Job ID = 10224043 SRX = SRX8926528 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 5909552 spots for SRR12430723/SRR12430723.sra Written 5909552 spots for SRR12430723/SRR12430723.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: 00:02:02 5909552 reads; of these: 5909552 (100.00%) were paired; of these: 2914045 (49.31%) aligned concordantly 0 times 2203550 (37.29%) aligned concordantly exactly 1 time 791957 (13.40%) aligned concordantly >1 times ---- 2914045 pairs aligned concordantly 0 times; of these: 28914 (0.99%) aligned discordantly 1 time ---- 2885131 pairs aligned 0 times concordantly or discordantly; of these: 5770262 mates make up the pairs; of these: 5709915 (98.95%) aligned 0 times 24062 (0.42%) aligned exactly 1 time 36285 (0.63%) aligned >1 times 51.69% overall alignment rate Time searching: 00:02:02 Overall time: 00:02:02 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] 470520 / 3023718 = 0.1556 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/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Fri, 16 Oct 2020 09:15:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8926528/SRX8926528.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8926528/SRX8926528.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8926528/SRX8926528.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8926528/SRX8926528.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 @ Fri, 16 Oct 2020 09:15:20: #1 read tag files... INFO @ Fri, 16 Oct 2020 09:15:20: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 09:15:26: 1000000 INFO @ Fri, 16 Oct 2020 09:15:33: 2000000 INFO @ Fri, 16 Oct 2020 09:15:40: 3000000 INFO @ Fri, 16 Oct 2020 09:15:46: 4000000 WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Fri, 16 Oct 2020 09:15:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8926528/SRX8926528.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8926528/SRX8926528.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8926528/SRX8926528.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8926528/SRX8926528.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 @ Fri, 16 Oct 2020 09:15:50: #1 read tag files... INFO @ Fri, 16 Oct 2020 09:15:50: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 09:15:53: 5000000 INFO @ Fri, 16 Oct 2020 09:15:54: #1 tag size is determined as 51 bps INFO @ Fri, 16 Oct 2020 09:15:54: #1 tag size = 51 INFO @ Fri, 16 Oct 2020 09:15:54: #1 total tags in treatment: 2525895 INFO @ Fri, 16 Oct 2020 09:15:54: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 09:15:54: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 16 Oct 2020 09:15:54: #1 tags after filtering in treatment: 1900632 INFO @ Fri, 16 Oct 2020 09:15:54: #1 Redundant rate of treatment: 0.25 INFO @ Fri, 16 Oct 2020 09:15:54: #1 finished! INFO @ Fri, 16 Oct 2020 09:15:54: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 09:15:54: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 09:15:55: #2 number of paired peaks: 83 WARNING @ Fri, 16 Oct 2020 09:15:55: Too few paired peaks (83) 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 @ Fri, 16 Oct 2020 09:15:55: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8926528/SRX8926528.05_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/SRX8926528/SRX8926528.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8926528/SRX8926528.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8926528/SRX8926528.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 16 Oct 2020 09:15:57: 1000000 INFO @ Fri, 16 Oct 2020 09:16:03: 2000000 INFO @ Fri, 16 Oct 2020 09:16:10: 3000000 INFO @ Fri, 16 Oct 2020 09:16:16: 4000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Fri, 16 Oct 2020 09:16:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8926528/SRX8926528.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8926528/SRX8926528.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8926528/SRX8926528.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8926528/SRX8926528.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 @ Fri, 16 Oct 2020 09:16:20: #1 read tag files... INFO @ Fri, 16 Oct 2020 09:16:20: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 09:16:23: 5000000 INFO @ Fri, 16 Oct 2020 09:16:24: #1 tag size is determined as 51 bps INFO @ Fri, 16 Oct 2020 09:16:24: #1 tag size = 51 INFO @ Fri, 16 Oct 2020 09:16:24: #1 total tags in treatment: 2525895 INFO @ Fri, 16 Oct 2020 09:16:24: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 09:16:24: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 16 Oct 2020 09:16:24: #1 tags after filtering in treatment: 1900632 INFO @ Fri, 16 Oct 2020 09:16:24: #1 Redundant rate of treatment: 0.25 INFO @ Fri, 16 Oct 2020 09:16:24: #1 finished! INFO @ Fri, 16 Oct 2020 09:16:24: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 09:16:24: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 09:16:24: #2 number of paired peaks: 83 WARNING @ Fri, 16 Oct 2020 09:16:24: Too few paired peaks (83) 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 @ Fri, 16 Oct 2020 09:16:24: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8926528/SRX8926528.10_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/SRX8926528/SRX8926528.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8926528/SRX8926528.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8926528/SRX8926528.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 16 Oct 2020 09:16:27: 1000000 INFO @ Fri, 16 Oct 2020 09:16:32: 2000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 16 Oct 2020 09:16:38: 3000000 BigWig に変換しました。 INFO @ Fri, 16 Oct 2020 09:16:44: 4000000 INFO @ Fri, 16 Oct 2020 09:16:49: 5000000 INFO @ Fri, 16 Oct 2020 09:16:50: #1 tag size is determined as 51 bps INFO @ Fri, 16 Oct 2020 09:16:50: #1 tag size = 51 INFO @ Fri, 16 Oct 2020 09:16:50: #1 total tags in treatment: 2525895 INFO @ Fri, 16 Oct 2020 09:16:50: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 09:16:50: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 16 Oct 2020 09:16:50: #1 tags after filtering in treatment: 1900632 INFO @ Fri, 16 Oct 2020 09:16:50: #1 Redundant rate of treatment: 0.25 INFO @ Fri, 16 Oct 2020 09:16:50: #1 finished! INFO @ Fri, 16 Oct 2020 09:16:50: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 09:16:50: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 09:16:50: #2 number of paired peaks: 83 WARNING @ Fri, 16 Oct 2020 09:16:50: Too few paired peaks (83) 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 @ Fri, 16 Oct 2020 09:16:50: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8926528/SRX8926528.20_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/SRX8926528/SRX8926528.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8926528/SRX8926528.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8926528/SRX8926528.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling