Job ID = 14519748 SRX = SRX9067199 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 7524638 spots for SRR12580352/SRR12580352.sra Written 7524638 spots for SRR12580352/SRR12580352.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: 00:02:59 7524638 reads; of these: 7524638 (100.00%) were paired; of these: 634232 (8.43%) aligned concordantly 0 times 6194933 (82.33%) aligned concordantly exactly 1 time 695473 (9.24%) aligned concordantly >1 times ---- 634232 pairs aligned concordantly 0 times; of these: 77341 (12.19%) aligned discordantly 1 time ---- 556891 pairs aligned 0 times concordantly or discordantly; of these: 1113782 mates make up the pairs; of these: 972674 (87.33%) aligned 0 times 107224 (9.63%) aligned exactly 1 time 33884 (3.04%) aligned >1 times 93.54% overall alignment rate Time searching: 00:02:59 Overall time: 00:02:59 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] 1558141 / 6941887 = 0.2245 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 17:43:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067199/SRX9067199.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067199/SRX9067199.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067199/SRX9067199.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067199/SRX9067199.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 17:43:59: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:43:59: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:44:03: 1000000 INFO @ Sat, 15 Jan 2022 17:44:07: 2000000 INFO @ Sat, 15 Jan 2022 17:44:11: 3000000 INFO @ Sat, 15 Jan 2022 17:44:16: 4000000 INFO @ Sat, 15 Jan 2022 17:44:20: 5000000 INFO @ Sat, 15 Jan 2022 17:44:24: 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 17:44:28: 7000000 INFO @ Sat, 15 Jan 2022 17:44:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067199/SRX9067199.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067199/SRX9067199.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067199/SRX9067199.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067199/SRX9067199.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 17:44:29: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:44:29: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:44:32: 8000000 INFO @ Sat, 15 Jan 2022 17:44:33: 1000000 INFO @ Sat, 15 Jan 2022 17:44:37: 9000000 INFO @ Sat, 15 Jan 2022 17:44:38: 2000000 INFO @ Sat, 15 Jan 2022 17:44:41: 10000000 INFO @ Sat, 15 Jan 2022 17:44:42: 3000000 INFO @ Sat, 15 Jan 2022 17:44:46: #1 tag size is determined as 40 bps INFO @ Sat, 15 Jan 2022 17:44:46: #1 tag size = 40 INFO @ Sat, 15 Jan 2022 17:44:46: #1 total tags in treatment: 5340176 INFO @ Sat, 15 Jan 2022 17:44:46: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 17:44:46: #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 17:44:46: #1 tags after filtering in treatment: 3505531 INFO @ Sat, 15 Jan 2022 17:44:46: #1 Redundant rate of treatment: 0.34 INFO @ Sat, 15 Jan 2022 17:44:46: #1 finished! INFO @ Sat, 15 Jan 2022 17:44:46: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:44:46: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:44:46: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 17:44:46: Too few paired peaks (0) 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 17:44:46: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067199/SRX9067199.05_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/SRX9067199/SRX9067199.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067199/SRX9067199.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067199/SRX9067199.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 17:44:47: 4000000 INFO @ Sat, 15 Jan 2022 17:44:51: 5000000 INFO @ Sat, 15 Jan 2022 17:44:55: 6000000 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 17:44:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067199/SRX9067199.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067199/SRX9067199.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067199/SRX9067199.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067199/SRX9067199.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 17:44:59: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:44:59: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:44:59: 7000000 INFO @ Sat, 15 Jan 2022 17:45:03: 1000000 INFO @ Sat, 15 Jan 2022 17:45:04: 8000000 INFO @ Sat, 15 Jan 2022 17:45:08: 2000000 INFO @ Sat, 15 Jan 2022 17:45:08: 9000000 INFO @ Sat, 15 Jan 2022 17:45:12: 3000000 INFO @ Sat, 15 Jan 2022 17:45:13: 10000000 INFO @ Sat, 15 Jan 2022 17:45:17: 4000000 INFO @ Sat, 15 Jan 2022 17:45:17: #1 tag size is determined as 40 bps INFO @ Sat, 15 Jan 2022 17:45:17: #1 tag size = 40 INFO @ Sat, 15 Jan 2022 17:45:17: #1 total tags in treatment: 5340176 INFO @ Sat, 15 Jan 2022 17:45:17: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 17:45:17: #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 17:45:17: #1 tags after filtering in treatment: 3505531 INFO @ Sat, 15 Jan 2022 17:45:17: #1 Redundant rate of treatment: 0.34 INFO @ Sat, 15 Jan 2022 17:45:17: #1 finished! INFO @ Sat, 15 Jan 2022 17:45:17: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:45:17: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:45:18: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 17:45:18: Too few paired peaks (0) 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 17:45:18: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067199/SRX9067199.10_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/SRX9067199/SRX9067199.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067199/SRX9067199.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067199/SRX9067199.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 17:45:21: 5000000 INFO @ Sat, 15 Jan 2022 17:45:26: 6000000 INFO @ Sat, 15 Jan 2022 17:45:30: 7000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 17:45:34: 8000000 INFO @ Sat, 15 Jan 2022 17:45:39: 9000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 17:45:43: 10000000 INFO @ Sat, 15 Jan 2022 17:45:47: #1 tag size is determined as 40 bps INFO @ Sat, 15 Jan 2022 17:45:47: #1 tag size = 40 INFO @ Sat, 15 Jan 2022 17:45:47: #1 total tags in treatment: 5340176 INFO @ Sat, 15 Jan 2022 17:45:47: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 17:45:47: #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 17:45:47: #1 tags after filtering in treatment: 3505531 INFO @ Sat, 15 Jan 2022 17:45:47: #1 Redundant rate of treatment: 0.34 INFO @ Sat, 15 Jan 2022 17:45:47: #1 finished! INFO @ Sat, 15 Jan 2022 17:45:47: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:45:47: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:45:47: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 17:45:47: Too few paired peaks (0) 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 17:45:47: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067199/SRX9067199.20_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/SRX9067199/SRX9067199.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067199/SRX9067199.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067199/SRX9067199.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling