Job ID = 14521480 SRX = SRX11788630 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Rejected 264192 READS because READLEN < 1 Read 3598874 spots for SRR15488910/SRR15488910.sra Written 3598874 spots for SRR15488910/SRR15488910.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 Error, fewer reads in file specified with -2 than in file specified with -1 terminate called after throwing an instance of 'int' (ERR): bowtie2-align died with signal 6 (ABRT) (core dumped) 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] 1 unmatched pairs [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] 1065188 / 3262852 = 0.3265 in library ' ' awk: cmd. line:1: (FILENAME=- FNR=1) fatal: division by zero attempted 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 21:12:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11788630/SRX11788630.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11788630/SRX11788630.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11788630/SRX11788630.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11788630/SRX11788630.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 21:12:06: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:12:06: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:12:13: 1000000 INFO @ Sat, 15 Jan 2022 21:12:19: 2000000 INFO @ Sat, 15 Jan 2022 21:12:25: 3000000 INFO @ Sat, 15 Jan 2022 21:12:31: 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 21:12:34: #1 tag size is determined as 26 bps INFO @ Sat, 15 Jan 2022 21:12:34: #1 tag size = 26 INFO @ Sat, 15 Jan 2022 21:12:34: #1 total tags in treatment: 2195560 INFO @ Sat, 15 Jan 2022 21:12:34: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:12:34: #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 21:12:34: #1 tags after filtering in treatment: 1709308 INFO @ Sat, 15 Jan 2022 21:12:34: #1 Redundant rate of treatment: 0.22 INFO @ Sat, 15 Jan 2022 21:12:34: #1 finished! INFO @ Sat, 15 Jan 2022 21:12:34: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:12:34: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:12:34: #2 number of paired peaks: 43 WARNING @ Sat, 15 Jan 2022 21:12:34: Too few paired peaks (43) 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 21:12:34: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11788630/SRX11788630.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11788630/SRX11788630.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11788630/SRX11788630.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11788630/SRX11788630.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:12:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11788630/SRX11788630.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11788630/SRX11788630.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11788630/SRX11788630.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11788630/SRX11788630.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 21:12:36: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:12:36: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:12:43: 1000000 INFO @ Sat, 15 Jan 2022 21:12:50: 2000000 INFO @ Sat, 15 Jan 2022 21:12:56: 3000000 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 21:13:03: 4000000 INFO @ Sat, 15 Jan 2022 21:13:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11788630/SRX11788630.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11788630/SRX11788630.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11788630/SRX11788630.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11788630/SRX11788630.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 21:13:05: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:13:05: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:13:06: #1 tag size is determined as 26 bps INFO @ Sat, 15 Jan 2022 21:13:06: #1 tag size = 26 INFO @ Sat, 15 Jan 2022 21:13:06: #1 total tags in treatment: 2195560 INFO @ Sat, 15 Jan 2022 21:13:06: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:13:06: #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 21:13:06: #1 tags after filtering in treatment: 1709308 INFO @ Sat, 15 Jan 2022 21:13:06: #1 Redundant rate of treatment: 0.22 INFO @ Sat, 15 Jan 2022 21:13:06: #1 finished! INFO @ Sat, 15 Jan 2022 21:13:06: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:13:06: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:13:06: #2 number of paired peaks: 43 WARNING @ Sat, 15 Jan 2022 21:13:06: Too few paired peaks (43) 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 21:13:06: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11788630/SRX11788630.10_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/SRX11788630/SRX11788630.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11788630/SRX11788630.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11788630/SRX11788630.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:13:12: 1000000 INFO @ Sat, 15 Jan 2022 21:13:18: 2000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:13:25: 3000000 INFO @ Sat, 15 Jan 2022 21:13:32: 4000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:13:35: #1 tag size is determined as 26 bps INFO @ Sat, 15 Jan 2022 21:13:35: #1 tag size = 26 INFO @ Sat, 15 Jan 2022 21:13:35: #1 total tags in treatment: 2195560 INFO @ Sat, 15 Jan 2022 21:13:35: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:13:35: #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 21:13:35: #1 tags after filtering in treatment: 1709308 INFO @ Sat, 15 Jan 2022 21:13:35: #1 Redundant rate of treatment: 0.22 INFO @ Sat, 15 Jan 2022 21:13:35: #1 finished! INFO @ Sat, 15 Jan 2022 21:13:35: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:13:35: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:13:36: #2 number of paired peaks: 43 WARNING @ Sat, 15 Jan 2022 21:13:36: Too few paired peaks (43) 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 21:13:36: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11788630/SRX11788630.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11788630/SRX11788630.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11788630/SRX11788630.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11788630/SRX11788630.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling