10:13:38 prefetch.2.10.7: 1) Downloading 'SRR15481105'... 2022-01-15T10:13:38 prefetch.2.10.7: Downloading via HTTPS... 2022-01-15T10:13:58 prefetch.2.10.7: HTTPS download succeed 2022-01-15T10:13:58 prefetch.2.10.7: 'SRR15481105' is valid 2022-01-15T10:13:58 prefetch.2.10.7: 1) 'SRR15481105' was downloaded successfully 2022-01-15T10:13:58 prefetch.2.10.7: 'SRR15481105' has 0 unresolved dependencies Read 7876059 spots for SRR15481105/SRR15481105.sra Written 7876059 spots for SRR15481105/SRR15481105.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: 00:04:18 7876059 reads; of these: 7876059 (100.00%) were paired; of these: 4855322 (61.65%) aligned concordantly 0 times 2255338 (28.64%) aligned concordantly exactly 1 time 765399 (9.72%) aligned concordantly >1 times ---- 4855322 pairs aligned concordantly 0 times; of these: 38054 (0.78%) aligned discordantly 1 time ---- 4817268 pairs aligned 0 times concordantly or discordantly; of these: 9634536 mates make up the pairs; of these: 5685234 (59.01%) aligned 0 times 2914440 (30.25%) aligned exactly 1 time 1034862 (10.74%) aligned >1 times 63.91% overall alignment rate Time searching: 00:04:18 Overall time: 00:04:18 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] 284218 / 3057918 = 0.0929 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 19:21:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781162/SRX11781162.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781162/SRX11781162.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781162/SRX11781162.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781162/SRX11781162.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 19:21:44: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:21:44: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:21:49: 1000000 INFO @ Sat, 15 Jan 2022 19:21:54: 2000000 INFO @ Sat, 15 Jan 2022 19:21:58: 3000000 INFO @ Sat, 15 Jan 2022 19:22:03: 4000000 INFO @ Sat, 15 Jan 2022 19:22:08: 5000000 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 19:22:13: 6000000 INFO @ Sat, 15 Jan 2022 19:22:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781162/SRX11781162.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781162/SRX11781162.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781162/SRX11781162.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781162/SRX11781162.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 19:22:14: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:22:14: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:22:18: 7000000 INFO @ Sat, 15 Jan 2022 19:22:20: 1000000 INFO @ Sat, 15 Jan 2022 19:22:25: 8000000 INFO @ Sat, 15 Jan 2022 19:22:26: 2000000 INFO @ Sat, 15 Jan 2022 19:22:30: 9000000 INFO @ Sat, 15 Jan 2022 19:22:32: 3000000 INFO @ Sat, 15 Jan 2022 19:22:34: #1 tag size is determined as 38 bps INFO @ Sat, 15 Jan 2022 19:22:34: #1 tag size = 38 INFO @ Sat, 15 Jan 2022 19:22:34: #1 total tags in treatment: 2738335 INFO @ Sat, 15 Jan 2022 19:22:34: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:22:34: #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 19:22:34: #1 tags after filtering in treatment: 2090911 INFO @ Sat, 15 Jan 2022 19:22:34: #1 Redundant rate of treatment: 0.24 INFO @ Sat, 15 Jan 2022 19:22:34: #1 finished! INFO @ Sat, 15 Jan 2022 19:22:34: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:22:34: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:22:34: #2 number of paired peaks: 80 WARNING @ Sat, 15 Jan 2022 19:22:34: Too few paired peaks (80) 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 19:22:34: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781162/SRX11781162.05_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/SRX11781162/SRX11781162.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781162/SRX11781162.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781162/SRX11781162.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:22:38: 4000000 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 19:22:43: 5000000 INFO @ Sat, 15 Jan 2022 19:22:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781162/SRX11781162.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781162/SRX11781162.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781162/SRX11781162.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781162/SRX11781162.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 19:22:44: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:22:44: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:22:49: 6000000 INFO @ Sat, 15 Jan 2022 19:22:50: 1000000 INFO @ Sat, 15 Jan 2022 19:22:55: 7000000 INFO @ Sat, 15 Jan 2022 19:22:56: 2000000 INFO @ Sat, 15 Jan 2022 19:23:01: 8000000 INFO @ Sat, 15 Jan 2022 19:23:02: 3000000 INFO @ Sat, 15 Jan 2022 19:23:07: 9000000 INFO @ Sat, 15 Jan 2022 19:23:07: 4000000 INFO @ Sat, 15 Jan 2022 19:23:10: #1 tag size is determined as 38 bps INFO @ Sat, 15 Jan 2022 19:23:10: #1 tag size = 38 INFO @ Sat, 15 Jan 2022 19:23:10: #1 total tags in treatment: 2738335 INFO @ Sat, 15 Jan 2022 19:23:10: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:23:10: #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 19:23:10: #1 tags after filtering in treatment: 2090911 INFO @ Sat, 15 Jan 2022 19:23:10: #1 Redundant rate of treatment: 0.24 INFO @ Sat, 15 Jan 2022 19:23:10: #1 finished! INFO @ Sat, 15 Jan 2022 19:23:10: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:23:10: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:23:10: #2 number of paired peaks: 80 WARNING @ Sat, 15 Jan 2022 19:23:10: Too few paired peaks (80) 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 19:23:10: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781162/SRX11781162.10_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/SRX11781162/SRX11781162.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781162/SRX11781162.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781162/SRX11781162.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 19:23:13: 5000000 INFO @ Sat, 15 Jan 2022 19:23:19: 6000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 19:23:24: 7000000 INFO @ Sat, 15 Jan 2022 19:23:29: 8000000 INFO @ Sat, 15 Jan 2022 19:23:35: 9000000 INFO @ Sat, 15 Jan 2022 19:23:37: #1 tag size is determined as 38 bps INFO @ Sat, 15 Jan 2022 19:23:37: #1 tag size = 38 INFO @ Sat, 15 Jan 2022 19:23:37: #1 total tags in treatment: 2738335 INFO @ Sat, 15 Jan 2022 19:23:37: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:23:37: #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 19:23:37: #1 tags after filtering in treatment: 2090911 INFO @ Sat, 15 Jan 2022 19:23:37: #1 Redundant rate of treatment: 0.24 INFO @ Sat, 15 Jan 2022 19:23:37: #1 finished! INFO @ Sat, 15 Jan 2022 19:23:37: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:23:37: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:23:37: #2 number of paired peaks: 80 WARNING @ Sat, 15 Jan 2022 19:23:37: Too few paired peaks (80) 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 19:23:37: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781162/SRX11781162.20_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/SRX11781162/SRX11781162.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781162/SRX11781162.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781162/SRX11781162.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling