Job ID = 14520372 SRX = SRX11781115 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2022-01-15T10:01:06 prefetch.2.10.7: 1) Downloading 'SRR15481058'... 2022-01-15T10:01:06 prefetch.2.10.7: Downloading via HTTPS... 2022-01-15T10:02:09 prefetch.2.10.7: HTTPS download succeed 2022-01-15T10:02:09 prefetch.2.10.7: 1) 'SRR15481058' was downloaded successfully 2022-01-15T10:02:09 prefetch.2.10.7: 'SRR15481058' has 0 unresolved dependencies Read 11523524 spots for SRR15481058/SRR15481058.sra Written 11523524 spots for SRR15481058/SRR15481058.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: 00:06:28 11523524 reads; of these: 11523524 (100.00%) were paired; of these: 8044781 (69.81%) aligned concordantly 0 times 2908044 (25.24%) aligned concordantly exactly 1 time 570699 (4.95%) aligned concordantly >1 times ---- 8044781 pairs aligned concordantly 0 times; of these: 341968 (4.25%) aligned discordantly 1 time ---- 7702813 pairs aligned 0 times concordantly or discordantly; of these: 15405626 mates make up the pairs; of these: 9723110 (63.11%) aligned 0 times 4582026 (29.74%) aligned exactly 1 time 1100490 (7.14%) aligned >1 times 57.81% overall alignment rate Time searching: 00:06:28 Overall time: 00:06:28 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] 237462 / 3819530 = 0.0622 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 19:13:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781115/SRX11781115.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781115/SRX11781115.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781115/SRX11781115.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781115/SRX11781115.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 19:13:16: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:13:16: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:13:20: 1000000 INFO @ Sat, 15 Jan 2022 19:13:25: 2000000 INFO @ Sat, 15 Jan 2022 19:13:29: 3000000 INFO @ Sat, 15 Jan 2022 19:13:33: 4000000 INFO @ Sat, 15 Jan 2022 19:13:38: 5000000 INFO @ Sat, 15 Jan 2022 19:13:42: 6000000 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 19:13:46: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781115/SRX11781115.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781115/SRX11781115.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781115/SRX11781115.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781115/SRX11781115.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 19:13:46: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:13:46: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:13:47: 7000000 INFO @ Sat, 15 Jan 2022 19:13:52: 1000000 INFO @ Sat, 15 Jan 2022 19:13:52: 8000000 INFO @ Sat, 15 Jan 2022 19:13:58: 9000000 INFO @ Sat, 15 Jan 2022 19:13:58: 2000000 INFO @ Sat, 15 Jan 2022 19:14:03: 10000000 INFO @ Sat, 15 Jan 2022 19:14:04: 3000000 INFO @ Sat, 15 Jan 2022 19:14:08: 11000000 INFO @ Sat, 15 Jan 2022 19:14:10: 4000000 INFO @ Sat, 15 Jan 2022 19:14:13: 12000000 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 19:14:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781115/SRX11781115.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781115/SRX11781115.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781115/SRX11781115.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781115/SRX11781115.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 19:14:16: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:14:16: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:14:17: 5000000 INFO @ Sat, 15 Jan 2022 19:14:18: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 19:14:18: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 19:14:18: #1 total tags in treatment: 3255756 INFO @ Sat, 15 Jan 2022 19:14:18: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:14:18: #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 19:14:18: #1 tags after filtering in treatment: 2711832 INFO @ Sat, 15 Jan 2022 19:14:18: #1 Redundant rate of treatment: 0.17 INFO @ Sat, 15 Jan 2022 19:14:18: #1 finished! INFO @ Sat, 15 Jan 2022 19:14:18: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:14:18: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:14:18: #2 number of paired peaks: 28 WARNING @ Sat, 15 Jan 2022 19:14:18: Too few paired peaks (28) 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 19:14:18: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781115/SRX11781115.05_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/SRX11781115/SRX11781115.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781115/SRX11781115.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781115/SRX11781115.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:14:22: 1000000 INFO @ Sat, 15 Jan 2022 19:14:23: 6000000 INFO @ Sat, 15 Jan 2022 19:14:28: 2000000 INFO @ Sat, 15 Jan 2022 19:14:29: 7000000 INFO @ Sat, 15 Jan 2022 19:14:34: 3000000 INFO @ Sat, 15 Jan 2022 19:14:35: 8000000 INFO @ Sat, 15 Jan 2022 19:14:40: 4000000 INFO @ Sat, 15 Jan 2022 19:14:42: 9000000 INFO @ Sat, 15 Jan 2022 19:14:47: 5000000 INFO @ Sat, 15 Jan 2022 19:14:48: 10000000 INFO @ Sat, 15 Jan 2022 19:14:53: 6000000 INFO @ Sat, 15 Jan 2022 19:14:54: 11000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 19:14:59: 7000000 INFO @ Sat, 15 Jan 2022 19:15:00: 12000000 INFO @ Sat, 15 Jan 2022 19:15:05: 8000000 INFO @ Sat, 15 Jan 2022 19:15:06: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 19:15:06: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 19:15:06: #1 total tags in treatment: 3255756 INFO @ Sat, 15 Jan 2022 19:15:06: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:15:06: #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 19:15:06: #1 tags after filtering in treatment: 2711832 INFO @ Sat, 15 Jan 2022 19:15:06: #1 Redundant rate of treatment: 0.17 INFO @ Sat, 15 Jan 2022 19:15:06: #1 finished! INFO @ Sat, 15 Jan 2022 19:15:06: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:15:06: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:15:06: #2 number of paired peaks: 28 WARNING @ Sat, 15 Jan 2022 19:15:06: Too few paired peaks (28) 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 19:15:06: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781115/SRX11781115.10_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/SRX11781115/SRX11781115.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781115/SRX11781115.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781115/SRX11781115.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 19:15:11: 9000000 INFO @ Sat, 15 Jan 2022 19:15:17: 10000000 INFO @ Sat, 15 Jan 2022 19:15:22: 11000000 INFO @ Sat, 15 Jan 2022 19:15:28: 12000000 INFO @ Sat, 15 Jan 2022 19:15:33: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 19:15:33: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 19:15:33: #1 total tags in treatment: 3255756 INFO @ Sat, 15 Jan 2022 19:15:33: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:15:33: #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 19:15:33: #1 tags after filtering in treatment: 2711832 INFO @ Sat, 15 Jan 2022 19:15:33: #1 Redundant rate of treatment: 0.17 INFO @ Sat, 15 Jan 2022 19:15:33: #1 finished! INFO @ Sat, 15 Jan 2022 19:15:33: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:15:33: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:15:33: #2 number of paired peaks: 28 WARNING @ Sat, 15 Jan 2022 19:15:33: Too few paired peaks (28) 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 19:15:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781115/SRX11781115.20_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/SRX11781115/SRX11781115.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781115/SRX11781115.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781115/SRX11781115.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling