Job ID = 14519649 SRX = SRX9067162 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 5412444 spots for SRR12580315/SRR12580315.sra Written 5412444 spots for SRR12580315/SRR12580315.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: 00:02:28 5412444 reads; of these: 5412444 (100.00%) were paired; of these: 768779 (14.20%) aligned concordantly 0 times 3970684 (73.36%) aligned concordantly exactly 1 time 672981 (12.43%) aligned concordantly >1 times ---- 768779 pairs aligned concordantly 0 times; of these: 156674 (20.38%) aligned discordantly 1 time ---- 612105 pairs aligned 0 times concordantly or discordantly; of these: 1224210 mates make up the pairs; of these: 955153 (78.02%) aligned 0 times 188224 (15.38%) aligned exactly 1 time 80833 (6.60%) aligned >1 times 91.18% overall alignment rate Time searching: 00:02:28 Overall time: 00:02:28 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_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] 401820 / 4719463 = 0.0851 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 17:16:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067162/SRX9067162.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067162/SRX9067162.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067162/SRX9067162.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067162/SRX9067162.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 17:16:50: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:16:50: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:16:56: 1000000 INFO @ Sat, 15 Jan 2022 17:17:02: 2000000 INFO @ Sat, 15 Jan 2022 17:17:08: 3000000 INFO @ Sat, 15 Jan 2022 17:17:13: 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 17:17:19: 5000000 INFO @ Sat, 15 Jan 2022 17:17:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067162/SRX9067162.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067162/SRX9067162.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067162/SRX9067162.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067162/SRX9067162.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 17:17:20: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:17:20: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:17:25: 6000000 INFO @ Sat, 15 Jan 2022 17:17:26: 1000000 INFO @ Sat, 15 Jan 2022 17:17:32: 7000000 INFO @ Sat, 15 Jan 2022 17:17:32: 2000000 INFO @ Sat, 15 Jan 2022 17:17:38: 3000000 INFO @ Sat, 15 Jan 2022 17:17:38: 8000000 INFO @ Sat, 15 Jan 2022 17:17:44: 4000000 INFO @ Sat, 15 Jan 2022 17:17:45: 9000000 INFO @ Sat, 15 Jan 2022 17:17:45: #1 tag size is determined as 42 bps INFO @ Sat, 15 Jan 2022 17:17:45: #1 tag size = 42 INFO @ Sat, 15 Jan 2022 17:17:45: #1 total tags in treatment: 4243928 INFO @ Sat, 15 Jan 2022 17:17:45: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 17:17:45: #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 17:17:45: #1 tags after filtering in treatment: 2987266 INFO @ Sat, 15 Jan 2022 17:17:45: #1 Redundant rate of treatment: 0.30 INFO @ Sat, 15 Jan 2022 17:17:45: #1 finished! INFO @ Sat, 15 Jan 2022 17:17:45: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:17:45: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:17:46: #2 number of paired peaks: 11 WARNING @ Sat, 15 Jan 2022 17:17:46: Too few paired peaks (11) 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 17:17:46: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067162/SRX9067162.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 3 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067162/SRX9067162.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067162/SRX9067162.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067162/SRX9067162.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling 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 17:17:49: 5000000 INFO @ Sat, 15 Jan 2022 17:17:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067162/SRX9067162.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067162/SRX9067162.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067162/SRX9067162.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067162/SRX9067162.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 17:17:50: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:17:50: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:17:55: 6000000 INFO @ Sat, 15 Jan 2022 17:17:57: 1000000 INFO @ Sat, 15 Jan 2022 17:18:01: 7000000 INFO @ Sat, 15 Jan 2022 17:18:03: 2000000 INFO @ Sat, 15 Jan 2022 17:18:06: 8000000 INFO @ Sat, 15 Jan 2022 17:18:09: 3000000 INFO @ Sat, 15 Jan 2022 17:18:12: 9000000 INFO @ Sat, 15 Jan 2022 17:18:12: #1 tag size is determined as 42 bps INFO @ Sat, 15 Jan 2022 17:18:12: #1 tag size = 42 INFO @ Sat, 15 Jan 2022 17:18:12: #1 total tags in treatment: 4243928 INFO @ Sat, 15 Jan 2022 17:18:12: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 17:18:12: #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 17:18:13: #1 tags after filtering in treatment: 2987266 INFO @ Sat, 15 Jan 2022 17:18:13: #1 Redundant rate of treatment: 0.30 INFO @ Sat, 15 Jan 2022 17:18:13: #1 finished! INFO @ Sat, 15 Jan 2022 17:18:13: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:18:13: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:18:13: #2 number of paired peaks: 11 WARNING @ Sat, 15 Jan 2022 17:18:13: Too few paired peaks (11) 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 17:18:13: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067162/SRX9067162.10_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/SRX9067162/SRX9067162.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067162/SRX9067162.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067162/SRX9067162.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 17:18:15: 4000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 17:18:21: 5000000 INFO @ Sat, 15 Jan 2022 17:18:26: 6000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 17:18:32: 7000000 INFO @ Sat, 15 Jan 2022 17:18:38: 8000000 INFO @ Sat, 15 Jan 2022 17:18:43: 9000000 INFO @ Sat, 15 Jan 2022 17:18:44: #1 tag size is determined as 42 bps INFO @ Sat, 15 Jan 2022 17:18:44: #1 tag size = 42 INFO @ Sat, 15 Jan 2022 17:18:44: #1 total tags in treatment: 4243928 INFO @ Sat, 15 Jan 2022 17:18:44: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 17:18:44: #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 17:18:44: #1 tags after filtering in treatment: 2987266 INFO @ Sat, 15 Jan 2022 17:18:44: #1 Redundant rate of treatment: 0.30 INFO @ Sat, 15 Jan 2022 17:18:44: #1 finished! INFO @ Sat, 15 Jan 2022 17:18:44: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:18:44: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:18:44: #2 number of paired peaks: 11 WARNING @ Sat, 15 Jan 2022 17:18:44: Too few paired peaks (11) 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 17:18:44: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067162/SRX9067162.20_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/SRX9067162/SRX9067162.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067162/SRX9067162.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067162/SRX9067162.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling